Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 321 of 345
Found at i:108122855 original size:26 final size:25
Alignment explanation
Indices: 108122776--108122915 Score: 87
Period size: 25 Copynumber: 5.8 Consensus size: 25
108122766 CTAGATTACG
* *
108122776 TATATATATA-TT-ATACTATTTTA
1 TATATATATATTTAATATTATATTA
* *
108122799 TGTATATATCTTTAATATTATATTA
1 TATATATATATTTAATATTATATTA
* * *
108122824 TTTATATATATTTACATGTTATCTTA
1 TATATATATATTTA-ATATTATATTA
* *
108122850 TATATATAT-CTT-A-ACTATATTA
1 TATATATATATTTAATATTATATTA
* * *
108122872 TGTATAT-T-TTTAACACTATATTA
1 TATATATATATTTAATATTATATTA
* * *
108122895 TGTACATATTTTTAATATTAT
1 TATATATATATTTAATATTAT
108122916 CACGTATTTA
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.03
22 13 0.14
23 24 0.26
24 3 0.03
25 32 0.35
26 17 0.18
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
TATATATATATTTAATATTATATTA
Found at i:108122909 original size:25 final size:23
Alignment explanation
Indices: 108122863--108122909 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
108122853 ATATATCTTA
108122863 ACTATATTATGTATATTTTTAAC
1 ACTATATTATGTATATTTTTAAC
108122886 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGT--ATATTTTTAA
108122910 TATTATCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (23 bp):
ACTATATTATGTATATTTTTAAC
Found at i:108123089 original size:8 final size:8
Alignment explanation
Indices: 108123063--108123114 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
108123053 TAATTATTAT
*
108123063 TATTCTAA
1 TATTTTAA
* *
108123071 TGTTTTGA
1 TATTTTAA
108123079 TATTTTAA
1 TATTTTAA
108123087 TA-TTTAA
1 TATTTTAA
108123094 TATTTTATA
1 TATTTTA-A
*
108123103 TATTTTAT
1 TATTTTAA
108123111 TATT
1 TATT
108123115 CGCATCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 21 0.58
9 8 0.22
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:108123090 original size:24 final size:25
Alignment explanation
Indices: 108123063--108123115 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
108123053 TAATTATTAT
*
108123063 TATTCTAATGTTTT-GATATTTTAA
1 TATTCTAATATTTTAGATATTTTAA
* *
108123087 TATT-TAATATTTTATATATTTTAT
1 TATTCTAATATTTTAGATATTTTAA
108123111 TATTC
1 TATTC
108123116 GCATCATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTCTAATATTTTAGATATTTTAA
Found at i:108123098 original size:15 final size:16
Alignment explanation
Indices: 108123078--108123107 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108123068 TAATGTTTTG
108123078 ATATTTTA-ATATTTA
1 ATATTTTATATATTTA
108123093 ATATTTTATATATTT
1 ATATTTTATATATTT
108123108 TATTATTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTTATATATTTA
Found at i:108124858 original size:25 final size:22
Alignment explanation
Indices: 108124812--108124872 Score: 95
Period size: 25 Copynumber: 2.6 Consensus size: 22
108124802 ATTTTTGAAA
108124812 TTTTTGTTACATGTTTTTCATG
1 TTTTTGTTACATGTTTTTCATG
108124834 TTTTTGTTACAGGTGGTTTTTCATG
1 TTTTTGTTACA--T-GTTTTTCATG
108124859 TTTTTGTTACATGT
1 TTTTTGTTACATGT
108124873 AAGTTTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.36
23 1 0.03
24 1 0.03
25 21 0.58
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.61
Consensus pattern (22 bp):
TTTTTGTTACATGTTTTTCATG
Found at i:108128836 original size:17 final size:17
Alignment explanation
Indices: 108128814--108128848 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
108128804 GGTTAACGAA
108128814 ACATGATAGAGAATTTG
1 ACATGATAGAGAATTTG
*
108128831 ACATGATAGGGAATTTG
1 ACATGATAGAGAATTTG
108128848 A
1 A
108128849 TGTTGTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (17 bp):
ACATGATAGAGAATTTG
Found at i:108136636 original size:56 final size:56
Alignment explanation
Indices: 108136549--108136692 Score: 207
Period size: 56 Copynumber: 2.6 Consensus size: 56
108136539 AGGCATCAAC
* * *
108136549 ATGTGAATCCGATATATGTGTGCGAGAAAGACCACGTTTTATACGTCGACATAGAT
1 ATGTGAATCTGATATATGTGTGCGAGTAAGACCACGTTTTATACATCGACATAGAT
* * *
108136605 ATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTTATACATTGACATCGAT
1 ATGTGAATCTGATATATGTGTGCGAGTAAGACCACGTTTTATACATCGACATAGAT
* * *
108136661 ATGTGACTCTAATATATGTGTTCGAGTAAGAC
1 ATGTGAATCTGATATATGTGTGCGAGTAAGAC
108136693 TTTGTCTGAG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
ATGTGAATCTGATATATGTGTGCGAGTAAGACCACGTTTTATACATCGACATAGAT
Found at i:108136714 original size:56 final size:56
Alignment explanation
Indices: 108136560--108136722 Score: 166
Period size: 56 Copynumber: 2.9 Consensus size: 56
108136550 TGTGAATCCG
* * * * * * *
108136560 ATATATGTGTGCGAGAAAGACCACGTTTTATAC-GTCGACATAGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTCTGAGACAGT-GACATCGATATGTGACTCTA
* * * *
108136616 ATATATGTGTGCGAGTAAGACCACGTTTTATACATTGACATCGATATGTGACTCTA
1 ATATATGTGTGCGAGTAAGACCACGTCTGAGACAGTGACATCGATATGTGACTCTA
* *** *
108136672 ATATATGTGTTCGAGTAAGACTTTGTCTGAGACAGTGGCATCGATATGTGA
1 ATATATGTGTGCGAGTAAGACCACGTCTGAGACAGTGACATCGATATGTGA
108136723 TTACATGTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
56 91 0.99
57 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTCTGAGACAGTGACATCGATATGTGACTCTA
Found at i:108142305 original size:15 final size:15
Alignment explanation
Indices: 108142279--108142317 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
108142269 AATAAGAATA
*
108142279 AAAATAAATAATATGT
1 AAAAT-AATAATATAT
108142295 AAAATAATAATATAT
1 AAAATAATAATATAT
*
108142310 AAATTAAT
1 AAAATAAT
108142318 TTTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATAATAATATAT
Found at i:108144410 original size:18 final size:17
Alignment explanation
Indices: 108144389--108144425 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
108144379 ATAACTAAAA
108144389 ATTTATAAATGTATATAT
1 ATTTATAAATGTATA-AT
108144407 ATTTATAAATGTATAAT
1 ATTTATAAATGTATAAT
108144424 AT
1 AT
108144426 AAATGGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTTATAAATGTATAAT
Found at i:108145844 original size:3 final size:3
Alignment explanation
Indices: 108145820--108145971 Score: 74
Period size: 3 Copynumber: 49.7 Consensus size: 3
108145810 TGGATTGCTA
* * * * *
108145820 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * *
108145866 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATC GTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
108145912 -TAT ATAC ATC ATT ATT ATT ACT ATT ATT TTT CACT ATT ATT ATT -TT
1 AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* *
108145958 ACT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
108145972 ATACTATAGT
Statistics
Matches: 107, Mismatches: 36, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
2 3 0.03
3 94 0.88
4 10 0.09
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:108145878 original size:28 final size:28
Alignment explanation
Indices: 108145836--108145965 Score: 112
Period size: 28 Copynumber: 4.8 Consensus size: 28
108145826 ATTATCATTG
108145836 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
108145864 TTGTTATTATTCTTACTA-T-TATA-TG
1 TTATTATTATTCTTACTATTATATATTA
*
108145889 TTATTATTA-TCGTTACTATTATTTA-TA
1 TTATTATTATTC-TTACTATTATATATTA
* * * *
108145916 TACATCATTATTATTACTATTAT-TTTTCA
1 T-TATTATTATTCTTACTATTATATATT-A
*
108145945 CTATTATTATT-TTACTATTAT
1 TTATTATTATTCTTACTATTAT
108145966 TTTTATATAC
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
24 2 0.02
25 15 0.18
26 5 0.06
27 17 0.20
28 42 0.51
29 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:108145926 original size:53 final size:55
Alignment explanation
Indices: 108145820--108145965 Score: 140
Period size: 53 Copynumber: 2.7 Consensus size: 55
108145810 TGGATTGCTA
* ** *
108145820 ATTAATATTATCATTGTTATTATTATTCTTACTATTATATATTATTGTTATTATT
1 ATTACTATTATCATTGTTATTATTATTCTTACTATTATATATTATCATCATTATT
* *
108145875 CTTACTATTAT-A-TGTTATTATTA-TCGTTACTATTATTTA-TATACATCATTATT
1 ATTACTATTATCATTGTTATTATTATTC-TTACTATTATATATTAT-CATCATTATT
** **
108145928 ATTACTATTATTTTTCACTATTATTATT-TTACTATTAT
1 ATTACTATTATCATT-GTTATTATTATTCTTACTATTAT
108145966 TTTTATATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
52 5 0.07
53 40 0.53
54 1 0.01
55 20 0.27
56 8 0.11
57 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (55 bp):
ATTACTATTATCATTGTTATTATTATTCTTACTATTATATATTATCATCATTATT
Found at i:108145954 original size:16 final size:14
Alignment explanation
Indices: 108145837--108145966 Score: 87
Period size: 14 Copynumber: 9.5 Consensus size: 14
108145827 TTATCATTGT
108145837 TATTATTATTCTTAC
1 TATTATTATT-TTAC
* *
108145852 TATTA-TATATTAT
1 TATTATTATTTTAC
*
108145865 TGTTATTATTCTTAC
1 TATTATTATT-TTAC
*
108145880 TATTA-TA-TGT--
1 TATTATTATTTTAC
*
108145890 TATTATTATCGTTAC
1 TATTATTAT-TTTAC
*
108145905 TATTATT-TATATAC
1 TATTATTAT-TTTAC
*
108145919 -ATCATTATTATTAC
1 TATTATTATT-TTAC
*
108145933 TATTATT-TTTCAC
1 TATTATTATTTTAC
108145946 TATTATTATTTTAC
1 TATTATTATTTTAC
108145960 TATTATT
1 TATTATT
108145967 TTTATATACT
Statistics
Matches: 87, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
10 5 0.06
11 2 0.02
12 1 0.01
13 25 0.29
14 30 0.34
15 24 0.28
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTATTATTTTAC
Found at i:108145976 original size:16 final size:15
Alignment explanation
Indices: 108145901--108145978 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 15
108145891 ATTATTATCG
*
108145901 TTACTATTATTTATA
1 TTACTATTATTTTTA
* *
108145916 -TAC-ATCATTATTA
1 TTACTATTATTTTTA
108145929 TTACTATTA-TTTT-
1 TTACTATTATTTTTA
* *
108145942 TCACTATTATTATT-
1 TTACTATTATTTTTA
108145956 TTACTATTATTTTTA
1 TTACTATTATTTTTA
108145971 TATACTAT
1 T-TACTAT
108145979 AGTGGTTCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
13 15 0.31
14 24 0.49
15 4 0.08
16 6 0.12
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (15 bp):
TTACTATTATTTTTA
Found at i:108149808 original size:19 final size:19
Alignment explanation
Indices: 108149784--108149829 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
108149774 CTCTTTAGTC
