Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 194 of 253
Found at i:63613951 original size:5 final size:5
Alignment explanation
Indices: 63613941--63613988 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
63613931 TTTAGCTATT
63613941 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
63613989 TCTTATTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:63614643 original size:20 final size:20
Alignment explanation
Indices: 63614618--63614655 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
63614608 CAATTTGACC
63614618 CACACGGCCAACCACATGGT
1 CACACGGCCAACCACATGGT
63614638 CACACGGCCAACCACATG
1 CACACGGCCAACCACATG
63614656 ACTGTGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.42, G:0.18, T:0.08
Consensus pattern (20 bp):
CACACGGCCAACCACATGGT
Found at i:63614681 original size:29 final size:29
Alignment explanation
Indices: 63614649--63614752 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
63614639 ACACGGCCAA
* * *
63614649 CCACATGACTGTGTGACCCACATGGTTTG
1 CCACACGACTGTGTGACCCACACGGTCTG
*
63614678 CCACACGA-TCATGTGACCCACACGGTCTG
1 CCACACGACT-GTGTGACCCACACGGTCTG
*
63614707 CCACACTG-TTGTGTGACCCACACGGTCTG
1 CCACAC-GACTGTGTGACCCACACGGTCTG
*
63614736 CCACACGGCTGTGTGAC
1 CCACACGACTGTGTGAC
63614753 ATCAACAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.03
29 61 0.94
30 2 0.03
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.22
Consensus pattern (29 bp):
CCACACGACTGTGTGACCCACACGGTCTG
Found at i:63620219 original size:59 final size:58
Alignment explanation
Indices: 63620039--63620322 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
63620029 ATGATAAATT
* ** * *
63620039 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
63620098 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
63620159 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
63620218 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
63620280 T
58 C
*
63620281 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
63620323 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:63620246 original size:120 final size:122
Alignment explanation
Indices: 63620032--63620322 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
63620022 TAGTATGATG
* **
63620032 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
63620097 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
63620153 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
63620216 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
63620274 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
63620323 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:63620301 original size:18 final size:19
Alignment explanation
Indices: 63620266--63620302 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
63620256 ATTATTAAGA
63620266 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
63620285 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
63620303 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:63620532 original size:44 final size:45
Alignment explanation
Indices: 63620467--63620557 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
63620457 ACCTCTATTC
* * *
63620467 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
63620511 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
63620556 CA
1 CA
63620558 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:63620559 original size:16 final size:16
Alignment explanation
Indices: 63620538--63620606 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
63620528 GATTAGCTAT
63620538 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63620554 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
63620571 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63620587 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63620603 TACA
1 TACA
63620607 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63620580 original size:33 final size:32
Alignment explanation
Indices: 63620538--63620606 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
63620528 GATTAGCTAT
63620538 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
63620571 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
63620603 TACA
1 TACA
63620607 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:63623586 original size:12 final size:13
Alignment explanation
Indices: 63623569--63623597 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
63623559 AAGAGGTCTT
63623569 TTTTAATTTTT-A
1 TTTTAATTTTTAA
63623581 TTTTAATTTTTAA
1 TTTTAATTTTTAA
63623594 TTTT
1 TTTT
63623598 TCCTTCGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:63627446 original size:18 final size:18
Alignment explanation
Indices: 63627423--63627458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63627413 GTTTCTTATC
63627423 AAAAAAGGATACTCTTAA
1 AAAAAAGGATACTCTTAA
63627441 AAAAAAGGATACTCTTAA
1 AAAAAAGGATACTCTTAA
63627459 TGTAGGCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
AAAAAAGGATACTCTTAA
Found at i:63637219 original size:18 final size:18
Alignment explanation
Indices: 63637178--63637220 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
63637168 TGTGGAGGAT
* *
63637178 AGTCCAAATGTGGCGAGC
1 AGTCCAAATATGGCGAAC
*
63637196 AATCCAAATATGGCGAAC
1 AGTCCAAATATGGCGAAC
63637214 AGTCCAA
1 AGTCCAA
63637221 GAGTGGCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (18 bp):
AGTCCAAATATGGCGAAC
Found at i:63637952 original size:42 final size:42
Alignment explanation
Indices: 63637889--63637971 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
63637879 AATCCTAATT
63637889 GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAG
1 GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAG
* * * *
63637931 GGAAACTAGTTCCCTTGTTCTAATAAACTAGTAAAAGATAA
1 GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
63637972 AATAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (42 bp):
GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAG
Found at i:63638023 original size:19 final size:18
Alignment explanation
Indices: 63637999--63638042 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
63637989 AATATGAATA
63637999 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
63638017 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
63638036 AAATTTA
1 AAATTTA
63638043 AAATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:63646996 original size:18 final size:18
Alignment explanation
Indices: 63646943--63647028 Score: 77
Period size: 18 Copynumber: 4.8 Consensus size: 18
63646933 ACACTCCAAA
* *
63646943 TGTCTGCGATA-TTGGCT
1 TGTCTGCCATATTTGGAT
* *
63646960 TGTCTGCCACT-CTTAGAT
1 TGTCTGCCA-TATTTGGAT
*
63646978 TGTCTACCATATTTGGAT
1 TGTCTGCCATATTTGGAT
* *
63646996 TGTTTGCAATATTTGGAT
1 TGTCTGCCATATTTGGAT
*
63647014 TGTCTGCCACATTTG
1 TGTCTGCCATATTTG
63647029 ATAATTTGCC
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
17 9 0.17
18 45 0.83
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (18 bp):
TGTCTGCCATATTTGGAT
Found at i:63650898 original size:40 final size:40
Alignment explanation
Indices: 63650845--63650930 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
63650835 CATTTTATTC
*
63650845 AATTTAGTCCTTATGAACAAAACTAACAATTAAACATTAT
1 AATTTAGTCCTTATGAACAAAACGAACAATTAAACATTAT
* *
63650885 AATTTAGTGCTTATGAACAAAACGAATAATTAAACATTAT
1 AATTTAGTCCTTATGAACAAAACGAACAATTAAACATTAT
63650925 AATTTA
1 AATTTA
63650931 ATCCCTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.34
Consensus pattern (40 bp):
AATTTAGTCCTTATGAACAAAACGAACAATTAAACATTAT
Found at i:63659095 original size:21 final size:20
Alignment explanation
Indices: 63659039--63659087 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
63659029 TACATCAAAA
*
63659039 TAAAAGAAGGCTAAAGATTCC
1 TAAAAGAA-TCTAAAGATTCC
*
63659060 TAAAAGAATCAAAAGCATTCC
1 TAAAAGAATCTAAAG-ATTCC
63659081 ATAAAAG
1 -TAAAAG
63659088 CATTAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 13 0.54
22 6 0.25
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.18
Consensus pattern (20 bp):
TAAAAGAATCTAAAGATTCC
Found at i:63659628 original size:54 final size:54
Alignment explanation
Indices: 63659546--63659659 Score: 221
Period size: 54 Copynumber: 2.1 Consensus size: 54
