Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 97 of 352
Found at i:30688587 original size:76 final size:76
Alignment explanation
Indices: 30688495--30688668 Score: 242
Period size: 76 Copynumber: 2.3 Consensus size: 76
30688485 CAAATGTGTG
* * * **
30688495 CCCAACACTAGTCGGATAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATAAACC-AA
1 CCCAACGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
30688559 CAATGATTTGAA
66 -AATGATTTGAA
* *
30688571 CCTAGCGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
1 CCCAACGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
*
30688636 AATGATTTGCA
66 AATGATTTGAA
* *
30688647 CCCAATGCTAGTTGGATAAACC
1 CCCAACGCTAGTCGGATAAACC
30688669 AACAAATACA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 83 0.98
77 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (76 bp):
CCCAACGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
AATGATTTGAA
Found at i:30690353 original size:39 final size:40
Alignment explanation
Indices: 30690310--30690391 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
30690300 CTTTTGTACT
* * * * *
30690310 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCT-ATA
1 GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
30690349 GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
1 GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
30690389 GCA
1 GCA
30690392 TATTCATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 31 0.84
40 6 0.16
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (40 bp):
GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
Found at i:30706689 original size:29 final size:29
Alignment explanation
Indices: 30706635--30706690 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
30706625 CTTGATAGTA
** *
30706635 TAACATCGGCACAAAGTGTATGATAACTG
1 TAACATCGGCACAAAGTACATAATAACTG
*
30706664 TAACATCGGCACAAAGTACCTAATAAC
1 TAACATCGGCACAAAGTACATAATAAC
30706691 CATAATCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (29 bp):
TAACATCGGCACAAAGTACATAATAACTG
Found at i:30714562 original size:28 final size:28
Alignment explanation
Indices: 30714518--30714594 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
30714508 GCATCTTCGC
*
30714518 TATCTCGCACACTAAGTGCC-TTACTTAA
1 TATCTCGCACACTAAGTGCCATT-CTCAA
* * *
30714546 TATCTCGTACACCAAGTTCCATTCTCAA
1 TATCTCGCACACTAAGTGCCATTCTCAA
*
30714574 TATTTCGCACACTAAGTGCCA
1 TATCTCGCACACTAAGTGCCA
30714595 CATATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (28 bp):
TATCTCGCACACTAAGTGCCATTCTCAA
Found at i:30716958 original size:14 final size:15
Alignment explanation
Indices: 30716932--30716960 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30716922 TATATTTTAT
30716932 CTATAAGTTAATTAA
1 CTATAAGTTAATTAA
30716947 CTATAA-TTAATTAA
1 CTATAAGTTAATTAA
30716961 TTTAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
CTATAAGTTAATTAA
Found at i:30723755 original size:13 final size:13
Alignment explanation
Indices: 30723725--30723763 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
30723715 CAAGCCATGC
* *
30723725 GCGCAAGACATGG
1 GCGCATGACACGG
*
30723738 ACGCATGACACGG
1 GCGCATGACACGG
30723751 GCGCATGACACGG
1 GCGCATGACACGG
30723764 TCGTGTGACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.36, T:0.08
Consensus pattern (13 bp):
GCGCATGACACGG
Found at i:30732907 original size:104 final size:104
Alignment explanation
Indices: 30732727--30732936 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
30732717 TAGGGCTGAC
30732727 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
30732792 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
30732831 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
30732896 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
30732935 AG
1 AG
30732937 AGTTTTTGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (104 bp):
AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
Found at i:30734118 original size:6 final size:6
Alignment explanation
Indices: 30734107--30734144 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
30734097 ACACCGTAGG
* *
30734107 GTAACA GTAACA ATAACA GTAATA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
30734145 CATAGTCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:30734133 original size:18 final size:18
