Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 101 of 198
Found at i:32388202 original size:19 final size:18
Alignment explanation
Indices: 32388169--32388204 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32388159 TTCATTCATT
*
32388169 TATTTATTTTTATCCTTG
1 TATTCATTTTTATCCTTG
32388187 TATTCATTTATTATCCTT
1 TATTCATTT-TTATCCTT
32388205 CCATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.14, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTCATTTTTATCCTTG
Found at i:32399751 original size:19 final size:18
Alignment explanation
Indices: 32399719--32399755 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
32399709 CACCTTTTTG
32399719 CATTCATCACATGCATTA
1 CATTCATCACATGCATTA
*
32399737 CATTGCATCATATGCATTA
1 CATT-CATCACATGCATTA
32399756 AATTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (18 bp):
CATTCATCACATGCATTA
Found at i:32401233 original size:13 final size:13
Alignment explanation
Indices: 32401215--32401239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32401205 AAAATGGTAT
32401215 GACGCAAATGCCC
1 GACGCAAATGCCC
32401228 GACGCAAATGCC
1 GACGCAAATGCC
32401240 TAATGCAAAT
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:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (13 bp):
GACGCAAATGCCC
Found at i:32405636 original size:51 final size:51
Alignment explanation
Indices: 32405540--32405645 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
32405530 GAAATATTTC
* * *
32405540 ACCTAAAAAGGAAGGAGAGGCCAATGCAAAAATCCGCAAAGGGCGCTTTGAG
1 ACCTAAAAA-GAAGGAGAGGCCAAGGCAAAAATCCACAAAGGGCGCCTTGAG
* *
32405592 ACCTAAAAA-AAGGGAGAGGCCAAGGCGAAAA-CCTACAAATGGCGCCTTGAG
1 ACCTAAAAAGAA-GGAGAGGCCAAGGCAAAAATCC-ACAAAGGGCGCCTTGAG
32405643 ACC
1 ACC
32405646 AAAGGGGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 4 0.09
51 34 0.72
52 9 0.19
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (51 bp):
ACCTAAAAAGAAGGAGAGGCCAAGGCAAAAATCCACAAAGGGCGCCTTGAG
Found at i:32406532 original size:44 final size:44
Alignment explanation
Indices: 32406444--32406890 Score: 150
Period size: 44 Copynumber: 9.9 Consensus size: 44
32406434 TGAAGTCATC
* * *
32406444 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGT-AGGTTGAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGA-TCAGATTGAAG
* * *
32406489 TTA-C-AAGTCTTATATCCCTGAAGTTACAGTGGATCAGACTGAAG
1 ATAGCGAA-TCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
*
32406533 ATAGCGAATCTTATTCCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATAGCGAATCTTATT-CCCTGAAGTTGCAGTGGATCAGATTGAAG
* * * * *
32406578 CTATAAATTGC-AGATATTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATA-
1 --AT--A--GCGA-ATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGA-AG
* * * * * * *
32406628 TTA---AACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAA
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
* * *
32406670 ATAAATC-AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAGGACGGG
1 AT--AGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGA--A---G
* * * *
32406721 TTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
** * * * * *
32406765 CCA-CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCA-AGTTAAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGA-TTGAAG
* * * *
32406809 ATA-CTAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAG
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGATTGAAG
* * * * * *
32406853 CTA-CTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGA
1 ATAGCGAATCTTAT-TCCCTGAAGTTGCAGTGGATCAGA
32406891 CTAAAACCGC
Statistics
Matches: 321, Mismatches: 53, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
41 26 0.08
42 4 0.01
43 4 0.01
44 140 0.44
45 36 0.11
46 34 0.11
47 3 0.01
48 3 0.01
49 37 0.12
50 3 0.01
51 30 0.09
52 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ATAGCGAATCTTATTCCCTGAAGTTGCAGTGGATCAGATTGAAG
Found at i:32406839 original size:88 final size:88
Alignment explanation
Indices: 32406726--32406888 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 88
32406716 ACGGGTTACA
* *
32406726 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACC-TATCTCCCTAAAGTT
*
32406790 GCAGTAGAGCAAGTTAAAGATACT
65 ACAGTAGAGCAAGTTAAAGATACT
* * * *
32406814 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACCTATCTCCCTAAAGTTA
*
32406879 CAGTGGAGCA
66 CAGTAGAGCA
32406889 GACTAAAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 62 0.94
89 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACTAAACCTATCTCCCTAAAGTTA
CAGTAGAGCAAGTTAAAGATACT
Found at i:32406915 original size:132 final size:136
Alignment explanation
Indices: 32406630--32406898 Score: 339
Period size: 132 Copynumber: 2.0 Consensus size: 136
32406620 AGATCATATT
* * *
32406630 AAACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTTAAAAATAAATCAATCTTATCTCCCTGAAG
1 AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
* * * * * *
32406695 TTGCAATGGAGCAGATTGAGGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
66 TTGCAATGAAGCAGATTGA-GA--GGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGAC
*
32406760 TAAAGCCAC
128 TAAAACCAC
* * * *
32406769 AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGAT-ACT-AATCTTATCTCCTTGAAG
1 AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
* *
32406832 TTGCAGTGAAGCAGATTGA-A-GCTACTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
66 TTGCAATGAAGCAGATTGAGAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
32406895 AACC
131 AACC
32406899 GCAAGTCTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
132 40 0.35
135 1 0.01
137 34 0.30
138 2 0.02
139 37 0.32
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (136 bp):
AAACCTTATCTCCCTGAAGTTGCAGTAGAACAAGTTAAAAATAAATCAATCTTATCTCCCTGAAG
TTGCAATGAAGCAGATTGAGAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAA
AACCAC
Found at i:32407550 original size:5 final size:5
Alignment explanation
Indices: 32407540--32407580 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
32407530 AGAGGTAGTT
* *
32407540 TTTTA TTTTA TTTTA TTTTA TTTCA -TTTG TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
32407581 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 2 0.06
5 29 0.94
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:32422151 original size:24 final size:24
Alignment explanation
Indices: 32422122--32422172 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
32422112 ATTTAATGTT
32422122 TAAAAATTTCGAGAAATTGAACCC
1 TAAAAATTTCGAGAAATTGAACCC
32422146 TAAAAATTTCGAGAAATTGAACCC
1 TAAAAATTTCGAGAAATTGAACCC
32422170 TAA
1 TAA
32422173 CTTACTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (24 bp):
TAAAAATTTCGAGAAATTGAACCC
Found at i:32423989 original size:27 final size:27
Alignment explanation
Indices: 32423951--32424006 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
32423941 CTTTTTACAC
32423951 ATATCAATCCTAATTGCCAACTATCAA
1 ATATCAATCCTAATTGCCAACTATCAA
32423978 ATATCAATCCTAATTGCCAACTATCAA
1 ATATCAATCCTAATTGCCAACTATCAA
32424005 AT
1 AT
32424007 GAATTAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.30
Consensus pattern (27 bp):
ATATCAATCCTAATTGCCAACTATCAA
Found at i:32427198 original size:2 final size:2
Alignment explanation
Indices: 32427185--32427226 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
32427175 GAAATGATGT
32427185 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32427227 GAAATGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32430089 original size:17 final size:17
Alignment explanation
Indices: 32430067--32430100 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32430057 AGGAGAAGAG
32430067 TTAACGTGAAATCTGTA
1 TTAACGTGAAATCTGTA
32430084 TTAACGTGAAATCTGTA
1 TTAACGTGAAATCTGTA
32430101 GGTGGGGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TTAACGTGAAATCTGTA
Found at i:32432468 original size:16 final size:17
Alignment explanation
Indices: 32432447--32432479 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
32432437 TAAAACCTGC
32432447 TTTCCTTTTT-CTTTTT
1 TTTCCTTTTTCCTTTTT
32432463 TTTCCTTTTTCCTTTTT
1 TTTCCTTTTTCCTTTTT
32432480 CCTTTCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCCTTTTTCCTTTTT
Found at i:32433820 original size:19 final size:19
Alignment explanation
Indices: 32433793--32433829 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32433783 TTGATAGTTG
*
32433793 AAAATTTTTAAAAATAATC
1 AAAAATTTTAAAAATAATC
32433812 AAAAATTTTAAAAATAAT
1 AAAAATTTTAAAAATAAT
32433830 AATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTTAAAAATAATC
Found at i:32436379 original size:16 final size:16
Alignment explanation
Indices: 32436358--32436413 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
32436348 CGTTTGGTTC
32436358 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
32436374 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
32436390 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
32436406 GCTGTAAT
1 GCTGTAAT