63659536 TAATTAGGAG
63659546 ATAGTGAATGATGACTTTTCCACTAATAGTGAATGATGATGACTTTTCCACTAA
1 ATAGTGAATGATGACTTTTCCACTAATAGTGAATGATGATGACTTTTCCACTAA
63659600 ATAGTGAATGATGACTTTTCCACTAATAGTGAATGATGATGACTTTTCCACTAA
1 ATAGTGAATGATGACTTTTCCACTAATAGTGAATGATGATGACTTTTCCACTAA
63659654 AT-GTGA
1 ATAGTGA
63659660 TTAATAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 4 0.07
54 56 0.93
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (54 bp):
ATAGTGAATGATGACTTTTCCACTAATAGTGAATGATGATGACTTTTCCACTAA
Found at i:63659659 original size:28 final size:28
Alignment explanation
Indices: 63659553--63659653 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
63659543 GAGATAGTGA
63659553 ATGATGACTTTTCCACTAATAGTGAATG
1 ATGATGACTTTTCCACTAATAGTGAATG
63659581 ATGATGACTTTTCCACTAAATAGTG-A--
1 ATGATGACTTTTCCACT-AATAGTGAATG
63659607 ATGATGACTTTTCCACTAATAGTGAATG
1 ATGATGACTTTTCCACTAATAGTGAATG
63659635 ATGATGACTTTTCCACTAA
1 ATGATGACTTTTCCACTAA
63659654 ATGTGATTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.10
26 18 0.26
28 37 0.54
29 7 0.10
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (28 bp):
ATGATGACTTTTCCACTAATAGTGAATG
Found at i:63662124 original size:25 final size:25
Alignment explanation
Indices: 63662092--63662139 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
63662082 ATGAATATTG
*
63662092 ATATGATAG-GAAAATCTTCTGAAA
1 ATATGATAGAAAAAATCTTCTGAAA
*
63662116 ATATCGATAGAAAAAATTTTCTGA
1 ATAT-GATAGAAAAAATCTTCTGA
63662140 TTTAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 5 0.25
26 11 0.55
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (25 bp):
ATATGATAGAAAAAATCTTCTGAAA
Found at i:63667458 original size:13 final size:13
Alignment explanation
Indices: 63667440--63667469 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
63667430 TTTGTGGTAG
63667440 TATTCATTAATGA
1 TATTCATTAATGA
*
63667453 TATTCATTGATGA
1 TATTCATTAATGA
63667466 TATT
1 TATT
63667470 TTGGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (13 bp):
TATTCATTAATGA
Found at i:63686845 original size:6 final size:6
Alignment explanation
Indices: 63686822--63686877 Score: 71
Period size: 6 Copynumber: 9.5 Consensus size: 6
63686812 TCCTCCTATT
*
63686822 TTTTTA TTATTTA GTTTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
63686869 TTTTCA TTT
1 TTTTTA TTT
63686878 CAATTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
5 10 0.22
6 30 0.67
7 5 0.11
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:63686847 original size:16 final size:15
Alignment explanation
Indices: 63686818--63686865 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
63686808 TGAATCCTCC
63686818 TATTTT-TTTATTATT
1 TATTTTATTT-TTATT
63686833 TAGTTTTATTTTTATTT
1 TA-TTTTATTTTTA-TT
63686850 TATTTTATTTTTATT
1 TATTTTATTTTTATT
63686865 T
1 T
63686866 TTATTTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.17
16 18 0.60
17 7 0.23
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
TATTTTATTTTTATT
Found at i:63686850 original size:5 final size:5
Alignment explanation
Indices: 63686818--63686897 Score: 58
Period size: 6 Copynumber: 15.2 Consensus size: 5
63686808 TGAATCCTCC
*
63686818 TATTT TTTTAT TA-TT TAGTTT TATTTT TATTT TATTT TATTTT TATTTT
1 TATTT TATT-T TATTT TA-TTT TA-TTT TATTT TATTT TA-TTT TA-TTT
*
63686867 TATTT TCATTT CAATTT TA--T TATTT TATTT T
1 TATTT T-ATTT -TATTT TATTT TATTT TATTT T
63686898 GAAAGACATA
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 26 0.42
6 30 0.48
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:63686866 original size:16 final size:16
Alignment explanation
Indices: 63686818--63686887 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
63686808 TGAATCCTCC
63686818 TATTTT-TTTATTA-TT
1 TATTTTATTT-TTATTT
63686833 TAGTTTTATTTTTATTT
1 TA-TTTTATTTTTATTT
63686850 TATTTTATTTTTATTTT
1 TATTTTATTTTTA-TTT
**
63686867 TATTTTCATTTCAATTT
1 TATTTT-ATTTTTATTT
63686884 TATT
1 TATT
63686888 ATTTTATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.04
16 18 0.38
17 23 0.48
18 5 0.10
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTTATTT
Found at i:63689822 original size:13 final size:13
Alignment explanation
Indices: 63689806--63689830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63689796 TTAAATCAGT
63689806 TAATTAGTTTAAA
1 TAATTAGTTTAAA
63689819 TAATTAGTTTAA
1 TAATTAGTTTAA
63689831 TAAATAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:63690363 original size:29 final size:29
Alignment explanation
Indices: 63690320--63690379 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
63690310 CTAGTTTTGT
*
63690320 AATCACTATAGAACATAGAAAAATAAACA
1 AATCACTATAAAACATAGAAAAATAAACA
63690349 AATCACTATAAAACATAGAAAAATAAACA
1 AATCACTATAAAACATAGAAAAATAAACA
63690378 AA
1 AA
63690380 GTAAGCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.13, G:0.05, T:0.17
Consensus pattern (29 bp):
AATCACTATAAAACATAGAAAAATAAACA
Found at i:63691667 original size:18 final size:17
Alignment explanation
Indices: 63691644--63691686 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
63691634 GAAATTGTGT
*
63691644 CTTATTTAATTTATTAAC
1 CTTATTTAATTAATT-AC
*
63691662 CTTATTTACTTAATTAC
1 CTTATTTAATTAATTAC
63691679 C-TATTTAA
1 CTTATTTAA
63691687 CCTTATTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (17 bp):
CTTATTTAATTAATTAC
Found at i:63694083 original size:46 final size:47
Alignment explanation
Indices: 63694031--63694125 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
63694021 GTTGAATTTA
* *
63694031 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
63694077 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
63694124 AA
1 AA
63694126 AGAAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 12 0.27
47 33 0.73
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:63707051 original size:27 final size:26
Alignment explanation
Indices: 63707021--63707092 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
63707011 CAACAAGACG
*
63707021 TTAAACATGGGATAGTCTATTGGGACA
1 TTAAACA-GGGATAGTCTAATGGGACA
*
63707048 TTAAATAGGGTATAGTCTAATGGGACA
1 TTAAACAGGG-ATAGTCTAATGGGACA
*
63707075 TTAAACACAGGATAGTCT
1 TTAAACA-GGGATAGTCT
63707093 GATAAGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 34 0.87
28 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (26 bp):
TTAAACAGGGATAGTCTAATGGGACA
Found at i:63716620 original size:20 final size:21
Alignment explanation
Indices: 63716571--63716620 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
63716561 ATTTAGTTTT
* *
63716571 TAAAA-CCAATTTTTTTGCCA
1 TAAAATCCAAATTTTTTGCAA
*
63716591 TTAAAT-CAAATTTTTTG-AA
1 TAAAATCCAAATTTTTTGCAA
63716610 TAAAATCCAAA
1 TAAAATCCAAA
63716621 AATTAGCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAATCCAAATTTTTTGCAA
Found at i:63719838 original size:45 final size:45
Alignment explanation
Indices: 63719754--63719839 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
63719744 TATATGCCTA
* * *
63719754 AAATGAGTAAAACCATAATTGAAAGATGCTATGGCATCATGATAT
1 AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATGATAT
* ** *
63719799 AAATGAGTAAGACCATGGCTGAAAGATGCTAAGATATCATG
1 AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATG
63719840 TGAAAGCATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATGATAT
Found at i:63720050 original size:27 final size:27
Alignment explanation
Indices: 63719976--63720066 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
63719966 ACGACATCAT
63719976 AGATAGTCCGATGGGACGTTAAACACG
1 AGATAGTCCGATGGGACGTTAAACACG
** *** * *
63720003 AGATAGTTTGACAAGAAGTTAAACATG
1 AGATAGTCCGATGGGACGTTAAACACG
*
63720030 -GCATAGTCCGATGGGACGTTAAACACA
1 AG-ATAGTCCGATGGGACGTTAAACACG
*
63720057 AGGTAGTCCG
1 AGATAGTCCG
63720067 TCAGGAAAGT
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (27 bp):
AGATAGTCCGATGGGACGTTAAACACG
Found at i:63722841 original size:25 final size:25
Alignment explanation
Indices: 63722807--63722879 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
63722797 TCTCATCCCT
*
63722807 ATTTTACCCTAGCAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTGATG
*
63722832 ATTTTACCCTTGATAAAATTTTGATG
1 ATTTTACCCTAG-TAAAATTTTGATG
**
63722858 ATTTCGGCCCTAGTAAAATTTT
1 ATTT-TACCCTAGTAAAATTTT
