Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 77 of 204
Found at i:23118865 original size:30 final size:30
Alignment explanation
Indices: 23118831--23118894 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
23118821 CGCGGAAAAT
23118831 GGCCCATTCCGGTAAATAATT-AAAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAAACC
* * *
23118861 GGCCCATTTCGGTAAATTTTGAAAAAAATC
1 GGCCCATTCCGGTAAATATTGAAAAAAACC
23118891 GGCC
1 GGCC
23118895 TTTTTTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (30 bp):
GGCCCATTCCGGTAAATATTGAAAAAAACC
Found at i:23119766 original size:31 final size:29
Alignment explanation
Indices: 23119728--23119804 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
23119718 CTAACGGCTC
* *
23119728 AGTGACTAAAATGTTACAATGTGATAACATA
1 AGTGACTAAAATGTAAC-ATGTCA-AACATA
* *
23119759 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATGTCAAACATA
23119788 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
23119805 CTGTGCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 22 0.54
30 4 0.10
31 15 0.37
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGTCAAACATA
Found at i:23119817 original size:29 final size:30
Alignment explanation
Indices: 23119728--23119826 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
23119718 CTAACGGCTC
*
23119728 AGTGACTAAAATGTTACAATGTG-ATAACATA
1 AGTGACTAAAATGTAAC-ATGTGCA-AACATA
* *
23119759 AGTGACTAAAACGTAACAT-TTCAAACATA
1 AGTGACTAAAATGTAACATGTGCAAACATA
* * *
23119788 AGTGACTAAAATGTAACCTGTGCCAAATAAA
1 AGTGACTAAAATGTAACATGTG-CAAACATA
23119819 AGTGACTA
1 AGTGACTA
23119827 TTTTAATAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
29 24 0.42
30 4 0.07
31 29 0.51
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (30 bp):
AGTGACTAAAATGTAACATGTGCAAACATA
Found at i:23121771 original size:22 final size:22
Alignment explanation
Indices: 23121743--23121793 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
23121733 CTCCCTAATC
23121743 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
23121765 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
23121787 CTCTCAA
1 CTCTCAA
23121794 ATCTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:23121836 original size:30 final size:30
Alignment explanation
Indices: 23121800--23121863 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
23121790 TCAAATCTAT
*
23121800 TTTTTTAAAATAATTATAATTTTTTTTATA
1 TTTTTTAAAATAATTATAAATTTTTTTATA
*
23121830 TTTTTTAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAATAATTATAAATTTTTTTATA
23121860 TTTT
1 TTTT
23121864 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTTAAAATAATTATAAATTTTTTTATA
Found at i:23121977 original size:16 final size:17
Alignment explanation
Indices: 23121956--23121987 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23121946 TTTGTAATTA
23121956 TTATTTATG-ATTTTTT
1 TTATTTATGTATTTTTT
23121972 TTATTTATGTATTTTT
1 TTATTTATGTATTTTT
23121988 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTATTTATGTATTTTTT
Found at i:23122942 original size:7 final size:7
Alignment explanation
Indices: 23122930--23122954 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23122920 AGTCGATTGA
23122930 TATTTAG
1 TATTTAG
23122937 TATTTAG
1 TATTTAG
23122944 TATTTAG
1 TATTTAG
23122951 TATT
1 TATT
23122955 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:23125500 original size:125 final size:126
Alignment explanation
Indices: 23125188--23125526 Score: 617
Period size: 125 Copynumber: 2.7 Consensus size: 126
23125178 CCCAAACTTG
23125188 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
23125253 TAGAAATGATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
*
23125314 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATACCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
23125379 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAG-AAAAAAATTATTTCTTACATGAC
66 TAGAAATGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
* *
23125439 CTACTGTAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
23125504 TAGAAGTGATTTTATACTATTTG
66 TAGAAATGATTTTATACTATTTG
23125527 ACCAGAGACG
Statistics
Matches: 205, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
125 106 0.52
126 99 0.48
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAATGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
Found at i:23134008 original size:26 final size:26
Alignment explanation
Indices: 23133956--23134009 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
23133946 GAAAGACAAG
*
23133956 ACGTGCTATCGCAGCAGACTAGGTAA
1 ACGTGCTATCGCAGCAGACTACGTAA
* *
23133982 ACGTGCTATCGCAGTAGACTACTTAA
1 ACGTGCTATCGCAGCAGACTACGTAA
23134008 AC
1 AC
23134010 ACTAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
ACGTGCTATCGCAGCAGACTACGTAA
Found at i:23135239 original size:18 final size:16
Alignment explanation
Indices: 23135210--23135249 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
23135200 TTTTTAATAC
*
23135210 ATTTTTTGGTTTTGTT
1 ATTTTTTGGTTTTATT
23135226 ATTTTTTAGAGTTTTATT
1 ATTTTTT-G-GTTTTATT
23135244 ATTTTT
1 ATTTTT
23135250 AAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (16 bp):
ATTTTTTGGTTTTATT
Found at i:23142849 original size:15 final size:15
Alignment explanation
Indices: 23142829--23142879 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
23142819 TGTGGGGGAG
23142829 TTTGATTTGTCATAA
1 TTTGATTTGTCATAA
*
23142844 TTTGATTTTTCATAA
1 TTTGATTTGTCATAA
23142859 TTTGATTTGTCATAA
1 TTTGATTTGTCATAA
23142874 TTTGAT
1 TTTGAT
23142880 ACATTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTGATTTGTCATAA
Found at i:23154970 original size:44 final size:45
Alignment explanation
Indices: 23154916--23155003 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
23154906 AATAATAACA
*
23154916 GATACACGGTGGAATCAGCACATAGCAACCACC-TTATAATCAAT
1 GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
* *
23154960 GATACTCGGTGGAATCAACACATAGCAACCACCTTTATAGTCAA
1 GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAA
23155004 CGGTACCCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 31 0.77
45 9 0.22
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
Found at i:23155079 original size:51 final size:50
Alignment explanation
Indices: 23155010--23155204 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 50
23155000 TCAACGGTAC
* * *
23155010 CCGGTTCACACAGTAGCCTACACATAGTACTACACATGTGA-CCATTTCCAT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCCA--TCCAT
* * * ** * *
23155061 CCGATACACATAGTAGCCTGCACATAGTACTACATACGTGATCGAAGCTAT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-CCCATCCAT
* * * *
23155112 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCAT-CATT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCCATCCA-T
* * *
23155162 CTGGTACACGTAGTAGCCTACACATAGTACCACACACGTGACC
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACC
23155205 ATCACTTTCA
Statistics
Matches: 115, Mismatches: 26, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
49 1 0.01
50 39 0.34
51 74 0.64
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCCATCCAT
Found at i:23163183 original size:25 final size:25
Alignment explanation
Indices: 23163146--23163195 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23163136 CTATAAATAA
*
23163146 GAAAAATATATTTAGA-TATTTTCT
1 GAAAAATATATTTAGAGAATTTTCT
*
23163170 GAAATAATTTATTTAGAGAATTTTCT
1 GAAA-AATATATTTAGAGAATTTTCT
23163196 CTTTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
GAAAAATATATTTAGAGAATTTTCT
Found at i:23163354 original size:16 final size:15
Alignment explanation
Indices: 23163301--23163374 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
23163291 CTTAATCACT
*
23163301 TTAATATTAATTTAA
1 TTAATATTAATTAAA
*
23163316 TCTAATATTTATTAAGA
1 T-TAATATTAATTAA-A
*
23163333 TAAATATTAGATTAAA
1 TTAATATTA-ATTAAA
*
23163349 TTAATATTAAATTATA
1 TTAATATT-AATTAAA
23163365 TTAA-ATTAAT
1 TTAATATTAAT
23163375 AGAATATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
14 3 0.06
15 4 0.08
16 34 0.69
17 8 0.16
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATATTAATTAAA
Found at i:23163357 original size:11 final size:11
Alignment explanation
Indices: 23163343--23163375 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
23163333 TAAATATTAG
23163343 ATTAAATTAAT
1 ATTAAATTAAT
23163354 ATTAAATT-AT
1 ATTAAATTAAT
23163364 ATTAAATTAAT
1 ATTAAATTAAT
23163375 A
1 A
23163376 GAATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAAATTAAT
Found at i:23163365 original size:10 final size:10
Alignment explanation
Indices: 23163338--23163372 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
23163328 TAAGATAAAT
*
23163338 ATTAGATTAA
1 ATTATATTAA
23163348 ATTAATATTAA
1 ATT-ATATTAA
23163359 ATTATATTAA
1 ATTATATTAA
23163369 ATTA
1 ATTA
23163373 ATAGAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (10 bp):
ATTATATTAA
Found at i:23163913 original size:24 final size:24
Alignment explanation