32436414 AAGTAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:32436486 original size:44 final size:46
Alignment explanation
Indices: 32436399--32436487 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
32436389 AGTTGTAATG
32436399 GAATAGAGCTGTAATAAGTAATTCAATTGTTTAGTTGAATGGAATA
1 GAATAGAGCTGTAATAAGTAATTCAATTGTTTAGTTGAATGGAATA
* *
32436445 GAATAGAGCTGTAAT-AGT-ATTC-TTATGTTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATAAGTAATTCAAT-TGTTTAGTTGAATGGAAT
32436488 GATGTTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 21 0.52
45 3 0.08
46 15 0.38
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (46 bp):
GAATAGAGCTGTAATAAGTAATTCAATTGTTTAGTTGAATGGAATA
Found at i:32436900 original size:12 final size:12
Alignment explanation
Indices: 32436883--32436907 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32436873 TTGTTTCATC
32436883 TGGGGCAAATTA
1 TGGGGCAAATTA
32436895 TGGGGCAAATTA
1 TGGGGCAAATTA
32436907 T
1 T
32436908 AGGTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TGGGGCAAATTA
Found at i:32444611 original size:79 final size:77
Alignment explanation
Indices: 32444519--32444672 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 77
32444509 AATTATTGAT
32444519 ATAGAAATACAATATAAACATTTTTTTTTTCA-TTTTTTAGGGTAAATTGTAAATAAGTAGATTA
1 ATAGAAATACAATAT--A-A-TTTTTTTTTCATTTTTTTAGGGTAAATTGTAAATAAGTAGATTA
32444583 TTGATGTAAAAACAAA
62 TTGATGTAAAAACAAA
** * * *
32444599 ATAG-AATACAATATAATTTTTTTTTCATTTTTTTTTTTGGTAAATTGTGAATCAGTATATTATT
1 ATAGAAATACAATATAATTTTTTTTTCA--TTTTTTTAGGGTAAATTGTAAATAAGTAGATTATT
32444663 GATGTAAAAA
64 GATGTAAAAA
32444673 TTCAATACAA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
75 11 0.17
76 1 0.02
77 1 0.02
78 39 0.59
79 10 0.15
80 4 0.06
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (77 bp):
ATAGAAATACAATATAATTTTTTTTTCATTTTTTTAGGGTAAATTGTAAATAAGTAGATTATTGA
TGTAAAAACAAA
Found at i:32444708 original size:78 final size:76
Alignment explanation
Indices: 32444559--32444710 Score: 182
Period size: 78 Copynumber: 2.0 Consensus size: 76
32444549 CATTTTTTAG
* * *
32444559 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAATAGAATACAATATAATTTTTTTTT
1 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAACAGAATACAATACAA--TTTTGTT
32444624 CATTTTTTTTTTT
64 CATTTTTTTTTTT
* * * *
32444637 GGTAAATTGTGAATCAGTATATTATTGATGTAAAAATTCAATACA-ATATACAATACAA-TTTGT
1 GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAA--CAAAACAGA-ATACAATACAATTTTGT
32444700 TCATTTTTTTT
63 TCATTTTTTTT
32444711 ATAAACATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
77 15 0.23
78 33 0.52
79 1 0.02
80 15 0.23
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (76 bp):
GGTAAATTGTAAATAAGTAGATTATTGATGTAAAAACAAAACAGAATACAATACAATTTTGTTCA
TTTTTTTTTTT
Found at i:32444977 original size:6 final size:6
Alignment explanation
Indices: 32444947--32445038 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
32444937 TTATCGTTTT
* * * * * * *
32444947 CATCTT CATCTT CATCTT CACCTC CGTCTC CATCTC CACCTC CACCTC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
* * * * * * *
32444995 CACCTC CACCTC CACCTC CACCTC CATCTT GATCTT CATCTC CA
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CA
32445039 ACATTGTCTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.16, C:0.51, G:0.02, T:0.30
Consensus pattern (6 bp):
CATCTC
Found at i:32444989 original size:12 final size:12
Alignment explanation
Indices: 32444974--32445020 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
32444964 TCACCTCCGT
*
32444974 CTCCATCTCCAC
1 CTCCACCTCCAC
32444986 CTCCACCTCCAC
1 CTCCACCTCCAC
32444998 CTCCACCTCCAC
1 CTCCACCTCCAC
32445010 CTCCACCTCCA
1 CTCCACCTCCA
32445021 TCTTGATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.17, C:0.64, G:0.00, T:0.19
Consensus pattern (12 bp):
CTCCACCTCCAC
Found at i:32444995 original size:18 final size:18
Alignment explanation
Indices: 32444974--32445020 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
32444964 TCACCTCCGT
*
32444974 CTCCATCTCCACCTCCAC
1 CTCCACCTCCACCTCCAC
32444992 CTCCACCTCCACCTCCAC
1 CTCCACCTCCACCTCCAC
32445010 CTCCACCTCCA
1 CTCCACCTCCA
32445021 TCTTGATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.64, G:0.00, T:0.19
Consensus pattern (18 bp):
CTCCACCTCCACCTCCAC
Found at i:32445037 original size:18 final size:17
Alignment explanation
Indices: 32445016--32445063 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
32445006 CCACCTCCAC
32445016 CTCCATCTTGATCTTCAT
1 CTCCATCTTG-TCTTCAT
*
32445034 CTCCAACATTGTCTTCAT
1 CTCCATC-TTGTCTTCAT
* *
32445052 TTTCATCTTGTC
1 CTCCATCTTGTC
32445064 GTTCCATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 17 0.68
19 3 0.12
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (17 bp):
CTCCATCTTGTCTTCAT
Found at i:32446862 original size:23 final size:23
Alignment explanation
Indices: 32446836--32446934 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
32446826 ATAAGTGCCA
32446836 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32446859 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32446882 CCCTGA-ATGTAGCCGAAAGCTAC
1 CACTGATATGTAGCCG-AAGCTAC
*
32446905 CACTGAAATGTAGCCCGAAGCTAC
1 CACTGATATGTAG-CCGAAGCTAC
32446929 CACTGA
1 CACTGA
32446935 ATCAATAACA
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.13
23 40 0.56
24 19 0.27
25 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32450198 original size:21 final size:21
Alignment explanation
Indices: 32450165--32450204 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32450155 AGGTTTATAT
*
32450165 AAAAAAAATTTACCATTGGAG
1 AAAAAAAAGTTACCATTGGAG
* *
32450186 AAAAACAAGTTACTATTGG
1 AAAAAAAAGTTACCATTGG
32450205 TTCCAACAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAAAAAAGTTACCATTGGAG
Found at i:32456324 original size:83 final size:83
Alignment explanation
Indices: 32456176--32456334 Score: 187
Period size: 83 Copynumber: 1.9 Consensus size: 83
32456166 TGTGCGATTC
* * ** * *
32456176 GAGATAGCTTTGGCTATTTATGGCACTTAGTGTGCGATTGGGAATAGCTTCGACTATATATATGG
1 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGATTGAGAATAGCTTCGACTATACATATGG
32456241 CACTTAGTGTGTGAGACT
66 CACTTAGTGTGTGAGACT
* * * *
32456259 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGGGATT-ATAATAGCTTTGGCTATGCA-AT
1 GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGC--GATTGAGAATAGCTTCGACTATACATAT
*
32456322 GGCATTTAGTGTG
64 GGCACTTAGTGTG
32456335 CGAAACATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 45 0.71
84 14 0.22
85 4 0.06
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (83 bp):
GAGATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGATTGAGAATAGCTTCGACTATACATATGG
CACTTAGTGTGTGAGACT
Found at i:32461240 original size:15 final size:14
Alignment explanation
Indices: 32461212--32461262 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
32461202 ACTAAATTTT
32461212 AAAG-AAAAATAAA
1 AAAGTAAAAATAAA
*
32461225 AAAGCTAAAGAT-AA
1 AAAG-TAAAAATAAA
32461239 AAAGTAAAAATAAA
1 AAAGTAAAAATAAA
32461253 GAAAGTAAAA
1 -AAAGTAAAA
32461263 GCAACAAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.31
14 8 0.25
15 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAGTAAAAATAAA
Found at i:32472382 original size:29 final size:29
Alignment explanation
Indices: 32472345--32472471 Score: 191
Period size: 29 Copynumber: 4.4 Consensus size: 29
32472335 TTTTCGTATC
32472345 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
*
32472374 GAAGCCTTTGTGGCTATCTTCGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
* * * *
32472403 AAAGCCTTTGTGTCGATCTATGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
* *
32472432 GAAGCCTTTATGGCTATCTCTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
32472461 GAAGCCTTTGT
1 GAAGCCTTTGT
32472472 TGTAATGGCC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (29 bp):
GAAGCCTTTGTGGCTATCTTTGTTAAAAG
Found at i:32478785 original size:7 final size:7
Alignment explanation
Indices: 32478773--32478804 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
32478763 TCTCCTCCAA
32478773 TCCCATT
1 TCCCATT
32478780 TCCCATT
1 TCCCATT
32478787 TCCCATT
1 TCCCATT
32478794 TCCCATT
1 TCCCATT
32478801 TCCC
1 TCCC
32478805 TTCGACAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.47, G:0.00, T:0.41
Consensus pattern (7 bp):
TCCCATT
Found at i:32479749 original size:28 final size:27
Alignment explanation
Indices: 32479699--32479771 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
32479689 ATCTCTGTTA
*
32479699 AAAGGAAGCCTTTGTGGAAATCTCTATC
1 AAAGGACGCCTTTGTGGAAATCTCTA-C
** * *
32479727 AAAGGACGCCTTTGTGGTTATCTTTAG
1 AAAGGACGCCTTTGTGGAAATCTCTAC
*
32479754 AAAGGAACGCCTTCGTGG
1 AAAGG-ACGCCTTTGTGG
32479772 CGTAATCTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (27 bp):
AAAGGACGCCTTTGTGGAAATCTCTAC
Found at i:32493276 original size:37 final size:37
Alignment explanation
Indices: 32493191--32493277 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