63722880 AAAAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 25 0.61
27 5 0.12
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGATG
Found at i:63730063 original size:31 final size:31
Alignment explanation
Indices: 63730028--63730139 Score: 127
Period size: 31 Copynumber: 3.6 Consensus size: 31
63730018 TACATGGTAC
63730028 AAATATGCAATTATGAATGATTACAGAGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
* * *
63730059 AAATATGCAGTTATGAATGATTATAGGGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
* * * *
63730090 AAATATACAATTATAAATGATTGCAGTGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
* *
63730121 GAAA-ATTCAAATATGAATG
1 -AAATATGCAATTATGAATG
63730140 GTTGATGGCC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 65 0.96
32 3 0.04
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (31 bp):
AAATATGCAATTATGAATGATTACAGAGTAT
Found at i:63730136 original size:62 final size:62
Alignment explanation
Indices: 63730023--63730139 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 62
63730013 GATAGTACAT
* * **
63730023 GGTACAAATATGCAATTATGAATGATTACAGAGTATAAATATGCAGTTATGAATGATTATAG
1 GGTACAAATATACAATTATAAATGATTACAGAGTATAAATATGCAAATATGAATGATTATAG
* * * *
63730085 GGTATAAATATACAATTATAAATGATTGCAGTGTATGAAA-ATTCAAATATGAATG
1 GGTACAAATATACAATTATAAATGATTACAGAGTAT-AAATATGCAAATATGAATG
63730140 GTTGATGGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
62 43 0.93
63 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (62 bp):
GGTACAAATATACAATTATAAATGATTACAGAGTATAAATATGCAAATATGAATGATTATAG
Found at i:63730923 original size:105 final size:105
Alignment explanation
Indices: 63730736--63730944 Score: 373
Period size: 105 Copynumber: 2.0 Consensus size: 105
63730726 AGCTAGATCA
* *
63730736 TTGCGGACATCATACTATCATCGAAACAGTACAATTATGTTCATTTTGAATCCTAATATTGTGGC
1 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
*
63730801 CTGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
66 CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
*
63730841 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAGTCCTAATATTGTGGC
1 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
*
63730906 CCGTATATAGGGTCTTTATTATGGAAATGATCATCCCTA
66 CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTA
63730945 TTTGTGAGTG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (105 bp):
TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
Found at i:63732363 original size:13 final size:13
Alignment explanation
Indices: 63732345--63732371 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63732335 GCTTGGCAGG
63732345 GACACGCCCGTGT
1 GACACGCCCGTGT
63732358 GACACGCCCGTGT
1 GACACGCCCGTGT
63732371 G
1 G
63732372 CGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:63741501 original size:20 final size:20
Alignment explanation
Indices: 63741474--63741515 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
63741464 TAAATTTTAA
*
63741474 ATTTAACCCTTA-AAAATGC
1 ATTTAACCCTCATAAAATGC
*
63741493 ATTTCAACCGTCATAAAATGC
1 ATTT-AACCCTCATAAAATGC
63741514 AT
1 AT
63741516 ACCTTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (20 bp):
ATTTAACCCTCATAAAATGC
Found at i:63743432 original size:18 final size:18
Alignment explanation
Indices: 63743409--63743445 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
63743399 CTTGTTTTTG
63743409 TAAGCTGAAATACTCATA
1 TAAGCTGAAATACTCATA
63743427 TAAGCTGAAATACTCATA
1 TAAGCTGAAATACTCATA
63743445 T
1 T
63743446 TCAATAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (18 bp):
TAAGCTGAAATACTCATA
Found at i:63762464 original size:48 final size:47
Alignment explanation
Indices: 63762307--63762491 Score: 148
Period size: 48 Copynumber: 3.9 Consensus size: 47
63762297 TAGGGATATG
*
63762307 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATA
1 TGTGATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATCAATA
* * * * * *
63762355 TGAGA-CATCGTGTAAGACCATAG-CTGGGC-T---ATCGGCTTCAATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGACATGGCATTGGCATCAATA
* * * *
63762398 TGCATGATCCAATATAAGACCATGTCTGGAACATGGTATTGGCATCGATA
1 TG--TGATCCCATGTAAGACCATGTCTGG-ACATGGCATTGGCATCAATA
* *
63762448 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATC
63762492 CTACTATGTG
Statistics
Matches: 104, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
43 12 0.12
44 1 0.01
45 16 0.15
46 3 0.03
47 5 0.05
48 52 0.50
49 3 0.03
50 12 0.12
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATGTCTGGACATGGCATTGGCATCAATA
Found at i:63796207 original size:14 final size:13
Alignment explanation
Indices: 63796188--63796217 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
63796178 CTTGAAAAGT
63796188 AAATCATTTTCCAG
1 AAATCATTTTCC-G
63796202 AAATCATTTTCCG
1 AAATCATTTTCCG
63796215 AAA
1 AAA
63796218 ACCATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:63798578 original size:22 final size:24
Alignment explanation
Indices: 63798553--63798614 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
63798543 TTAGACTTTA
63798553 TGTATTGAATGCTTG-TTAAA-AT
1 TGTATTGAATGCTTGTTTAAAGAT
* * *
63798575 TGTATTAAATTCTTGTTTAAAGGT
1 TGTATTGAATGCTTGTTTAAAGAT
*
63798599 TGGATTGAATGGCTTG
1 TGTATTGAAT-GCTTG
63798615 ATTGGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 13 0.42
23 5 0.16
24 9 0.29
25 4 0.13
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (24 bp):
TGTATTGAATGCTTGTTTAAAGAT
Found at i:63804301 original size:29 final size:31
Alignment explanation
Indices: 63804231--63804295 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
63804221 CACTTTTATT
* *
63804231 CTCTTAAAAATTTATAATTCAATTATTATATC
1 CTCTTAAAATTTTATAATTCAATTATTACA-C
63804263 CTCTTAAAATTTTATAATTCAATTATTACAC
1 CTCTTAAAATTTTATAATTCAATTATTACAC
63804294 CT
1 CT
63804296 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (31 bp):
CTCTTAAAATTTTATAATTCAATTATTACAC
Found at i:63812580 original size:17 final size:17
Alignment explanation
Indices: 63812558--63812595 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
63812548 CCCATCTCTC
63812558 TTTATTTTATAACAAAT-
1 TTTATTTTATAA-AAATA
*
63812575 TTTATTTTTTAAAAATA
1 TTTATTTTATAAAAATA
63812592 TTTA
1 TTTA
63812596 CATATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATTTTATAAAAATA
Found at i:63812654 original size:17 final size:18
Alignment explanation
Indices: 63812629--63812690 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
63812619 TTTTTAATAT
*
63812629 TATTAAATAAA-CATTTA
1 TATTTAATAAATCATTTA
*
63812646 TATTTAATAAATTATTTA
1 TATTTAATAAATCATTTA
63812664 T-TTTAATTAAATCATTTA
1 TATTTAA-TAAATCATTTA
*
63812682 -ATATAATAA
1 TATTTAATAA
63812691 TATTATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
17 18 0.47
18 20 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTAATAAATCATTTA
Found at i:63812662 original size:18 final size:18
Alignment explanation
Indices: 63812641--63812697 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
63812631 TTAAATAAAC
63812641 ATTTATATTTAATAAATT
1 ATTTATATTTAATAAATT
*
63812659 ATTTAT-TTTAATTAAATC
1 ATTTATATTTAA-TAAATT
*
63812677 ATTTA-ATATAATAATATT
1 ATTTATATTTAATAA-ATT
63812695 ATT
1 ATT
63812698 AATAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATATTTAATAAATT
Found at i:63812706 original size:39 final size:37
Alignment explanation
Indices: 63812617--63812706 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 37
63812607 CAAATATTGT
* *
63812617 AATTTTTAATATTATTAAATAAACATTTATATTTAATA
1 AATTATTAATATT-TTAAATAAACATTTATATATAATA
*
63812655 AATTATT--TATTTTAATTAAATCATTTA-ATATAATA
1 AATTATTAATATTTTAAATAAA-CATTTATATATAATA
63812690 ATATTATTAATAATTTT
1 A-ATTATTAAT-ATTTT
63812707 TAAAATTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
35 16 0.36
36 16 0.36
38 7 0.16
39 5 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (37 bp):
AATTATTAATATTTTAAATAAACATTTATATATAATA
Found at i:63812716 original size:16 final size:17
Alignment explanation
Indices: 63812695--63812730 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
63812685 TAATAATATT
63812695 ATTAATAATT-TTTAAA
1 ATTAATAATTATTTAAA
*
63812711 ATTAATAATTATTTTAA
1 ATTAATAATTATTTAAA
63812728 ATT
1 ATT
63812731 TTAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATAATTATTTAAA
Found at i:63812734 original size:19 final size:18
Alignment explanation
Indices: 63812696--63812754 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
63812686 AATAATATTA
*
63812696 TTAATAAT-TTTTAAA-A
1 TTAATAATATTTTAAATT
63812712 TTAATAATTATTTTAAATT
1 TTAATAA-TATTTTAAATT
63812731 TTAAATAATATTCTTAATATT
1 TT-AATAATATT-TTAA-ATT
63812752 TTA
1 TTA
63812755 TATTAGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 7 0.19
17 1 0.03
18 7 0.19
19 6 0.17
20 10 0.28
21 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATAATATTTTAAATT
Found at i:63813815 original size:19 final size:21
Alignment explanation
Indices: 63813783--63813828 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
63813773 AAAAATATTA
63813783 AATAAATGATTAAATTTAATT
1 AATAAATGATTAAATTTAATT
63813804 AATAAAT-A-TAAATTTAATT
1 AATAAATGATTAAATTTAATT
63813823 AATAAA
1 AATAAA
63813829 AAAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.68
20 1 0.04
21 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATAAATGATTAAATTTAATT
Found at i:63819207 original size:33 final size:35
Alignment explanation
Indices: 63819141--63819215 Score: 127
Period size: 33 Copynumber: 2.2 Consensus size: 35
63819131 CGTGAAATTT
63819141 TAAAATATTTATTTTAGATATAAAATTATGATGTA
1 TAAAATATTTATTTTAGATATAAAATTATGATGTA
*
63819176 TAAAATATTTATTTTA-A-ATAATATTATGATGTA
1 TAAAATATTTATTTTAGATATAAAATTATGATGTA
63819209 TAAAATA
1 TAAAATA
63819216 AGAGAGGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 22 0.56
34 1 0.03
35 16 0.41
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (35 bp):
TAAAATATTTATTTTAGATATAAAATTATGATGTA
Found at i:63819793 original size:34 final size:34
Alignment explanation
Indices: 63819739--63819829 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
63819729 TTTTTTTTGA
63819739 AAAATTAATTAAATTA-GGTTTAAAGGGTTTAA-
1 AAAATTAATTAAATTAGGGTTTAAAGGGTTTAAG
* * **
63819771 ATAAATTAACTAAATTAGGGTTTAGAGTTTTTAAG
1 A-AAATTAATTAAATTAGGGTTTAAAGGGTTTAAG
63819806 AAAATTAATTAAATTAGGGTTTAA
1 AAAATTAATTAAATTAGGGTTTAA
63819830 TTTTTTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.02
33 14 0.28
34 34 0.68
35 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.38
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAAAGGGTTTAAG
Found at i:63819836 original size:34 final size:35
Alignment explanation
Indices: 63819713--63819838 Score: 120
Period size: 34 Copynumber: 3.7 Consensus size: 35
63819703 TTTTAAAAAA
* **
63819713 TAAATTAAGGTTTAGAT-TTTTTTTGAAAAATTAAT
1 TAAATTAGGGTTTAGATGTTTTTAAG-AAAATTAAT
* ** *
63819748 TAAATTA-GGTTTA-AAGGGTTTAA-ATAAATTAAC
1 TAAATTAGGGTTTAGATGTTTTTAAGA-AAATTAAT
63819781 TAAATTAGGGTTTAGA-GTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGATGTTTTTAAGAAAATTAAT
*
63819815 TAAATTAGGGTTTA-ATTTTTTTAA
1 TAAATTAGGGTTTAGATGTTTTTAA
63819839 AATAATTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
32 1 0.01
33 16 0.21
34 49 0.65
35 9 0.12
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (35 bp):
TAAATTAGGGTTTAGATGTTTTTAAGAAAATTAAT
Found at i:63820158 original size:124 final size:123
Alignment explanation
Indices: 63819933--63820173 Score: 288
Period size: 124 Copynumber: 1.9 Consensus size: 123
63819923 GAAAAATTAA
* * * * * *
63819933 TTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAAACGCTTCAAACAAAATGCACTGTTAGCAA
1 TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
* *
63819998 AATTACTGAAAAAAGCTTTCACATGGACGCTCTTTTTTTACAATAGTTCCTAAATTTTT
66 AATTACTGAAAAAAGC-TTCACATGGACGCTATTTTTCTACAATAGTTCCTAAATTTTT
* * * **
63820057 TTTTGAGAAAACGGTTTTGAAAAAATAGTGTAAAAAACCCTTCAAGCAGGATGCACTATCAGCAA
1 TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
* * *
63820122 AATT-CATGAAAAAAGC-TCCCATGTGAACGCTATTTTTCTATAGTAGTTCCTA
66 AATTAC-TGAAAAAAGCTTCACATG-G-ACGCTATTTTTCTACAATAGTTCCTA
63820174 TTTGACCTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
122 6 0.06
123 2 0.02
124 90 0.92
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (123 bp):
TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
AATTACTGAAAAAAGCTTCACATGGACGCTATTTTTCTACAATAGTTCCTAAATTTTT
Found at i:63823271 original size:24 final size:23
Alignment explanation
Indices: 63823215--63823271 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
63823205 AAGAACTTCT
63823215 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
63823238 ATTTGCTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
63823263 ACTTTTATT
1 A-TTTTATT
63823272 TTATTAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:63823702 original size:17 final size:18
Alignment explanation
Indices: 63823670--63823712 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
63823660 GACTGGGAAA
*
63823670 AGGAAACATATAAGGGCT
1 AGGATACATATAAGGGCT
63823688 AGGATACAT-TAAGGGCT
1 AGGATACATATAAGGGCT
63823705 AGGATACA
1 AGGATACA
63823713 CACCTCGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:63829924 original size:10 final size:10
Alignment explanation
Indices: 63829897--63829956 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
63829887 TGAAATTCTA
63829897 AAAGATAAAT
1 AAAGATAAAT
*
63829907 ACAA-ATAATT
1 A-AAGATAAAT
*
63829917 AAAGATAATT
1 AAAGATAAAT
63829927 AAAGATAAAT
1 AAAGATAAAT
63829937 AAAGATAAAT
1 AAAGATAAAT
63829947 GAAA-ATAAAT
1 -AAAGATAAAT
63829957 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:63832927 original size:49 final size:49
Alignment explanation
Indices: 63832862--63833387 Score: 883
Period size: 49 Copynumber: 10.9 Consensus size: 49
63832852 TAGTATGGCG
*
63832862 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
63832911 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
63832960 TAATGACCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
63833009 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
63833056 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
63833105 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
63833154 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
63833201 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
63833250 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
63833297 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
63833344 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
63833388 TCCCGAAGGG
Statistics
Matches: 455, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 188 0.41
48 1 0.00
49 266 0.58
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:63833069 original size:96 final size:97
Alignment explanation
Indices: 63832862--63833387 Score: 870
Period size: 96 Copynumber: 5.5 Consensus size: 97
63832852 TAGTATGGCG
* *
63832862 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
63832927 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
*
63832960 TAATGACCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
63833025 GAATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
*
63833056 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
63833121 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
63833154 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
63833217 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
63833250 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
63833313 GAATGTGAAAGTG-TATATATGTGACAGGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * * *
63833344 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
63833388 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 50 0.12
95 1 0.00
96 239 0.58
98 121 0.29
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:63833127 original size:145 final size:145
Alignment explanation
Indices: 63832862--63833387 Score: 907
Period size: 145 Copynumber: 3.6 Consensus size: 145
63832852 TAGTATGGCG
*
63832862 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
63832927 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTAT
64 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
63832992 ATATATGTGATAAGGCC
129 ATATATGTGATAAGGCC
63833009 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
63833074 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
63833139 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
*
63833154 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