*
108149784 TTGCATT-CATCTCATACAT
1 TTGCATTACATCGCAT-CAT
108149803 TTGCATTACATCGCATCAT
1 TTGCATTACATCGCATCAT
*
108149822 GTGCATTA
1 TTGCATTA
108149830 AACTTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGCATTACATCGCATCAT
Found at i:108152280 original size:46 final size:46
Alignment explanation
Indices: 108152233--108152506 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
108152223 GCTCTCTGAT
** * * *
108152233 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
108152279 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
108152325 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
108152371 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
108152417 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
108152463 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
108152507 TCAAAGATAA
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:108152386 original size:92 final size:92
Alignment explanation
Indices: 108152229--108152501 Score: 393
Period size: 92 Copynumber: 3.0 Consensus size: 92
108152219 GAGTGCTCTC
** * * * * *
108152229 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
108152294 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* * *
108152321 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* *
108152386 CCATGGTTGAAAGATACCATGGTAGCG
66 CCATGGTTGAAAGATACCATGGCAACG
* *
108152413 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* * *
108152478 CCATAGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
108152502 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 160 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:108152809 original size:16 final size:17
Alignment explanation
Indices: 108152788--108152820 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108152778 ATAATGGAGC
108152788 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
108152804 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
108152821 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:108161346 original size:44 final size:44
Alignment explanation
Indices: 108161298--108161442 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 44
108161288 GATCTTATCT
*
108161298 CCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGTAGATCGAAGACGATGAGCCTTAACC
* * * ** * * * *
108161342 CCCTAAGTAGTAG-GGCAATAG-GCTGAAGATTA-CAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGTAGATC-GAAGACGATGAG-CCTTAACC
* *
108161386 CCCTAAGCAGTAATGGAGCAGATCGAAGACGATGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGTAGATCGAAGACGATGAGCCTTAACC
*
108161430 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
108161443 GGCAACAGGC
Statistics
Matches: 72, Mismatches: 23, Indels: 12
0.67 0.21 0.11
Matches are distributed among these distances:
43 5 0.07
44 62 0.86
45 5 0.07
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGTAGATCGAAGACGATGAGCCTTAACC
Found at i:108161395 original size:88 final size:88
Alignment explanation
Indices: 108161246--108161662 Score: 624
Period size: 88 Copynumber: 4.7 Consensus size: 88
108161236 TCTCCACTAA
* * *
108161246 CCTTAATCCCCTAAGCAGTAGGGCAACAGGCTG-GGAATTACAGATCTTATCTCCCTAAGCAGTA
1 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAG-ATTACAGATCTTATCTCCCTAAGCAGTA
*
108161310 GTGGAGTAGATCGAAGACGGTGAG
65 GTGGAGCAGATCGAAGACGGTGAG
* *
108161334 CCTTAACCCCCTAAGTAGTAGGGCAATAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAA
1 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
*
108161399 TGGAGCAGATCGAAGACGATGAG
66 TGGAGCAGATCGAAGACGGTGAG
*
108161422 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
*
108161487 TAGAGCAGATCGAAGACGGTGAG
66 TGGAGCAGATCGAAGACGGTGAG
* * * *
108161510 CCTTAACCCCTTAAGTAGTAGGGCAACAGGCTGGAA-ATTATAGATCTTATCTCCCTAATCAATA
1 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAGTA
**
108161574 GTGGAATAGATCGAAGACGGTGAG
65 GTGGAGCAGATCGAAGACGGTGAG
* * *
108161598 CCTTAACCCCCTAAATAGTAGGGCAACAGGCTGGAA-ATTACAGATCTTATCCCCCTAAGTAGTA
1 CCTTAACCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAGTA
108161662 G
65 G
108161663 GGCAACAGGC
Statistics
Matches: 300, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
88 296 0.99
89 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (88 bp):
CCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACGGTGAG
Found at i:108161458 original size:44 final size:45
Alignment explanation
Indices: 108161320--108161758 Score: 184
Period size: 44 Copynumber: 10.0 Consensus size: 45
108161310 GTGGAGTAGA
* *
108161320 TCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGCAATAGGC
1 TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
** * * * * * * * *
108161365 T-GAAGATTA-CAGATCTTATCTCCCTAAGCAGTAATGG-AGCA-GA
1 TCGAAGACGATGAG-CCTTAACCCCCTAAGTAGT-AGGGCAACAGGC
108161408 TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
1 TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
** * ** * * * * * *
108161453 T-GAAGATTA-CAGATATTATCTCCCTAAGCAGTAGTAG-AGCA-GA
1 TCGAAGACGATGAG-CCTTAACCCCCTAAGTAGTAG-GGCAACAGGC
* *
108161496 TCGAAGACGGTGAGCCTTAACCCCTTAAGTAGTAGGGCAACAGGC
1 TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
* ** * * * * * *
108161541 TGGAA-ATTAT-AGATCTTATCTCCCTAA-TCAATAGTGG-AATA-GA
1 TCGAAGACGATGAG-CCTTAACCCCCTAAGT-AGTAG-GGCAACAGGC
* *
108161584 TCGAAGACGGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGGC
1 TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
* * * *
108161629 TGGAAATTAC-A-GA-TCTTATCCCCCTAAGTAGTAGGGCAACAGGC
1 TCG-AA-GACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
* * * * **
108161673 TGGAAATTAC-A-GA-TCTTATCCCCCTAAGTAGTAGTGG-AACA-AA
1 TCG-AA-GACGATGAGCCTTAACCCCCTAAGTAGTAG-GGCAACAGGC
*
108161716 TCGAAGAC-AGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 TCGAAGACGA-TGAGCCTTAACCCCCTAAGTAGTAGGGCAACAG
108161759 ACTGAATATT
Statistics
Matches: 287, Mismatches: 79, Indels: 56
0.68 0.19 0.13
Matches are distributed among these distances:
41 3 0.01
42 2 0.01
43 28 0.10
44 222 0.77
45 28 0.10
46 2 0.01
47 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (45 bp):
TCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGC
Found at i:108161667 original size:132 final size:132
Alignment explanation
Indices: 108161511--108161794 Score: 401
Period size: 132 Copynumber: 2.2 Consensus size: 132
108161501 GACGGTGAGC
* * * *
108161511 CTTAACCCCTTAAGTAGTAGGGCAACAGGCTGGAAATTATAGATCTTATCTCCCTAA-TCAATAG
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGT-AATAG
* * * *
108161575 TGGAATAGATCGAAGACGGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGGCTGGAA-ATTAC
65 TGGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGACT-GAATATTAC
108161639 AGAT
129 AGAT
*
108161643 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGTAGTAGT
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGTAATAGT
* * *
108161708 GGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGACTGAATATTATAG
66 GGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGACTGAATATTACAG
108161773 AT
131 AT
* * *
108161775 ATTATCTCCCTAAGCAGTAG
1 CTTATCCCCCTAAGTAGTAG
108161795 TGGAGTAGAT
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
131 3 0.02
132 131 0.97
133 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (132 bp):
CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGTAATAGT
GGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGACTGAATATTACAG
AT
Found at i:108161758 original size:88 final size:88
Alignment explanation
Indices: 108161643--108162156 Score: 573
Period size: 88 Copynumber: 5.8 Consensus size: 88
108161633 AATTACAGAT
* * * * *
108161643 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAA-ATTACAGATCTTATCCCCCTAAGTAGTAG
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* *
108161707 TGGAACAAATCGAAGACAGTGAGC
65 TGGAGCAGATCGAAGACAGTGAGC
* * * * * * *
108161731 CTTAACCCCCTAAGTAGTAGGGTAACAGACTGAATATTATAGATATTATCTCCCTAAGCAGTAGT
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
*
108161796 GGAGTAGATCGAAGACAGTGAGC
66 GGAGCAGATCGAAGACAGTGAGC
* * * *
108161819 CTTAACCCCCCAACCAATAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAATCAGTAAT
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
108161884 GGAGCAGATCGAAGACAGTGAGC
66 GGAGCAGATCGAAGACAGTGAGC
* * *
108161907 TTTGACCCCCTAAGCAATAGGGCAACAGGCTGGAA-ATTACAGATCTTATCTCTCTAAGCAGTAG
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* *
108161971 TGGAGCAGATCGAAGACAATAAGC
65 TGGAGCAGATCGAAGACAGTGAGC
* * * * * * * * *
108161995 TTTATCCCCCTAAGCAGTAGGGAAACAAGCTGAAAATGACAGACCACCTTATCTCCTTAAGCAGT
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCTGAAGATTACAG---ATCTTATCTCCCTAAGCAGT
* *
108162060 AGTGGAGCAGATCGCAGACGGTGAGC
63 AGTGGAGCAGATCGAAGACAGTGAGC
* * * * * * * * *
108162086 CTTATCCTCCTAAGCAATAGGGAAACAGGCTGAAGAATACAAATCATGTCTCCCTAAGTAGTAGC
1 CTTAACCCCCTAAGCAATAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
108162151 GGAGCA
66 GGAGCA
108162157 AATTGAAACA
Statistics
Matches: 362, Mismatches: 58, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
87 6 0.02
88 280 0.77
89 3 0.01
91 73 0.20
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (88 bp):
CTTAACCCCCTAAGCAATAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACAGTGAGC
Found at i:108161810 original size:220 final size:220
Alignment explanation
Indices: 108161423--108161875 Score: 669
Period size: 220 Copynumber: 2.1 Consensus size: 220
108161413 GACGATGAGC
* *
108161423 CTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGT
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATATTATCCCCCTAAGCAGTAGT
* * * * *
108161488 AGAGCAGATCGAAGACGGTGAGCCTTAACCCCTTAAGTAGTAGGGCAACAGGCTGGAAATTATAG
66 AGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGGAAATTATAG
* * * * * *
108161553 ATCTTATCTCCCTAATCAATAGTGGAATAGATCGAAGACGGTGAGCCTTAACCCCCTAAATAGTA
131 ATATTATCTCCCTAAGCAATAGTGGAATAGATCGAAGACAGTGAGCCTTAACCCCCCAAACAATA
108161618 GGGCAACAGGCTGGAA-ATTACAGAT