32493181 ACACAAGTAG
*
32493191 TCCAACCGA-AACAGGCCAAACGCTCATAAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
** ** * *
32493227 TCCAACTAATAACACGCCAAGTGCTCTTGAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
32493264 TCCAACCGATAACA
1 TCCAACCGATAACA
32493278 TGCCTCGGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 7 0.17
37 34 0.83
ACGTcount: A:0.39, C:0.30, G:0.15, T:0.16
Consensus pattern (37 bp):
TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
Found at i:32493934 original size:37 final size:37
Alignment explanation
Indices: 32493888--32493969 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
32493878 GTCCAATCGA
* * *
32493888 AACACGCCAAATGCTCATAAGAGCTAATCCAACTAAT
1 AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
* * *
32493925 AACATGCCAAGTGCGCATGAGAGCTAATCCAACCGAT
1 AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
32493962 AACATGCC
1 AACATGCC
32493970 TCGGTACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (37 bp):
AACATGCCAAATGCGCATAAGAGCTAATCCAACCAAT
Found at i:32494074 original size:688 final size:688
Alignment explanation
Indices: 32492758--32494135 Score: 2515
Period size: 688 Copynumber: 2.0 Consensus size: 688
32492748 GACGTAACAA
*
32492758 CCTATTACATGCCATCTAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
*
32492823 ACTTGATTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
32492888 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
32492953 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
196 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
32493018 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
261 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
*
32493083 TAATTCAAAATATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
326 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
*
32493148 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACAGGCCAAACG
391 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
* *
32493213 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCTCTTGAGAGCTAATCCAACCGATAACA
456 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAACA
* *
32493278 TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACATGCTAGAACAAAA
521 TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAAA
*
32493343 TAGTATAACATGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
586 TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
32493408 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
651 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
* * * *
32493446 CCTATTACATGCCATATAGTCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAGTGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
* *
32493511 ATTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
32493576 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATCA-AAGTAAATA
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTAT-AGAAGTAAATA
* *
32493640 TAACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAACAATTGCAAACCGGTG
195 TAACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTG
*
32493705 AATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCTACTACGAAG
260 AATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAG
32493770 TTAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAA
325 TTAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAA
* * *
32493835 TTTACGACTTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAATCGAAACACGCCAAAT
390 TTTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAAC
*
32493900 GCTCATAAGAGCTAATCCAACTAATAACATGCCAAGTGCGCATGAGAGCTAATCCAACCGATAAC
455 GCTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAAC
32493965 ATGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAA
520 ATGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAA
*
32494030 ATAGTATAACACGAGAGTTAGCACCAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAG
585 ATAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAG
* *
32494095 CACGCCACATTAATCTCCACTCCAACCCCGCATAACACG
650 CACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
32494134 CC
1 CC
32494136 ATCATTCAAT
Statistics
Matches: 664, Mismatches: 25, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
688 663 1.00
689 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (688 bp):
CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCAAAATCAAATGGATAATGTG
ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGAAAGTAACACA
AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATAAAAAATTGCAAACCGGTGA
ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCGCATGAGAGCTAATCCAACCGATAACA
TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAAAAAAA
TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
Found at i:32496556 original size:21 final size:21
Alignment explanation
Indices: 32496526--32496573 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
32496516 TCCGTATTTC
*
32496526 TTTTTACAAATGAAAACTTTA
1 TTTTTCCAAATGAAAACTTTA
32496547 TTTTTCCAAATGAAAACTTTA
1 TTTTTCCAAATGAAAACTTTA
32496568 TTTTTC
1 TTTTTC
32496574 TTTGGCTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTTCCAAATGAAAACTTTA
Found at i:32500357 original size:24 final size:25
Alignment explanation
Indices: 32500270--32500357 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 25
32500260 AAGAGCGTCT
** *
32500270 CGTTAT-TAGCTCTTATGAGCATCC
1 CGTTATATAGCTCTTGCGAGCTTCC
* * * ** *
32500294 CGATATTTGGCTCTCACGAGCTTTC
1 CGTTATATAGCTCTTGCGAGCTTCC
* *
32500319 CGTTATATGGTTCTTGCGAGCTTCC
1 CGTTATATAGCTCTTGCGAGCTTCC
32500344 CGTTA-ATAGCTCTT
1 CGTTATATAGCTCTT
32500358 CAAGCATCCC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 12 0.24
25 37 0.76
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (25 bp):
CGTTATATAGCTCTTGCGAGCTTCC
Found at i:32500450 original size:25 final size:26
Alignment explanation
Indices: 32500422--32500505 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
32500412 TATGAGCGTC
32500422 CCGATAT-ATGGCTCTTCAGAGCTTT
1 CCGATATAATGGCTCTTCAGAGCTTT
*
32500447 CCGAT-TAAAGGCTCTTTCATGAGC-TT
1 CCGATATAATGGCTC-TTCA-GAGCTTT
* ** *
32500473 CCTA-ATTAATGGCTCTTTGGAGCTTC
1 CCGATA-TAATGGCTCTTCAGAGCTTT
32500499 CCGATAT
1 CCGATAT
32500506 TGGCTCGCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
24 1 0.02
25 15 0.33
26 16 0.36
27 13 0.29
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
CCGATATAATGGCTCTTCAGAGCTTT
Found at i:32500474 original size:26 final size:27
Alignment explanation
Indices: 32500431--32500490 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
32500421 CCCGATATAT
*
32500431 GGCTC-TTCAGAGCTTTCC-GATTAAA
1 GGCTCTTTCAGAGCTTTCCTAATTAAA
*
32500456 GGCTCTTTCATGAGC-TTCCTAATTAAT
1 GGCTCTTTCA-GAGCTTTCCTAATTAAA
32500483 GGCTCTTT
1 GGCTCTTT
32500491 GGAGCTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.27
27 17 0.57
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GGCTCTTTCAGAGCTTTCCTAATTAAA
Found at i:32500546 original size:24 final size:24
Alignment explanation
Indices: 32500404--32500546 Score: 62
Period size: 25 Copynumber: 5.8 Consensus size: 24
32500394 TGGACACACC
*
32500404 ACAGCTCTTATGAGCGTCCCGATAT
1 ACAGCTCTTATGAGCTTCCCGAT-T
** *
32500429 ATGGCTCTTCA-GAGCTTTCCGATT
1 ACAGCTCTT-ATGAGCTTCCCGATT
* **
32500453 AAAGGCTCTTTCATGAGCTTCCTAATT
1 ACA-GCTC-TT-ATGAGCTTCCCGATT
32500480 A-ATGGCTCTT-TGGAGCTTCCCGA-T
1 ACA--GCTCTTAT-GAGCTTCCCGATT
** * *
32500504 ATTGGCTCGCT-TGAACTTCCCGATT
1 A-CAGCTC-TTATGAGCTTCCCGATT
32500529 ACAGCTCTTATGAGCTTC
1 ACAGCTCTTATGAGCTTC
32500547 TTGTTATACA
Statistics
Matches: 89, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
23 1 0.01
24 30 0.34
25 34 0.38
26 8 0.09
27 16 0.18
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (24 bp):
ACAGCTCTTATGAGCTTCCCGATT
Found at i:32501865 original size:34 final size:34
Alignment explanation
Indices: 32501817--32501896 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
32501807 TTCGAATGCC
* *
32501817 CACATGGCCTGAGACACGGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
32501851 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
32501885 CACACGGCCTGA
1 CACACGGCCTGA
32501897 CCAAGCGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (34 bp):
CACACGGCCTGAGACACAGGTGTGTCTCTTGGCT
Found at i:32504748 original size:2 final size:2
Alignment explanation
Indices: 32504741--32504774 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32504731 CTCGCCCACT
32504741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32504775 AATACTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32510052 original size:6 final size:6
Alignment explanation
Indices: 32510041--32510080 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
32510031 TCTATCCCCA
32510041 GCATGG GCATGG GCATGG GCATGG GCATGG GCATGG GCAT
1 GCATGG GCATGG GCATGG GCATGG GCATGG GCATGG GCAT
32510081 AGCAACCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
GCATGG
Found at i:32531431 original size:32 final size:32