63833219 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
63833282 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
* * * * * * * *
63833297 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
63833362 ATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGAAAGTGTATATATATGTGATAAG
63833388 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 91 0.25
145 239 0.65
147 28 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (145 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCC
Found at i:63835413 original size:15 final size:15
Alignment explanation
Indices: 63835393--63835440 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
63835383 TTAATATATG
*
63835393 AAAATAATAAATAAT
1 AAAATAATAAATAAA
63835408 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
63835424 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
63835439 AA
1 AA
63835441 TTTGTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:63839112 original size:10 final size:9
Alignment explanation
Indices: 63839097--63839151 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
63839087 ATTCTAAAAG
63839097 ATAAATACAA
1 ATAAATA-AA
63839107 ATAAATAAA
1 ATAAATAAA
*
63839116 GATAATTAAA
1 -ATAAATAAA
63839126 GATAAATAAA
1 -ATAAATAAA
*
63839136 AAAAATGAAA
1 ATAAAT-AAA
63839146 ATAAAT
1 ATAAAT
63839152 CCTAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 7 0.18
10 32 0.82
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (9 bp):
ATAAATAAA
Found at i:63845110 original size:25 final size:25
Alignment explanation
Indices: 63845082--63845131 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
63845072 ACATGACAAA
63845082 TGATAACACAAAACAATACCACATG
1 TGATAACACAAAACAATACCACATG
*
63845107 TGATAACACAATACAATACCACATG
1 TGATAACACAAAACAATACCACATG
63845132 ACATGCTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (25 bp):
TGATAACACAAAACAATACCACATG
Found at i:63850583 original size:41 final size:41
Alignment explanation
Indices: 63850538--63850619 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
63850528 GCCAGGCTCG
* *
63850538 AAGCCTGATATAACGCATCAACACAAAGCCTACTAGGCACA
1 AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
** * *
63850579 AAGCCTGATATAACACACCGGCACGAAGCCTGCTAGGCACA
1 AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
63850620 TAGCTCGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.38, C:0.30, G:0.18, T:0.13
Consensus pattern (41 bp):
AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
Found at i:63850654 original size:38 final size:38
Alignment explanation
Indices: 63850559--63850706 Score: 147
Period size: 38 Copynumber: 3.8 Consensus size: 38
63850549 AACGCATCAA
* *
63850559 CACAAAGCCT-ACTAGGCACAAAGCCTGATATAACACACCGG
1 CACAAAGCCTGA-TAGGCACAAAGCCCGA-AT-A-TCACCGG
* * * * *
63850600 CACGAAGCCTGCTAGGCACATAGCTCGAATATCACCAG
1 CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
* *
63850638 CACAAAGCCTGATAGGCACAGAGCCCAAATATCACCGG
1 CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
*
63850676 TACAAAGCCT-ACTAGGCACAAAGCCCGAATA
1 CACAAAGCCTGA-TAGGCACAAAGCCCGAATA
63850707 ACGTTACGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 63 0.71
39 1 0.01
40 2 0.02
41 22 0.25
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (38 bp):
CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
Found at i:63862229 original size:40 final size:40
Alignment explanation
Indices: 63862164--63862258 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
63862154 ACCAACTCCG
* * *
63862164 TCCAACCCAACACACC--ATGTGGGGATAAAATTGACCCA
1 TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
* *
63862202 -CCTATCCCTGCACACCAAATATGGGGATAAAATCGACCCA
1 TCC-AACCCTACACACCAAATATGGGGATAAAATCGACCCA
63862242 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
63862259 TAAAGTACTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.04
38 10 0.22
40 32 0.70
41 2 0.04
ACGTcount: A:0.36, C:0.36, G:0.13, T:0.16
Consensus pattern (40 bp):
TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
Found at i:63866692 original size:16 final size:15
Alignment explanation
Indices: 63866667--63866698 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
63866657 GATATAACAC
63866667 ACTAGCACAAAGCCT
1 ACTAGCACAAAGCCT
63866682 ACTAGGCACAAAGCCT
1 ACTA-GCACAAAGCCT
63866698 A
1 A
63866699 ATATAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.41, C:0.31, G:0.16, T:0.12
Consensus pattern (15 bp):
ACTAGCACAAAGCCT
Found at i:63866721 original size:41 final size:41
Alignment explanation
Indices: 63866658--63866774 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
63866648 TCGAAGCTTG
* * * *
63866658 ATATAACACACTAGCACAAAGCCTACTAGGCACAAAGCCTA
1 ATATAATACACTGGCATAAAGCCTGCTAGGCACAAAGCCTA
* * *
63866699 ATATAATACACTGGCATGAAGCCTGCTAGGCACATAGCCTG
1 ATATAATACACTGGCATAAAGCCTGCTAGGCACAAAGCCTA
*
63866740 A-AT-AT-CACTGGCATAAAGCCTGCTAGGCGCAAAGC
1 ATATAATACACTGGCATAAAGCCTGCTAGGCACAAAGC
63866775 TCGAATATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
38 27 0.41
39 2 0.03
40 2 0.03
41 35 0.53
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
ATATAATACACTGGCATAAAGCCTGCTAGGCACAAAGCCTA
Found at i:63866759 original size:38 final size:38
Alignment explanation
Indices: 63866666--63866806 Score: 140
Period size: 38 Copynumber: 3.6 Consensus size: 38
63866656 TGATATAACA
*
63866666 CACTAGCACAAAGCCTACTAGGCACAAAGCCTAATATAAT
1 CACTAGCACAAAGCCTACTAGGCACAAAGCCTGA-AT-AT
* ** * *
63866706 ACACTGGCATGAAGCCTGCTAGGCACATAGCCTGAATAT
1 -CACTAGCACAAAGCCTACTAGGCACAAAGCCTGAATAT
* * * *
63866745 CACTGGCATAAAGCCTGCTAGGCGCAAAG-CTCGAATAT
1 CACTAGCACAAAGCCTACTAGGCACAAAGCCT-GAATAT
*
63866783 CACCAGCACAAAGCCTACTAGGCA
1 CACTAGCACAAAGCCTACTAGGCA
63866807 TAGAGCCCGA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
37 2 0.02
38 51 0.60
39 2 0.02
40 2 0.02
41 28 0.33
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.17
Consensus pattern (38 bp):
CACTAGCACAAAGCCTACTAGGCACAAAGCCTGAATAT
Found at i:63868187 original size:3 final size:3
Alignment explanation
Indices: 63868172--63868223 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
63868162 CAGAATGACA
* * *
63868172 TTG TTG ATG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG GTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
63868220 TTG T
1 TTG T
63868224 GATTTTTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.33, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:63871005 original size:25 final size:25
Alignment explanation
Indices: 63870977--63871027 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
63870967 TATGTTTGGG
*
63870977 TACGTTTTGGATTAACTTACTTTGA
1 TACGTTTTAGATTAACTTACTTTGA
63871002 TACGTTTTAGATTAACTTACTTTGA
1 TACGTTTTAGATTAACTTACTTTGA
63871027 T
1 T
63871028 TTTATCCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (25 bp):
TACGTTTTAGATTAACTTACTTTGA
Found at i:63871023 original size:68 final size:68
Alignment explanation
Indices: 63870934--63871070 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
63870924 GCTTTTTGGG
*
63870934 TACGTTTTGGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
1 TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
63870999 TGA
66 TGA
* *
63871002 TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTTGGGTATGTTTTGGATTAACTTACTT
1 TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
63871067 TGA
66 TGA
63871070 T
1 T
63871071 TTTATCCTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (68 bp):
TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
TGA
Found at i:63871089 original size:43 final size:43
Alignment explanation
Indices: 63871005--63871089 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
63870995 ACTTTGATAC
* *
63871005 GTTTTAGATTAACTTACTTTGATTTTATCCTATGTTTGGGTAT
1 GTTTTAGATTAACTTACTTTGATTTTATCCTATGGTAGGGTAT
*
63871048 GTTTTGGATTAACTTACTTTGATTTTATCCTATGGTAGGGTA
1 GTTTTAGATTAACTTACTTTGATTTTATCCTATGGTAGGGTA
63871090 CTTCTGTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (43 bp):
GTTTTAGATTAACTTACTTTGATTTTATCCTATGGTAGGGTAT
Found at i:63872379 original size:27 final size:26
Alignment explanation
Indices: 63872349--63872655 Score: 217
Period size: 27 Copynumber: 11.4 Consensus size: 26