Indices: 23163864--23163910 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23163854 AAATATCATA
* *
23163864 TTAATTTTAATTAATTAGATTAAT
1 TTAATTTTAATTAATAAAATTAAT
*
23163888 TTAATTTTACTTAATCAAAATTA
1 TTAATTTTAATTAAT-AAAATTA
23163911 TTTTTTTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAATTTTAATTAATAAAATTAAT
Found at i:23164727 original size:11 final size:12
Alignment explanation
Indices: 23164697--23164729 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23164687 GTCACAAGTG
23164697 AATTAATTCACA
1 AATTAATTCACA
*
23164709 AATGAATTCA-A
1 AATTAATTCACA
23164720 AATTAATTCA
1 AATTAATTCA
23164730 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:23169729 original size:44 final size:42
Alignment explanation
Indices: 23169666--23169771 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 42
23169656 ATGTGATTTT
* * *
23169666 GTGTAAGACCAC-ATCTGGGACGTTAGCATCG-ATTTGAGATTTAC
1 GTGTAAGACC-CTGTCTGGGACATTAGCATCGTATAT--GA-TTAC
* * *
23169710 GTGTAAGACCGTGTTTGGGACATTGGCATCGTATATGATTAC
1 GTGTAAGACCCTGTCTGGGACATTAGCATCGTATATGATTAC
23169752 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCCTGTCTGGGA
23169772 TAGTGGCATT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 22 0.42
43 2 0.04
44 25 0.48
45 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCCTGTCTGGGACATTAGCATCGTATATGATTAC
Found at i:23169771 original size:42 final size:43
Alignment explanation
Indices: 23169706--23169804 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
23169696 GATTTGAGAT
* * *
23169706 TTACGTGTAAGACCGTGTTTGGGACATTGGCA-TCGTATATGA
1 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATTCGTATATGA
* ** *
23169748 TTACGTGTAAGACCCTGTCTGGGATAGTGGCATTTTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATTCGTATATGA
*
23169791 TTACTTGTAAGACC
1 TTACGTGTAAGACC
23169805 ACGTATGGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 28 0.58
43 20 0.42
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCTGGGACAGTGGCATTCGTATATGA
Found at i:23181523 original size:48 final size:48
Alignment explanation
Indices: 23181444--23181537 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
23181434 AGGGAATTCT
* *
23181444 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
23181492 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
23181538 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:23183394 original size:30 final size:31
Alignment explanation
Indices: 23183360--23183419 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
23183350 AAACCTTTTA
*
23183360 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCATCCCAC
* *
23183390 TTTTCCCCTAAAACTTTTATTCCCATCCCA
1 TTTTCCCCCAAAACTTTTACTCCCATCCCA
23183420 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCATCCCAC
Found at i:23208444 original size:3 final size:3
Alignment explanation
Indices: 23208436--23208505 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
23208426 AATAAATTCC
* * * * * *
23208436 TAA TAA TAA TAC TAA TAA GAA TAA AAA AAA GTAG TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * *
23208482 AAA TAA TGA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
23208506 GAAAAAAGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
3 49 0.98
4 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (3 bp):
TAA
Found at i:23208493 original size:18 final size:17
Alignment explanation
Indices: 23208472--23208521 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
23208462 AAAAGTAGTA
23208472 ATAAAAATAAAAATAATG
1 ATAAAAATAAAAATAA-G
*
23208490 ATAAAAATAATAATAAG
1 ATAAAAATAAAAATAAG
*
23208507 A-AAAAAGAAAAATAA
1 ATAAAAATAAAAATAA
23208522 ACAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 15 0.52
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
ATAAAAATAAAAATAAG
Found at i:23208511 original size:33 final size:31
Alignment explanation
Indices: 23208455--23208583 Score: 95
Period size: 32 Copynumber: 4.1 Consensus size: 31
23208445 TACTAATAAG
* * *
23208455 AATAAAAAAAAGTAGTAATAAAAATAAAAATA
1 AATAAAAATAA-TAATAAGAAAAATAAAAATA
*
23208487 ATGATAAAAATAATAATAAGAAAAAAGAAAAATA
1 A--ATAAAAATAATAATAAG-AAAAATAAAAATA
* * *
23208521 AACAAAAATTAATAACT-AGGAAAATCAAAATA
1 AATAAAAA-TAATAA-TAAGAAAAATAAAAATA
*
23208553 AATAAATAATAA-AATAA-TAAAAT-AAAATA
1 AATAAA-AATAATAATAAGAAAAATAAAAATA
23208582 AA
1 AA
23208584 ATTTAAAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
29 8 0.10
30 6 0.08
31 3 0.04
32 25 0.31
33 15 0.19
34 23 0.29
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.19
Consensus pattern (31 bp):
AATAAAAATAATAATAAGAAAAATAAAAATA
Found at i:23208544 original size:34 final size:33
Alignment explanation
Indices: 23208474--23208544 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
23208464 AAGTAGTAAT
* *
23208474 AAAAATAAAAATAATGATAAAAATAATAATAAGA
1 AAAAAGAAAAATAA-GACAAAAATAATAATAAGA
*
23208508 AAAAAGAAAAATAA-ACAAAAATTAATAACTAGGA
1 AAAAAGAAAAATAAGACAAAAA-TAATAA-TAAGA
23208542 AAA
1 AAA
23208545 TCAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.19
33 6 0.19
34 20 0.62
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (33 bp):
AAAAAGAAAAATAAGACAAAAATAATAATAAGA
Found at i:23210488 original size:14 final size:12
Alignment explanation
Indices: 23210460--23210501 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
23210450 AAGAAGGAGA
23210460 GTGGTGGTCACG
1 GTGGTGGTCACG
23210472 GTGGTGGTCCGACG
1 GTGGTGGT-C-ACG
*
23210486 GTGGT-GTAACG
1 GTGGTGGTCACG
23210497 GTGGT
1 GTGGT
23210502 CTGGTGGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 8 0.30
12 8 0.30
13 3 0.11
14 8 0.30
ACGTcount: A:0.10, C:0.14, G:0.50, T:0.26
Consensus pattern (12 bp):
GTGGTGGTCACG
Found at i:23215406 original size:49 final size:49
Alignment explanation
Indices: 23215334--23215431 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
23215324 TTCCACCTTT
* *
23215334 TTAGGGTAATATGTACATAGTTATGGTCATAGATTATGTCTTTAAGTGG
1 TTAGGGTAATATGTACATAGTTATGGCCATAGATTATGTCTCTAAGTGG
**
23215383 TTAGGGTAATATGTATGTAGTTATGGCCATAGATTATGTCTCTAAGTGG
1 TTAGGGTAATATGTACATAGTTATGGCCATAGATTATGTCTCTAAGTGG
23215432 GTAGAAGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (49 bp):
TTAGGGTAATATGTACATAGTTATGGCCATAGATTATGTCTCTAAGTGG
Found at i:23230640 original size:27 final size:27
Alignment explanation
Indices: 23230604--23230685 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
23230594 TGTTTATAAT
23230604 ACTTCGGTTTACAAAATTACTAAAATAC
1 ACTT-GGTTTACAAAATTACTAAAATAC
* *
23230632 ACTTGGTTTACCAAATTACTGAAATAC
1 ACTTGGTTTACAAAATTACTAAAATAC
* *
23230659 CCTTGGTTTACAAAATTACTACAATAC
1 ACTTGGTTTACAAAATTACTAAAATAC
23230686 CCTCAACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
ACTTGGTTTACAAAATTACTAAAATAC
Found at i:23230713 original size:27 final size:27
Alignment explanation
Indices: 23230669--23230957 Score: 267
Period size: 27 Copynumber: 10.7 Consensus size: 27
23230659 CCTTGGTTTA
* * *
23230669 CAAAATTACTACAATACCCTCAACTTG
1 CAAAATTACCAAAATACCCTCAATTTG
* * * * * *
23230696 TAAAATTACCGAAGTACCCCCAATATA
1 CAAAATTACCAAAATACCCTCAATTTG
* **
23230723 CAAAATTATCAAAATACCCTCGGTTTG
1 CAAAATTACCAAAATACCCTCAATTTG
* **
23230750 CAAAATTACCAAAGTACCCTTGATTTG
1 CAAAATTACCAAAATACCCTCAATTTG
* * * *
23230777 TAAACTTACCAAAATACCCTTACTTTG
1 CAAAATTACCAAAATACCCTCAATTTG
* * * *
23230804 GAAAATTACAAAAATACCCCCGATTTG
1 CAAAATTACCAAAATACCCTCAATTTG
* *
23230831 CAAAATTACCGAGATACCC-CTAATTTG
1 CAAAATTACCAAAATACCCTC-AATTTG
*
23230858 CAAAATTACCAAAATACCCTCAGTTTG
1 CAAAATTACCAAAATACCCTCAATTTG
*
23230885 CAAAATTACCAAAGTACCC-CTAATTTG
1 CAAAATTACCAAAATACCCTC-AATTTG
* * *
23230912 CAAAATTACCAGAATACCCTCGATTTT
1 CAAAATTACCAAAATACCCTCAATTTG
*
23230939 TAAAATTACCAAAATACCC
1 CAAAATTACCAAAATACCC
23230958 CCGATTTATG
Statistics
Matches: 208, Mismatches: 50, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.01
27 204 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTCAATTTG
Found at i:23231209 original size:32 final size:32
Alignment explanation
Indices: 23231155--23231222 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
23231145 CTGATGTCTA
*
23231155 TGTGCCAATTGTATTATAGTTACCT-ATGGCTT
1 TGTGCCAATTGTATTATAGTTA-CTGAAGGCTT
23231187 TGTGCCAA-T-TATTATATTGTTACTGAAGGCTT
1 TGTGCCAATTGTATTATA--GTTACTGAAGGCTT
23231219 TGTG
1 TGTG
23231223 TCGAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 7 0.22
31 3 0.09
32 22 0.69
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (32 bp):
TGTGCCAATTGTATTATAGTTACTGAAGGCTT
Found at i:23231500 original size:27 final size:27
Alignment explanation
Indices: 23231461--23231518 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23231451 TTGGGCTAGG
*
23231461 CCCAAATGCTGTTGTTA-TGGGCTGTGA
1 CCCAAATGATGTTG-TAGTGGGCTGTGA
* *
23231488 CCCAACTGATGTTGTAGTGGGCTTTGA
1 CCCAAATGATGTTGTAGTGGGCTGTGA
23231515 CCCA
1 CCCA
23231519 CGTATGCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (27 bp):
CCCAAATGATGTTGTAGTGGGCTGTGA
Found at i:23234730 original size:27 final size:27