196 GGGCAACAGGCT-GAAGATTACAGAT
* *
108161643 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAA-ATTACAGATCTTATCCCCCTAAGTAGTAG
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATATTATCCCCCTAAGCAGTAG
* *
108161707 TGGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGACT-GAATATTAT
65 TAGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGGAA-ATTAT
* * *
108161771 AGATATTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAACCAA
129 AGATATTATCTCCCTAAGCAATAGTGGAATAGATCGAAGACAGTGAGCCTTAACCCCCCAAACAA
108161836 TAGGGCAACAGGCTGAAGATTACAGAT
194 TAGGGCAACAGGCTGAAGATTACAGAT
*
108161863 CTTATCTCCCTAA
1 CTTATCCCCCTAA
108161876 TCAGTAATGG
Statistics
Matches: 209, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
219 6 0.03
220 200 0.96
221 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (220 bp):
CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATATTATCCCCCTAAGCAGTAGT
AGAACAAATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGGAAATTATAG
ATATTATCTCCCTAAGCAATAGTGGAATAGATCGAAGACAGTGAGCCTTAACCCCCCAAACAATA
GGGCAACAGGCTGAAGATTACAGAT
Found at i:108161898 original size:308 final size:308
Alignment explanation
Indices: 108161335--108161970 Score: 927
Period size: 308 Copynumber: 2.1 Consensus size: 308
108161325 GACGGTGAGC
* * *
108161335 CTTAACCCCCTAAGTAGTAGGGCAATAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAAT
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCCCCCTAAGCAGTAAT
* * *
108161400 GGAGCAGATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAG
66 GGAACAAATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTACAG
* ** ** *
108161465 ATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAGCCTTAACCCCTTAAGTAGTA
131 ATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAACCAATA
* * * *
108161530 GGGCAACAGGCTGGAAATTATAGATCTTATCTCCCTAATCAATAGTGGAATAGATCGAAGACGGT
196 GGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAATCAATAATGGAACAGATCGAAGACAGT
* *
108161595 GAGCCTTAACCCCCTAAATAGTAGGGCAACAGGCTGGAAATTACAGAT
261 GAGCCTTAACCCCCTAAACAATAGGGCAACAGGCTGGAAATTACAGAT
* *
108161643 CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGGAA-ATTACAGATCTTATCCCCCTAAGTAGTAG
1 CTTATCCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCCCCCTAAGCAGTAA
* * *
108161707 TGGAACAAATCGAAGAC-AGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGACTGAATATTAT
65 TGGAACAAATCGAAGACGA-TGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTAC
* *
108161771 AGATATTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAACCAA
129 AGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAACCAA
* *
108161836 TAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAATCAGTAATGGAGCAGATCGAAGAC
194 TAGGGCAACAGGCTGGAA-ATTACAGATCTTATCTCCCTAATCAATAATGGAACAGATCGAAGAC
* * *
108161900 AGTGAGCTTTGACCCCCTAAGCAATAGGGCAACAGGCTGGAAATTACAGAT
258 AGTGAGCCTTAACCCCCTAAACAATAGGGCAACAGGCTGGAAATTACAGAT
* * *
108161951 CTTATCTCTCTAAGCAGTAG
1 CTTATCCCCCTAAGTAGTAG
108161971 TGGAGCAGAT
Statistics
Matches: 292, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
307 4 0.01
308 285 0.98
309 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (308 bp):
CTTATCCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCCCCCTAAGCAGTAAT
GGAACAAATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTACAG
ATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAACCAATA
GGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAATCAATAATGGAACAGATCGAAGACAGT
GAGCCTTAACCCCCTAAACAATAGGGCAACAGGCTGGAAATTACAGAT
Found at i:108161985 original size:396 final size:396
Alignment explanation
Indices: 108161253--108162037 Score: 1131
Period size: 396 Copynumber: 2.0 Consensus size: 396
108161243 TAACCTTAAT
* * **
108161253 CCCCTAAGCAGTAGGGCAACAGGCTGGGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTA
1 CCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGCAGTAGTGGAACA
* * * * *
108161318 GATCGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGCAATAGGCTGAAGATTACAGATCTTA
66 AATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTACAGATATTA
* ** *
108161383 TCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGCAA
131 TCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGATGAGCCTTAACCCCCCAACCAATAGGGCAA
* *
108161448 CAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAGCCT
196 CAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAATAGAGCAGATCGAAGACAGTGAGCCT
* * * * *
108161513 TAACCCCTTAAGTAGTAGGGCAACAGGCTGGAAATTATAGATCTTATCTCCCTAATCAATAGTGG
261 TAACCCCCTAAGCAATAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
* ** * * * * * *
108161578 AATAGATCGAAGACGGTGAGCCTTAACCCCCTAAATAGTAGGGCAACAGGCTGGAAATTACAGAT
326 AACAGATCGAAGACAATAAGCCTTAACCCCCTAAACAGTAGGGAAACAAGCTGAAAATGACAGAT
108161643 CTTATC
391 CTTATC
* *
108161649 CCCCTAAGTAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGTAGTAGTGGAACA
1 CCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGCAGTAGTGGAACA
* * *
108161714 AATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGACTGAATATTATAGATATTA
66 AATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTACAGATATTA
* *
108161779 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-AGTGAGCCTTAACCCCCCAACCAATAGGGCA
131 TCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGA-TGAGCCTTAACCCCCCAACCAATAGGGCA
* * * *
108161843 ACAGGCTGAAGATTACAGATCTTATCTCCCTAATCAGTAATGGAGCAGATCGAAGACAGTGAGCT
195 ACAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAATAGAGCAGATCGAAGACAGTGAGCC
* * *
108161908 TTGACCCCCTAAGCAATAGGGCAACAGGCTGGAAATTACAGATCTTATCTCTCTAAGCAGTAGTG
260 TTAACCCCCTAAGCAATAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTG
* * * *
108161973 GAGCAGATCGAAGACAATAAGCTTTATCCCCCTAAGCAGTAGGGAAACAAGCTGAAAATGACAGA
325 GAACAGATCGAAGACAATAAGCCTTAACCCCCTAAACAGTAGGGAAACAAGCTGAAAATGACAGA
108162038 CCACCTTATC
Statistics
Matches: 341, Mismatches: 47, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
395 1 0.00
396 340 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (396 bp):
CCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAGATCTTATCCCCCTAAGCAGTAGTGGAACA
AATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGCAACAGACTGAAGATTACAGATATTA
TCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGATGAGCCTTAACCCCCCAACCAATAGGGCAA
CAGGCTGAAGATTACAGATATTATCTCCCTAAGCAGTAATAGAGCAGATCGAAGACAGTGAGCCT
TAACCCCCTAAGCAATAGGGCAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
AACAGATCGAAGACAATAAGCCTTAACCCCCTAAACAGTAGGGAAACAAGCTGAAAATGACAGAT
CTTATC
Found at i:108163620 original size:3 final size:3
Alignment explanation
Indices: 108163596--108163759 Score: 89
Period size: 3 Copynumber: 53.7 Consensus size: 3
108163586 TGGATTGCTA
* * * * *
108163596 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * *
108163642 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATT ATC GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
108163688 TTT ATT ACT ATT ATT -TAT ATAC ATT ATT ATT ACT ATT ATT TTT CACT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT
* *
108163735 ATT ATT ATT -TT ACT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
108163760 ATACTATAGT
Statistics
Matches: 115, Mismatches: 40, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
2 3 0.03
3 102 0.89
4 10 0.09
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:108163654 original size:28 final size:28
Alignment explanation
Indices: 108163612--108163754 Score: 126
Period size: 28 Copynumber: 5.4 Consensus size: 28
108163602 ATTATCATTG
108163612 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
108163640 TTGTTATTATTCTTACTATTATATGTTA
1 TTATTATTATTCTTACTATTATATATTA
*
108163668 TTATTATTA-TCGTTACTATT-TTTATTA
1 TTATTATTATTC-TTACTATTATATATTA
* *
108163695 CTATTATT-TAT-ATAC-ATTAT-TATTA
1 TTATTATTAT-TCTTACTATTATATATTA
* *
108163720 CTATTATT-TT-TCACTATTAT-TATT-
1 TTATTATTATTCTTACTATTATATATTA
*
108163744 TTACTATTATT
1 TTATTATTATT
108163755 TTTATATACT
Statistics
Matches: 98, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.09
25 28 0.29
26 4 0.04
27 14 0.14
28 43 0.44
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:108163721 original size:25 final size:25
Alignment explanation
Indices: 108163681--108163756 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
108163671 TTATTATCGT
*
108163681 TACTATTTTTATTACTATTATTTATA
1 TACTATTATTATTACTATTATTT-TA
108163707 TAC-ATTATTATTACTATTATTTT-
1 TACTATTATTATTACTATTATTTTA
108163730 TCACTATTATTATTTTACTATTATTTT
1 T-ACTATTATTA--TTACTATTATTTT
108163757 TATATACTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 1 0.02
24 3 0.07
25 25 0.56
26 3 0.07
27 13 0.29
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (25 bp):
TACTATTATTATTACTATTATTTTA
Found at i:108163742 original size:16 final size:14
Alignment explanation
Indices: 108163613--108163754 Score: 104
Period size: 13 Copynumber: 10.5 Consensus size: 14
108163603 TTATCATTGT
108163613 TATTATTATTCTTAC
1 TATTATTATT-TTAC
* *
108163628 TATTA-TATATTAT
1 TATTATTATTTTAC
*
108163641 TGTTATTATTCTTAC
1 TATTATTATT-TTAC
* *
108163656 TATTA-TATGTTAT
1 TATTATTATTTTAC
*
108163669 TATTATTATCGTTAC
1 TATTATTAT-TTTAC
*
108163684 TATT-TT-TATTAC
1 TATTATTATTTTAC
*
108163696 TATTATT-TATATAC
1 TATTATTAT-TTTAC
108163710 -ATTATTA--TTAC
1 TATTATTATTTTAC
*
108163721 TATTATT-TTTCAC
1 TATTATTATTTTAC
108163734 TATTATTATTTTAC
1 TATTATTATTTTAC
108163748 TATTATT
1 TATTATT
108163755 TTTATATACT
Statistics
Matches: 101, Mismatches: 15, Indels: 23
0.73 0.11 0.17
Matches are distributed among these distances:
11 3 0.03
12 14 0.14
13 35 0.35
14 29 0.29
15 20 0.20
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATTATTTTAC
Found at i:108166329 original size:10 final size:9
Alignment explanation
Indices: 108166287--108166327 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
108166277 ATGATTAATT
108166287 AAATTTTTA
1 AAATTTTTA
*
108166296 AAATTTATA
1 AAATTTTTA
108166305 AAATTATTTAA
1 AAATT-TTT-A
108166316 AAATTTTTA