63872339 ACCCGTGTAA
*
63872349 GGTAAAATGACCATAATGCCCCTGAAG
1 GGTAAAATGACCGTAATGCCCCT-AAG
* * * *
63872376 GGTAAAATGACCATAATACCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCT-AAG
* *
63872403 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTA-AG
* * *
63872430 GCTAAAATGACCCTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTA-AG
*
63872457 GGTAAAATGACTGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTA-AG
* * * *
63872484 GGTTAAATGACCGTAATAGCCCTTTAT
1 GGTAAAATGACCGTAAT-GCCCCTAAG
*
63872511 GATAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTA-AG
* * *
63872538 GGTTAAATGACTGTAATAG-CCCTGTAG
1 GGTAAAATGACCGTAAT-GCCCCT-AAG
* * *
63872565 GATAAAATAACCGTAATACCCCCATAA-
1 GGTAAAATGACCGTAAT-GCCCC-TAAG
63872592 GGT-AAATGACCGTAATGCCCTTCT-AG
1 GGTAAAATGACCGTAATGCCC--CTAAG
* * * *
63872618 GGTAAAATGATCGTGATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTA-AG
*
63872645 GGCAAAATGAC
1 GGTAAAATGAC
63872656 GAGTAGCCCT
Statistics
Matches: 224, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
25 6 0.03
26 21 0.09
27 186 0.83
28 10 0.04
29 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (26 bp):
GGTAAAATGACCGTAATGCCCCTAAG
Found at i:63872411 original size:54 final size:54
Alignment explanation
Indices: 63872329--63872655 Score: 347
Period size: 54 Copynumber: 6.1 Consensus size: 54
63872319 GGTCGTTATT
* * *
63872329 TGACCGTAATACCCGTGTAAGGTAAAATGACCATAATGCCCCTGA-AGGGTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCT-ATAGGGTAAAA
* * * *
63872383 TGACCATAATACCCTTGTAGGGTAAAATGATCGTAATACCCCTATAGGCTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * *
63872437 TGACCCTAATACCCCTATAGGGTAAAATGACTGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * *
63872491 TGACCGTAATAGCCCTT-TATGATAAAATGACCGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATA-CCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * * *
63872545 TGACTGTAATAGCCC-TGTAGGATAAAATAACCGTAATACCCCCATAAGGT-AAA
1 TGACCGTAATA-CCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * * * *
63872598 TGACCGTAATGCCCTTCTAGGGTAAAATGATCGTGATACCCCTATATGGCAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
63872652 TGAC
1 TGAC
63872656 GAGTAGCCCT
Statistics
Matches: 232, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
52 3 0.01
53 41 0.18
54 184 0.79
55 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
Found at i:63872485 original size:81 final size:81
Alignment explanation
Indices: 63872329--63872655 Score: 356
Period size: 81 Copynumber: 4.0 Consensus size: 81
63872319 GGTCGTTATT
* * * **
63872329 TGACCGTAATACCCGTGTAAGGTAAAATGACCATAATGCCCCTGA-AGGGTAAAATGACCATAAT
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCT-ATAGGGTAAAATGACTGTAAT
* *
63872393 ACCCTTGTAGGGTAAAA
65 ACCCCTATAGGGTAAAA
* * *
63872410 TGATCGTAATACCCCTAT-AGGCTAAAATGACCCTAATACCCCTATAGGGTAAAATGACTGTAAT
1 TGACCGTAATACCCCTATAAGG-TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAAT
* *
63872474 GCCCCTATAGGGTTAAA
65 ACCCCTATAGGGTAAAA
* * * * *
63872491 TGACCGTAATAGCCCTTTATGATAAAATGACCGTAATGCCCCTATAGGGTTAAATGACTGTAATA
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATA
* * *
63872556 GCCCTGTAGGATAAAA
66 CCCCTATAGGGTAAAA
* * * * *
63872572 TAACCGTAATACCCCCATAAGGT-AAATGACCGTAATGCCCTTCTAGGGTAAAATGA-TCGTGAT
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACT-GTAAT
* *
63872635 ACCCCTATATGGCAAAA
65 ACCCCTATAGGGTAAAA
63872652 TGAC
1 TGAC
63872656 GAGTAGCCCT
Statistics
Matches: 202, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
79 1 0.00
80 53 0.26
81 147 0.73
82 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (81 bp):
TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTGTAATA
CCCCTATAGGGTAAAA
Found at i:63872836 original size:27 final size:25
Alignment explanation
Indices: 63872792--63872871 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 25
63872782 ATGGAGGAAG
* *
63872792 TACTGTACTGGTGACTATGTCACAT
1 TACTGTACTGGTGGCTATGCCACAT
63872817 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCAC-AT
* *
63872845 TACTGATACTGGTGGCTTTGGCACAT
1 TACTG-TACTGGTGGCTATGCCACAT
63872871 T
1 T
63872872 TGCTGTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 36 0.77
28 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (25 bp):
TACTGTACTGGTGGCTATGCCACAT
Found at i:63872883 original size:27 final size:27
Alignment explanation
Indices: 63872792--63872861 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
63872782 ATGGAGGAAG
* *
63872792 TACTG-TACTGGTGACTATGTCAC-AT
1 TACTGTTACTGGTGGCTATGCCACAAT
63872817 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGCCACAAT
*
63872845 TACTGATACTGGTGGCT
1 TACTGTTACTGGTGGCT
63872862 TTGGCACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 31 0.79
28 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACAAT
Found at i:63873096 original size:33 final size:33
Alignment explanation
Indices: 63873059--63873124 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
63873049 GCTTAGGCCC
* * *
63873059 ATACTGTTACTGTATAGGGCTAAGGCCCAGACT
1 ATACTGATACTGAATAGCGCTAAGGCCCAGACT
* *
63873092 ATACTGATACTGAATAGCGCTCAGGCCTAGACT
1 ATACTGATACTGAATAGCGCTAAGGCCCAGACT
63873125 GTTACCGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
ATACTGATACTGAATAGCGCTAAGGCCCAGACT
Found at i:63874173 original size:26 final size:25
Alignment explanation
Indices: 63874144--63874192 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
63874134 ATTAATTTTC
* *
63874144 TCAAAATTTTATTAGGGGTAAAATAG
1 TCAAAAATTTATT-GGAGTAAAATAG
63874170 TCAAAAATTTATTGGAGTAAAAT
1 TCAAAAATTTATTGGAGTAAAAT
63874193 TGGGATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (25 bp):
TCAAAAATTTATTGGAGTAAAATAG
Found at i:63876366 original size:21 final size:21
Alignment explanation
Indices: 63876327--63876367 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
63876317 ATTTGTGATT
*
63876327 TTTTTGAATTATTTTTTTATG
1 TTTTTGAATTATTTATTTATG
63876348 TTTTT-AATTATATTATTTAT
1 TTTTTGAATTAT-TTATTTAT
63876368 AATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTTGAATTATTTATTTATG
Found at i:63891901 original size:30 final size:30
Alignment explanation
Indices: 63891862--63891920 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
63891852 TGCCAAGCCT
*
63891862 AGGGGCAAAAGTGTAATTATGCAAAAGTTA
1 AGGGGCAAAAATGTAATTATGCAAAAGTTA
* * *
63891892 AGGGTCAAAAATGTAATTTTGCCAAAGTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTT
63891921 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (30 bp):
AGGGGCAAAAATGTAATTATGCAAAAGTTA
Found at i:63899229 original size:14 final size:14
Alignment explanation
Indices: 63899210--63899253 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
63899200 CTAATTTTTA
63899210 CAAGTTGTAATTTG
1 CAAGTTGTAATTTG
63899224 CAAG-T-TAATTTG
1 CAAGTTGTAATTTG
* *
63899236 CAAGTTGCAATATG
1 CAAGTTGTAATTTG
63899250 CAAG
1 CAAG
63899254 CGGTGCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (14 bp):
CAAGTTGTAATTTG
Found at i:63899234 original size:12 final size:12
Alignment explanation
Indices: 63899217--63899241 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63899207 TTACAAGTTG
63899217 TAATTTGCAAGT
1 TAATTTGCAAGT
63899229 TAATTTGCAAGT
1 TAATTTGCAAGT
63899241 T
1 T
63899242 GCAATATGCA
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:0.16, T:0.44
Consensus pattern (12 bp):
TAATTTGCAAGT
Found at i:63901843 original size:12 final size:12
Alignment explanation
Indices: 63901828--63901864 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
63901818 TTTAATTTGA
63901828 ATTTAGATTTAG
1 ATTTAGATTTAG
63901840 ATTTAGATTTAG
1 ATTTAGATTTAG
*
63901852 ATTT-GAATTAG
1 ATTTAGATTTAG
63901863 AT
1 AT
63901865 AATTTGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTTAGATTTAG
Found at i:63901849 original size:18 final size:17
Alignment explanation
Indices: 63901828--63901864 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
63901818 TTTAATTTGA
*
63901828 ATTTAGATTTAGATTTAG
1 ATTTAGATTT-GAATTAG
63901846 ATTTAGATTTGAATTAG
1 ATTTAGATTTGAATTAG
63901863 AT
1 AT
63901865 AATTTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
ATTTAGATTTGAATTAG
Found at i:63902771 original size:16 final size:15