Alignment explanation
Indices: 23234699--23234751 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
23234689 TTAGAATACT
23234699 TTGGTTTACAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*
23234726 TTGGTTTACAAAATTATTGAAATACC
1 TTGGTTTACAAAATTACTGAAATACC
23234752 TTCAACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (27 bp):
TTGGTTTACAAAATTACTGAAATACCC
Found at i:23234793 original size:54 final size:52
Alignment explanation
Indices: 23234734--23235091 Score: 317
Period size: 54 Copynumber: 6.6 Consensus size: 52
23234724 CCTTGGTTTA
* * * *
23234734 CAAAATTATTGAAATACCTTCAACTTT-TAAACTTACCGAAGTACCCCTAATTTG
1 CAAAATTATCGAAATACCCTC-A-TTTGTAAA-TTACCAAAATACCCCTAATTTG
* * * *
23234788 CAAAATTACCAAAATGCCCTCAGTTTGTAAAATTACCAAAGTACCCCTAATTTG
1 CAAAATTATCGAAATACCCTCA-TTTGT-AAATTACCAAAATACCCCTAATTTG
* * *
23234842 CAAAATTATCGAAATAGCTTCAATTTGGGAAATTACCAAAATACACCC-AATTTG
1 CAAAATTATCGAAATACCCTC-ATTT-GTAAATTACCAAAATAC-CCCTAATTTG
* * *
23234896 CAAAATTATTGAAATACCCTCGGTTTGTGAAATTACCAAAGTACCCCTAATTTG
1 CAAAATTATCGAAATACCCTC-ATTTGT-AAATTACCAAAATACCCCTAATTTG
** * *
23234950 CAAAATTATCGAAATACCCCTCGATTTGTAAAATTACTGAAATAACCCTAATTTA
1 CAAAATTATCGAAATA-CCCTC-ATTTGT-AAATTACCAAAATACCCCTAATTTG
* * * *
23235005 TAAAATTATCAAAATACCCTCGATTTGTTAAATTACCAAAATACCCTTGATTTG
1 CAAAATTATCGAAATACCCTC-ATTTG-TAAATTACCAAAATACCCCTAATTTG
* *
23235059 TAAAATTA-CTGAAATACCCCTAATTTGTGAAAT
1 CAAAATTATC-GAAATA-CCCTCATTTGT-AAAT
23235092 ACCCCTGTAG
Statistics
Matches: 253, Mismatches: 39, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
53 10 0.04
54 185 0.73
55 58 0.23
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (52 bp):
CAAAATTATCGAAATACCCTCATTTGTAAATTACCAAAATACCCCTAATTTG
Found at i:23234796 original size:27 final size:27
Alignment explanation
Indices: 23234761--23235091 Score: 231
Period size: 27 Copynumber: 12.2 Consensus size: 27
23234751 CTTCAACTTT
* * *
23234761 TAAACTTACCGAAGTACCCCTAATTTG
1 TAAAATTACCAAAATACCCCTAATTTG
* * *
23234788 CAAAATTACCAAAAT-GCCCTCAGTTTG
1 TAAAATTACCAAAATACCCCT-AATTTG
*
23234815 TAAAATTACCAAAGTACCCCTAATTTG
1 TAAAATTACCAAAATACCCCTAATTTG
* * * * *
23234842 CAAAATTATCGAAATA-GCTTCAATTTG
1 TAAAATTACCAAAATACCCCT-AATTTG
**
23234869 GGAAATTACCAAAATACACCC-AATTTG
1 TAAAATTACCAAAATAC-CCCTAATTTG
* *** **
23234896 CAAAATTATTGAAATA-CCCTCGGTTTG
1 TAAAATTACCAAAATACCCCT-AATTTG
* *
23234923 TGAAATTACCAAAGTACCCCTAATTTG
1 TAAAATTACCAAAATACCCCTAATTTG
* * * *
23234950 CAAAATTATCGAAATACCCCTCGATTTG
1 TAAAATTACCAAAATACCCCT-AATTTG
** * *
23234978 TAAAATTACTGAAATAACCCTAATTTA
1 TAAAATTACCAAAATACCCCTAATTTG
* *
23235005 TAAAATTATCAAAATA-CCCTCGATTTG
1 TAAAATTACCAAAATACCCCT-AATTTG
* * *
23235032 TTAAATTACCAAAATACCCTTGATTTG
1 TAAAATTACCAAAATACCCCTAATTTG
**
23235059 TAAAATTACTGAAATACCCCTAATTTG
1 TAAAATTACCAAAATACCCCTAATTTG
*
23235086 TGAAAT
1 TAAAAT
23235092 ACCCCTGTAG
Statistics
Matches: 230, Mismatches: 63, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
25 3 0.01
26 10 0.04
27 183 0.80
28 33 0.14
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAATTTG
Found at i:23234897 original size:108 final size:107
Alignment explanation
Indices: 23234734--23235076 Score: 388
Period size: 108 Copynumber: 3.2 Consensus size: 107
23234724 CCTTGGTTTA
* * * * *
23234734 CAAAATTATTGAAATACCTTCAACTTTTAAACTTACCGAAGTAC-CCCTAATTTGCAAAATTACC
1 CAAAATTATCGAAATACCTTCAA-TTTGAAAATTACCGAAATACACCCTAATTTGCAAAATTATC
*
23234798 AAAATGCCCTCAGTTTGTAAAATTACCAAAGTACCCCTAATTTG
65 AAAATACCCTC-GTTTGTAAAATTACCAAAGTACCCCTAATTTG
* * * *
23234842 CAAAATTATCGAAATAGCTTCAATTTGGGAAATTACCAAAATACACCC-AATTTGCAAAATTATT
1 CAAAATTATCGAAATACCTTCAATTT-GAAAATTACCGAAATACACCCTAATTTGCAAAATTATC
* *
23234906 GAAATACCCTCGGTTTGTGAAATTACCAAAGTACCCCTAATTTG
65 AAAATACCCTC-GTTTGTAAAATTACCAAAGTACCCCTAATTTG
* * * **
23234950 CAAAATTATCGAAATACCCCTCGATTTGTAAAATTACTGAAATA-ACCCTAATTTATAAAATTAT
1 CAAAATTATCGAAATA-CCTTCAATTTG-AAAATTACCGAAATACACCCTAATTTGCAAAATTAT
* * * *
23235014 CAAAATACCCTCGATTTGTTAAATTACCAAAATACCCTTGATTTG
64 CAAAATACCCTCG-TTTGTAAAATTACCAAAGTACCCCTAATTTG
*
23235059 TAAAATTA-CTGAAATACC
1 CAAAATTATC-GAAATACC
23235077 CCTAATTTGT
Statistics
Matches: 200, Mismatches: 28, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
107 3 0.01
108 112 0.56
109 85 0.43
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (107 bp):
CAAAATTATCGAAATACCTTCAATTTGAAAATTACCGAAATACACCCTAATTTGCAAAATTATCA
AAATACCCTCGTTTGTAAAATTACCAAAGTACCCCTAATTTG
Found at i:23235083 original size:18 final size:18
Alignment explanation
Indices: 23235062--23235097 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23235052 TGATTTGTAA
23235062 AATTACTGAAATACCCCT
1 AATTACTGAAATACCCCT
**
23235080 AATTTGTGAAATACCCCT
1 AATTACTGAAATACCCCT
23235098 GTAGGGTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTACTGAAATACCCCT
Found at i:23235083 original size:81 final size:80
Alignment explanation
Indices: 23234778--23235091 Score: 287
Period size: 81 Copynumber: 3.9 Consensus size: 80
23234768 ACCGAAGTAC
* *
23234778 CCCT-AATTTGCAAAATTACCAAAATGCCCTC-AGTTTGTAAAATTAC-CAAAGTACCCCTAATT
1 CCCTCAATTTGCAAAATTACCAAAATACCC-CGA-TTTGTAAAATTACTGAAA-TACCCCTAATT
* *
23234840 TGCAAAATTATCGAAATA
63 TGTAAAATTATCAAAATA
* * ** * * * **
23234858 GCTTCAATTTGGGAAATTACCAAAATACACCCAATTTGCAAAATTATTGAAATA-CCCTCGGTTT
1 CCCTCAATTTGCAAAATTACCAAAATAC-CCCGATTTGTAAAATTACTGAAATACCCCT-AATTT
* * *
23234922 GTGAAATTACCAAAGTA
64 GTAAAATTATCAAAATA
* * *
23234939 CCC-CTAATTTGCAAAATTATCGAAATACCCCTCGATTTGTAAAATTACTGAAATAACCCTAATT
1 CCCTC-AATTTGCAAAATTACCAAAATA-CCC-CGATTTGTAAAATTACTGAAATACCCCTAATT
*
23235003 TATAAAATTATCAAAATA
63 TGTAAAATTATCAAAATA
* ** *
23235021 CCCTCGATTTGTTAAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCTAATTTG
1 CCCTCAATTTGCAAAATTACCAAAATACCC-CGATTTGTAAAATTACTGAAATACCCCTAATTTG
*
23235086 TGAAAT
65 TAAAAT
23235092 ACCCCTGTAG
Statistics
Matches: 185, Mismatches: 39, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
80 7 0.04
81 110 0.59
82 63 0.34
83 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (80 bp):
CCCTCAATTTGCAAAATTACCAAAATACCCCGATTTGTAAAATTACTGAAATACCCCTAATTTGT
AAAATTATCAAAATA
Found at i:23235117 original size:27 final size:27
Alignment explanation
Indices: 23235087--23235184 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
23235077 CCTAATTTGT
*
23235087 GAAATACCCCTGTAGGGTAGAATCACC
1 GAAATACCCCTGTAAGGTAGAATCACC
** * *
23235114 GAAATACCATTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATCACC
* * *
23235141 GAAATACCTCTGTAAGGTAGGATTACC
1 GAAATACCCCTGTAAGGTAGAATCACC
* *
23235168 GTAATACCCTTGTAAGG
1 GAAATACCCCTGTAAGG
23235185 GTAAAATCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATCACC
Found at i:23237500 original size:19 final size:20
Alignment explanation
Indices: 23237476--23237522 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
23237466 GTTGAGAGAG
*
23237476 GAGAGAATGA-TGAATAAGT
1 GAGAGAATGATTGAAAAAGT
23237495 GAGAG-ATGATTGAAAAAGT
1 GAGAGAATGATTGAAAAAGT
23237514 GAGA-AATGA
1 GAGAGAATGA
23237523 ACTCTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.19
Consensus pattern (20 bp):
GAGAGAATGATTGAAAAAGT
Found at i:23245148 original size:17 final size:16
Alignment explanation
Indices: 23245126--23245160 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
23245116 ACCACCAAAT
23245126 TGACACTTGAAGATCAG
1 TGACACTTGAAGAT-AG
23245143 TGACACTTGAAGATAG
1 TGACACTTGAAGATAG
23245159 TG
1 TG
23245161 GCTTGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (16 bp):
TGACACTTGAAGATAG
Found at i:23247863 original size:19 final size:19
Alignment explanation
Indices: 23247817--23247864 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
23247807 GGATATATTT
23247817 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
23247835 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
23247854 TAAGTTTTATT
1 TAAATTTTATT
23247865 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:23247938 original size:42 final size:42
Alignment explanation
Indices: 23247887--23247970 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
23247877 ATATTTTATT
*
23247887 TTATCTTTTAGTACTTTCTTAGAATAAGAGAATAATTTTCCC
1 TTATCTTTTAGTACTTTATTAGAATAAGAGAATAATTTTCCC
* * * *
23247929 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTACTTTATTAGAATAAGAGAATAATTTTCCC
23247971 AATTAGGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTACTTTATTAGAATAAGAGAATAATTTTCCC
Found at i:23252447 original size:29 final size:29
Alignment explanation
Indices: 23252414--23252473 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
23252404 TACCTCAATG
*
23252414 TAACCAAATAAGTTGCCCATTTAAAATAT
1 TAACCAAATAAATTGCCCATTTAAAATAT
*
23252443 TAACCAAATAAATTTCCCATTTAAAATAT
1 TAACCAAATAAATTGCCCATTTAAAATAT
23252472 TA
1 TA
23252474 CTACCTATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (29 bp):
TAACCAAATAAATTGCCCATTTAAAATAT
Found at i:23257181 original size:19 final size:19
Alignment explanation