Alignment explanation
Indices: 32531395--32531465 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
32531385 GTGTGTGAGC
32531395 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
1 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
32531427 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
1 CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
32531459 CCACACG
1 CCACACG
32531466 AGCATGTGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.11
Consensus pattern (32 bp):
CCACACGGGCAGAGCCAAATTGGGCGTGTGGG
Found at i:32533844 original size:78 final size:78
Alignment explanation
Indices: 32533715--32533859 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 78
32533705 AACCATCGCT
* * * * *
32533715 AAATAATGATTCGATGCTACTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATCTCAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
32533780 ATAGCGGATTGCA
66 ATAGCGGATTGCA
* * * * * *
32533793 AAATAATAATTCCATGTTGCTCACTCAAGCTATCAAGAATTCACAATTTATGCTGGATCTTAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
32533858 AT
66 AT
32533860 CGAATAAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (78 bp):
AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAACTTATGCTAGATCTCAGCC
ATAGCGGATTGCA
Found at i:32536606 original size:36 final size:36
Alignment explanation
Indices: 32536559--32536630 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
32536549 ATGAAAACTT
*
32536559 AAAATTAGTTCAATTAAGTATTAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
*
32536595 AAAATTAGTTCAATTTAGTATCAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
32536631 TCTGTTGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (36 bp):
AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
Found at i:32539225 original size:22 final size:22
Alignment explanation
Indices: 32539200--32539242 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32539190 TACCCAAACA
32539200 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
*
32539222 ATAATAACAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
32539243 AACAGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:32548619 original size:2 final size:2
Alignment explanation
Indices: 32548614--32548646 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32548604 TTTGTGTGTG
32548614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32548647 GCAAATGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32551585 original size:11 final size:11
Alignment explanation
Indices: 32551561--32551600 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
32551551 ATTTTTAAAA
32551561 TTAAAAAAATTT
1 TTAAAAAAA-TT
**
32551573 TTAAAAGTATT
1 TTAAAAAAATT
32551584 TTAAAAAAATT
1 TTAAAAAAATT
32551595 TTAAAA
1 TTAAAA
32551601 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:32551596 original size:41 final size:40
Alignment explanation
Indices: 32551553--32551659 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 40
32551543 AAAAATTTAT
**
32551553 TTTTAAAATTAAAAAAATTTTTAAAAGTATTTTAAAAAAA
1 TTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAAA
* * *
32551593 TTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAATA
1 TTTTAAAATTAAAAAA-ATTTAAAAAAGTATTTTAAAAAAA
**
32551634 TTTTAAAATTTTAAAAATTTAAAAAA
1 TTTTAAAATTAAAAAAATTTAAAAAA
32551660 TAAATATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 24 0.42
41 33 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (40 bp):
TTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAAAA
Found at i:32551652 original size:9 final size:9
Alignment explanation
Indices: 32551622--32551660 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
32551612 TAAAAAAAGT
32551622 ATTTTAAAA
1 ATTTTAAAA
*
32551631 ATATTTTAAA
1 AT-TTTAAAA
32551641 ATTTTAAAA
1 ATTTTAAAA
*
32551650 ATTTAAAAA
1 ATTTTAAAA
32551659 AT
1 AT
32551661 AAATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:32565131 original size:44 final size:44
Alignment explanation
Indices: 32565077--32565165 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
32565067 TCCTTTAACG
*
32565077 ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
1 ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
* *
32565121 ATTACCTCCTCAATTGTCATTCTTATACTCATGTTCATTTCCAT
1 ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
32565165 A
1 A
32565166 CCTTACCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (44 bp):
ATTACCTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
Found at i:32574915 original size:19 final size:21
Alignment explanation
Indices: 32574891--32574932 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
32574881 TGCAACCAAC
*
32574891 CACAGGA-GG-TATGTCGTGA
1 CACAGGAGGGCTATGTCGCGA
32574910 CACAGGAGGGCTATGTCGCGA
1 CACAGGAGGGCTATGTCGCGA
32574931 CA
1 CA
32574933 TCGAGAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 11 0.55
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (21 bp):
CACAGGAGGGCTATGTCGCGA
Found at i:32580183 original size:28 final size:28
Alignment explanation
Indices: 32580151--32580206 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
32580141 CAAATCCGTG
*
32580151 ACTTGTTAGGCGAGCTAGATAGTCTAGA
1 ACTTGTTAGGCGAGCTAGATAGGCTAGA
32580179 ACTTGTTAGGCGAGCTAGATAGGCTAGA
1 ACTTGTTAGGCGAGCTAGATAGGCTAGA
32580207 CCACCACTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ACTTGTTAGGCGAGCTAGATAGGCTAGA
Found at i:32588627 original size:103 final size:105
Alignment explanation
Indices: 32588507--32588717 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 105
32588497 TTCAATCCTT
*
32588507 AAAAAATAATGAAATTATCAATTAATATATAATAAAATTACACTTCTAACCCTTT-AA-AAAAAA
1 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAATAAAAAA
*
32588570 AATCTATTTAGTTCTTTTGAAAATGATGAAATCATAAATG
66 AATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAATG
32588610 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
1 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTT--AAA--TAA
32588675 AAAAAATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAAT
62 AAAAAATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAAT
32588718 TATCATATGA
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
103 54 0.54
106 2 0.02
109 44 0.44
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (105 bp):
AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAATAAAAAA
AATCTATTTAGTTCTTTTGAAAACGATGAAATCATAAATG
Found at i:32588641 original size:23 final size:23
Alignment explanation
Indices: 32588589--32588649 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
32588579 AGTTCTTTTG
* *
32588589 AAAATGATGAAATCATAAATGAA
1 AAAATAATGAAATTATAAATGAA
*
32588612 AAAATAATGAAATTATAAATTAA
1 AAAATAATGAAATTATAAATGAA
* * *
32588635 TATATAATAAAATTA
1 AAAATAATGAAATTA
32588650 CACTTCTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAATGAAATTATAAATGAA
Found at i:32589417 original size:22 final size:22
Alignment explanation
Indices: 32589355--32589426 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
32589345 ATTGTTCAAA
* **
32589355 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
32589377 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
32589399 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
32589421 CATGAG
1 CATGAG
32589427 GGTCGACCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:32592384 original size:19 final size:19
Alignment explanation
Indices: 32592362--32592403 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
32592352 ATTTTGAACA
32592362 ATTTAATT-TTTTTTCTTTT
1 ATTTAATTCTTTTTTC-TTT
**
32592381 ATTTTTTTCTTTTTTCTTT
1 ATTTAATTCTTTTTTCTTT
32592400 ATTT
1 ATTT
32592404 TCCATTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (19 bp):
ATTTAATTCTTTTTTCTTT
Found at i:32592387 original size:13 final size:13
Alignment explanation
Indices: 32592369--32592393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32592359 ACAATTTAAT
32592369 TTTTTTTCTTTTA
1 TTTTTTTCTTTTA
32592382 TTTTTTTCTTTT
1 TTTTTTTCTTTT
32592394 TTCTTTATTT
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:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTA
Found at i:32594881 original size:49 final size:49
Alignment explanation
Indices: 32594801--32594897 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
32594791 TTATGCTATG
* *
32594801 CATTTCTAAACTTGGTCTTCCACAATCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTATA
*** *
32594850 CATTGCTAAACTTAGTCTTCCATTGTTTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTAT
32594898 CCCTTCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACAATCTACACTCTTATCACTATTTATA
Found at i:32596201 original size:16 final size:17
Alignment explanation
Indices: 32596179--32596222 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
32596169 CATCTCATAA
32596179 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
32596196 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
32596211 TCA--TCTCATATT
1 TCATTTCTCATATT