Alignment explanation
Indices: 30734107--30734150 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30734097 ACACCGTAGG
*
30734107 GTAACAGTAACAATAACA
1 GTAATAGTAACAATAACA
*
30734125 GTAATAGTAACAGTAACA
1 GTAATAGTAACAATAACA
*
30734143 GTCATAGT
1 GTAATAGT
30734151 CAGGTACGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
GTAATAGTAACAATAACA
Found at i:30735068 original size:14 final size:15
Alignment explanation
Indices: 30735032--30735068 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
30735022 TTTCTTTTAT
*
30735032 TTATTATAACTATTA
1 TTATTATATCTATTA
30735047 -TATTATATC-ATTA
1 TTATTATATCTATTA
30735060 TTATTATAT
1 TTATTATAT
30735069 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:30735085 original size:21 final size:21
Alignment explanation
Indices: 30735034--30735096 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
30735024 TCTTTTATTT
* *
30735034 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
30735053 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
30735074 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
30735095 AT
1 AT
30735097 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:30737262 original size:19 final size:19
Alignment explanation
Indices: 30737238--30737275 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30737228 GAAGAAAGTC
30737238 CCCTATTCAGAACGGTGGT
1 CCCTATTCAGAACGGTGGT
30737257 CCCTATTCAGAACGGTGGT
1 CCCTATTCAGAACGGTGGT
30737276 TTCAGGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
CCCTATTCAGAACGGTGGT
Found at i:30737968 original size:29 final size:30
Alignment explanation
Indices: 30737930--30737990 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
30737920 AGTAATTGGG
*
30737930 CTAAATTGTAAAA-ATAAT-AAATTGATGGA
1 CTAAAATGTAAAATA-AATGAAATTGATGGA
*
30737959 CTAAAATGTAAAATAAATGAAATTTATGGA
1 CTAAAATGTAAAATAAATGAAATTGATGGA
30737989 CT
1 CT
30737991 TGTATGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (30 bp):
CTAAAATGTAAAATAAATGAAATTGATGGA
Found at i:30737988 original size:30 final size:29
Alignment explanation
Indices: 30737930--30737990 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
30737920 AGTAATTGGG
*
30737930 CTAAATTGTAAAAATAATAAATTGATGGA
1 CTAAAATGTAAAAATAATAAATTGATGGA
*
30737959 CTAAAATGT-AAAATAAATGAAATTTATGGA
1 CTAAAATGTAAAAAT-AAT-AAATTGATGGA
30737989 CT
1 CT
30737991 TGTATGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 11 0.39
30 12 0.43
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (29 bp):
CTAAAATGTAAAAATAATAAATTGATGGA
Found at i:30741602 original size:14 final size:14
Alignment explanation
Indices: 30741583--30741614 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30741573 AAATCAATTA
30741583 AAACACGGTTTCCC
1 AAACACGGTTTCCC
*
30741597 AAACACTGTTTCCC
1 AAACACGGTTTCCC
30741611 AAAC
1 AAAC
30741615 TAAGTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.22
Consensus pattern (14 bp):
AAACACGGTTTCCC
Found at i:30749621 original size:19 final size:19
Alignment explanation
Indices: 30749597--30749640 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30749587 TACAAGCAAC
*
30749597 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAAAAA
* *
30749616 ACAACATTAATCCAAAAAA
1 ACAACATCAACCCAAAAAA
30749635 ACAACA
1 ACAACA
30749641 AAAAAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.27, G:0.00, T:0.11
Consensus pattern (19 bp):
ACAACATCAACCCAAAAAA
Found at i:30750091 original size:211 final size:210
Alignment explanation
Indices: 30749712--30750104 Score: 635
Period size: 211 Copynumber: 1.9 Consensus size: 210
30749702 GTCAAAGTAA
* *
30749712 ACAACGACATTATAATAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACTTACACCACTC
1 ACAACAACATTATAATAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCACTC
* *
30749777 CAAACAAAAAAAAACACAACAAAAGTTTAATTAACCAACAACAATAACAAACCAAACCAAACTAA
66 CAAACAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACTAA
*
30749842 TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAATA
131 TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAATA
30749907 AACAACAAAAACAAT
196 AACAACAAAAACAAT
* * *
30749922 ACAACAACATTGTAATTAAAAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCAG
1 ACAACAACATTATAA-T-AAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