Alignment explanation
Indices: 63902746--63902799 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
63902736 TAAAATCACA
*
63902746 AAATAAAATATAAAT
1 AAATTAAATATAAAT
* *
63902761 GAAATTCAATAATAAAA
1 -AAATTAAAT-ATAAAT
63902778 AAATTAAAT-TAAAT
1 AAATTAAATATAAAT
63902792 AAATTAAA
1 AAATTAAA
63902800 ACCACATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 12 0.38
16 15 0.47
17 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATTAAATATAAAT
Found at i:63902771 original size:21 final size:20
Alignment explanation
Indices: 63902746--63902794 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
63902736 TAAAATCACA
*
63902746 AAATAAAATATAAATGAAATT
1 AAATAAAA-AAAAATGAAATT
* *
63902767 CAATAATAAAAAAATTAAATT
1 AAATAA-AAAAAAATGAAATT
63902788 AAATAAA
1 AAATAAA
63902795 TTAAAACCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAAAAAAAATGAAATT
Found at i:63906992 original size:21 final size:21
Alignment explanation
Indices: 63906946--63906992 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
63906936 TTTCGTTTTT
*
63906946 CTTTTAGGTTTCAAATTTCGG
1 CTTTTAGGTTTCAAATTTCGA
* * *
63906967 GTTTTAGGTTTCAAGTTTTGA
1 CTTTTAGGTTTCAAATTTCGA
63906988 CTTTT
1 CTTTT
63906993 GATTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (21 bp):
CTTTTAGGTTTCAAATTTCGA
Found at i:63907119 original size:20 final size:20
Alignment explanation
Indices: 63907094--63907138 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
63907084 ACAGTGCATT
*
63907094 AAATATCCTACCGTGAGGGA
1 AAATATCCTACCATGAGGGA
*
63907114 AAATATCCTATCATGAGGGA
1 AAATATCCTACCATGAGGGA
*
63907134 TAATA
1 AAATA
63907139 AACATTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (20 bp):
AAATATCCTACCATGAGGGA
Found at i:63912972 original size:43 final size:42
Alignment explanation
Indices: 63912873--63912992 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
63912863 AGGGTTACTA
* * *
63912873 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTTCATGTAAGACCATAGCTGGGATATGGCATCGATACG
* * * * *
63912915 AGACTTCGTATAAGACTATAGCTGGGTTATTGGCATCGATACG
1 AGATTTCATGTAAGACCATAGCTGGGATA-TGGCATCGATACG
**
63912958 AGATTTCATGTAAGACCATATTTGGGATATGGCAT
1 AGATTTCATGTAAGACCATAGCTGGGATATGGCAT
63912993 TGGTATGGTA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
AGATTTCATGTAAGACCATAGCTGGGATATGGCATCGATACG
Found at i:63923602 original size:15 final size:16
Alignment explanation
Indices: 63923573--63923602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63923563 CAAACATGCT
63923573 TTAACACATTATCAAA
1 TTAACACATTATCAAA
63923589 TTAACACA-TATCAA
1 TTAACACATTATCAA
63923603 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:63934455 original size:40 final size:40
Alignment explanation
Indices: 63934260--63934441 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
63934250 AATGATGTCT
* * * *
63934260 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
63934300 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
*
63934340 GGGCTAAG-CCCGAAGGCATTTCTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* * *
63934379 GGGTTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
63934419 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
63934442 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.29
40 75 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:63934463 original size:79 final size:79
Alignment explanation
Indices: 63934310--63934474 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
63934300 GGACTAAGAT
* * **
63934310 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTCTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTCAACGAGTTACTAA
*
63934375 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
63934389 CCGAAGGCAATTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTCAACGAGTTA-C
* *
63934452 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
63934468 CCGAAGG
1 CCGAAGG
63934475 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTCAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:63936200 original size:12 final size:12
Alignment explanation
Indices: 63936183--63936208 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
63936173 TGAGCAATTA
63936183 GTCAATTTGGGT
1 GTCAATTTGGGT
63936195 GTCAATTTGGGT
1 GTCAATTTGGGT
63936207 GT
1 GT
63936209 TAGTCTGTTT
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:0.15, C:0.08, G:0.35, T:0.42
Consensus pattern (12 bp):
GTCAATTTGGGT
Found at i:63941657 original size:55 final size:55
Alignment explanation
Indices: 63941530--63941659 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 55
63941520 CGTGAGACAT
* * *
63941530 AACCGTGGTCGAACCTGCTAAAACAACACGGGCGTGCGACACGCTCGTGTGGAAG
1 AACCGTGGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAG
* ** * *
63941585 AACCGTGGGT-GAACCTGTTAAAATAGTACGGGCGTGTGACACGCCCGTGT-CTAG
1 AACCGT-GGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAG
*
63941639 CACCCGTGGTCGAACCTGTTA
1 -AACCGTGGTCGAACCTGTTA
63941660 GATTGACACG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
54 5 0.08
55 55 0.87
56 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (55 bp):
AACCGTGGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTGCAAG
Found at i:63945638 original size:13 final size:13
Alignment explanation
Indices: 63945620--63945647 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63945610 AAAGCACGAT
63945620 TCACACGGGCGTG
1 TCACACGGGCGTG
63945633 TCACACGGGCGTG
1 TCACACGGGCGTG
63945646 TC
1 TC
63945648 CCTGCCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:63950643 original size:27 final size:27
Alignment explanation
Indices: 63950591--63950645 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
63950581 TACTGTTTTG
* *
63950591 GTGGCTTTGCCACGTATTCTGATATTA
1 GTGGCTATGCCACGTATACTGATATTA
*
63950618 GTGGCTATGCCACGTGTACT-ATTATTA
1 GTGGCTATGCCACGTATACTGA-TATTA
63950645 G
1 G
63950646 CAGCTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACGTATACTGATATTA
Found at i:63959549 original size:17 final size:17
Alignment explanation
Indices: 63959524--63959567 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
63959514 CATAGCAACC
*
63959524 CACATTTTTCATTTATT
1 CACACTTTTCATTTATT
63959541 CACACTTTTCATTTATT
1 CACACTTTTCATTTATT
63959558 CACACTTTTC
1 CACACTTTTC
63959568 TACACATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (17 bp):
CACACTTTTCATTTATT
Found at i:63960816 original size:18 final size:18
Alignment explanation
Indices: 63960795--63960831 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
63960785 GAATGAGGCC
63960795 TAAGGGAGAGCTAACGTA
1 TAAGGGAGAGCTAACGTA
63960813 TAAGGGAGAGCTAACGTA
1 TAAGGGAGAGCTAACGTA
63960831 T
1 T
63960832 CTTATGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (18 bp):
TAAGGGAGAGCTAACGTA
Found at i:63961778 original size:31 final size:31
Alignment explanation
Indices: 63961740--63961799 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
63961730 AGCTTGAAGA
63961740 GACTAGACCTCTCTATTTTTATCAAACTATT
1 GACTAGACCTCTCTATTTTTATCAAACTATT
63961771 GACTAGACCTCTCTATTTTTATCAAACTA
1 GACTAGACCTCTCTATTTTTATCAAACTA
63961800 CTCTCCTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (31 bp):
GACTAGACCTCTCTATTTTTATCAAACTATT
Found at i:63966625 original size:19 final size:20
Alignment explanation
Indices: 63966601--63966638 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63966591 GGTACCACCA
63966601 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63966620 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63966639 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63966934 original size:46 final size:46
Alignment explanation
Indices: 63966867--63967037 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
63966857 CGCCCCTAAG
* * *
63966867 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
* * * * **
63966913 TGAACTCGGAATCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-AAA
* ** * *
63966960 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
63967006 TGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG
63967038 CTCAACCATC
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 64 0.65
47 35 0.35
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