Indices: 23257135--23257182 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
23257125 GTATATATTT
23257135 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
23257153 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
23257172 TAAGTTTTATT
1 TAAATTTTATT
23257183 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:23265024 original size:41 final size:40
Alignment explanation
Indices: 23264967--23265058 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 40
23264957 GCTAATTGGG
* *
23264967 AAAATAATTCCCTTATTATATTAAACTACTAAAAGATAAGA
1 AAAATAATTCCTTTATTATAATAAACTACTAAAAGATAA-A
*
23265008 AAAATAATTCCTTTATTCTAATAAACTACTAAAAGATAAA
1 AAAATAATTCCTTTATTATAATAAACTACTAAAAGATAAA
23265048 AAAAT-ATTCCT
1 AAAATAATTCCT
23265059 AGAATATATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 6 0.12
40 6 0.12
41 36 0.75
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAATAATTCCTTTATTATAATAAACTACTAAAAGATAAA
Found at i:23281114 original size:41 final size:42
Alignment explanation
Indices: 23281058--23281146 Score: 128
Period size: 41 Copynumber: 2.1 Consensus size: 42
23281048 GCTAATTGGG
* *
23281058 AAAATAATTTCCTTATTCTAATAAACTACTAAAAGATAAGA-
1 AAAATAATTTCCTTATTATAATAAACTACTAAAAGATAAAAT
*
23281099 AAAATAA-TTCTCTTATTATAATAAACTAGTAAAAGATAAAAT
1 AAAATAATTTC-CTTATTATAATAAACTACTAAAAGATAAAAT
23281141 AAAATA
1 AAAATA
23281147 TTCCTAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 3 0.07
41 34 0.79
42 6 0.14
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (42 bp):
AAAATAATTTCCTTATTATAATAAACTACTAAAAGATAAAAT
Found at i:23281203 original size:19 final size:19
Alignment explanation
Indices: 23281179--23281215 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23281169 TTATTCTAAT
23281179 ATTTATCTACCTAAATAAG
1 ATTTATCTACCTAAATAAG
23281198 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
23281216 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAG
Found at i:23283194 original size:28 final size:28
Alignment explanation
Indices: 23283153--23283212 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
23283143 CATGTGATCT
*
23283153 GCCCGTGTAGGCCCACACGCCCGTGTGA
1 GCCCATGTAGGCCCACACGCCCGTGTGA
* * *
23283181 GCCCATGTGGGCCCATACGCTCGTGTGA
1 GCCCATGTAGGCCCACACGCCCGTGTGA
23283209 -CCCA
1 GCCCA
23283213 CTCAACCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.15, C:0.38, G:0.30, T:0.17
Consensus pattern (28 bp):
GCCCATGTAGGCCCACACGCCCGTGTGA
Found at i:23287565 original size:19 final size:19
Alignment explanation
Indices: 23287541--23287591 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
23287531 ATTTCAACTC
23287541 CATTTCAGCTCCTCTAGCT
1 CATTTCAGCTCCTCTAGCT
23287560 CATTTCAGCTCCTCTAGCT
1 CATTTCAGCTCCTCTAGCT
*
23287579 CATTTCAACTCCT
1 CATTTCAGCTCCT
23287592 AAGTTTGTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.08, T:0.37
Consensus pattern (19 bp):
CATTTCAGCTCCTCTAGCT
Found at i:23288324 original size:25 final size:27
Alignment explanation
Indices: 23288290--23288358 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
23288280 CATCTATTGT
* *
23288290 AATTGAAAAAAAAAGA-GAAG-AAGAA
1 AATTCAAAAAAAAAGACGAAGTAAAAA
23288315 AATTCAAAAAAAAAGTACGAAGTAAAAA
1 AATTCAAAAAAAAAG-ACGAAGTAAAAA
* *
23288343 AAATCGAAAAAAAAGA
1 AATTCAAAAAAAAAGA
23288359 AGTGAAGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.38
26 1 0.03
27 5 0.14
28 17 0.46
ACGTcount: A:0.71, C:0.04, G:0.14, T:0.10
Consensus pattern (27 bp):
AATTCAAAAAAAAAGACGAAGTAAAAA
Found at i:23288365 original size:29 final size:29
Alignment explanation
Indices: 23288295--23288366 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 29
23288285 ATTGTAATTG
* *
23288295 AAAAAAA-AAGAGAAG-AAGAAAATTCAA
1 AAAAAAAGAAGAGAAGTAAAAAAAATCAA
* * *
23288322 AAAAAAAGTA-CGAAGTAAAAAAAATCGA
1 AAAAAAAGAAGAGAAGTAAAAAAAATCAA
*
23288350 AAAAAAAGAAGTGAAGT
1 AAAAAAAGAAGAGAAGT
23288367 GTTGGAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
27 11 0.31
28 19 0.54
29 5 0.14
ACGTcount: A:0.69, C:0.04, G:0.17, T:0.10
Consensus pattern (29 bp):
AAAAAAAGAAGAGAAGTAAAAAAAATCAA
Found at i:23290531 original size:24 final size:26
Alignment explanation
Indices: 23290484--23290531 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
23290474 AAGAAAAAGA
23290484 AAAAGAAAGCAAAAGAAACATGAGAG
1 AAAAGAAAGCAAAAGAAACATGAGAG
* *
23290510 AAAA-AAAG-AAAGGAAACTTGAG
1 AAAAGAAAGCAAAAGAAACATGAG
23290532 TAACCATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 4 0.20
26 4 0.20
ACGTcount: A:0.65, C:0.06, G:0.23, T:0.06
Consensus pattern (26 bp):
AAAAGAAAGCAAAAGAAACATGAGAG
Found at i:23291286 original size:10 final size:10
Alignment explanation
Indices: 23291273--23291412 Score: 90
Period size: 10 Copynumber: 13.9 Consensus size: 10
23291263 TTCTCGTGCA
23291273 AGCTCATTTC
1 AGCTCATTTC
23291283 AGCTCCATTTC
1 AGCT-CATTTC
* *
23291294 AGCTCCTCT-
1 AGCTCATTTC
23291303 AGCTCATTTC
1 AGCTCATTTC
23291313 AGCTCCATTTC
1 AGCT-CATTTC
* *
23291324 AGCTC-CTCC
1 AGCTCATTTC
*
23291333 AGCTCGTTTC
1 AGCTCATTTC
****
23291343 AGCTCCGACC
1 AGCTCATTTC
* *
23291353 AGCTCAATTG
1 AGCTCATTTC
23291363 AGCTCATTTC
1 AGCTCATTTC
23291373 AGCTCA-TTC
1 AGCTCATTTC
23291382 GAGCTCAATTT-
1 -AGCTC-ATTTC
*
23291393 AGCTACATTTT
1 AGCT-CATTTC
*
23291404 AACTCATTT
1 AGCTCATTT
23291413 ATTTTATTGG
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
9 17 0.17
10 57 0.56
11 25 0.25
12 2 0.02
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:23291293 original size:11 final size:11
Alignment explanation
Indices: 23291273--23291329 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
23291263 TTCTCGTGCA
23291273 AGCT-CATTTC
1 AGCTCCATTTC
23291283 AGCTCCATTTC
1 AGCTCCATTTC
*
23291294 AGCTCC-TCT-
1 AGCTCCATTTC
23291303 AGCT-CATTTC
1 AGCTCCATTTC
23291313 AGCTCCATTTC
1 AGCTCCATTTC
23291324 AGCTCC
1 AGCTCC
23291330 TCCAGCTCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 1 0.02
9 6 0.15
10 10 0.24
11 24 0.59
ACGTcount: A:0.18, C:0.37, G:0.11, T:0.35
Consensus pattern (11 bp):
AGCTCCATTTC
Found at i:23291307 original size:30 final size:30
Alignment explanation
Indices: 23291273--23291348 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
23291263 TTCTCGTGCA
*
23291273 AGCTCATTTCAGCTCCATTTCAGCTCCTCT
1 AGCTCATTTCAGCTCCATTTCAGCTCCTCC
23291303 AGCTCATTTCAGCTCCATTTCAGCTCCTCC
1 AGCTCATTTCAGCTCCATTTCAGCTCCTCC
*
23291333 AGCTCGTTTCAGCTCC
1 AGCTCATTTCAGCTCC
23291349 GACCAGCTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.16, C:0.38, G:0.12, T:0.34
Consensus pattern (30 bp):
AGCTCATTTCAGCTCCATTTCAGCTCCTCC
Found at i:23291354 original size:20 final size:19
Alignment explanation
Indices: 23291320--23291357 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
23291310 TTCAGCTCCA
*
23291320 TTTCAGCTCCTCCAGCTCG
1 TTTCAGCTCCACCAGCTCG
23291339 TTTCAGCTCCGACCAGCTC
1 TTTCAGCTCC-ACCAGCTC
23291358 AATTGAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.42, G:0.16, T:0.29
Consensus pattern (19 bp):
TTTCAGCTCCACCAGCTCG
Found at i:23294840 original size:180 final size:180
Alignment explanation
Indices: 23294538--23294922 Score: 745
Period size: 180 Copynumber: 2.1 Consensus size: 180
23294528 TTATTTTTTT
*
23294538 ACAATTTTTGATGATTTTCCAAAGTGAGAACAGGGGAACCCAAAATCATTCTAATATTGTCTCAC
1 ACAATTTTTGATGATTTTCCAAAGTGAGAACAGAGGAACCCAAAATCATTCTAATATTGTCTCAC
23294603 AAACTTCATTATAACTCATAATTTACAGTTACATTGCTTACATTGTTTCTTCCATGGAATACTAG
66 AAACTTCATTATAACTCATAATTTACAGTTACATTGCTTACATTGTTTCTTCCATGGAATACTAG
23294668 ACTCAGTAAAATTTAATTTCATGTTTTATTCAACCTCTAACTCAATTTCC
131 ACTCAGTAAAATTTAATTTCATGTTTTATTCAACCTCTAACTCAATTTCC
23294718 ACAATTTTTGATGATTTTCCAAAGTGAGAACAGAGGAACCCAAAATCATTCTAATATTGTCTCAC
1 ACAATTTTTGATGATTTTCCAAAGTGAGAACAGAGGAACCCAAAATCATTCTAATATTGTCTCAC
23294783 AAACTTCATTATAACTCATAATTTACAGTTACATTGCTTACATTGTTTCTTCCATGGAATACTAG
66 AAACTTCATTATAACTCATAATTTACAGTTACATTGCTTACATTGTTTCTTCCATGGAATACTAG
23294848 ACTCAGTAAAATTTAATTTCATGTTTTATTCAACCTCTAACTCAATTTCC
131 ACTCAGTAAAATTTAATTTCATGTTTTATTCAACCTCTAACTCAATTTCC
23294898 ACAATTTTTGATGATATTT-CAAAGT
1 ACAATTTTTGATGAT-TTTCCAAAGT
23294923 TAGACTACTA
Statistics
Matches: 203, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
180 200 0.99
181 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.38
Consensus pattern (180 bp):
ACAATTTTTGATGATTTTCCAAAGTGAGAACAGAGGAACCCAAAATCATTCTAATATTGTCTCAC
AAACTTCATTATAACTCATAATTTACAGTTACATTGCTTACATTGTTTCTTCCATGGAATACTAG
ACTCAGTAAAATTTAATTTCATGTTTTATTCAACCTCTAACTCAATTTCC
Found at i:23296925 original size:17 final size:17
Alignment explanation
Indices: 23296903--23296937 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23296893 ACAAGTTTCG
23296903 ACCAAAAGGGAACAAAA
1 ACCAAAAGGGAACAAAA
* *
23296920 ACCAAACGTGAACAAAA
1 ACCAAAAGGGAACAAAA
23296937 A
1 A
23296938 AGGAGAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.20, G:0.14, T:0.03
Consensus pattern (17 bp):
ACCAAAAGGGAACAAAA
Found at i:23320924 original size:26 final size:26
Alignment explanation