1 AAATTTTTA
108166325 AAA
1 AAA
108166328 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 17 0.61
10 5 0.18
11 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AAATTTTTA
Found at i:108168376 original size:13 final size:13
Alignment explanation
Indices: 108168358--108168382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108168348 ATTTTTTTAT
108168358 TTTTAATTAATAC
1 TTTTAATTAATAC
108168371 TTTTAATTAATA
1 TTTTAATTAATA
108168383 AATATTTTAT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAATTAATAC
Found at i:108175737 original size:87 final size:89
Alignment explanation
Indices: 108175576--108175802 Score: 269
Period size: 87 Copynumber: 2.6 Consensus size: 89
108175566 CTCTTATATT
* * * * **
108175576 TATATGGCATGAAAGCCAACACCGGTACATAGTACCTATTGTATGTATATGACATGAAAGTTGAC
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCAAC
108175641 ACCGATACATAATAC-T-TGTATG
66 ACCGATACATAATACTTCTGTATG
* * * * *
108175663 TATATGGCATGATAGCCAACACCAGTTCATAGTACATGTTGTATTTATATGGCATGAAAATCAAT
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCAAC
** * *
108175728 GTCGGTACATAGTACTTGCTGTATG
66 ACCGATACATAATACTT-CTGTATG
* * *
108175753 TATATGGCATGATAGCCAACACCAGTACATAGTACCTATTATATATATAT
1 TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATAT
108175803 ATAGCCTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 65 0.56
88 1 0.01
90 51 0.44
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
TATATGGCATGATAGCCAACACCAGTACATAGTACATATTGTATGTATATGACATGAAAATCAAC
ACCGATACATAATACTTCTGTATG
Found at i:108175802 original size:45 final size:45
Alignment explanation
Indices: 108175546--108175802 Score: 216
Period size: 45 Copynumber: 5.8 Consensus size: 45
108175536 GATAAGATAA
* * * * * *
108175546 CCAACTCCAATACATGGTACCTCTTATATTTATATGGCATGAAAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* *
108175591 CCAACACCGGTACATAGTACCTATTGTATGTATATGACATGAAAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
*** * *
108175636 TTGACACC-GATACATAATA-C--TTGTATGTATATGGCATGATAG
1 CCAACACCAG-TACATAGTACCTATTGTATGTATATGGCATGAAAG
* * * * *
108175678 CCAACACCAGTTCATAGTACATGTTGTATTTATATGGCATGAAAA
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* *** * * ** *
108175723 TCAATGTCGGTACATAGTACTTGCTGTATGTATATGGCATGATAG
1 CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
* *
108175768 CCAACACCAGTACATAGTACCTATTATATATATAT
1 CCAACACCAGTACATAGTACCTATTGTATGTATAT
108175803 ATAGCCTAAT
Statistics
Matches: 163, Mismatches: 44, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
42 32 0.20
43 1 0.01
44 2 0.01
45 128 0.79
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (45 bp):
CCAACACCAGTACATAGTACCTATTGTATGTATATGGCATGAAAG
Found at i:108176046 original size:22 final size:20
Alignment explanation
Indices: 108176015--108176057 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
108176005 TTTTTTGATA
108176015 TTAAAAAAAATATATATATTTT
1 TTAAAAAAAATAT-TAT-TTTT
*
108176037 TTAAATAAAATATTATTTTT
1 TTAAAAAAAATATTATTTTT
108176057 T
1 T
108176058 ATTTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 3 0.15
22 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAAAAAAATATTATTTTT
Found at i:108176147 original size:27 final size:27
Alignment explanation
Indices: 108176106--108176172 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
108176096 CAGGTTGCGT
108176106 CTATCTCAGAGGCGCGACTAATTGAGC
1 CTATCTCAGAGGCGCGACTAATTGAGC
* * * *
108176133 CTTTCTCAGAGGCGCTATTAATTGTGC
1 CTATCTCAGAGGCGCGACTAATTGAGC
108176160 CTATCTCAGAGGC
1 CTATCTCAGAGGC
108176173 ACAAATGGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (27 bp):
CTATCTCAGAGGCGCGACTAATTGAGC
Found at i:108176427 original size:21 final size:21
Alignment explanation
Indices: 108176401--108176440 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
108176391 TTTGTGGGTA
108176401 TTAAAT-ATTTTAATTAAAATT
1 TTAAATAATTTTAA-TAAAATT
108176422 TTAAATAATTTTAATAAAA
1 TTAAATAATTTTAATAAAA
108176441 GTATTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATAATTTTAATAAAATT
Found at i:108177039 original size:27 final size:27
Alignment explanation
Indices: 108177009--108177089 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 27
108176999 ACATGCATAT
108177009 AAATTTAAATATTTTTAATAAAAATAA
1 AAATTTAAATATTTTTAATAAAAATAA
* *
108177036 AAATATATATATTTTATTTAA-AAAAATAA
1 AAAT-T-TAAATATT-TTTAATAAAAATAA
*
108177065 AAA---AAATA-TTTTAATATAAA-AA
1 AAATTTAAATATTTTTAATAAAAATAA
108177087 AAA
1 AAA
108177090 GAGTTGCGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
22 10 0.22
23 5 0.11
24 3 0.07
27 4 0.09
28 1 0.02
29 17 0.38
30 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATTTAAATATTTTTAATAAAAATAA
Found at i:108181728 original size:18 final size:19
Alignment explanation
Indices: 108181687--108181728 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
108181677 ATTCAAAATG
108181687 ATAAATTAATATATTTTAA
1 ATAAATTAATATATTTTAA
*
108181706 TTAAATTCAATA-A-TTTAA
1 ATAAATT-AATATATTTTAA
108181724 ATAAA
1 ATAAA
108181729 AGTATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAATTAATATATTTTAA
Found at i:108186531 original size:26 final size:26
Alignment explanation
Indices: 108186480--108186531 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108186470 TATGTTGTTA
*
108186480 TTTTCATTCTTCCTTAATCTTTTTTC
1 TTTTCATTCTTCCTTAATCTCTTTTC
108186506 TTTTCATTCTCTCTCTT-A-CTCTTTTC
1 TTTTCATTCT-TC-CTTAATCTCTTTTC
108186532 CTCGTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 17 0.74
27 3 0.13
28 3 0.13
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTCATTCTTCCTTAATCTCTTTTC
Found at i:108187706 original size:21 final size:22
Alignment explanation
Indices: 108187660--108187711 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
108187650 TAAAATTAAT
*
108187660 AAAACATATTTAAAATTTTATA
1 AAAACATATTTAAAATTCTATA
108187682 AAAACATA-TTAAAATTCTATA
1 AAAACATATTTAAAATTCTATA
108187703 AAAATCATA
1 AAAA-CATA
108187712 AAAAGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTATA
Found at i:108188204 original size:9 final size:9
Alignment explanation
Indices: 108188180--108188214 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
108188170 ATATTTTCTG
108188180 ATTTTTATAT
1 ATTTTTA-AT
108188190 ATTTTTAAT
1 ATTTTTAAT
108188199 GATTTTTAAT
1 -ATTTTTAAT
108188209 ATTTTT
1 ATTTTT
108188215 TATGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:108188204 original size:19 final size:19
Alignment explanation
Indices: 108188165--108188219 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
108188155 TTTATATCAA
*
108188165 TTTTAATA-TTTT-CTGAT
1 TTTTAATATTTTTAATGAT
108188182 TTTTATATATTTTTAATGAT
1 TTTTA-ATATTTTTAATGAT
*
108188202 TTTTAATATTTTTTATGA
1 TTTTAATATTTTTAATGA
108188220 AAAAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 16 0.48
20 9 0.27
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTAATATTTTTAATGAT
Found at i:108190528 original size:91 final size:91
Alignment explanation
Indices: 108190367--108190575 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
108190357 AATAATTTAT
* * * * ** *
108190367 CTGCAAACATTGGTGGTTTATCCACAAATTTACTGGCAGCTTTTATCTACAACTATGTTGTGTAT
1 CTGCAAACACTGGTGGTTTATCCACAAATTTACTGACAGCTTTTATATACAAATACATTGTGCAT
* *
108190432 TCACAACCCACTAGCAGCGTATTAAC
66 CCACAACCCACTAGCAACGTATTAAC
* * *
108190458 CTGCAAACACTGGTGGTTTATCCATAAATTTACTGACAGTTTTTATATGCAAATACATTGTGCAT
1 CTGCAAACACTGGTGGTTTATCCACAAATTTACTGACAGCTTTTATATACAAATACATTGTGCAT
* * *
108190523 CCACAACCTACTGGCAACGTATTAGC
66 CCACAACCCACTAGCAACGTATTAAC
*
108190549 CTGCAAACACTAGTGGTTTATCCACAA
1 CTGCAAACACTGGTGGTTTATCCACAA
108190576 TCTGGAGTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
91 101 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (91 bp):
CTGCAAACACTGGTGGTTTATCCACAAATTTACTGACAGCTTTTATATACAAATACATTGTGCAT
CCACAACCCACTAGCAACGTATTAAC
Found at i:108192592 original size:46 final size:46
Alignment explanation
Indices: 108192535--108192762 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
108192525 TTTGACATGA
* * * * *
108192535 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
108192581 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
108192627 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
108192673 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
108192719 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAG
108192763 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:108193510 original size:30 final size:30
Alignment explanation
Indices: 108193443--108193510 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
108193433 CACCCTTAAA
* * *
108193443 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
108193473 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
108193502 AGTATTTAC
1 A-TATTTAC
108193511 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:108199256 original size:16 final size:16
Alignment explanation
Indices: 108199237--108199283 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
108199227 AGTTGATTTG
108199237 ATTTTAAATTTTAATA
1 ATTTTAAATTTTAATA
* *
108199253 ATTTTAAACTTAAATA
1 ATTTTAAATTTTAATA
* *
108199269 A-TCTAAATTCTAATA
1 ATTTTAAATTTTAATA
108199284 TGAAACTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTTTAATA
Found at i:108200006 original size:180 final size:183
Alignment explanation
Indices: 108199700--108200063 Score: 599
Period size: 180 Copynumber: 2.0 Consensus size: 183
108199690 TTATTCCAGG
*
108199700 GGTCATTGTATCCTTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTGCTAGCTAGTGATAAG
1 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTT-CTAGCTAGTGATAAG
* *
108199765 ATGTAATAGCATAAGAGTTTTGGTAAAAGTTTCGTGGTAATTATGGAGAGTATTTTATACCCCTT
65 ATGTAATAGCATAAGAGTTTTGGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTT
* * **
108199830 TTGTGAGTCTCTCATGAAGTTTTAAGGTTTTGTTTATCGGTTTGCTATTTGAGA
130 TTGCGAGTATCTCATGAAACTTTAAGGTTTTGTTTATCGGTTTGCTATTTGAGA
*