* * *
30749987 TCCAAA-AAAAAAGAACACAACAAAAGCTCAATTATCCAACAATAATAACAAACCAAACCAAACT
64 TCCAAACAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACT
* * *
30750051 AATAACAATAACACATCAGTTCAAAACCCATTATAGAATAGTTTAACTTTCTTC
129 AATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
30750105 TTGTGCTTCA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
210 13 0.08
211 104 0.62
212 50 0.30
ACGTcount: A:0.55, C:0.21, G:0.05, T:0.19
Consensus pattern (210 bp):
ACAACAACATTATAATAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCACTC
CAAACAAAAAAAAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAACTAA
TAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAATA
AACAACAAAAACAAT
Found at i:30752529 original size:30 final size:30
Alignment explanation
Indices: 30752489--30752555 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
30752479 GTTAAATTAA
* *
30752489 AAATCAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
30752519 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
30752549 AAATTAA
1 AAATTAA
30752556 AAATAGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:30754725 original size:9 final size:9
Alignment explanation
Indices: 30754713--30754749 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30754703 ATATAGTTTA
*
30754713 TATTCGATT
1 TATTCGAAT
30754722 TATTCGAAT
1 TATTCGAAT
*
30754731 TATTCGAGT
1 TATTCGAAT
30754740 TATTCGAAT
1 TATTCGAAT
30754749 T
1 T
30754750 CGAGAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30754736 original size:18 final size:18
Alignment explanation
Indices: 30754713--30754749 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30754703 ATATAGTTTA
*
30754713 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
30754731 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
30754749 T
1 T
30754750 CGAGAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:30754815 original size:9 final size:9
Alignment explanation
Indices: 30754790--30754835 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
30754780 TTGAAAAAAA
30754790 AATTCGAGTT
1 AATTCGA-TT
*
30754800 GATTCGATT
1 AATTCGATT
30754809 AATTCGATT
1 AATTCGATT
*
30754818 AACTCGATT
1 AATTCGATT
*
30754827 AACTCGATT
1 AATTCGATT
30754836 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:30766303 original size:27 final size:30
Alignment explanation
Indices: 30766256--30766325 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 30
30766246 TATCTCTTCC
*
30766256 TTAGATTGTCCT-AAGGCGACTTCC-A-CA
1 TTAGATAGTCCTAAAGGCGACTTCCTAGCA
*
30766283 TTAGATAGTCCTAAATG-GACTTCCTAGCA
1 TTAGATAGTCCTAAAGGCGACTTCCTAGCA
* *
30766312 CTATATAGTCCTAA
1 TTAGATAGTCCTAA
30766326 CGAACATCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.50
28 4 0.11
29 14 0.39
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (30 bp):
TTAGATAGTCCTAAAGGCGACTTCCTAGCA
Found at i:30766938 original size:38 final size:38
Alignment explanation
Indices: 30766864--30766968 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
30766854 AAGCTTGTAG
* *
30766864 ACCATTTTCATGGTG-CTGCTCCGTAGAGCTTATAGATA
1 ACCATTTTCACGGTGTC-GCTCCATAGAGCTTATAGATA
* * * *
30766902 ACCCTTTTTAGGGTGTCGCTTCATAGAGCTTATAGATA
1 ACCATTTTCACGGTGTCGCTCCATAGAGCTTATAGATA
* *
30766940 ATCATTTTCACGGTGTCGCTCCGTAGAGC
1 ACCATTTTCACGGTGTCGCTCCATAGAGC
30766969 CTGTAGACTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 54 0.98
39 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (38 bp):
ACCATTTTCACGGTGTCGCTCCATAGAGCTTATAGATA
Found at i:30769493 original size:18 final size:18
Alignment explanation
Indices: 30769472--30769506 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30769462 AATCAGTAAT
* *
30769472 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
30769490 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
30769507 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:30769540 original size:45 final size:45
Alignment explanation
Indices: 30769490--30769596 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
30769480 GTAGCAGTAG
* *
30769490 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATTTG-TAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAA-TCGATAA
*
30769535 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGATAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