32596223 CATTTCCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:32596244 original size:43 final size:43
Alignment explanation
Indices: 32596164--32596249 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
32596154 TCATATTTTA
* *
32596164 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
* * * *
32596207 TTTCTCATCTCATATTCATTTCCCGTCTTTGCTATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
32596250 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
Found at i:32597481 original size:3 final size:3
Alignment explanation
Indices: 32597473--32597508 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
32597463 TGTTTTCATT
32597473 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32597509 CTAACTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32602135 original size:43 final size:43
Alignment explanation
Indices: 32602055--32602140 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
32602045 TCATATTTCA
* * **
32602055 TTTCTCATCTCATAATCATTTCTCTTATTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
* * *
32602098 TTTCTCATATCATATTCATTTCTCATCTTAGCTATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
32602141 CAATCACATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
Found at i:32602852 original size:19 final size:18
Alignment explanation
Indices: 32602810--32602853 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
32602800 TTAATACTAC
* *
32602810 ATATTTCAATTTCACATT
1 ATATTTTAATTTCACACT
*
32602828 AAATTTTAATTTTCACACT
1 ATATTTTAA-TTTCACACT
32602847 ATATTTT
1 ATATTTT
32602854 GCTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAATTTCACACT
Found at i:32603289 original size:15 final size:16
Alignment explanation
Indices: 32603264--32603298 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
32603254 TGTGAGCTTC
32603264 TTCTCTTTTCTTTCTT
1 TTCTCTTTTCTTTCTT
*
32603280 TTCT-TTTTCTTTGTT
1 TTCTCTTTTCTTTCTT
32603295 TTCT
1 TTCT
32603299 AATTTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTCTTTTCTTTCTT
Found at i:32604311 original size:25 final size:27
Alignment explanation
Indices: 32604264--32604313 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
32604254 CTAATTAATA
32604264 ATATTATAAAAATATAAAGATAAAATT
1 ATATTATAAAAATATAAAGATAAAATT
* *
32604291 ATATTA-AAAATTA-AAATATAAAA
1 ATATTATAAAAATATAAAGATAAAA
32604314 AATTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATTATAAAAATATAAAGATAAAATT
Found at i:32604939 original size:2 final size:2
Alignment explanation
Indices: 32604932--32604959 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32604922 TAATCAAATC
32604932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32604960 TACAAGGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32611997 original size:3 final size:3
Alignment explanation
Indices: 32611989--32612014 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32611979 TAAACTAAAT
32611989 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
32612015 TTAATTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:32615013 original size:28 final size:28
Alignment explanation
Indices: 32614981--32615037 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
32614971 CACTTGTGAT
*
32614981 AGAACTTCCACTCAGTATACATCTTTTC
1 AGAACTTCCACTCAGGATACATCTTTTC
32615009 AGAACTTCCACTCAGGATACATCTTTTC
1 AGAACTTCCACTCAGGATACATCTTTTC
32615037 A
1 A
32615038 TACTTCTTAG
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:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
AGAACTTCCACTCAGGATACATCTTTTC
Found at i:32618665 original size:30 final size:29
Alignment explanation
Indices: 32618606--32618843 Score: 266
Period size: 29 Copynumber: 8.2 Consensus size: 29
32618596 GGCGCAATCT
**
32618606 AAGGAAGCAATTGTGGC-AATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618634 AATGGAAGCCTTTGTGGCTAATCTTTTTTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618664 AATTGAAGCCTTTGTGGCTAATCTCTATTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618694 AAGGAAGCCTTTGTGGGTAATGTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618723 AAGGAATCCTTTGTGACTAATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618752 AAGGAAGCCTTTGTGGGTAATCTCTGTTT
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* * * *
32618781 AAGTAAGCCTTTGTGGC-GATCTTTATTA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTTA
* *
32618809 AAGGTAGCCTTTGTGGCT-ATCTCTATTAA
1 AAGGAAGCCTTTGTGGCTAATCTCTGTT-A
32618838 AAGGAA
1 AAGGAA
32618844 ACCTACATGG
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
28 32 0.18
29 107 0.60
30 38 0.21
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCTAATCTCTGTTA
Found at i:32626219 original size:10 final size:10
Alignment explanation
Indices: 32626191--32626220 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
32626181 AAGGTTTAGT
32626191 GGTTTTGAGA
1 GGTTTTGAGA
32626201 GGTTGTTGAGA
1 GGTT-TTGAGA
32626212 GGTTTTGAG
1 GGTTTTGAG
32626221 GTTAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (10 bp):
GGTTTTGAGA
Found at i:32626869 original size:15 final size:16
Alignment explanation
Indices: 32626844--32626875 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
32626834 TATGTGATAT
32626844 AATATAAATGAAATAA
1 AATATAAATGAAATAA
32626860 AATA-AAATGAAATAA
1 AATATAAATGAAATAA
32626875 A
1 A
32626876 CACTATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AATATAAATGAAATAA
Found at i:32628028 original size:6 final size:6
Alignment explanation
Indices: 32628019--32628054 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
32628009 TACTGAAATT
32628019 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
32628055 AATAGTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:32632381 original size:29 final size:29
Alignment explanation
Indices: 32632333--32632795 Score: 323
Period size: 29 Copynumber: 16.0 Consensus size: 29
32632323 CGAAATCTAA
* ** *
32632333 GGAAGCCTTTATGGTTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*
32632362 GGAAGCCTTTGTTGCAATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* **
32632391 GAAAGCCTTTGTGGTGATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* ** * * *
32632420 GGAAGCCTTTTTGGTGATTTTTGTTAATT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
32632449 AGAAGCCTTTGTGGCTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*
32632478 GGAAGCCTTTGTGGCTATCTCTGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
32632507 TGAAGCCTTT-TCGGGTAATCTCTATTAAAT
1 GGAAGCCTTTGT--GGCAATCTCTGTTAAAT
* * *
32632537 -GAAGCCTTTGCGACTAATCTCTATTAAAT
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* * *
32632566 -AAAGCCTTTGTGGCTAATCCCTATTAAA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* *
32632594 GGAAGCCTTTTTCGCTAATCTCTGTTAAAT
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* ** *
32632624 GGAAGCCTTTGAGAATAATCTATGTTAAA-
1 GGAAGCCTTTGTG-GCAATCTCTGTTAAAT
* *
32632653 GGAAGCCTTTATAGCTAATCTCTGTTAAA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* * *
32632682 AGAAGCCTTTGTGGCTAATCTCTGTCATA-
1 GGAAGCCTTTGTGGC-AATCTCTGTTAAAT
* ** * *
32632711 GGAAGCCTTTGTTGTGATCTGTGTTAAAA
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
*** * *
32632740 GGATTTCTTTGTGGCTATCTCAGTTAAAT
1 GGAAGCCTTTGTGGCAATCTCTGTTAAAT
* * *
32632769 -GAATGTC-TTGTGACAAACTCTGTTAAA
1 GGAA-GCCTTTGTGGCAATCTCTGTTAAA
32632796 ATGACGCCTT
Statistics
Matches: 345, Mismatches: 79, Indels: 21
0.78 0.18 0.05
Matches are distributed among these distances:
28 29 0.08
29 280 0.81
30 36 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (29 bp):
GGAAGCCTTTGTGGCAATCTCTGTTAAAT
Found at i:32636478 original size:28 final size:28
Alignment explanation
Indices: 32636444--32636651 Score: 226
Period size: 28 Copynumber: 7.4 Consensus size: 28
32636434 GGCGTAATCT
*
32636444 AAGGAAGCCTTTTTGGCTATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
* *
32636472 ATGGAAGCCTTTGTGGCAATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCTATCTCTGTT-A
*
32636501 AAGGAAGCCTTTGTGGCTATCTCTATTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
* * * *
32636529 ATGGAAGCCTTT-T-GCGATCTTTCTTAA
1 AAGGAAGCCTTTGTGGCTATCTCTGTT-A
* *
32636556 AAGGAAGCCTTTATGGCTATC-CTTATTA
1 AAGGAAGCCTTTGTGGCTATCTC-TGTTA
* *
32636584 ATGGAAGCCTTTGTGG-TGATCTTTGTTA
1 AAGGAAGCCTTTGTGGCT-ATCTCTGTTA
* *
32636612 AAGGAAGCCTTTATGGCAATCTCTGTTA
1 AAGGAAGCCTTTGTGGCTATCTCTGTTA
32636640 AAGGAAGCCTTT
1 AAGGAAGCCTTT
32636652 ATTTCAATAC
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
26 9 0.06
27 14 0.09
28 94 0.63
29 33 0.22
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (28 bp):
AAGGAAGCCTTTGTGGCTATCTCTGTTA
Found at i:32636511 original size:57 final size:57
Alignment explanation
Indices: 32636444--32636651 Score: 289
Period size: 57 Copynumber: 3.7 Consensus size: 57
32636434 GGCGTAATCT
* * * *
32636444 AAGGAAGCCTTTTTGGCTATCTCTGTTAATGGAAGCCTTTGTGGCAATCTCTGTTAA
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
* *