108199884 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAATAGCTTTTC-TT-T-GCTAGTGATAAGA
1 GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTCTAGCTAGTGATAAGA
* *
108199946 TGTAGTAGCATAAGAGTTTTGGTAAGAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
66 TGTAATAGCATAAGAGTTTTGGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
*
108200011 TGCGAGTATCTCATGAAACTTTAGGGTTTTGTTTATCGGTTTGCTATTTGAGA
131 TGCGAGTATCTCATGAAACTTTAAGGTTTTGTTTATCGGTTTGCTATTTGAGA
108200064 TTTTGAGCTT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
180 122 0.72
181 1 0.01
183 2 0.01
184 44 0.26
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (183 bp):
GGTCATTGTATCCCTGTTTTGATGTATCAACTAGCAAGAGCTTTTCTTTCTAGCTAGTGATAAGA
TGTAATAGCATAAGAGTTTTGGTAAAAGGTTCGTGGTAATTATAGAGAGTATTTTATACCCCTTT
TGCGAGTATCTCATGAAACTTTAAGGTTTTGTTTATCGGTTTGCTATTTGAGA
Found at i:108202757 original size:26 final size:26
Alignment explanation
Indices: 108202717--108202794 Score: 120
Period size: 26 Copynumber: 2.9 Consensus size: 26
108202707 TTATGATTTT
*
108202717 TGTAAGGATTTAATTAATTAAATTAGGG
1 TGTAA-GA-TTAATTAATTAAATTAAGG
108202745 TGTAAGATTAATTAATTAAATTAAGG
1 TGTAAGATTAATTAATTAAATTAAGG
*
108202771 TGTAAAATTAATTAATTAAATTAA
1 TGTAAGATTAATTAATTAAATTAA
108202795 ATATTAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 41 0.85
27 2 0.04
28 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (26 bp):
TGTAAGATTAATTAATTAAATTAAGG
Found at i:108203139 original size:56 final size:56
Alignment explanation
Indices: 108203072--108203224 Score: 288
Period size: 56 Copynumber: 2.7 Consensus size: 56
108203062 GGTATTGAGA
*
108203072 AAATTATAATTAAAAGACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
108203128 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
*
108203184 AAATTATAATTAAAATATTAAAAACAACTTTTATTTTATTA
1 AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTA
108203225 AATGAAAGAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (56 bp):
AAATTATAATTAAAATACTAAAAACAACTTTTATTTTATTACAAATATAAAAGAGT
Found at i:108203149 original size:27 final size:27
Alignment explanation
Indices: 108203109--108203206 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
108203099 CTTTTATTTT
108203109 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
108203136 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
108203165 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
108203192 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
108203207 ACAACTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:108203217 original size:27 final size:26
Alignment explanation
Indices: 108203075--108203217 Score: 78
Period size: 27 Copynumber: 5.2 Consensus size: 26
108203065 ATTGAGAAAA
*
108203075 TTATAATTAAAAGACTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
* * *
108203102 TTATTTTATTACAAATATAAAAGAGTAA--A
1 TTA--TAATTA-AAATATAAAA-A-CAACTT
108203131 TTATAATTAAAATACTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
* * *
108203158 TTATTTTATTACAAATATAAAAGAGTAA--A
1 TTA--TAATTA-AAATATAAAA-A-CAACTT
108203187 TTATAATTAAAATATTAAAAACAACTT
1 TTATAATTAAAATA-TAAAAACAACTT
108203214 TTAT
1 TTAT
108203218 TTTATTAAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 32
0.66 0.10 0.24
Matches are distributed among these distances:
25 4 0.05
26 12 0.14
27 30 0.34
29 26 0.30
30 11 0.13
31 4 0.05
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATAATTAAAATATAAAAACAACTT
Found at i:108203768 original size:30 final size:30
Alignment explanation
Indices: 108203734--108203801 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
108203724 GTTGAAGTGT
* *
108203734 TGGGCCCGGTGACTGTGTGGGCACTATTGA
1 TGGGCCCGCTGACTGTATGGGCACTATTGA
* * * *
108203764 TGGGCCAGCTGATTGTATGGGCATTGTTGA
1 TGGGCCCGCTGACTGTATGGGCACTATTGA
*
108203794 TGAGCCCG
1 TGGGCCCG
108203802 AGTCGTTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.15, C:0.19, G:0.38, T:0.28
Consensus pattern (30 bp):
TGGGCCCGCTGACTGTATGGGCACTATTGA
Found at i:108204315 original size:7 final size:7
Alignment explanation
Indices: 108204305--108204344 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
108204295 CATAATACAT
108204305 AATACTA
1 AATACTA
108204312 AATACTA
1 AATACTA
108204319 AATACTA
1 AATACTA
* *
108204326 AACATTA
1 AATACTA
108204333 AATACTA
1 AATACTA
108204340 AATAC
1 AATAC
108204345 GAAACGAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:108204315 original size:14 final size:15
Alignment explanation
Indices: 108204298--108204344 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
108204288 TTGTATACAT
108204298 AATACAT-AATACTA
1 AATACATAAATACTA
108204312 AATAC-TAAATACT-
1 AATACATAAATACTA
108204325 AA-ACATTAAATACTA
1 AATACA-TAAATACTA
108204340 AATAC
1 AATAC
108204345 GAAACGAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 19 0.68
15 2 0.07
16 2 0.07
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (15 bp):
AATACATAAATACTA
Found at i:108204322 original size:21 final size:20
Alignment explanation
Indices: 108204310--108204349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
108204300 TACATAATAC
108204310 TAAATACTAAATACTAAACA
1 TAAATACTAAATACTAAACA
*
108204330 TTAAATACTAAATACGAAAC
1 -TAAATACTAAATACTAAAC
108204350 GAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (20 bp):
TAAATACTAAATACTAAACA
Found at i:108205372 original size:47 final size:48
Alignment explanation
Indices: 108205283--108205379 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 48
108205273 AAAAATATAA
* **
108205283 AATTAAAATTGCATAAATGAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAATAGTAAATACTATTGAAAAATT
* *
108205331 AATTAAAATTGCATAAAT-TAAAAAATAGTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAATAGTAAATACTATTGAAAAATT
108205378 AA
1 AA
108205380 AATTATCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 26 0.59
48 18 0.41
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (48 bp):
AATTAAAATTGCATAAATGAAAAAAATAGTAAATACTATTGAAAAATT
Found at i:108205598 original size:20 final size:20
Alignment explanation
Indices: 108205524--108205595 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
108205514 CAAAAATTAA
*
108205524 AGAGAACTTTGAGAAAATTTG
1 AGAGAATTTTG-GAAAATTTG
* * * *
108205545 AGAGGA-TATGAGATAATATG
1 AGAGAATTTTG-GAAAATTTG
108205565 AGAGAATTTTTGGAAGAATTTG
1 AGAGAA-TTTTGGAA-AATTTG
108205587 AGAGAATTT
1 AGAGAATTT
108205596 GGATAGGAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 16 0.40
21 10 0.25
22 14 0.35
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.31
Consensus pattern (20 bp):
AGAGAATTTTGGAAAATTTG
Found at i:108208254 original size:16 final size:16
Alignment explanation
Indices: 108208233--108208276 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
108208223 TTTAATGAAA
*
108208233 AAAAAATTGGAAA-GAT
1 AAAAAATT-AAAAGGAT
108208249 AAAAAATTAAAAGGAT
1 AAAAAATTAAAAGGAT
*
108208265 AAAAAACTAAAA
1 AAAAAATTAAAA
108208277 AGATGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.16
Consensus pattern (16 bp):
AAAAAATTAAAAGGAT
Found at i:108220897 original size:15 final size:16
Alignment explanation
Indices: 108220871--108220900 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108220861 CGTTTTAAAT
108220871 AAATTGATTGTGTATC
1 AAATTGATTGTGTATC
108220887 AAATT-ATTGTGTAT
1 AAATTGATTGTGTAT
108220901 AATGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (16 bp):
AAATTGATTGTGTATC
Found at i:108222810 original size:16 final size:15
Alignment explanation
Indices: 108222781--108222814 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
108222771 TTTCATATTA
108222781 AAACACATAAATTTG
1 AAACACATAAATTTG
*
108222796 AAACTACATATATTTG
1 AAAC-ACATAAATTTG
108222812 AAA
1 AAA
108222815 ACTTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (15 bp):
AAACACATAAATTTG
Found at i:108223489 original size:56 final size:55
Alignment explanation
Indices: 108223370--108223508 Score: 242
Period size: 55 Copynumber: 2.5 Consensus size: 55
108223360 GTCATATATA
* * *
108223370 AAATTTATTTTTTTAAAAAAATTTGTAAGAGTTATTGATTATTTTTATTTACTTG
1 AAATTTATTTTTTTTAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
108223425 AAATTTATTTTTTTTAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
1 AAATTTATTTTTTTTAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
108223480 AAATTTTATTTTTTTTAAAATATTTATAA
1 AAA-TTTATTTTTTTTAAAATATTTATAA
108223509 CAGATATTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
55 55 0.69
56 25 0.31
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (55 bp):
AAATTTATTTTTTTTAAAATATTTATAAGAGTTATTGATTATTTTTATTTACTTG
Found at i:108225073 original size:19 final size:19
Alignment explanation
Indices: 108225049--108225087 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
108225039 TTAAGGTGCT
* *
108225049 TAATTATATGAATTGAAAA
1 TAATTATATAAATTAAAAA
108225068 TAATTATATAAATTAAAAA
1 TAATTATATAAATTAAAAA
108225087 T
1 T
108225088 TACATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATTATATAAATTAAAAA
Found at i:108225323 original size:21 final size:21
Alignment explanation
Indices: 108225284--108225338 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
108225274 ATAGCGATGG
* *
108225284 CGGTGAGATTAGTTGCTGTAA
1 CGGTGAGATTAGATACTGTAA
*
108225305 CGGTGAGATTAGATACTGTAG
1 CGGTGAGATTAGATACTGTAA
* *
108225326 CGATGATATTAGA
1 CGGTGAGATTAGA
108225339 AACAATAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:108230107 original size:226 final size:216
Alignment explanation
Indices: 108229723--108230138 Score: 618
Period size: 226 Copynumber: 1.9 Consensus size: 216
108229713 TCAAGTAATC
* *
108229723 CACAAAGATTAAGAACTATTGCATGAAATGGAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
1 CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
108229788 GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
66 GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
*
108229853 CTAAAGTTAAATGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGTCATGGAATGAGAAC
131 CTAAAGTTAAATGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAAC
108229918 CCCCCCCCCCAACAACACACA
196 CCCCCCCCCCAACAACACACA
* *
108229939 CACAAAGATAAAGAACTGTTGCATGAAATGAAAGAACCCCATCAAAACATAACAATAGCTTAAGT
1 CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATC---A-A-AACAATAGCTTAAGT
*** * *
108230004 TAATGGAAAACCTTTCAGGATAACACGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATC
61 TAATGG--AA--TGGAAGG-TAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATC
* *
108230069 AAAACAATACCTAAAGTT-AATGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCAT
121 AAAACAACACCTAAAGTTAAAT-GAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCAT
108230133 GGAATG
185 GGAATG
108230139 GGAAAACCCC
Statistics
Matches: 177, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
216 39 0.22
219 1 0.01
220 1 0.01
221 21 0.12
223 2 0.01
225 7 0.04
226 106 0.60
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (216 bp):
CACAAAGATAAAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATG
GAATGGAAGGTAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAAAACCCCATCAAAACAACAC
CTAAAGTTAAATGAAACCTTCCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAAC
CCCCCCCCCCAACAACACACA
Found at i:108234637 original size:21 final size:21
Alignment explanation
Indices: 108234613--108234656 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
108234603 AAAAAAAAAA
* * *
108234613 TTGTTATTGTTTTTTATTGTT
1 TTGTCATTATTTTTTATTATT
108234634 TTGTCATTATTTTTTATTATT
1 TTGTCATTATTTTTTATTATT
108234655 TT
1 TT
108234657 ACTATCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (21 bp):
TTGTCATTATTTTTTATTATT
Found at i:108234747 original size:11 final size:11
Alignment explanation
Indices: 108234639--108234749 Score: 73
Period size: 11 Copynumber: 9.8 Consensus size: 11
108234629 TTGTTTTGTC
*
108234639 ATTATTTT-TT
1 ATTATTTTACT
108234649 ATTATTTTACT
1 ATTATTTTACT
* * *
108234660 ATCATCTTGCT
1 ATTATTTTACT
*
108234671 ATTATATTACT
1 ATTATTTTACT
*
108234682 ATTATTTTGTTATT
1 ATTA--TT-TTACT
108234696 ATTATTTATA-T
1 ATTATTT-TACT
* *
108234707 ATTATATAACT
1 ATTATTTTACT
*
108234718 ATTATTTTATT
1 ATTATTTTACT
*
108234729 ATTAATTTTGCT
1 ATT-ATTTTACT
108234741 ATTATTTTA
1 ATTATTTTA
108234750 AAGATATTTG
Statistics
Matches: 77, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
10 9 0.12
11 46 0.60
12 13 0.17
13 1 0.01
14 8 0.10
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTATTTTACT
Found at i:108236180 original size:16 final size:16
Alignment explanation
Indices: 108236155--108236197 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
108236145 ATTCTACTTT
* * *
108236155 TTTAAATATTTAACTT
1 TTTAATTATTTAAATA
*
108236171 TTTCATTATTTAAATA
1 TTTAATTATTTAAATA
108236187 TTTAATTATTT
1 TTTAATTATTT
108236198 TAAAAGTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATTATTTAAATA
Found at i:108237955 original size:26 final size:26
Alignment explanation
Indices: 108237894--108237955 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
108237884 AAATAATTAT
108237894 TATTATGATT-TTATAATTGATATTTA
1 TATTAT-ATTATTATAATTGATATTTA
* *
108237920 T-TAATGTTATTATTAATTGA-ATTTA
1 TATTATATTATTA-TAATTGATATTTA
108237945 TATTATATTAT
1 TATTATATTAT
108237956 GAAATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 2 0.07
25 12 0.41
26 15 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TATTATATTATTATAATTGATATTTA
Found at i:108238380 original size:5 final size:5
Alignment explanation
Indices: 108238370--108238401 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
108238360 ATTATTATTG
108238370 TTATA TTATA TTATA TTATA TTATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA T-TATA T
108238402 ATCAACGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:108239263 original size:17 final size:19
Alignment explanation
Indices: 108239227--108239263 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
108239217 ATTGAATAAT
*
108239227 AAATATTTGTTATATTGGA
1 AAATATATGTTATATTGGA
108239246 AAATATATG-TAT-TTGGA
1 AAATATATGTTATATTGGA
108239263 A
1 A
108239264 GTGTGATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (19 bp):
AAATATATGTTATATTGGA
Found at i:108241928 original size:64 final size:66
Alignment explanation
Indices: 108241847--108241998 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 66
108241837 AGACATTATG
* * * * *
108241847 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA
*
108241910 T
66 A
* * *
108241911 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGTAAACAAGAGAGCTACGAGAT
108241976 AA
65 AA
* *
108241978 AT-TGGCTAGGTCACATGGGTG
1 ATGTAGCTAGGTCGCATGGGTG
108241999 GTATTGAGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
64 24 0.33
66 18 0.25
67 31 0.42
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA
A
Found at i:108244920 original size:17 final size:17
Alignment explanation
Indices: 108244876--108244920 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
108244866 AGAGAAAGGA
*
108244876 AAAAGAGAAAAAAATAG
1 AAAAGAAAAAAAAATAG
**
108244893 AAAAGTTAAAAAAATAG
1 AAAAGAAAAAAAAATAG
*
108244910 AAATGAAAAAA
1 AAAAGAAAAAA
108244921 TTAAATTGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAGAAAAAAAAATAG
Found at i:108257479 original size:24 final size:24
Alignment explanation
Indices: 108257446--108257551 Score: 61
Period size: 24 Copynumber: 4.4 Consensus size: 24
108257436 GCCATGTAAA
*
108257446 GGGAAACTCATAAGAGCCAATATC
1 GGGAAGCTCATAAGAGCCAATATC
** *
108257470 GGGAAGCTCATGCGAGTCAATATC
1 GGGAAGCTCATAAGAGCCAATATC
*** * *
108257494 AAAAAGCTCCA-GAGAGCCATATATT
1 GGGAAGCT-CATAAGAGCCA-ATATC
** * *
108257519 GGGATTCTCATAAGAGCTAATAAC
1 GGGAAGCTCATAAGAGCCAATATC
*
108257543 GGGACGCTC
1 GGGAAGCTC
108257552 TTGCAAGCTG
Statistics
Matches: 58, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
24 43 0.74
25 15 0.26
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCAATATC
Found at i:108261538 original size:29 final size:29
Alignment explanation
Indices: 108261503--108261565 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
108261493 TCTTAATTTT
108261503 GAAATTTAATCCTAATATTTTTATTTCTA
1 GAAATTTAATCCTAATATTTTTATTTCTA
* * * *
108261532 GAAATTTAGTTCTTATATTTTTATTTTTA
1 GAAATTTAATCCTAATATTTTTATTTCTA
108261561 GAAAT
1 GAAAT
108261566 GTAGTCTCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (29 bp):
GAAATTTAATCCTAATATTTTTATTTCTA
Found at i:108261580 original size:29 final size:29
Alignment explanation
Indices: 108261519--108261581 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
108261509 TAATCCTAAT
* * *
108261519 ATTTTTATTTCTAGAAATTTAGTTCTTAT
1 ATTTTTATTTCTAGAAATGTAGTTCTCAG
*
108261548 ATTTTTATTTTTAGAAATGTAG-TCTCCAG
1 ATTTTTATTTCTAGAAATGTAGTTCT-CAG
108261577 ATTTT
1 ATTTT
108261582 AAAATTCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.56
Consensus pattern (29 bp):
ATTTTTATTTCTAGAAATGTAGTTCTCAG
Found at i:108264969 original size:2 final size:2
Alignment explanation
Indices: 108264962--108264998 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
108264952 TAGGAAGTTA
* *
108264962 AT AT AT AT AT AT AT AT GT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108264999 GCACATTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108274770 original size:18 final size:18
Alignment explanation
Indices: 108274719--108274771 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
108274709 CCGGCACTCT
* *
108274719 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* * *
108274737 GTAACAGTTATTTATTCA
1 ATAACAGTCAATTATTCA
108274755 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
108274772 CGTAGCAGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:108275223 original size:25 final size:24
Alignment explanation
Indices: 108275195--108275249 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
108275185 TCACATGCAA
*
108275195 TTCAATTTCAATACAATATACATAT
1 TTCAATTTCAATACAACATACAT-T
* *
108275220 TTCAATTTTAATATAACATACATT
1 TTCAATTTCAATACAACATACATT
108275244 TT-AATT
1 TTCAATT
108275250 CATTTTCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 4 0.15
24 3 0.11
25 20 0.74
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (24 bp):
TTCAATTTCAATACAACATACATT
Found at i:108276022 original size:15 final size:15
Alignment explanation
Indices: 108275998--108276033 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
108275988 CAATTTTCCC
*
108275998 CTTT-TTCCTTCTTT
1 CTTTCTTCCTTCCTT
108276012 CTTTCTTCCTTCCTT
1 CTTTCTTCCTTCCTT
108276027 CTTTCTT
1 CTTTCTT
108276034 TCCCTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTCTTCCTTCCTT
Found at i:108276334 original size:40 final size:40
Alignment explanation
Indices: 108276285--108276424 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 40
108276275 GCATTTTTCC
* * *
108276285 AAAAGCGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTG
1 AAAAACGCCGCTAATGCTCGAGCATTAGTGGCGCTTTTTG
*
108276325 AAAAACGCCGCTAATGCTC-AG-ATTTGTAGCAGCGCTTTTTG
1 AAAAACGCCGCTAATGCTCGAGCATTAGT-G--GCGCTTTTTG
* *
108276366 AAAAACGCCGCTAATGCTCAGATC-TGTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAATGCTC-GAGCAT-TAGTGGCGCTTTTTG
108276407 AAAAACGCCGCTAATGCT
1 AAAAACGCCGCTAATGCT
108276425 TGATTTATAG
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
38 5 0.06
39 3 0.03
40 16 0.19
41 57 0.66
43 3 0.03
44 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTAATGCTCGAGCATTAGTGGCGCTTTTTG
Found at i:108276360 original size:41 final size:41
Alignment explanation
Indices: 108276315--108276424 Score: 202
Period size: 41 Copynumber: 2.7 Consensus size: 41
108276305 AGCATTAGTG
*
108276315 GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGCA
1 GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATCTGTAGCA
*
108276356 GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATCTGTAGCG
1 GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATCTGTAGCA
108276397 GCGCTTTTTGAAAAACGCCGCTAATGCT