30769580 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
30769597 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 2 0.04
45 54 0.95
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
Found at i:30771214 original size:20 final size:20
Alignment explanation
Indices: 30771191--30771230 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30771181 AAAACCATAG
30771191 CAATTA-ATAATTATAATAAT
1 CAATTATATAA-TATAATAAT
30771211 CAATTATATAATATAATAAT
1 CAATTATATAATATAATAAT
30771231 ATATATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
CAATTATATAATATAATAAT
Found at i:30771235 original size:17 final size:17
Alignment explanation
Indices: 30771206--30771239 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30771196 AATAATTATA
30771206 ATAATCAATTATATAAT
1 ATAATCAATTATATAAT
30771223 ATAAT-AATATATATAAT
1 ATAATCAAT-TATATAAT
30771240 CTAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATCAATTATATAAT
Found at i:30772006 original size:44 final size:45
Alignment explanation
Indices: 30771930--30772146 Score: 167
Period size: 46 Copynumber: 4.7 Consensus size: 45
30771920 GCATATTTGT
*
30771930 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTC-AAG
* *
30771976 GCCGATGCATGTCCCAGCCATGTCTTACACTGACTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCAAG
* * ** *
30772022 GCCGAAGCATGTCCCAGATATGTCTTACACTAGCACT-GGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACATCTCAAG
** *
30772068 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-C-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATC-TCAA---G
* *
30772116 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
30772147 AGCTCACACA
Statistics
Matches: 143, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.09
45 18 0.13
46 65 0.45
47 29 0.20
48 18 0.13
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCAAG
Found at i:30772026 original size:46 final size:46
Alignment explanation
Indices: 30771930--30772101 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
30771920 GCATATTTGT
* *
30771930 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTC-AA
*
30771976 GCCGATG-CATGTCCCAGCCAT-GTCTTACACTGACTTACGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACGTCTCAA
* * *
30772021 GGCCGAAG-CATGTCCCAGATAT-GTCTTACACTAGCACT-GGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTACGTCTCAA
**
30772067 TGTTGATGCCATGTCCCAGACATGGTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTG
30772102 GCTCTCATAA
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
44 13 0.12
45 14 0.13
46 52 0.49
47 16 0.15
48 12 0.11
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTCAA
Found at i:30775668 original size:20 final size:19
Alignment explanation
Indices: 30775640--30775677 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
30775630 TAAATTATTA
*
30775640 TTCTTAGAAAATAGAATTTG
1 TTCTAAGAAAATA-AATTTG
30775660 TTCTAAGAAAATAAATTT
1 TTCTAAGAAAATAAATTT
30775678 CCACTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (19 bp):
TTCTAAGAAAATAAATTTG
Found at i:30783267 original size:13 final size:15
Alignment explanation
Indices: 30783249--30783280 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
30783239 TTTTGTTAGA
30783249 TAAATA-ATTTTT-G
1 TAAATAGATTTTTGG
30783262 TAAATAGATTTTTGG
1 TAAATAGATTTTTGG
30783277 TAAA
1 TAAA
30783281 ATTATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 6 0.35
15 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
TAAATAGATTTTTGG
Found at i:30783675 original size:22 final size:21
Alignment explanation
Indices: 30783647--30783700 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
30783637 GTTCGTGTAA
30783647 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
30783669 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
30783688 TGTGAATTGTATA
1 T-TAAATTGTATA
30783701 ATTGTCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:30783844 original size:24 final size:24
Alignment explanation
Indices: 30783808--30783853 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
30783798 ACCGATACCT
* * *
30783808 AGCTCGGAGGAGCTTACTGATTAC
1 AGCTCGGAAGAGCATACCGATTAC
*
30783832 AGCTCGTAAGAGCATACCGATT
1 AGCTCGGAAGAGCATACCGATT
30783854 CAGAACTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (24 bp):