Indices: 23320886--23320946 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
23320876 TACTAGAAGC
* *
23320886 AAATAAAAGAAAAATTAGAATT-TAAA
1 AAATAAAATAAAAA-TAAAATTATAAA
*
23320912 AATTAAAATAAAAATAAAATTATAAA
1 AAATAAAATAAAAATAAAATTATAAA
23320938 AAATAAAAT
1 AAATAAAAT
23320947 GGCTAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATAAAATAAAAATAAAATTATAAA
Found at i:23322668 original size:61 final size:61
Alignment explanation
Indices: 23322555--23322720 Score: 196
Period size: 61 Copynumber: 2.8 Consensus size: 61
23322545 AAATAAAGAA
*
23322555 GTGCCCCTGTTTTCACTTTGGTG-GCCTTGTATACACTTCT-GTGTCTCTATTTGAACAAT-T
1 GTGCCCCTGTTTGCACTTTGGTGCGCCTTGTATACACTT-TGGTGTCTCTATTTGAAC-ATCT
* * * * *
23322615 GTGCCCCTGTTCGCACTTTGGTGCGCCCTGTATACAATTTGGTGTCTCTATTTGCACGTCT
1 GTGCCCCTGTTTGCACTTTGGTGCGCCTTGTATACACTTTGGTGTCTCTATTTGAACATCT
* * **
23322676 GTGCTCCTATTTGCACTTCAGTGC-CCTTGTATACACTTTGGTGTC
1 GTGCCCCTGTTTGCACTTTGGTGCGCCTTGTATACACTTTGGTGTC
23322721 CTTGTTTGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
60 42 0.47
61 48 0.53
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.40
Consensus pattern (61 bp):
GTGCCCCTGTTTGCACTTTGGTGCGCCTTGTATACACTTTGGTGTCTCTATTTGAACATCT
Found at i:23322699 original size:20 final size:20
Alignment explanation
Indices: 23322662--23322699 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23322652 TTTGGTGTCT
*
23322662 CTATTTGCACGTCTGTGCTC
1 CTATTTGCACGTCAGTGCTC
*
23322682 CTATTTGCACTTCAGTGC
1 CTATTTGCACGTCAGTGC
23322700 CCTTGTATAC
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:0.13, C:0.29, G:0.18, T:0.39
Consensus pattern (20 bp):
CTATTTGCACGTCAGTGCTC
Found at i:23322760 original size:60 final size:60
Alignment explanation
Indices: 23322568--23322761 Score: 184
Period size: 60 Copynumber: 3.2 Consensus size: 60
23322558 CCCCTGTTTT
* *
23322568 CACTTTGGTGGCCTTGTATACACTTCT-GTGTCTCTATTTGAACA-AT-TGTGCCCCTGTTCG
1 CACTTTGGTGCCCTTGTATACACTT-TGGTGTCTCTATTTG--CAGATCTGTGCCCCAGTTCG
* * * *
23322628 CACTTTGGTGCGCCCTGTATACAATTTGGTGTCTCTATTTGCACG-TCTGTGCTCCTA-TTTG
1 CACTTTGGTGC-CCTTGTATACACTTTGGTGTCTCTATTTGCA-GATCTGTGC-CCCAGTTCG
** * * *
23322689 CACTTCAGTGCCCTTGTATACACTTTGGTGTC-CTTGTTTGCAGATCTATGCCCCAGTTCA
1 CACTTTGGTGCCCTTGTATACACTTTGGTGTCTC-TATTTGCAGATCTGTGCCCCAGTTCG
23322749 CACTTTGGTGCCC
1 CACTTTGGTGCCC
23322762 CTAAGTGCAT
Statistics
Matches: 108, Mismatches: 17, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
59 7 0.06
60 57 0.53
61 42 0.39
62 2 0.02
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (60 bp):
CACTTTGGTGCCCTTGTATACACTTTGGTGTCTCTATTTGCAGATCTGTGCCCCAGTTCG
Found at i:23328417 original size:60 final size:60
Alignment explanation
Indices: 23328350--23328590 Score: 306
Period size: 60 Copynumber: 4.0 Consensus size: 60
23328340 TCAGTTCCAA
*
23328350 TATATACACTTCGGTGTCTTTATTGCCAC-TACTATGCCCCTATTCGCACTTTGGTGCCCC
1 TATATACACTTCGGTGTCTCTATTGCCACGT-CTATGCCCCTATTCGCACTTTGGTGCCCC
* * *
23328410 TATATACACTTCGGTGTCTCTATTTCCACGTCTATGCTCCTTTTCGCACTTTGGTGCCCC
1 TATATACACTTCGGTGTCTCTATTGCCACGTCTATGCCCCTATTCGCACTTTGGTGCCCC
* * * *
23328470 TATATATATACTTCGGTGTCTCTATTTCCACGTCTATGCTCCTGTTCGCACTTTGGTGCCCC
1 --TATATACACTTCGGTGTCTCTATTGCCACGTCTATGCCCCTATTCGCACTTTGGTGCCCC
* * * * * *
23328532 TATATACACTTTGGTGTCCCTGTTTG-CACATCTGTGTCCCTATTCGCACTTTGGTGCCC
1 TATATACACTTCGGTGTCTCT-ATTGCCACGTCTATGCCCCTATTCGCACTTTGGTGCCC
23328591 TTGACTGCAC
Statistics
Matches: 161, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
60 100 0.62
61 3 0.02
62 58 0.36
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.39
Consensus pattern (60 bp):
TATATACACTTCGGTGTCTCTATTGCCACGTCTATGCCCCTATTCGCACTTTGGTGCCCC
Found at i:23328507 original size:122 final size:122
Alignment explanation
Indices: 23328349--23328590 Score: 344
Period size: 122 Copynumber: 2.0 Consensus size: 122
23328339 TTCAGTTCCA
*
23328349 ATATATACACTTCGGTGTCTTTATTGCCACTACTATGCCCCTATTCGCACTTTGGTGCCCCTATA
1 ATATATACACTTCGGTGTCTCTATTGCCACTACTATGCCCCTATTCGCACTTTGGTGCCCCTATA
* * *
23328414 TACACTTCGGTGTCTCTATTTCCACGTCTATG-CTCCTTTTCGCACTTTGGTGCCCCT
66 TACACTTCGGTGTCCCTATTTCCACATCTATGTC-CCTATTCGCACTTTGGTGCCCCT
* * * *
23328471 ATATATATACTTCGGTGTCTCTATTTCCACGT-CTATGCTCCTGTTCGCACTTTGGTGCCCCTAT
1 ATATATACACTTCGGTGTCTCTATTGCCAC-TACTATGCCCCTATTCGCACTTTGGTGCCCCTAT
* * * *
23328535 ATACACTTTGGTGTCCCTGTTTGCACATCTGTGTCCCTATTCGCACTTTGGTGCCC
65 ATACACTTCGGTGTCCCTATTTCCACATCTATGTCCCTATTCGCACTTTGGTGCCC
23328591 TTGACTGCAC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
122 104 0.98
123 2 0.02
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.39
Consensus pattern (122 bp):
ATATATACACTTCGGTGTCTCTATTGCCACTACTATGCCCCTATTCGCACTTTGGTGCCCCTATA
TACACTTCGGTGTCCCTATTTCCACATCTATGTCCCTATTCGCACTTTGGTGCCCCT
Found at i:23331438 original size:23 final size:23
Alignment explanation
Indices: 23331410--23331461 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
23331400 AAGTTTGTAT
23331410 TTGTAATATCCC-GAAAATTACTA
1 TTGTAATA-CCCTGAAAATTACTA
23331433 TTGTAATACCCTGAAAATTACTA
1 TTGTAATACCCTGAAAATTACTA
*
23331456 TAGTAA
1 TTGTAA
23331462 GAAAGTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (23 bp):
TTGTAATACCCTGAAAATTACTA
Found at i:23345876 original size:7 final size:7
Alignment explanation
Indices: 23345864--23345888 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23345854 AGAAACTTTG
23345864 GCTTCTA
1 GCTTCTA
23345871 GCTTCTA
1 GCTTCTA
23345878 GCTTCTA
1 GCTTCTA
23345885 GCTT
1 GCTT
23345889 GCCAACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.44
Consensus pattern (7 bp):
GCTTCTA
Found at i:23353784 original size:48 final size:47
Alignment explanation
Indices: 23353710--23353817 Score: 180
Period size: 48 Copynumber: 2.3 Consensus size: 47
23353700 TGAGGCCCTG
* *
23353710 GGACATGGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAAC
1 GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
23353757 AGGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
1 -GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
23353805 GAGACATGTTTGG
1 G-GACATGTTTGG
23353818 TGTGCTAGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
47 1 0.02
48 56 0.98
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (47 bp):
GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
Found at i:23362842 original size:42 final size:42
Alignment explanation
Indices: 23362786--23362869 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
23362776 ATATTTTATT
* **
23362786 TTATCTTTTGGTAGTTTATTAGAATAAGGGAATTGTTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
*
23362828 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
23362870 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
Found at i:23368648 original size:23 final size:24
Alignment explanation
Indices: 23368621--23368678 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 24
23368611 ATAGTACTAC
23368621 ACATGT-GACCATCACTATTTGAT
1 ACATGTAGACCATCACTATTTGAT
23368644 ACATGTAGTAGACCATCACTATTTGAT
1 ACA--T-GTAGACCATCACTATTTGAT
23368671 ACATGTAG
1 ACATGTAG
23368679 TAGCCTGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.10
24 4 0.13
25 2 0.06
26 2 0.06
27 20 0.65
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
ACATGTAGACCATCACTATTTGAT
Found at i:23368657 original size:27 final size:27
Alignment explanation
Indices: 23368627--23368681 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23368617 CTACACATGT
23368627 GACCATCACTATTTGATACATGTAGTA
1 GACCATCACTATTTGATACATGTAGTA
23368654 GACCATCACTATTTGATACATGTAGTA
1 GACCATCACTATTTGATACATGTAGTA
23368681 G
1 G
23368682 CCTGCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (27 bp):
GACCATCACTATTTGATACATGTAGTA
Found at i:23368752 original size:51 final size:51
Alignment explanation
Indices: 23368676--23368858 Score: 271
Period size: 51 Copynumber: 3.6 Consensus size: 51
23368666 TTGATACATG
*
23368676 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCTGTCTGGTACGCA
*
23368727 TAGTAGCCTGCACATAGTACTACACACGTGATCTAAGCTGTCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCTGTCTGGTACGCA
* * * * *
23368778 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCAT-TCTGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGC-TGTCTGGTACGCA
*
23368828 TAGTAACCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
23368859 CCATCACTTT
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
50 41 0.34
51 80 0.66
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCTGTCTGGTACGCA
Found at i:23368852 original size:101 final size:102
Alignment explanation
Indices: 23368676--23368858 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 102
23368666 TTGATACATG
* * * *
23368676 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTGTCTGGTACACATAGTAACCTGCACA
23368741 TAGTACTACACACGTGATCTAAGCTGTCTGGTACGCA
66 TAGTACTACACACGTGATCTAAGCTGTCTGGTACGCA
* * *
23368778 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCAT-TCTGGTACACATAGTAACCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGC-TGTCTGGTACACATAGTAACCTGCAC