1 GCGCTTTTTGAAAAACGCCGCTAATGCT
108276425 TGATTTATAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (41 bp):
GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATCTGTAGCA
Found at i:108276451 original size:40 final size:41
Alignment explanation
Indices: 108276316--108276451 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 41
108276306 GCATTAGTGG
108276316 CGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGC-A
1 CGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGCGA
* *
108276356 GCGCTTTTTGAAAAACGCCGCTAATGCTCAGATCTGTAGCGG
1 -CGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGCGA
* *
108276398 CGCTTTTTGAAAAACGCCGCTAATGCT-TGATTTATAGCGA
1 CGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGCGA
* *
108276438 CGTTTTTTCAAAAA
1 CGCTTTTTGAAAAA
108276452 GCTCCACAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 21 0.24
41 65 0.76
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
CGCTTTTTGAAAAACGCCGCTAATGCTCAGATTTGTAGCGA
Found at i:108276789 original size:14 final size:14
Alignment explanation
Indices: 108276739--108276790 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
108276729 TTACTTATCA
* *
108276739 TTATAGTTTAAGGT
1 TTATGGTTTAGGGT
*
108276753 TTATGGCTTAGGGT
1 TTATGGTTTAGGGT
* * *
108276767 ATATAGTTTGGGGT
1 TTATGGTTTAGGGT
108276781 TTATGGTTTA
1 TTATGGTTTA
108276791 TGATGAGTTA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:108276989 original size:15 final size:15
Alignment explanation
Indices: 108276970--108277009 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
108276960 AGGGATTAAA
*
108276970 GGTTAAGGGT-CTAG
1 GGTTAAGGGTCCAAG
108276984 GAGTTAAGGGTCCAAG
1 G-GTTAAGGGTCCAAG
108277000 GGTTAAGGGT
1 GGTTAAGGGT
108277010 ACATGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 18 0.78
16 4 0.17
ACGTcount: A:0.25, C:0.07, G:0.42, T:0.25
Consensus pattern (15 bp):
GGTTAAGGGTCCAAG
Found at i:108277062 original size:22 final size:22
Alignment explanation
Indices: 108277019--108277067 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
108277009 TACATGATTT
* *
108277019 AGGGTTTAAAGTTTAGGGGTTA
1 AGGGTCTAAAGTTTAGGAGTTA
* *
108277041 AGGGTCTAAGGTTTATGAGTTA
1 AGGGTCTAAAGTTTAGGAGTTA
*
108277063 TGGGT
1 AGGGT
108277068 TATGGGTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.37, T:0.37
Consensus pattern (22 bp):
AGGGTCTAAAGTTTAGGAGTTA
Found at i:108277433 original size:17 final size:18
Alignment explanation
Indices: 108277408--108277441 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
108277398 ATAAGTGATT
*
108277408 TTTTTAAATT-TATATTG
1 TTTTAAAATTATATATTG
108277425 TTTTAAAATTATATATT
1 TTTTAAAATTATATATT
108277442 AAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTATATATTG
Found at i:108282434 original size:105 final size:107
Alignment explanation
Indices: 108282314--108282578 Score: 426
Period size: 110 Copynumber: 2.5 Consensus size: 107
108282304 TTAAATATTT
* *
108282314 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAAGA-TA-TTAT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAAGATTATTTAT
*
108282377 TTTATTTTAATTTAATCACGATAAATATTTTGTCTACTTTTA
66 TTTATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
* *
108282419 TTTTAATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATTTTATTT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAAGA--TTA-TT
* *
108282484 TATTTTATTTTATTTTAATCAGGAAAAATATTTTGTCTACTTTTA
63 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
108282529 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATT
1 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATT
108282579 GAGCACACAT
Statistics
Matches: 147, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
105 53 0.36
108 2 0.01
110 92 0.63
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (107 bp):
TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAATTTTATTTTAAAGATTATTTAT
TTTATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA
Found at i:108282469 original size:5 final size:5
Alignment explanation
Indices: 108282461--108282500 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
108282451 TGTATTTAAA
**
108282461 ATTTT ATTTT A-AAT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
108282501 ATCAGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 2 0.07
5 28 0.93
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:108282494 original size:15 final size:14
Alignment explanation
Indices: 108282455--108282501 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
108282445 TTAAATTGTA
108282455 TTTAAA-ATTTTAT
1 TTTAAATATTTTAT
108282468 TTTAAATATTTTAT
1 TTTAAATATTTTAT
**
108282482 TTTATTTTATTTTAT
1 TTTA-AATATTTTAT
108282497 TTTAA
1 TTTAA
108282502 TCAGGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 12 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAAATATTTTAT
Found at i:108282782 original size:38 final size:37
Alignment explanation
Indices: 108282728--108282856 Score: 140
Period size: 38 Copynumber: 3.5 Consensus size: 37
108282718 CTTATATAAT
* *
108282728 TTACGTAACTTACATAATATATAAATATATATCATATC
1 TTACATAACTTACATAATACATAAATATATA-CATATC
* *
108282766 TTACATAATTTACAT-A-AGATAAATACCT-TACATAAT-
1 TTACATAACTTACATAATACATAAATA--TATACAT-ATC
108282802 TTACATAACTTACATAATACATAAATATATACCATATC
1 TTACATAACTTACATAATACATAAATATATA-CATATC
*
108282840 TTACATAATTTACATAA
1 TTACATAACTTACATAA
108282857 GATAATCTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
36 26 0.34
37 10 0.13
38 41 0.53
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (37 bp):
TTACATAACTTACATAATACATAAATATATACATATC
Found at i:108282813 original size:18 final size:18
Alignment explanation
Indices: 108282713--108282819 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
108282703 AAATATATAT
* *
108282713 CATATCTTATATAATTTA
1 CATAACTTACATAATTTA
*
108282731 CGTAACTTACATAATATATA
1 CATAACTTACATAAT-T-TA
*
108282751 AAT-A-TATATCAT-ATCTTA
1 CATAACT-TA-CATAAT-TTA
* **
108282769 CATAATTTACATAAGATA
1 CATAACTTACATAATTTA
* *
108282787 AATACCTTACATAATTTA
1 CATAACTTACATAATTTA
108282805 CATAACTTACATAAT
1 CATAACTTACATAAT
108282820 ACATAAATAT
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
18 48 0.73
19 11 0.17
20 7 0.11
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (18 bp):
CATAACTTACATAATTTA
Found at i:108282818 original size:9 final size:9
Alignment explanation
Indices: 108282760--108282818 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
108282750 AAATATATAT
*
108282760 CATATCTTA
1 CATAACTTA
*
108282769 CATAATTTA
1 CATAACTTA
**
108282778 CATAAGATA
1 CATAACTTA
* *
108282787 AATACCTTA
1 CATAACTTA
*
108282796 CATAATTTA
1 CATAACTTA
108282805 CATAACTTA
1 CATAACTTA
108282814 CATAA
1 CATAA
108282819 TACATAAATA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:108282844 original size:74 final size:74
Alignment explanation
Indices: 108282718--108282861 Score: 252
Period size: 74 Copynumber: 1.9 Consensus size: 74
108282708 TATATCATAT
* * * *
108282718 CTTATATAATTTACGTAACTTACATAATATATAAATATATATCATATCTTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACATAAATATATACCATATCTTACATAATTTACATAA
108282783 GATAAATAC
66 GATAAATAC
108282792 CTTACATAATTTACATAACTTACATAATACATAAATATATACCATATCTTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACATAAATATATACCATATCTTACATAATTTACATAA
108282857 GATAA
66 GATAA
108282862 TCTCTTTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (74 bp):
CTTACATAATTTACATAACTTACATAATACATAAATATATACCATATCTTACATAATTTACATAA
GATAAATAC
Found at i:108282856 original size:9 final size:9
Alignment explanation
Indices: 108282766--108282856 Score: 62
Period size: 9 Copynumber: 9.9 Consensus size: 9
108282756 ATATCATATC
108282766 TTACATAAT
1 TTACATAAT
*
108282775 TTACATAAG
1 TTACATAAT
* * **
108282784 ATAAATACC
1 TTACATAAT
108282793 TTACATAAT
1 TTACATAAT
*
108282802 TTACATAAC
1 TTACATAAT
108282811 TTACATAA-
1 TTACATAAT
108282819 -TACATAAAT
1 TTACAT-AAT
108282828 ATATACCAT-AT
1 -T-TA-CATAAT
108282839 CTTACATAAT
1 -TTACATAAT
108282849 TTACATAA
1 TTACATAA
108282857 GATAATCTCT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 5 0.08
8 2 0.03
9 45 0.70
10 4 0.06
11 3 0.05
12 2 0.03
13 3 0.05
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (9 bp):
TTACATAAT
Found at i:108287899 original size:13 final size:14
Alignment explanation
Indices: 108287883--108287911 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108287873 TTATAAATAT
108287883 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
108287896 TTATAATGGTTTAA
1 TTATAATGGTTTAA
108287910 TT
1 TT
108287912 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:108288395 original size:21 final size:21
Alignment explanation
Indices: 108288337--108288396 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
108288327 ACAGAGAGGG
* **
108288337 AGGCAGCGGCAGCAGCAAGGC
1 AGGCAGCGGCAGCAGCGAGAA
*
108288358 AGGCAGCGGTAGCAGCGAGAA
1 AGGCAGCGGCAGCAGCGAGAA
*
108288379 AGGCAGAGGCAGCAGCGA
1 AGGCAGCGGCAGCAGCGA
108288397 TGGCAATAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.43, T:0.02
Consensus pattern (21 bp):
AGGCAGCGGCAGCAGCGAGAA
Found at i:108288863 original size:43 final size:43
Alignment explanation
Indices: 108288781--108288965 Score: 221
Period size: 42 Copynumber: 4.3 Consensus size: 43
108288771 GCGTTTGTGA
* ** * ** *
108288781 AAAAACGCCGCTAAAAGCTTTGGCTTTTAGCGGTTCTTTTCTC
1 AAAAACGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
*
108288824 AAAAACGCTGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
* *
108288867 ACAAAC-CCGTTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
* * * *
108288909 ACAAAC-CCGTTAATAGCCATGACTTTTAGCAGCGCTTTTCCT
1 AAAAACGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
*
108288951 AAAAACGCCGTTAAT
1 AAAAACGCCGCTAAT
108288966 TTTTGTGGCG
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 79 0.62
43 48 0.38
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
AAAAACGCCGCTAATAGCCATGACTTTTAGCGGCGCTTTTCCC