AGCTCGGAAGAGCATACCGATTAC
Found at i:30784597 original size:21 final size:20
Alignment explanation
Indices: 30784547--30784598 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
30784537 GCGTTATATT
* *
30784547 GATAGAAGTCCAGGTTGTATT
1 GATAGAACT-CAGGTTGTATC
* *
30784568 GGTATAACTCAGAGTTGTATC
1 GATAGAACTCAG-GTTGTATC
30784589 GATAGAACTC
1 GATAGAACTC
30784599 TCTGTTCTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (20 bp):
GATAGAACTCAGGTTGTATC
Found at i:30800230 original size:19 final size:20
Alignment explanation
Indices: 30800190--30800236 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
30800180 TTTTAAATTT
30800190 TAAAAAGTCAAAATAATATA
1 TAAAAAGTCAAAATAATATA
*
30800210 TAAAAA-TCTAAA-AATATTA
1 TAAAAAGTCAAAATAATA-TA
30800229 TAAAAAGT
1 TAAAAAGT
30800237 ACTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
TAAAAAGTCAAAATAATATA
Found at i:30800896 original size:22 final size:22
Alignment explanation
Indices: 30800856--30800901 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30800846 TATCTACTTA
*
30800856 TTTATAATTAAATAATATAAAT
1 TTTATAATTAAAAAATATAAAT
*
30800878 TTTATAA-TAAAAAATTATATAT
1 TTTATAATTAAAAAA-TATAAAT
30800900 TT
1 TT
30800902 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTATAATTAAAAAATATAAAT
Found at i:30800902 original size:21 final size:21
Alignment explanation
Indices: 30800854--30800903 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
30800844 TATATCTACT
*
30800854 TATTTATAATTAAATAATATA
1 TATTTATAATTAAAAAATATA
*
30800875 AATTTTATAA-TAAAAAATTATA
1 TA-TTTATAATTAAAAAA-TATA
30800897 TATTTAT
1 TATTTAT
30800904 TAAATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTATAATTAAAAAATATA
Found at i:30800935 original size:8 final size:8
Alignment explanation
Indices: 30800858--30800942 Score: 53
Period size: 8 Copynumber: 11.8 Consensus size: 8
30800848 TCTACTTATT
30800858 TATAATTA
1 TATAATTA
*
30800866 AATAA-TA
1 TATAATTA
*
30800873 TA-AATTT
1 TATAATTA
30800880 TATAA-TA
1 TATAATTA
* *
30800887 AAAAATTA
1 TATAATTA
*
30800895 TATATTTA
1 TATAATTA
30800903 T-TAA--A
1 TATAATTA
30800908 T-T-ATTA
1 TATAATTA
30800914 TATAATTA
1 TATAATTA
*
30800922 -AAAATTA
1 TATAATTA
30800929 TATAATTA
1 TATAATTA
30800937 TATAAT
1 TATAAT
30800943 AAATGAAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 4 0.07
7 19 0.33
8 30 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TATAATTA
Found at i:30800935 original size:15 final size:15
Alignment explanation
Indices: 30800861--30800936 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
30800851 ACTTATTTAT
* *
30800861 AATTAAATAA-TATA
1 AATTATATAATTAAA
* *
30800875 AATTTTATAATAAAA
1 AATTATATAATTAAA
30800890 AATTATATATTTATTAAA
1 AATTATATA---ATTAAA
*
30800908 TTATTATATAATTAAA
1 -AATTATATAATTAAA
30800924 AATTATATAATTA
1 AATTATATAATTA
30800937 TATAATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
14 8 0.16
15 22 0.45
16 6 0.12
18 5 0.10
19 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATATAATTAAA
Found at i:30809016 original size:15 final size:14
Alignment explanation
Indices: 30808980--30809019 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
30808970 TGTTTGACTT
30808980 AAAATAA-TTTTAA
1 AAAATAATTTTTAA
30808993 AAAATAATTTTTAA
1 AAAATAATTTTTAA
30809007 AAAATAAATTTTT
1 AAAAT-AATTTTT
30809020 TTTTGGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 7 0.28
14 11 0.44
15 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:30809351 original size:28 final size:28
Alignment explanation
Indices: 30809312--30809368 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 28
30809302 AAATATTTTG
30809312 TAATAATCAATG-TT-ATATATAAACTTAA
1 TAATAATCAATGCTTAAT-TA-AAACTTAA
30809340 TAATATAT-AATGCTTAATTAAAACTTAA
1 TAATA-ATCAATGCTTAATTAAAACTTAA
30809368 T
1 T
30809369 TAAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
28 18 0.69
29 6 0.23
30 2 0.08
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (28 bp):
TAATAATCAATGCTTAATTAAAACTTAA
Found at i:30813693 original size:13 final size:14
Alignment explanation
Indices: 30813659--30813699 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
30813649 ATATATTTCA
* *
30813659 ATTTAG-TTCTTTA
1 ATTTAGTTTTTTTT
30813672 ATTTAGTTTTTTTT
1 ATTTAGTTTTTTTT
30813686 ATTT-GTTTTTTTT
1 ATTTAGTTTTTTTT