23368841 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
23368859 CCATCACTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 43 0.59
102 30 0.41
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (102 bp):
TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTGTCTGGTACACATAGTAACCTGCACA
TAGTACTACACACGTGATCTAAGCTGTCTGGTACGCA
Found at i:23370710 original size:19 final size:19
Alignment explanation
Indices: 23370664--23370711 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
23370654 GTATATATTT
*
23370664 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
23370682 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
*
23370701 TAAGTTTTATT
1 TAAATTTTATT
23370712 CATATTATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:23370771 original size:42 final size:42
Alignment explanation
Indices: 23370725--23370814 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
23370715 ATTATAGGAA
** *
23370725 TATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGAGAAT
1 TATTTTACCTTATATTTTAGTAGTTTATTAGAATAAGAGAAT
* ** *
23370767 TATTTTCCCTTATATTTTTTTAGTTTATTAGAATAAGGGAAT
1 TATTTTACCTTATATTTTAGTAGTTTATTAGAATAAGAGAAT
23370809 TATTTT
1 TATTTT
23370815 CCCAATTAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (42 bp):
TATTTTACCTTATATTTTAGTAGTTTATTAGAATAAGAGAAT
Found at i:23381354 original size:41 final size:42
Alignment explanation
Indices: 23381297--23381387 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 42
23381287 TAATTAGGAT
*
23381297 AATAATTCCCTTATTCTAA-TAAACTACTAAAAGATAAGA-AA
1 AATAATTCCCTTATTCTAAGTAAA-TACTAAAAGATAAAATAA
23381338 AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
1 AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
23381380 AAT-ATTCC
1 AATAATTCC
23381388 TAGAATATCT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 38 0.81
42 9 0.19
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (42 bp):
AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
Found at i:23384477 original size:16 final size:16
Alignment explanation
Indices: 23384443--23384476 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
23384433 TTTTTGTTAC
*
23384443 AAAGAGAGGAAGAGAA
1 AAAGAGAGGAAGAAAA
23384459 AAAGAGA-GAAGAAAA
1 AAAGAGAGGAAGAAAA
23384474 AAA
1 AAA
23384477 ACAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAGAGAGGAAGAAAA
Found at i:23385649 original size:157 final size:157
Alignment explanation
Indices: 23385363--23385680 Score: 494
Period size: 157 Copynumber: 2.0 Consensus size: 157
23385353 TTATGCATGT
* * * *
23385363 TTTGGGTAGGTTTGATTTCTTGGTCATATAGGCAAATGTGGTAAGGTAAATGCTTGAGGTAGGTG
1 TTTGGGTAGGTTTGACTCCTTGGTCATATAGGCAAATGTGATAAGATAAATGCTTGAGGTAGGTG
* * *
23385428 AAGGAAATGGCTTCATTTTGGCCAATTTCTTGTCCACACGGCCTAAGACATGGGCATGTGTCTTA
66 AAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTTA
**
23385493 GTTGTGCGTCCCTTGTAGATTTCAAAG
131 CCTGTGCGTCCCTTGTAGATTTCAAAG
* *
23385520 TTTGGGTAGGTTTGACTCCTTGGTCATAT-GTGCAAATGTGATTAGATAAATGCTTGAGGTGGGT
1 TTTGGGTAGGTTTGACTCCTTGGTCATATAG-GCAAATGTGATAAGATAAATGCTTGAGGTAGGT
* *
23385584 GAAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGATACGGGCTTGTGTCTT
65 GAAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTT
*
23385649 ACCTGTGTGTCCCTTGTAGATTTCAAAG
130 ACCTGTGCGTCCCTTGTAGATTTCAAAG
23385677 TTTG
1 TTTG
23385681 CAAGTCTGAC
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 1 0.01
157 145 0.99
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (157 bp):
TTTGGGTAGGTTTGACTCCTTGGTCATATAGGCAAATGTGATAAGATAAATGCTTGAGGTAGGTG
AAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTTA
CCTGTGCGTCCCTTGTAGATTTCAAAG
Found at i:23386206 original size:20 final size:20
Alignment explanation
Indices: 23386181--23386219 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23386171 TGTTTAGATC
*
23386181 ACATGAGTTTAATTCAGCTA
1 ACATGAGCTTAATTCAGCTA
23386201 ACATGAGCTTAATTCAGCT
1 ACATGAGCTTAATTCAGCT
23386220 CGGTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
ACATGAGCTTAATTCAGCTA
Found at i:23388436 original size:6 final size:6
Alignment explanation
Indices: 23388425--23388526 Score: 50
Period size: 6 Copynumber: 17.3 Consensus size: 6
23388415 ATCCAAAAAG
* * ** *
23388425 AAGAAA AAGAAA AGGCAA GTGAAA AAGAAA AAG--- AAGAAA AAGAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * * ** * *
23388470 ATGAAA ATGAGAA AAGAAA AAG-AG AAGTGA GAGAAA AAGAAA ACGAAA
1 AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
23388518 AAGAGAA AA
1 AAGA-AA AA
23388527 TCAAAAAAGA
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
3 3 0.04
5 4 0.06
6 54 0.77
7 9 0.13
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:23388461 original size:33 final size:34
Alignment explanation
Indices: 23388419--23388492 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
23388409 AATAAAATCC
* *
23388419 AAAAAGAAGAAAAAGAAAAGGCAAGTGA-AAAAG
1 AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
* *
23388452 AAAAAGAAGAAAAAGAGAATGAAAATGAGAAAAG
1 AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
23388486 AAAAAGA
1 AAAAAGA
23388493 GAAGTGAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (34 bp):
AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
Found at i:23388474 original size:27 final size:27
Alignment explanation
Indices: 23388419--23388524 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
23388409 AATAAAATCC
23388419 AAAAAGAAGAAAAAG-AAAAG-GCAAGTG
1 AAAAAGAA-AAAAAGAAAAAGAG-AAGTG
23388446 AAAAAGAAAAAGAAGAAAAAGAGAA-TG
1 AAAAAGAAAAA-AAGAAAAAGAGAAGTG
* *
23388473 AAAATG-AGAAAAGAAAAAGAGAAGTG
1 AAAAAGAAAAAAAGAAAAAGAGAAGTG
*
23388499 AGAGAAA-AAGAAAACGAAAAAGAGAA
1 A-A-AAAGAA-AAAAAGAAAAAGAGAA
23388525 AATCAAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
25 13 0.20
26 9 0.14
27 19 0.29
28 10 0.15
29 15 0.23
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.04
Consensus pattern (27 bp):
AAAAAGAAAAAAAGAAAAAGAGAAGTG
Found at i:23390612 original size:19 final size:20
Alignment explanation
Indices: 23390588--23390628 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
23390578 ACGTAAATTC
23390588 CTATA-GCCATTTAAGTTGT
1 CTATAGGCCATTTAAGTTGT
*
23390607 CTATAGGCCATTTAATTTGT
1 CTATAGGCCATTTAAGTTGT
23390627 CT
1 CT
23390629 TAAGTCCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
CTATAGGCCATTTAAGTTGT
Found at i:23393726 original size:145 final size:145
Alignment explanation
Indices: 23393456--23393741 Score: 520
Period size: 145 Copynumber: 2.0 Consensus size: 145
23393446 TCCAAAGCTC
*
23393456 ATGTGAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
1 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
* *
23393521 CTCGTGTGAGCAATGACGTAAAGGAAATGTTACGATTATGTAAAGGCACACTTCATGTGAGCTTT
66 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTACGATTATGTAAAGGCACACTTCATGTGAGCTTT
23393586 CCCAAGTATCCAATT
131 CCCAAGTATCCAATT
*
23393601 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCTACAAATCGTGTAAAAAGGCCCATTTCATAG
1 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
23393666 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTACGATTATGTAAAGGCACACTTCGA-GTGAGCTT
66 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTACGATTATGTAAAGGCACACTTC-ATGTGAGCTT
23393730 TCCCAAGTATCC
130 TCCCAAGTATCC
23393742 GATGAAATTC
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
145 135 0.99
146 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (145 bp):
ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
CTCCTGTGAGCAATGACGTAAAGGAAAGGTTACGATTATGTAAAGGCACACTTCATGTGAGCTTT
CCCAAGTATCCAATT
Found at i:23401808 original size:31 final size:31
Alignment explanation
Indices: 23401755--23401814 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
23401745 TAAGTTTAAG
* *
23401755 AAAATAAAAATAGCAACTAAAAGCAAAGATA
1 AAAATAAAAATAGAAACAAAAAGCAAAGATA
*
23401786 AAAATAAAAATA-AAACGAAAAAGGAAAGA
1 AAAATAAAAATAGAAAC-AAAAAGCAAAGA
23401815 AATAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.10
Consensus pattern (31 bp):
AAAATAAAAATAGAAACAAAAAGCAAAGATA
Found at i:23401995 original size:17 final size:18
Alignment explanation
Indices: 23401961--23402003 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23401951 AAAAAATAAG
*
23401961 AAAAAAATCAGTAAAATA
1 AAAAAAATCAATAAAATA
*
23401979 AAAAAAAT-AATATAATA
1 AAAAAAATCAATAAAATA
23401996 AATAAAAA
1 AA-AAAAA
23402004 ATAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAAAATCAATAAAATA
Found at i:23407272 original size:60 final size:59
Alignment explanation
Indices: 23407067--23407275 Score: 179
Period size: 60 Copynumber: 3.5 Consensus size: 59
23407057 AAATGAATAA
* * * *
23407067 GTGCCCCTGTTCGCACTTTGGTGGCCTTGTATACACTTCAGTGTCAC-TATTTGCACAATT
1 GTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACA-TTTAGTGTC-CTTATTTGCACATTT
* ** * * *
23407127 GTACCCCTGTTCGCACTTTGGTGCCCTCTGTATACACTTCGGTGT-CTCTATTTACACGTCT