32636501 AAGGAAGCCTTTGTGGCTATCTCTATTAATGGAAGCCTTT-T-GCGATCTTTCTTAA
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
*
32636556 AAGGAAGCCTTTATGGCTATC-CTTATTAATGGAAGCCTTTGTGGTGATCTTTGTT-A
1 AAGGAAGCCTTTATGGCTATCTC-TATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
* * *
32636612 AAGGAAGCCTTTATGGCAATCTCTGTTAAAGGAAGCCTTT
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTT
32636652 ATTTCAATAC
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
54 1 0.01
55 48 0.35
56 38 0.28
57 49 0.36
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (57 bp):
AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCGATCTTTGTTAA
Found at i:32636683 original size:112 final size:111
Alignment explanation
Indices: 32636444--32636651 Score: 294
Period size: 112 Copynumber: 1.9 Consensus size: 111
32636434 GGCGTAATCT
* *
32636444 AAGGAAGCCTTTTTGGCTATCTCTGTTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
1 AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
* * * *
32636509 CTTTGTGGCTATCTCTATTAATGGAAGCCTTTTGCGATCTTTCTTAA
66 CTTTATGGCAATCTCTATTAAAGGAAGCCTTTTGCAATC-TTCTTAA
** *
32636556 AAGGAAGCCTTTATGGCTATC-CTTATTAATGGAAGCCTTTGTGGTGATCTTTGTT-AAAGGAAG
1 AAGGAAGCCTTTATGGCTATCTC-TATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAG
*
32636619 CCTTTATGGCAATCTCTGTTAAAGGAAGCCTTT
65 CCTTTATGGCAATCTCTATTAAAGGAAGCCTTT
32636652 ATTTCAATAC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 38 0.44
112 48 0.56
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (111 bp):
AAGGAAGCCTTTATGGCTATCTCTATTAATGGAAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGC
CTTTATGGCAATCTCTATTAAAGGAAGCCTTTTGCAATCTTCTTAA
Found at i:32636728 original size:61 final size:61
Alignment explanation
Indices: 32636656--32636851 Score: 277
Period size: 61 Copynumber: 3.2 Consensus size: 61
32636646 GCCTTTATTT
* * ** *
32636656 CAATACTCTAAAGGGAAAGCCTTTATGGAAAATACTAAATGTTAAAGGAATGTCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
* * * *
32636717 CAATACTCTAAAGGCAATGTCTGTGTGGCGAGTACTGAAA-GTTAAAGGAATGCCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACT-AAATGTTAAAGGAATGTCTTTGTGG
* *
32636778 CAATACTTTAAAGGGAAAGTGTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
1 CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
32636839 CAATACTCTAAAG
1 CAATACTCTAAAG
32636852 TTAAGGCAAG
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 3 0.03
61 111 0.95
62 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (61 bp):
CAATACTCTAAAGGGAAAGTCTTTGTGGCGAGTACTAAATGTTAAAGGAATGTCTTTGTGG
Found at i:32636778 original size:33 final size:32
Alignment explanation
Indices: 32636688--32636839 Score: 126
Period size: 28 Copynumber: 4.9 Consensus size: 32
32636678 TTATGGAAAA
*
32636688 TACTAAATGTTAAAGGAATGTCTTTGTGGC-AA
1 TACTAAA-GTTAAAGGAATGTCTTTGTGGCGAG
* *
32636720 TACT----CTAAAGGCAATGTCTGTGTGGCGAG
1 TACTAAAGTTAAAGG-AATGTCTTTGTGGCGAG
* *
32636749 TACTGAAAGTTAAAGGAATGCCTTTGTGGC-AA
1 TACT-AAAGTTAAAGGAATGTCTTTGTGGCGAG
* *
32636781 TACT----TTAAAGGGAAAGTGTTTGTGGCGAG
1 TACTAAAGTTAAA-GGAATGTCTTTGTGGCGAG
32636810 TACTAAATGTTAAAGGAATGTCTTTGTGGC
1 TACTAAA-GTTAAAGGAATGTCTTTGTGGC
32636840 AATACTCTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
27 11 0.12
28 26 0.28
29 10 0.11
32 9 0.10
33 26 0.28
34 11 0.12
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (32 bp):
TACTAAAGTTAAAGGAATGTCTTTGTGGCGAG
Found at i:32636855 original size:33 final size:33
Alignment explanation
Indices: 32636690--32636855 Score: 124
Period size: 33 Copynumber: 5.3 Consensus size: 33
32636680 ATGGAAAATA
32636690 CTAAATGTTAAAGGAATGTCTTTGTGGCAATACT
1 CTAAA-GTTAAAGGAATGTCTTTGTGGCAATACT
* * *
32636724 CTAAAG-----GCAATGTCTGTGTGGCGAGTACT
1 CTAAAGTTAAAGGAATGTCTTTGTGGC-AATACT
* *
32636753 -GAAAGTTAAAGGAATGCCTTTGTGGCAATACT
1 CTAAAGTTAAAGGAATGTCTTTGTGGCAATACT
* * * *
32636785 TTAAAG-----GGAAAGTGTTTGTGGCGAGTA--
1 CTAAAGTTAAAGGAATGTCTTTGTGGC-AATACT
32636812 CTAAATGTTAAAGGAATGTCTTTGTGGCAATACT
1 CTAAA-GTTAAAGGAATGTCTTTGTGGCAATACT
32636846 CTAAAGTTAA
1 CTAAAGTTAA
32636856 GGCAAGTATA
Statistics
Matches: 99, Mismatches: 17, Indels: 33
0.66 0.11 0.22
Matches are distributed among these distances:
27 4 0.04
28 32 0.32
29 8 0.08
32 8 0.08
33 37 0.37
34 10 0.10
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (33 bp):
CTAAAGTTAAAGGAATGTCTTTGTGGCAATACT
Found at i:32644547 original size:6 final size:6
Alignment explanation
Indices: 32644533--32644582 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
32644523 CTGAAAAGAG
* *
32644533 AATAAA AATAGA AATAGA AATAAA AATAAA AAT--A AATAAA AATTAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA-TAAA
32644580 AAT
1 AAT
32644583 CATATATAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 4 0.10
6 29 0.74
7 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:32644554 original size:18 final size:16
Alignment explanation
Indices: 32644526--32644581 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 16
32644516 AAACGACCTG
32644526 AAAAGAGAATAAAAATA
1 AAAAGA-AATAAAAATA
32644543 GAAATAGAAATAAAAATA
1 -AAA-AGAAATAAAAATA
*
32644561 AAAATAAATAAAAATTA
1 AAAAGAAATAAAAA-TA
32644578 AAAA
1 AAAA
32644582 TCATATATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 10 0.29
17 9 0.26
18 13 0.37
19 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
AAAAGAAATAAAAATA
Found at i:32650686 original size:19 final size:21
Alignment explanation
Indices: 32650651--32650694 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
32650641 AATATTTTAG
32650651 TAAATATAAACAAATTAAAAT
1 TAAATATAAACAAATTAAAAT
32650672 TAAAT-TAAA-AAATTAAAAT
1 TAAATATAAACAAATTAAAAT
32650691 TAAA
1 TAAA
32650695 AATTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.61
20 4 0.17
21 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATATAAACAAATTAAAAT
Found at i:32650692 original size:14 final size:13
Alignment explanation
Indices: 32650662--32650701 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32650652 AAATATAAAC
32650662 AAATT-AAAATT-
1 AAATTAAAAATTA
32650673 AAATTAAAAAATTA
1 AAATT-AAAAATTA
32650687 AAATTAAAAATTA
1 AAATTAAAAATTA
32650700 AA
1 AA
32650702 CTTTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
13 16 0.62
14 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:32657345 original size:10 final size:10
Alignment explanation
Indices: 32657330--32657358 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
32657320 GCATTCGATC
32657330 GAATCAAATT
1 GAATCAAATT
32657340 GAATCAAATT
1 GAATCAAATT
32657350 GAATCAAAT
1 GAATCAAAT
32657359 GAACAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (10 bp):
GAATCAAATT
Found at i:32657835 original size:18 final size:18
Alignment explanation
Indices: 32657804--32657847 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
32657794 AATTATAAAG
* *
32657804 ATTCACTATGATTAAACA
1 ATTCAATATCATTAAACA
32657822 ATTCAATATCATTAAACA
1 ATTCAATATCATTAAACA
32657840 ATTCAATA
1 ATTCAATA
32657848 ATATAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTCAATATCATTAAACA
Found at i:32658463 original size:15 final size:15
Alignment explanation
Indices: 32658425--32658463 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
32658415 AGAAAGAAAA
* *
32658425 AATGAATAAATGAGT
1 AATGAATGAATGAAT
32658440 AATGAATGAATGAAT
1 AATGAATGAATGAAT
*
32658455 AATGGATGA
1 AATGAATGA
32658464 TTTTTAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (15 bp):
AATGAATGAATGAAT
Found at i:32663188 original size:68 final size:64
Alignment explanation
Indices: 32663111--32663310 Score: 196
Period size: 68 Copynumber: 3.1 Consensus size: 64
32663101 ATTATTTTAA
*
32663111 TAGATTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTCTATTAATTTAATATTAAAG
1 TAGATTTAATATTAAATTTAATTTAATATTTATCTT-ATAGTATTCTATTAATTTAATATTAAAG
* * ** *
32663176 TAACTATCTTAATATTAAATTAAATTTAATATTTATCTTATAGATAAAC-ATT-TTATTAAT-TT
1 T-A-GAT-TTAATATTAAATTTAATTTAATATTTATCTTATAG-TATTCTATTAAT-TTAATATT
32663238 -AA-
61 AAAG
* * * *
32663240 TAGATTTAATATTAAACTTAATATAGTATTTATCTTGATAAGTATTATATTAATTTAATATTAAA
1 TAGATTTAATATTAAATTTAATTTAATATTTATCTT-AT-AGTATTCTATTAATTTAATATTAAA
32663305 G
64 G
32663306 T-GATT
1 TAGATT
32663311 AAGTTTAGAG
Statistics
Matches: 108, Mismatches: 15, Indels: 24
0.73 0.10 0.16
Matches are distributed among these distances:
61 27 0.25
62 6 0.06
63 11 0.10
64 4 0.04
65 9 0.08
66 5 0.05
67 14 0.13
68 32 0.30
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (64 bp):
TAGATTTAATATTAAATTTAATTTAATATTTATCTTATAGTATTCTATTAATTTAATATTAAAG
Found at i:32663252 original size:61 final size:58
Alignment explanation
Indices: 32663184--32663299 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 58
32663174 AGTAACTATC
* *
32663184 TTAATATTAAA-TTAAATTTAATATTTATCTTATAGATAAACATTTTATTAATTTAATAGAT
1 TTAATATTAAACTT-AATATAATATTTATC-T-T-GATAAACATTATATTAATTTAATAGAT
* **
32663245 TTAATATTAAACTTAATATAGTATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAACTTAATATAATATTTATCTTGATAAACATTATATTAATTTAATA