Found at i:63966978 original size:93 final size:93
Alignment explanation
Indices: 63966868--63967038 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
63966858 GCCCCTAAGT
***
63966868 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGAATCAACTCAA
63966933 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
63966961 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGAATCAACTCAA
63967026 CGAGTTCGGATGC
66 CGAGTTCGGATGC
63967039 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGAATCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63974695 original size:45 final size:45
Alignment explanation
Indices: 63974613--63974698 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
63974603 TACTAATATA
* * *
63974613 TCAGCTCGAAAGAGCTTACTGTTTAGCTTATTGGAGCTTACCGTT
1 TCAGCTCGAAAGAGCTTACAGTTCAGCTTATTAGAGCTTACCGTT
* *
63974658 TCAGCTCGTATGAGCTTACAGTTCAGCTTGA-TAGAGCTTAC
1 TCAGCTCGAAAGAGCTTACAGTTCAGCTT-ATTAGAGCTTAC
63974699 TGTTCATCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 34 0.97
46 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (45 bp):
TCAGCTCGAAAGAGCTTACAGTTCAGCTTATTAGAGCTTACCGTT
Found at i:63974703 original size:22 final size:22
Alignment explanation
Indices: 63974613--63974704 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
63974603 TACTAATATA
*
63974613 TCAGCTCGAAAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
* * * *
63974635 TTAGCT-TATTGGAGCTTACCGTT
1 TCAGCTCGA-TAGAGCTTACTG-T
*
63974658 TCAGCTCG-TATGAGCTTACAGT
1 TCAGCTCGATA-GAGCTTACTGT
*
63974680 TCAGCTTGATAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
63974702 TCA
1 TCA
63974705 TCAGCTTAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.02
22 36 0.67
23 17 0.31
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (22 bp):
TCAGCTCGATAGAGCTTACTGT
Found at i:63974731 original size:26 final size:25
Alignment explanation
Indices: 63974680--63974731 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
63974670 AGCTTACAGT
* *
63974680 TCAGCTTGATAGAGCTTACTGTTCA
1 TCAGCTTGATAGAGCTTACCGATCA
63974705 TCAGCTTAGA-AGAAGCTTACCGATCA
1 TCAGCTT-GATAG-AGCTTACCGATCA
63974731 T
1 T
63974732 GGCTCGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
TCAGCTTGATAGAGCTTACCGATCA
Found at i:63993544 original size:25 final size:25
Alignment explanation
Indices: 63993515--63993564 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
63993505 GGAGAAATGG
63993515 AATCATTTAGAAATGAATTTAGGTT
1 AATCATTTAGAAATGAATTTAGGTT
*
63993540 AATCATTTGGAAATGAATTTAGGTT
1 AATCATTTAGAAATGAATTTAGGTT
63993565 TTCAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (25 bp):
AATCATTTAGAAATGAATTTAGGTT
Found at i:63993773 original size:26 final size:26
Alignment explanation
Indices: 63993738--63993788 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
63993728 TTCTCGAATT
*
63993738 TTTACAAGGGGCAAAATCGTCAAAAA
1 TTTACAAGGGGCAAAATCATCAAAAA
* *
63993764 TTTACCAGGGGTAAAATCATCAAAA
1 TTTACAAGGGGCAAAATCATCAAAA
63993789 TTTTGTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.22
Consensus pattern (26 bp):
TTTACAAGGGGCAAAATCATCAAAAA
Found at i:63998032 original size:44 final size:43
Alignment explanation
Indices: 63997946--63998045 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 43
63997936 CAGAAAACTT
* *
63997946 GCACACTTAGTGCCTAATAAATAGCTGAAGCTATATCAATCTC
1 GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
* * * *
63997989 TCACACTAAGTGCATATATATATAG-TCGAAGCTATCTCGATCTC
1 GCACACTAAGTGCATA-ATAAATAGCT-GAAGCTATATCAATCTC
63998033 GCACACTAAGTGC
1 GCACACTAAGTGC
63998046 CAAAAATTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 14 0.29
44 34 0.71
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
Found at i:64003942 original size:25 final size:25
Alignment explanation
Indices: 64003884--64003952 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
64003874 CTTGATCATA
64003884 AATTGAATAAATATAAAATATTAAT
1 AATTGAATAAATATAAAATATTAAT
* * *
64003909 GATTCAATAAAT-TGAAAA-ATTCGAT
1 AATTGAATAAATAT-AAAATATT-AAT
64003934 AATTGAATAAA-ATTAAAAT
1 AATTGAATAAATA-TAAAAT
64003953 TTAGGAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.12
25 29 0.85
26 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (25 bp):
AATTGAATAAATATAAAATATTAAT
Found at i:64004687 original size:29 final size:29
Alignment explanation
Indices: 64004630--64004689 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
64004620 GCTTTTTGAA
* * *
64004630 AATATTTACAAAAAAGGCATCTAATTTTT
1 AATATTTACAAAAAAGGCAACCAAATTTT
64004659 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAG-GCAACCAAATTTT
64004688 AA
1 AA
64004690 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
AATATTTACAAAAAAGGCAACCAAATTTT
Found at i:64006013 original size:14 final size:15
Alignment explanation
Indices: 64005991--64006019 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64005981 CAAAAGAATC
64005991 TGGCTTGCAATACGT
1 TGGCTTGCAATACGT
64006006 TGGC-TGCAATACGT
1 TGGCTTGCAATACGT
64006020 GTATGTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
TGGCTTGCAATACGT
Found at i:64007090 original size:41 final size:41
Alignment explanation
Indices: 64007033--64007115 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
64007023 ATTAGGGACC
* * * *
64007033 AAATTGAATAACTTGCAAAACTTGGGTTCTAGAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
64007074 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
64007115 A
1 A
64007116 CATGAAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (41 bp):
AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
Found at i:64013635 original size:46 final size:45
Alignment explanation
Indices: 64013583--64013755 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
64013573 GTTGAGCATC
*
64013583 CGAACTCGTTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
* * * * *
64013629 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TT
* * *
64013676 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
*
64013722 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
64013756 GGCGGGTTAC
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 55 0.53
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTT
Found at i:64013702 original size:93 final size:93
Alignment explanation
Indices: 64013578--64013748 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64013568 GGATGGTTGA
* * *
64013578 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
64013643 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
64013671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
64013736 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64013749 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64016413 original size:22 final size:22
Alignment explanation
Indices: 64016344--64016403 Score: 93
Period size: 23 Copynumber: 2.7 Consensus size: 22
64016334 CCAGAGATGA
*
64016344 TGAATAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
64016366 TGAAACGGTAAGCTCTATTGAGC
1 TG-AACAGTAAGCTCTATTGAGC
64016389 TGAACAGTAAGCTCT
1 TGAACAGTAAGCTCT
64016404 TACGAGCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:64030825 original size:74 final size:74
Alignment explanation
Indices: 64030704--64030854 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
64030694 ACTACTTTTT
64030704 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
1 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
64030769 CTCTGAATC
66 CTCTGAATC
64030778 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
1 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
64030843 CTCTGAATC
66 CTCTGAATC
64030852 GGA
1 GGA
64030855 CGATTTATTC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (74 bp):
GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
CTCTGAATC
Found at i:64067775 original size:19 final size:19
Alignment explanation
Indices: 64067747--64067785 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
64067737 AGAGCGAAAG
64067747 AAATGAG-AAACGGGCCAA
1 AAATGAGAAAACGGGCCAA
*
64067765 AAATGGAGAAAATGGGCCAA
1 AAAT-GAGAAAACGGGCCAA
64067785 A
1 A
64067786 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.13, G:0.28, T:0.08
Consensus pattern (19 bp):
AAATGAGAAAACGGGCCAA
Done.