1 GTGCCCCTGTTCGCACTTTGGTGCCC-CTGTATACA-TTTAGTGTCCT-TATTTGCACATTT
* * * ** * *
23407188 GTGCTCCTCTTTGCACTTCAGTGCCCCTGTATACATTTTGCTGTCCTTTTTTGCACATTT
1 GTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACATTTAG-TGTCCTTATTTGCACATTT
* *
23407248 GTGCCCCAGTTCGAACTTTGGTGCCCCT
1 GTGCCCCTGTTCGCACTTTGGTGCCCCT
23407276 AAGTGCACGT
Statistics
Matches: 117, Mismatches: 27, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
59 4 0.03
60 66 0.56
61 47 0.40
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.38
Consensus pattern (59 bp):
GTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACATTTAGTGTCCTTATTTGCACATTT
Found at i:23409255 original size:20 final size:20
Alignment explanation
Indices: 23409232--23409333 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
23409222 TTCCATAACA
*
23409232 GTGCCCCTATTTGCACTTCG
1 GTGCCCCTATTTACACTTCG
** * *
23409252 GTGCCAATGTATACACTTCG
1 GTGCCCCTATTTACACTTCG
* * * *
23409272 GTGTCTCTATTTCCAC--CA
1 GTGCCCCTATTTACACTTCG
* * *
23409290 GTATCCCCTATTCATACTTCG
1 GT-GCCCCTATTTACACTTCG
*
23409311 GTGCCCCTATATACACTTCG
1 GTGCCCCTATTTACACTTCG
23409331 GTG
1 GTG
23409334 TCTCTATTTG
Statistics
Matches: 56, Mismatches: 23, Indels: 6
0.66 0.27 0.07
Matches are distributed among these distances:
18 3 0.05
19 8 0.14
20 42 0.75
21 3 0.05
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (20 bp):
GTGCCCCTATTTACACTTCG
Found at i:23409433 original size:59 final size:60
Alignment explanation
Indices: 23409244--23409435 Score: 176
Period size: 59 Copynumber: 3.2 Consensus size: 60
23409234 GCCCCTATTT
** * * * * * * *
23409244 GCACTTCGGTGCCAATGTATACACTTCGGTGTCTCTATTTCCACCA-GTA-TCCCCTATTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCA-CATCTATTCTCCTGTTC
** * * ** *
23409303 ATACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTGCAGGTCTATTCTCTTGTTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATTCTCCTGTTC
*
23409363 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCT-GTTGCACATCT-TTGTCCCTGTTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATTCT-CCTGTTC
*
23409422 GCACTTTGGTGCCC
1 GCACTTCGGTGCCC
23409436 TTGACTACAC
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
58 3 0.03
59 66 0.61
60 40 0.37
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (60 bp):
GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATTCTCCTGTTC
Found at i:23413717 original size:12 final size:12
Alignment explanation
Indices: 23413700--23413724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23413690 ACTCTGATTG
23413700 GGGCTGAATCGA
1 GGGCTGAATCGA
23413712 GGGCTGAATCGA
1 GGGCTGAATCGA
23413724 G
1 G
23413725 TATTGTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (12 bp):
GGGCTGAATCGA
Found at i:23415438 original size:17 final size:18
Alignment explanation
Indices: 23415413--23415446 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23415403 TTAATTTAGT
*
23415413 TCATCTTAG-TTAATAAC
1 TCATATTAGATTAATAAC
23415430 TCATATTAGATTAATAA
1 TCATATTAGATTAATAA
23415447 ATGAGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATATTAGATTAATAAC
Found at i:23418101 original size:45 final size:45
Alignment explanation
Indices: 23418027--23418131 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 45
23418017 GTGTGCCCTG
* * * **
23418027 CACGACCTTG-CACACGGGCATGGGAGAAGCGAAGGAATATCACA
1 CACGACCTCGACACACGAGCATGGGAGAAGCAAAAAAATATCACA
* *
23418071 CACGGCCTGGACACACGAGCATGGGAGAAGCAAAAAAATATCACA
1 CACGACCTCGACACACGAGCATGGGAGAAGCAAAAAAATATCACA
23418116 CACGACCTCGACACAC
1 CACGACCTCGACACAC
23418132 TATCGTGTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 8 0.15
45 44 0.85
ACGTcount: A:0.37, C:0.29, G:0.25, T:0.10
Consensus pattern (45 bp):
CACGACCTCGACACACGAGCATGGGAGAAGCAAAAAAATATCACA
Found at i:23418217 original size:13 final size:13
Alignment explanation
Indices: 23418199--23418236 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
23418189 TGAAAACCCC
23418199 ACACGGTCGTGTA
1 ACACGGTCGTGTA
23418212 ACACGGTCGTGTA
1 ACACGGTCGTGTA
*
23418225 ACATGGTCGTGT
1 ACACGGTCGTGT
23418237 GGCCCAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (13 bp):
ACACGGTCGTGTA
Found at i:23418850 original size:16 final size:16
Alignment explanation
Indices: 23418833--23418972 Score: 67
Period size: 16 Copynumber: 8.4 Consensus size: 16
23418823 TTATGTTCTA
23418833 TTATTTTATT-TTATT
1 TTATTTTATTATTATT
23418848 ATTATTTTCATTATT-TT
1 -TTATTTT-ATTATTATT
23418865 TTATTGTTATTA-TA-T
1 TTATT-TTATTATTATT
*
23418880 TTATTTGTTTTATTATT
1 TTATTT-TATTATTATT
* * * *
23418897 CCTATTTTTTTCTTTCTT
1 -TTATTTTATT-ATTATT
*
23418915 TCTTTTTTAGTT-TTAGTT
1 T-TATTTTA-TTATTA-TT
*
23418933 GTTATTTTTACTATTATT
1 -TTA-TTTTATTATTATT
23418951 TTATTATTATTATT-TT
1 TTATT-TTATTATTATT
23418967 TTATTT
1 TTATTT
23418973 ACTTTAGCTT
Statistics
Matches: 97, Mismatches: 11, Indels: 33
0.69 0.08 0.23
Matches are distributed among these distances:
14 1 0.01
15 12 0.12
16 27 0.28
17 24 0.25
18 22 0.23
19 11 0.11
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.73
Consensus pattern (16 bp):
TTATTTTATTATTATT
Found at i:23418860 original size:25 final size:25
Alignment explanation
Indices: 23418810--23418877 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
23418800 TGTTTGGCCC
*
23418810 TTTTTTTTCATTTTTATGTTCTATTA
1 TTTTTTTT-ATTATTATGTTCTATTA
*
23418836 TTTTATTTTATTATTATTTTC-ATTA
1 TTTT-TTTTATTATTATGTTCTATTA
*
23418861 TTTTTTATTGTTATTAT
1 TTTTTT-TTATTATTAT
23418878 ATTTATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.05
25 17 0.46
26 14 0.38
27 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTTTTTATTATTATGTTCTATTA
Found at i:23418890 original size:25 final size:27
Alignment explanation
Indices: 23418831--23418968 Score: 77
Period size: 30 Copynumber: 4.9 Consensus size: 27
23418821 TTTTATGTTC
23418831 TATTATTTTATTTTATTATTATTTTCAT
1 TATT-TTTTATTTTATTATTATTTTCAT
23418859 TATTTTTTATTGTTATTA-TA-TTT-ATT
1 TATTTTTTATT-TTATTATTATTTTCA-T
* * * * *
23418885 TGTTTTATTATTCCTATTTTTTTCTTTCTT
1 TATTTT-TTATT-TTATTATTAT-TTTCAT
* * * *
23418915 TCTTTTTTAGTTTTAGTTGTTATTTTTAC
1 TATTTTTTA-TTTTA-TTATTATTTTCAT
23418944 TATTATTTTATTATTATTATT-TTTT
1 TATT-TTTTATT-TTATTATTATTTT
23418969 ATTTACTTTA
Statistics
Matches: 84, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
25 1 0.01
26 9 0.11
27 18 0.21
28 15 0.18
29 17 0.20
30 24 0.29
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (27 bp):
TATTTTTTATTTTATTATTATTTTCAT
Found at i:23418963 original size:14 final size:13
Alignment explanation
Indices: 23418937--23418971 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
23418927 TTAGTTGTTA
*
23418937 TTTTTACTATTAT
1 TTTTTATTATTAT
23418950 TTTATTATTATTAT
1 TTT-TTATTATTAT
23418964 TTTTTATT
1 TTTTTATT
23418972 TACTTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTATTAT
Found at i:23420831 original size:16 final size:15
Alignment explanation
Indices: 23420810--23420839 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23420800 GTTCGGTTTA
23420810 GGATAGAAACAAGGTG
1 GGATAGAAA-AAGGTG
23420826 GGATAGAAAAAGGT
1 GGATAGAAAAAGGT
23420840 AATTGATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.37, T:0.13
Consensus pattern (15 bp):
GGATAGAAAAAGGTG
Found at i:23422338 original size:18 final size:18
Alignment explanation
Indices: 23422298--23422338 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23422288 TGTCCAGATT
*
23422298 TTTAAACAAATTTATTAA
1 TTTAAACAAATTTACTAA
* *
23422316 GTTAAACTAATTTACTAA
1 TTTAAACAAATTTACTAA
23422334 TTTAA
1 TTTAA
23422339 CTAGCAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTAAACAAATTTACTAA
Found at i:23423585 original size:33 final size:34
Alignment explanation
Indices: 23423508--23423597 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
23423498 TTTTGCACTC
23423508 TCATTTCTTTCTTCAATCTCACTCTCTTTTTCAGTTT
1 TCATTTCTTT-TTCAATCTCACTCTCTTTTTCA--TT
*
23423545 TCTTTTCTTTTTCACA-CTCA-TCTACTTTTTC-TT
1 TCATTTCTTTTTCA-ATCTCACTCT-CTTTTTCATT
23423578 TCATTTCTTTTTC--TCTCACT
1 TCATTTCTTTTTCAATCTCACT
23423598 TTTTCTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
31 4 0.09
32 1 0.02
33 14 0.30
35 3 0.06
36 15 0.32
37 10 0.21
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (34 bp):
TCATTTCTTTTTCAATCTCACTCTCTTTTTCATT
Found at i:23424610 original size:20 final size:20
Alignment explanation
Indices: 23424564--23424611 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23424554 ACTTTTTTTT
23424564 GAATTTTTTTTTTCAAATTC
1 GAATTTTTTTTTTCAAATTC
*** * *
23424584 TCTTTTTTTTTTTGAATTTC
1 GAATTTTTTTTTTCAAATTC
23424604 GAATTTTT
1 GAATTTTT
23424612 GTTTGATACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (20 bp):
GAATTTTTTTTTTCAAATTC
Found at i:23429426 original size:14 final size:15
Alignment explanation
Indices: 23429409--23429439 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
23429399 TTCAGTCTTA
23429409 TTTTTATT-GTTGTT
1 TTTTTATTAGTTGTT
23429423 TTTTTATTAGTTGTT
1 TTTTTATTAGTTGTT