32663300 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
58 21 0.43
59 1 0.02
60 1 0.02
61 24 0.49
62 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (58 bp):
TTAATATTAAACTTAATATAATATTTATCTTGATAAACATTATATTAATTTAATAGAT
Found at i:32664379 original size:12 final size:12
Alignment explanation
Indices: 32664362--32664387 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32664352 CAAAAATTTA
32664362 AAAATACTAAAT
1 AAAATACTAAAT
32664374 AAAATACTAAAT
1 AAAATACTAAAT
32664386 AA
1 AA
32664388 GAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:32676048 original size:55 final size:56
Alignment explanation
Indices: 32675939--32676051 Score: 192
Period size: 55 Copynumber: 2.0 Consensus size: 56
32675929 TTAACCCTTC
*
32675939 TTACTTTTACAAACAAATAGAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
* *
32675995 TTACTTTTACAAGCCAATAAAACATTT-AAAAAAAATGGTACATGATAGTAAACCT
1 TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
32676050 TT
1 TT
32676052 TTTTTTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 30 0.56
56 24 0.44
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (56 bp):
TTACTTTTACAAACAAATAAAACATTTAAAAAAAAATGGTACATGATAGTAAACCT
Found at i:32676429 original size:33 final size:34
Alignment explanation
Indices: 32676351--32676430 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 34
32676341 TGTTTCTTTG
*
32676351 CTTTTCTTTTTTGCCGATTTGCTCCCAGTCCATTA
1 CTTTTCTTTTCTGCCGATTTGCTCCCA-TCCATTA
*** *
32676386 CGCCTCTTTTCTGCCGATTTGCTCCC-TCCATTT
1 CTTTTCTTTTCTGCCGATTTGCTCCCATCCATTA
*
32676419 CTTTTATTTTCT
1 CTTTTCTTTTCT
32676431 TTTTCTCTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 14 0.39
35 22 0.61
ACGTcount: A:0.09, C:0.31, G:0.10, T:0.50
Consensus pattern (34 bp):
CTTTTCTTTTCTGCCGATTTGCTCCCATCCATTA
Found at i:32677656 original size:22 final size:22
Alignment explanation
Indices: 32677615--32677690 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
32677605 GAAGATGAAA
32677615 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
32677636 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
32677658 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
32677680 GCTGGAAATTG
1 -CTGGAAATTG
32677691 AATTTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 12 0.27
23 22 0.49
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:32682948 original size:92 final size:91
Alignment explanation
Indices: 32682791--32682999 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
32682781 TTGATTTTAG
* * *
32682791 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
32682856 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
32682883 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
32682947 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
32682975 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
32683000 GTTACAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:32682962 original size:24 final size:25
Alignment explanation
Indices: 32682927--32682974 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
32682917 TTATGAAATT
32682927 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
32682951 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
32682975 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:32683128 original size:66 final size:64
Alignment explanation
Indices: 32683053--32683260 Score: 181
Period size: 66 Copynumber: 3.3 Consensus size: 64
32683043 AAATATATTT
32683053 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTTCATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
32683118 G
64 G
* * * * **
32683119 AATATTAATTA-TTAAGAATTTCA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-ATTTTCATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
32683173 AATAATAATTATGTT-AATTTAT-ATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
1 AATATTAATTAT-TTAAATTT-TCA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATAT
32683236 AAG
62 AAG
*
32683239 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTTA-AATTTT
32683261 ATTAAATTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
54 14 0.13
55 6 0.06
56 6 0.06
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 6 0.06
65 13 0.12
66 23 0.21
67 5 0.05
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTCATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:32683153 original size:120 final size:120
Alignment explanation
Indices: 32683015--32683307 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
32683005 AATTATTTTA
* * *
32683015 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
32683077 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
32683135 AATTTCATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
32683200 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
32683255 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
32683308 TAAATATGAT
Statistics
Matches: 164, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 156 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:32683175 original size:15 final size:15
Alignment explanation
Indices: 32683145--32683191 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
32683135 AATTTCATTA
32683145 AATTAT-ATAT-TTT
1 AATTATAATATATTT
32683158 AATTATAATATATTT
1 AATTATAATATATTT
*
32683173 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
32683188 AATT
1 AATT
32683192 TATATTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 7 0.24
15 16 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:32683290 original size:16 final size:16
Alignment explanation
Indices: 32683269--32683310 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32683259 TTATTAAATT
*
32683269 ATATATTTTAATTATA
1 ATATATTTTAATAATA
32683285 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
32683300 AT-TATGTTTAA
1 ATATAT-TTTAA
32683311 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:32683295 original size:15 final size:15
Alignment explanation
Indices: 32683260--32683301 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32683250 TTAAGAATTT
*
32683260 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32683274 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32683288 TATTTAATAATAAT
1 TATTTAATTATAAT
32683302 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:32683422 original size:157 final size:157
Alignment explanation
Indices: 32683244--32683560 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
32683234 ATAAGAATAT
*
32683244 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
32683309 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
32683374 TAATAATTTACCTAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
32683401 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
32683466 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
32683531 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
32683558 TAA
1 TAA
32683561 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:32683441 original size:18 final size:17
Alignment explanation
Indices: 32683413--32683447 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32683403 ATTATTAAGA
*
32683413 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32683430 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32683448 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:32683481 original size:75 final size:75
Alignment explanation
Indices: 32683245--32683483 Score: 200
Period size: 75 Copynumber: 3.1 Consensus size: 75
32683235 TAAGAATATT
*
32683245 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
32683310 AATATGATTA
66 AATATGATTA
* ** * * * * *
32683320 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
** * * * *
32683382 -TACCTAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
32683402 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
32683467 AATATGATTA
66 AATATGATTA
32683477 AATTATT
1 AATTATT
32683484 TATTATTGAT
Statistics
Matches: 118, Mismatches: 29, Indels: 34
0.65 0.16 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 17 0.14
79 17 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:32683694 original size:45 final size:44
Alignment explanation
Indices: 32683594--32683703 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
32683584 TTTTCCATTA
32683594 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
32683633 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
32683678 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
32683704 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:32683703 original size:16 final size:16
Alignment explanation
Indices: 32683682--32683735 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
32683672 TTGATTTGCT
32683682 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
32683698 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
32683714 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
32683730 AATACA
1 ATTACA