30813699 A
1 A
30813700 ATGTTTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (14 bp):
ATTTAGTTTTTTTT
Found at i:30818546 original size:16 final size:16
Alignment explanation
Indices: 30818525--30818561 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
30818515 TTGGTTCGCT
*
30818525 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
30818541 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
30818557 GTAAT
1 GTAAT
30818562 AGGTAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:30818630 original size:44 final size:46
Alignment explanation
Indices: 30818541--30818631 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
30818531 GAATAGATGC
*
30818541 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
30818587 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
30818631 G
1 G
30818632 GAATAGATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:30818646 original size:39 final size:44
Alignment explanation
Indices: 30818541--30818647 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 44
30818531 GAATAGATGC
*
30818541 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
30818587 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
* *
30818627 G-AATGGAATAGATGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
30818648 ACATAAGGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 17 0.30
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 21 0.37
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:30818810 original size:15 final size:15
Alignment explanation
Indices: 30818790--30818828 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
30818780 CATAATTGTT
30818790 ATAAAATATAATTTA
1 ATAAAATATAATTTA
30818805 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
30818822 ATAAAAT
1 ATAAAAT
30818829 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:30818835 original size:17 final size:17
Alignment explanation
Indices: 30818795--30818828 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30818785 TTGTTATAAA
30818795 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30818812 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30818829 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30818952 original size:17 final size:17
Alignment explanation
Indices: 30818912--30818945 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30818902 TTATTATTAA
30818912 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30818929 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30818946 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30818981 original size:117 final size:117
Alignment explanation
Indices: 30818775--30819179 Score: 720
Period size: 117 Copynumber: 3.5 Consensus size: 117
30818765 TTAATCATAT
* * *
30818775 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
* *
30818840 GTTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
30818892 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
30818957 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
30819009 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
30819074 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
30819126 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTACTAAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAAT
30819180 CATAATATAT
Statistics
Matches: 275, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 275 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:30819044 original size:15 final size:15
Alignment explanation
Indices: 30819024--30819062 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
30819014 CATAATTGTT
30819024 ATAAAATATAATTTA
1 ATAAAATATAATTTA
30819039 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
30819056 ATAAAAT
1 ATAAAAT
30819063 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:30819069 original size:17 final size:17
Alignment explanation
Indices: 30819029--30819062 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30819019 TTGTTATAAA
30819029 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30819046 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30819063 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30819134 original size:20 final size:21
Alignment explanation
Indices: 30819095--30819134 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