Found at i:108288892 original size:42 final size:42
Alignment explanation
Indices: 108288835--108288965 Score: 226
Period size: 42 Copynumber: 3.1 Consensus size: 42
108288825 AAAACGCTGC
108288835 TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAACCCGT
1 TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAACCCGT
108288877 TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAACCCGT
1 TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAACCCGT
* * *
108288919 TAATAGCCATGACTTTTAGCAGCGCTTTTCCTAAAAACGCCGT
1 TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAAC-CCGT
108288962 TAAT
1 TAAT
108288966 TTTTGTGGCG
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 77 0.91
43 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (42 bp):
TAATAGCCATGACTTTTAGCGGCGCTTTTCCCACAAACCCGT
Found at i:108289858 original size:33 final size:34
Alignment explanation
Indices: 108289797--108289863 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
108289787 CACATCATAG
108289797 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
1 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
*
108289831 AACGTTAATGTGTACTTC-AAAAAAATTGCAATT
1 AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
108289864 TAGACACTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 15 0.47
34 17 0.53
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (34 bp):
AACGTTAATGTGGACTTCAAAAAAAATTGCAATT
Found at i:108293739 original size:86 final size:85
Alignment explanation
Indices: 108293590--108293747 Score: 196
Period size: 86 Copynumber: 1.8 Consensus size: 85
108293580 AATAATTTTC
* * * **
108293590 TTTTCATTTTTAGTGAGGTTAATGTGCAATTTTATTATATATTAATTTATAAATTTTTTATTTAT
1 TTTTCATTTTTA-TGAGGTTAAAGTACAATTTCATTATATATTAATTTATAAATTTTCGATTTAT
108293655 -AAGAGGATTGTTTTACAAAA
65 AAAGAGGATTGTTTTACAAAA
*
108293675 TTTTCATTTTT-TGAAGGTTAAAGTACAATTTCACTATATATATTCATTTAT-AATTTCTCGATT
1 TTTTCATTTTTATG-AGGTTAAAGTACAATTTCA-T-TATATATTAATTTATAAATTT-TCGATT
108293738 TATAAAGAGG
62 TATAAAGAGG
108293748 CTAAATTGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
83 2 0.03
84 16 0.26
85 17 0.27
86 21 0.34
87 6 0.10
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (85 bp):
TTTTCATTTTTATGAGGTTAAAGTACAATTTCATTATATATTAATTTATAAATTTTCGATTTATA
AAGAGGATTGTTTTACAAAA
Found at i:108294386 original size:7 final size:7
Alignment explanation
Indices: 108294374--108294407 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
108294364 TTTGTAATAA
108294374 TTAAATT
1 TTAAATT
108294381 TTAAATT
1 TTAAATT
108294388 TTAAA-T
1 TTAAATT
108294394 TTAAATT
1 TTAAATT
108294401 TTAAATT
1 TTAAATT
108294408 AAGAAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:108294398 original size:13 final size:13
Alignment explanation
Indices: 108294374--108294407 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
108294364 TTTGTAATAA
108294374 TTAAATTTTAAATT
1 TTAAA-TTTAAATT
108294388 TTAAATTTAAATT
1 TTAAATTTAAATT
108294401 TTAAATT
1 TTAAATT
108294408 AAGAAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:108297920 original size:6 final size:6
Alignment explanation
Indices: 108297909--108297941 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
108297899 ATGATTGCAA
*
108297909 ATTTCC ATTTCC ATTT-C ATTTTC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
108297942 TTGAAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (6 bp):
ATTTCC
Found at i:108297931 original size:12 final size:12
Alignment explanation
Indices: 108297909--108297942 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
108297899 ATGATTGCAA
*
108297909 ATTTCCATTTCC
1 ATTTCCATTTTC
108297921 ATTT-CATTTTC
1 ATTTCCATTTTC
108297932 ATTTCCATTTT
1 ATTTCCATTTT
108297943 TGAAAACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:108297934 original size:17 final size:17
Alignment explanation
Indices: 108297909--108297941 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108297899 ATGATTGCAA
108297909 ATTTCCATTTCCATTTC
1 ATTTCCATTTCCATTTC
*
108297926 ATTTTCATTTCCATTT
1 ATTTCCATTTCCATTT
108297942 TTGAAAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTCCATTTCCATTTC
Found at i:108300685 original size:26 final size:25
Alignment explanation
Indices: 108300651--108300702 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
108300641 ATAAATACGA
108300651 AAAAAATCGCAATAAAAAAATTAATT
1 AAAAAATCGCAAT-AAAAAATTAATT
* *
108300677 AAAAAATCGTAATACAAAATTAATT
1 AAAAAATCGCAATAAAAAATTAATT
108300702 A
1 A
108300703 TTCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAAATCGCAATAAAAAATTAATT
Found at i:108300689 original size:14 final size:14
Alignment explanation
Indices: 108300650--108300695 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
108300640 AATAAATACG
*
108300650 AAAAAAATCGCAAT
1 AAAAAAATCGTAAT
108300664 AAAAAAAT--TAAT
1 AAAAAAATCGTAAT
*
108300676 TAAAAAATCGTAAT
1 AAAAAAATCGTAAT
108300690 ACAAAA
1 A-AAAA
108300696 TTAATTATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (14 bp):
AAAAAAATCGTAAT
Found at i:108312347 original size:18 final size:17
Alignment explanation
Indices: 108312278--108312349 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
108312268 GGTGAAAAGG
108312278 AAAAATATGTATAATTTA
1 AAAAATAT-TATAATTTA
* *
108312296 AATGAATA--ATATTTTA
1 AA-AAATATTATAATTTA
* *
108312312 AAAAAGATTAGTAGTTTA
1 AAAAATATTA-TAATTTA
108312330 AAAAATATGTATAATTTA
1 AAAAATAT-TATAATTTA
108312348 AA
1 AA
108312350 TGAATAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 3 0.07
16 9 0.21
17 1 0.02
18 23 0.55
19 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATATTATAATTTA
Found at i:108314046 original size:13 final size:13
Alignment explanation
Indices: 108314030--108314055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108314020 AATGGGGAAG
108314030 GAAAAAGGAAATA
1 GAAAAAGGAAATA
108314043 GAAAAAGGAAATA
1 GAAAAAGGAAATA
108314056 ACGAATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (13 bp):
GAAAAAGGAAATA
Found at i:108314444 original size:25 final size:25
Alignment explanation
Indices: 108314397--108314445 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
108314387 TAGGTTAATC
**
108314397 AGAGTTTAAATAGGAAACTAAAAGA
1 AGAGTTTAAATAGGAAAAGAAAAGA
*
108314422 AGAGTTTAACTAGGAAAAGAAAAG
1 AGAGTTTAAATAGGAAAAGAAAAG
108314446 CCAAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.22, T:0.18
Consensus pattern (25 bp):
AGAGTTTAAATAGGAAAAGAAAAGA
Found at i:108325428 original size:14 final size:14
Alignment explanation
Indices: 108325409--108325473 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
108325399 TGACCTACCA
108325409 ATTTATTATAAATT
1 ATTTATTATAAATT
*
108325423 ATTTA-TATTAATTTT
1 ATTTATTA-TAA-ATT
* *
108325438 AATTAAATTATATATT
1 -ATT-TATTATAAATT
*
108325454 ATTTATTATAAGTT
1 ATTTATTATAAATT
108325468 ATTTAT
1 ATTTAT
108325474 ACATTGCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
13 2 0.05
14 22 0.56
15 5 0.13
16 5 0.13
17 3 0.08
18 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTTATTATAAATT
Found at i:108328003 original size:27 final size:27
Alignment explanation
Indices: 108327973--108328028 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
108327963 AGTTCGAGAG
* *
108327973 CAATGAAGCGTCAACGAAGTGGACCAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
**
108328000 CAATGATTCGTCAACGAAGCGGAACAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
108328027 CA
1 CA
108328029 TCGAAACACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CAATGAAGCGTCAACGAAGCGGAACAT
Found at i:108338012 original size:22 final size:22
Alignment explanation
Indices: 108337955--108338012 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
108337945 AACAAAATTA
*
108337955 AAAATAATAACAAAATAGTAGC
1 AAAATAATAATAAAATAGTAGC
* *
108337977 ACAATAATAGTAAAAT-GATAGC
1 AAAATAATAATAAAATAG-TAGC
*
108337999 AAAATAGTAATAAA
1 AAAATAATAATAAA
108338013 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (22 bp):
AAAATAATAATAAAATAGTAGC
Found at i:108344241 original size:29 final size:30
Alignment explanation
Indices: 108344194--108344256 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
108344184 ACCATTTTGC
* *
108344194 TTTTTTTTTTTCAACAGTGTGAAAGACGTG
1 TTTTTTTTTTTCAACAGTGTAAAAGACGCG
*
108344224 TTTTTTTTTTTTAA-AGTGTAAAAGACGCG
1 TTTTTTTTTTTCAACAGTGTAAAAGACGCG
108344253 TTTT
1 TTTT
108344257 ATTCGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (30 bp):
TTTTTTTTTTTCAACAGTGTAAAAGACGCG
Found at i:108344586 original size:18 final size:17
Alignment explanation
Indices: 108344544--108344586 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
108344534 TTTTTAAGTT
*
108344544 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
108344561 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
108344579 TATAATTT
1 TATAATTT
108344587 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:108345481 original size:31 final size:31
Alignment explanation
Indices: 108345431--108345489 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
108345421 TAGAAGATTG
108345431 AAAGTAAAAGGACTAAAATTGAA-CAAATCGA
1 AAAGTAAAAGGACTAAAATT-AATCAAATCGA
* *
108345462 AAAGTAAAAGGATTGAAATTAATCAAAT
1 AAAGTAAAAGGACTAAAATTAATCAAAT
108345490 TAAAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.58, C:0.07, G:0.15, T:0.20
Consensus pattern (31 bp):
AAAGTAAAAGGACTAAAATTAATCAAATCGA
Found at i:108363380 original size:21 final size:21
Alignment explanation
Indices: 108363355--108363419 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
108363345 TAGCCTTTGG
108363355 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
**
108363376 GCTT-CAATTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* *
108363394 GCTTCCGTTTAGCACTTATAT
1 GCTTCCGTTTAGCACTTGTGT
108363415 GCTTC
1 GCTTC
108363420 AGCTAGACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 4 0.12
19 10 0.30
20 10 0.30
21 9 0.27
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Done.