32683736 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:32685957 original size:43 final size:44
Alignment explanation
Indices: 32685875--32686021 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 44
32685865 TTTGCATCGC
* * * **
32685875 AGTGCATCAT-TGGATATACCAAAAGAAAGATAC-AGGCACACAT
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTA-GCACACAT
*
32685918 AGTGCATCATCTGGA-AAATCAAAGCAATTATACTAGCACACGA-
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACAC-AT
* * * *
32685961 GGTGCATCAT-TGGATGAATCAAAACAATTATATTGGCACACAT
1 AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACACAT
* *
32686004 AATGCAACATC-GGATAAA
1 AGTGCATCATCTGGATAAA
32686022 CTGAGGCAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.06
43 72 0.87
44 6 0.07
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (44 bp):
AGTGCATCATCTGGATAAATCAAAACAATTATACTAGCACACAT
Found at i:32689103 original size:13 final size:13
Alignment explanation
Indices: 32689085--32689111 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32689075 ACTGGAAAAT
32689085 AGATTAATTAGTA
1 AGATTAATTAGTA
32689098 AGATTAATTAGTA
1 AGATTAATTAGTA
32689111 A
1 A
32689112 ATCCTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AGATTAATTAGTA
Found at i:32690887 original size:49 final size:49
Alignment explanation
Indices: 32690821--32690918 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
32690811 TGCATATAGA
* * * *
32690821 ACTATACTTCTTTTATTTGACATTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
32690870 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
1 ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
32690919 TAAAAAGATG
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:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (49 bp):
ACTACACTTCTTCTATTTGAAATTGATTAGAATAAGGTTTTTAAACCTT
Found at i:32697580 original size:51 final size:51
Alignment explanation
Indices: 32697473--32697692 Score: 262
Period size: 51 Copynumber: 4.2 Consensus size: 51
32697463 ACTTCTGATC
* * * *
32697473 AGTGACAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCGGTGAAA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
* * *
32697523 AATGACAAGTAATAAGTGGTAGCTTTAGCTATACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
*
32697574 AGTGACAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT-A--A-T--C-AGTGACA
* * * *
32697632 AGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
32697683 AGTGACAAGT
1 AGTGACAAGT
32697693 AGGGGTGAGT
Statistics
Matches: 145, Mismatches: 17, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
50 20 0.14
51 75 0.52
52 1 0.01
54 2 0.01
55 2 0.01
57 1 0.01
58 44 0.30
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
Found at i:32697639 original size:58 final size:58
Alignment explanation
Indices: 32697567--32697691 Score: 214
Period size: 58 Copynumber: 2.2 Consensus size: 58
32697557 TTATCTAATC
* *
32697567 AGTGACAAGTGACAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
32697625 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATTAGTGACA
1 AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
32697683 AGTGACAAG
1 AGTGACAAG
32697692 TAGGGGTGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (58 bp):
AGTGACAAGGGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:32697867 original size:9 final size:9
Alignment explanation
Indices: 32697843--32697879 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32697833 TGAGTTTTCG
*
32697843 AATTCGAAA
1 AATTCGAAT
*
32697852 AACTCGAAT
1 AATTCGAAT
32697861 AATTCGAAT
1 AATTCGAAT
32697870 AATTCGAAT
1 AATTCGAAT
32697879 A
1 A
32697880 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32698126 original size:30 final size:31
Alignment explanation
Indices: 32698092--32698151 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
32698082 AAACCTTTTA
*
32698092 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
32698122 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
32698152 TCCCACCTCC
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:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:32698806 original size:5 final size:5
Alignment explanation
Indices: 32698796--32698821 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32698786 GAACAAATAT
32698796 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
32698822 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:32698921 original size:5 final size:5
Alignment explanation
Indices: 32698911--32698936 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32698901 CTCGAAAATT
32698911 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
32698937 CAAATGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:32698964 original size:7 final size:7
Alignment explanation
Indices: 32698952--32698977 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32698942 GCTTACCCCT
32698952 AGTGACA
1 AGTGACA
32698959 AGTGACA
1 AGTGACA
32698966 AGTGACA
1 AGTGACA
32698973 AGTGA
1 AGTGA
32698978 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:32699760 original size:29 final size:29
Alignment explanation
Indices: 32699703--32699761 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
32699693 TCGTGGAAGA
* *
32699703 GGTGGAGAACGTGTTCGTTGAGAGCTCGT
1 GGTGAAGAACGTGTTCGTTGAGAACTCGT
* *
32699732 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACGTGTTCGTTGAGAACTCGT
32699761 G
1 G
32699762 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.31
Consensus pattern (29 bp):
GGTGAAGAACGTGTTCGTTGAGAACTCGT
Found at i:32700489 original size:42 final size:42
Alignment explanation
Indices: 32700430--32700511 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
32700420 ATATATTAAT
32700430 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
32700472 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
1 AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACA
32700512 ACACCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (42 bp):
AATGTTGTTGATTAAAATCTTGTCACAAATTAAATCAACACC
Found at i:32707228 original size:25 final size:25
Alignment explanation
Indices: 32707182--32707229 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
32707172 TTAGAGAATA
* * *
32707182 TTTCATACCATTCTTTCCTAATTCT
1 TTTCATACCATTCATGCATAATTCT
*
32707207 TTTCATGCCATTCATGCATAATT
1 TTTCATACCATTCATGCATAATT
32707230 TTGTTGTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTCATACCATTCATGCATAATTCT
Found at i:32707521 original size:29 final size:29
Alignment explanation
Indices: 32707488--32707586 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
32707478 TCAGTACTCG
32707488 CCACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGCTTTCCTGTCCAGAATTTTT
* * * ** ** * **
32707517 CCACAAAGGCTGTCTTTTATATCTAGTACT
1 CCACAAAGGCTTTCCTGTCCA-GAATTTTT
32707547 CGCTACAAAGGCTTTCCTGTCCAGAATTTTT
1 C-C-ACAAAGGCTTTCCTGTCCAGAATTTTT
32707578 CCACAAAGG
1 CCACAAAGG
32707587 TTGTCTTTTA
Statistics
Matches: 47, Mismatches: 20, Indels: 6
0.64 0.27 0.08
Matches are distributed among these distances:
29 23 0.49
30 5 0.11
31 5 0.11
32 14 0.30
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTGTCCAGAATTTTT
Found at i:32707557 original size:61 final size:61
Alignment explanation
Indices: 32707480--32707657 Score: 275
Period size: 61 Copynumber: 2.9 Consensus size: 61
32707470 CTTTACATTC
*
32707480 AGTACTCGCCACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
*
32707541 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGTTGTCTTTTATATCT
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
* * * * * * *
32707602 AGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTATGCCAAAAAGGCTGTCCTTTA
1 AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTA
32707658 CATTCATTAC
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 107 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (61 bp):
AGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTTCCACAAAGGCTGTCTTTTATATCT
Found at i:32707669 original size:61 final size:61
Alignment explanation
Indices: 32707455--32707686 Score: 254
Period size: 61 Copynumber: 3.8 Consensus size: 61
32707445 AGAGATATTG
* * * *
32707455 CCACAAAGGCTTTTTCTTTACAT-TCAGTACTCGCCACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGC-TGTCCTTTACATCT-AGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * *
32707517 CCACAAAGGCTGTCTTTTATATCTAGTACTCGCTACAAAGGCTTTCCTGTCCAGAATTTTT
1 CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * * * * * *
32707578 CCACAAAGGTTGTCTTTTATATCTAGTACTCGCTACAAAAGCTTTCCTATCCAGAGTTATG
1 CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
* * *
32707639 CCAAAAAGGCTGTCCTTTACAT-TCATTACTCG-TCATAAAAGCTTTCCT
1 CCACAAAGGCTGTCCTTTACATCT-AGTACTCGCT-ACAAAAGCTTTCCT
32707687 TTTAAAGCCT
Statistics
Matches: 150, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
60 2 0.01
61 137 0.91
62 11 0.07
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (61 bp):
CCACAAAGGCTGTCCTTTACATCTAGTACTCGCTACAAAAGCTTTCCTGTCCAGAATTTTT
Done.