30819085 AATTTACTAA
*
30819095 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
30819116 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
30819135 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:30819168 original size:17 final size:17
Alignment explanation
Indices: 30819146--30819179 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30819136 TTATTATTAA
30819146 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
30819163 ATATAATTTACTAAAAT
1 ATATAATTTAATAAAAT
30819180 CATAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30819200 original size:23 final size:22
Alignment explanation
Indices: 30819155--30819244 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
30819145 AATATAATTT
* *
30819155 AATAAAATATATAATTTACTAA
1 AATATAATATATAATCTACTAA
30819177 AATCATAATATATAATACTA-TAA
1 AAT-ATAATATATAAT-CTACTAA
* *
30819200 AATATAATTTAAATAAT-TATTATTA
1 AATATAA--TATATAATCTACTA--A
*
30819225 AATATAATTTATAATCTACT
1 AATATAATATATAATCTACT
30819245 TTATTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
22 9 0.17
23 25 0.46
24 12 0.22
25 8 0.15
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATATATAATCTACTAA
Found at i:30819231 original size:32 final size:32
Alignment explanation
Indices: 30819195--30819258 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
30819185 TATATAATAC
*
30819195 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
30819227 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
30819259 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:30821698 original size:29 final size:29
Alignment explanation
Indices: 30821677--30821735 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30821667 CATTTTGATG
30821677 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
30821706 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
30821735 T
1 T
30821736 TATATAGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TATTTTGATGTATTTCAATCATTATCGAT
Found at i:30829912 original size:6 final size:6
Alignment explanation
Indices: 30829901--30829955 Score: 74
Period size: 6 Copynumber: 8.5 Consensus size: 6
30829891 TATTCTAAAT
30829901 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA GTAAAAA GTAAAAAA TAATAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA -T-AAAAA TAA-AAA
30829953 TAA
1 TAA
30829956 CAAAGCTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 26 0.57
7 15 0.33
8 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:30829912 original size:7 final size:7
Alignment explanation
Indices: 30829897--30829955 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
30829887 AGCCTATTCT
*
30829897 AAATTAA
1 AAATAAA
30829904 AAAT-AA
1 AAATAAA
30829910 AAAT-AA
1 AAATAAA
30829916 AAAT-AA
1 AAATAAA
30829922 AAATAAA
1 AAATAAA
*
30829929 AAGTAAA
1 AAATAAA
*
30829936 AAGTAAA
1 AAATAAA
*
30829943 AAATAAT
1 AAATAAA
30829950 AAATAA
1 AAATAA
30829956 CAAAGCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
6 18 0.38
7 30 0.62
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:30829976 original size:30 final size:27
Alignment explanation
Indices: 30829896--30829980 Score: 79
Period size: 30 Copynumber: 3.1 Consensus size: 27
30829886 TAGCCTATTC
*
30829896 TAAATTAAAAA-TAAAAA-TAAAAATAA
1 TAAA-TAAAAAGTAAAAAGAAAAAATAA
30829922 -AAATAAAAAGTAAAAAGTAAAAAATAA
1 TAAATAAAAAGTAAAAAG-AAAAAATAA
30829949 TAAATAACAAAGCTAAATAA-AACAAAATAA
1 TAAATAA-AAAG-TAAA-AAGAA-AAAATAA
30829979 TA
1 TA
30829981 TCTTCTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
24 6 0.12
25 9 0.18
27 8 0.16
28 6 0.12
29 6 0.12
30 13 0.26
31 2 0.04
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (27 bp):
TAAATAAAAAGTAAAAAGAAAAAATAA
Found at i:30837944 original size:16 final size:16
Alignment explanation
Indices: 30837912--30837945 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30837902 CCAATATCCA
*
30837912 ATTATCACAATTGCAC
1 ATTATCACAATTACAC
*
30837928 ATTATCACATTTACAC
1 ATTATCACAATTACAC
30837944 AT
1 AT
30837946 ATATTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTATCACAATTACAC
Found at i:30842116 original size:30 final size:30
Alignment explanation
Indices: 30842082--30842149 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
30842072 ATGGTTTAGG