23429438 TT
1 TT
23429440 ATTTGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (15 bp):
TTTTTATTAGTTGTT
Found at i:23438812 original size:24 final size:25
Alignment explanation
Indices: 23438783--23438851 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
23438773 CAAATAATAA
23438783 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
23438807 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
23438831 AATAATAATAC-ACGATAACTT
1 AATAATAATACAAC-ATAACTT
23438852 CCAAATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Found at i:23439729 original size:13 final size:13
Alignment explanation
Indices: 23439711--23439735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23439701 AAAAGAATCC
23439711 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
23439724 AAAGAAGAAAAA
1 AAAGAAGAAAAA
23439736 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:23440436 original size:43 final size:43
Alignment explanation
Indices: 23440370--23440452 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
23440360 TCATTCTATC
* *
23440370 CTACTGCATCTTCAGAGGTATAGGA-ATTGTGCTTCGATCCACT
1 CTACTGCAACTTCAGAGGGATAGGACATTG-GCTTCGATCCACT
23440413 CTACTGCAACTTCAG-GGAGATAGGACCATTGGCTTCGATC
1 CTACTGCAACTTCAGAGG-GATAGGA-CATTGGCTTCGATC
23440453 TGCTTCACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 2 0.06
43 20 0.57
44 9 0.26
45 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (43 bp):
CTACTGCAACTTCAGAGGGATAGGACATTGGCTTCGATCCACT
Found at i:23440604 original size:44 final size:44
Alignment explanation
Indices: 23440540--23440791 Score: 308
Period size: 44 Copynumber: 5.7 Consensus size: 44
23440530 GTAATTTTCA
* * * *
23440540 ACCTACTCCACAGCTAGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
23440584 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* *
23440628 ACCTATTCCAATGCTGTTCAGGGAGCTAGGA-TGTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACT-TACAATCTTCC
* * * * * ** *
23440672 GCCTATTCCACTACTGTTCAGGAATCTAGGACTTTTAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * *
23440716 ACCTATTCCACTGCTAGTCAGTGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* *
23440760 ACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
23440792 ATATAGTTTC
Statistics
Matches: 175, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
43 1 0.01
44 173 0.99
45 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
Found at i:23440657 original size:88 final size:88
Alignment explanation
Indices: 23440552--23440791 Score: 349
Period size: 88 Copynumber: 2.7 Consensus size: 88
23440542 CTACTCCACA
*
23440552 GCTAGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
1 GCTAGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGCTAGGACT
23440617 TACAGTCTTCCACCTATTCCAAT
66 TACAGTCTTCCACCTATTCCAAT
** * * *
23440640 GCT-GTTCAGGGAGCTAGGA-TGTACAATCTTCCGCCTATTCCACTACTGTTCAGGAATCTAGGA
1 GCTAG-TCAGGGAGCTAGGACT-TACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGCTAGGA
** *
23440703 CTTTTAGTCTTCCACCTATTCCACT
64 CTTACAGTCTTCCACCTATTCCAAT
* *
23440728 GCTAGTCAGTGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 GCTAGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGCTAGGAC
23440792 ATATAGTTTC
Statistics
Matches: 132, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.02
88 128 0.97
89 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (88 bp):
GCTAGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGCTAGGACT
TACAGTCTTCCACCTATTCCAAT
Found at i:23442145 original size:30 final size:29
Alignment explanation
Indices: 23442080--23442144 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
23442070 TTTTTCATCA
*
23442080 TTTTTTATTTTGACTTTGATTAATTTTTCT
1 TTTTTTATTTTGACTTTGATT-ATTTTCCT
*
23442110 TTTTTTCTTTTGACTTTGATT-TTTCTCCT
1 TTTTTTATTTTGACTTTGATTATTT-TCCT
23442139 TTTTTT
1 TTTTTT
23442145 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 9 0.28
30 20 0.62
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (29 bp):
TTTTTTATTTTGACTTTGATTATTTTCCT
Found at i:23443807 original size:11 final size:11
Alignment explanation
Indices: 23443791--23443819 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23443781 ACTTGGACTG
23443791 CAACCTCTCTC
1 CAACCTCTCTC
23443802 CAACCTCTCTC
1 CAACCTCTCTC
23443813 C-ACCTCT
1 CAACCTCT
23443820 GTGCATACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.17, C:0.55, G:0.00, T:0.28
Consensus pattern (11 bp):
CAACCTCTCTC
Found at i:23446581 original size:24 final size:25
Alignment explanation
Indices: 23446540--23446608 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
23446530 CAAATAATAA
* **
23446540 AATAATAATAAAGCATAACTTTTA-
1 AATAATAATACATAATAACTTTTAG
*
23446564 AGTAATAATACATAATAA-TTTTAG
1 AATAATAATACATAATAACTTTTAG
*
23446588 AATAATAATACATGATAACTT
1 AATAATAATACATAATAACTT
23446609 CAAAAATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.14
24 30 0.81
25 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (25 bp):
AATAATAATACATAATAACTTTTAG
Found at i:23447485 original size:13 final size:13
Alignment explanation
Indices: 23447467--23447491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23447457 AAAAGAATCC
23447467 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
23447480 AAAGAAGAAAAA
1 AAAGAAGAAAAA
23447492 TCTACAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:23457344 original size:17 final size:16
Alignment explanation
Indices: 23457322--23457356 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23457312 ACCACCAAAT
*
23457322 TGACACTTGAAGATCAG
1 TGACACTAGAAGAT-AG
23457339 TGACACTAGAAGATAG
1 TGACACTAGAAGATAG
23457355 TG
1 TG
23457357 GCTTGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (16 bp):
TGACACTAGAAGATAG
Found at i:23459624 original size:20 final size:20
Alignment explanation
Indices: 23459590--23459631 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23459580 AACTATTTAA
** *
23459590 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
23459610 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
23459630 AT
1 AT
23459632 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:23471731 original size:20 final size:20
Alignment explanation
Indices: 23471708--23471756 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
23471698 TTGCATGTTT
* *
23471708 GTGCTCCTGTTTGCACTTTA
1 GTGCCCCTGTTCGCACTTTA
*
23471728 GTGCCCCTGTTCGCACTTTG
1 GTGCCCCTGTTCGCACTTTA
23471748 GTGCCCCTG
1 GTGCCCCTG
23471757 ACTGCACGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.06, C:0.33, G:0.24, T:0.37
Consensus pattern (20 bp):
GTGCCCCTGTTCGCACTTTA
Found at i:23471763 original size:20 final size:19
Alignment explanation
Indices: 23471719--23471763 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
23471709 TGCTCCTGTT
*
23471719 TGCACTTTAGTGCCCCTGT
1 TGCACTTTAGTGCCCCTGC
*
23471738 TCGCACTTTGGTGCCCCTGAC
1 T-GCACTTTAGTGCCCCTG-C
23471759 TGCAC
1 TGCAC
23471764 GTATGTGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.11, C:0.36, G:0.22, T:0.31
Consensus pattern (19 bp):
TGCACTTTAGTGCCCCTGC
Found at i:23484649 original size:15 final size:16
Alignment explanation
Indices: 23484624--23484657 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
23484614 AAGATAAAGC
*
23484624 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
23484640 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
23484655 GTT
1 GTT
23484658 GAACTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:23492707 original size:23 final size:23
Alignment explanation
Indices: 23492681--23492730 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
23492671 ATGTCTATTT
* *
23492681 ATAGGCTTGTAAA-CCTTATTCTA
1 ATAGGATTG-AAACCCTTATTCAA
23492704 ATAGGATTGAAACTCCTTATTCAA
1 ATAGGATTGAAAC-CCTTATTCAA
23492728 ATA
1 ATA
23492731 ATATCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 8 0.35
24 12 0.52
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (23 bp):
ATAGGATTGAAACCCTTATTCAA
Found at i:23500073 original size:36 final size:36
Alignment explanation
Indices: 23500026--23500100 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
23500016 TAGCAGAAAC
23500026 TATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
1 TATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
23500062 TATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
1 TATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
23500098 TAT
1 TAT
23500101 TTGAATTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (36 bp):
TATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
Found at i:23500939 original size:20 final size:20
Alignment explanation
Indices: 23500914--23500963 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
23500904 TGGCTTAAAA
23500914 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
23500934 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
23500951 GTGGTAGTGGATT
1 TTGGTAGTGGATT
23500964 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Done.