**
30842082 ATTTTTTAGATTTTAGGGTTTGTTATATAT
1 ATTTTTTAGATTTTAGAATTTGTTATATAT
* * * *
30842112 ATTTTATAGTTTTTATAATTTTTTATATAT
1 ATTTTTTAGATTTTAGAATTTGTTATATAT
30842142 ACTTTTTT
1 A-TTTTTT
30842150 TATAATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.25, C:0.01, G:0.09, T:0.65
Consensus pattern (30 bp):
ATTTTTTAGATTTTAGAATTTGTTATATAT
Found at i:30842135 original size:11 final size:11
Alignment explanation
Indices: 30842121--30842160 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
30842111 TATTTTATAG
30842121 TTTTTATAATT
1 TTTTTATAATT
30842132 TTTTATATATACTT
1 TTTT-TATA-A-TT
30842146 TTTTTATAATT
1 TTTTTATAATT
30842157 TTTT
1 TTTT
30842161 GAGATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.38
12 5 0.19
13 5 0.19
14 6 0.23
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:30849042 original size:17 final size:17
Alignment explanation
Indices: 30849020--30849058 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
30849010 TTTTATTTTT
*
30849020 AAAAATACATAAAACAC
1 AAAAATACAGAAAACAC
* *
30849037 AAAAATAGAGAAAATAC
1 AAAAATACAGAAAACAC
30849054 AAAAA
1 AAAAA
30849059 AATTGTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAATACAGAAAACAC
Found at i:30850322 original size:13 final size:12
Alignment explanation
Indices: 30850288--30850330 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
30850278 CTATATAATT
30850288 AAATTTTTATATA
1 AAATTTTTATA-A
*
30850301 ATATTTTTATAA
1 AAATTTTTATAA
*
30850313 AAATTATTTAAAA
1 AAATT-TTTATAA
30850326 AAATT
1 AAATT
30850331 AAACCACCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATTTTTATAA
Found at i:30851070 original size:57 final size:57
Alignment explanation
Indices: 30851001--30851114 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
30850991 ACTCCAGTTA
30851001 AAATTTGGATGTTGTTTCCACCTTGGATTGTATGTGTTGGAGTAGGAATTGTTGTTG
1 AAATTTGGATGTTGTTTCCACCTTGGATTGTATGTGTTGGAGTAGGAATTGTTGTTG
30851058 AAATTTGGATGTTGTTTCCACCTTGGATTGTATGTGTTGGAGTAGGAATTGTTGTTG
1 AAATTTGGATGTTGTTTCCACCTTGGATTGTATGTGTTGGAGTAGGAATTGTTGTTG
30851115 CTACGATTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.07, G:0.30, T:0.44
Consensus pattern (57 bp):
AAATTTGGATGTTGTTTCCACCTTGGATTGTATGTGTTGGAGTAGGAATTGTTGTTG
Found at i:30854567 original size:17 final size:17
Alignment explanation
Indices: 30854547--30854581 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
30854537 ATTTACAACG
30854547 GTGATGAGCTTGTGGCA
1 GTGATGAGCTTGTGGCA
*
30854564 GTGATGGGCTTGTGGCA
1 GTGATGAGCTTGTGGCA
30854581 G
1 G
30854582 CGACAAGGCT
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:0.14, C:0.11, G:0.46, T:0.29
Consensus pattern (17 bp):
GTGATGAGCTTGTGGCA
Found at i:30855986 original size:352 final size:352
Alignment explanation
Indices: 30855336--30856043 Score: 1398
Period size: 352 Copynumber: 2.0 Consensus size: 352
30855326 GTTAACCACT
*
30855336 AACTTTATAGGTGGTATAACTTGCTCAACGTACCTCCCCTGTTGTTGTACAATTCTACCACTCCA
1 AACTTGATAGGTGGTATAACTTGCTCAACGTACCTCCCCTGTTGTTGTACAATTCTACCACTCCA
30855401 TATGGGTAAAATTTATAGATGGTATAAGGTCTTTTCCATCAGGATTTGAGTTTTACCTGAAATAA
66 TATGGGTAAAATTTATAGATGGTATAAGGTCTTTTCCATCAGGATTTGAGTTTTACCTGAAATAA
30855466 CCTTAACCTCGAATTAAACAACAATATTTTTTGTCTTTCTCAAAATTCACGAGGTTGTATACGGT
131 CCTTAACCTCGAATTAAACAACAATATTTTTTGTCTTTCTCAAAATTCACGAGGTTGTATACGGT
30855531 TGTCATGCCATCTTTTAGTCTTTTATTTATACATCTTGGAATTCTCATACGAAATAACCTCAACT
196 TGTCATGCCATCTTTTAGTCTTTTATTTATACATCTTGGAATTCTCATACGAAATAACCTCAACT
30855596 TCTCTAACTAATCAAGTTGCAACATCCTTCTGTCACCGGCTTGCTTAAGATCCAAATTTAATTGC
261 TCTCTAACTAATCAAGTTGCAACATCCTTCTGTCACCGGCTTGCTTAAGATCCAAATTTAATTGC
30855661 TTTAAAGCCTAGTGAGCTTTATTCTCC
326 TTTAAAGCCTAGTGAGCTTTATTCTCC
30855688 AACTTGATAGGTGGTATAACTTGCTCAACGTACCTCCCCTGTTGTTGTACAATTCTACCACTCCA
1 AACTTGATAGGTGGTATAACTTGCTCAACGTACCTCCCCTGTTGTTGTACAATTCTACCACTCCA
*
30855753 TATGGGTAAAATTTATAGATGGTATAAGGTCTTTTCCATCAGGATTTGAGTTTTCCCTGAAATAA
66 TATGGGTAAAATTTATAGATGGTATAAGGTCTTTTCCATCAGGATTTGAGTTTTACCTGAAATAA
30855818 CCTTAACCTCGAATTAAACAACAATATTTTTTGTCTTTCTCAAAATTCACGAGGTTGTATACGGT
131 CCTTAACCTCGAATTAAACAACAATATTTTTTGTCTTTCTCAAAATTCACGAGGTTGTATACGGT
30855883 TGTCATGCCATCTTTTAGTCTTTTATTTATACATCTTGGAATTCTCATACGAAATAACCTCAACT
196 TGTCATGCCATCTTTTAGTCTTTTATTTATACATCTTGGAATTCTCATACGAAATAACCTCAACT
30855948 TCTCTAACTAATCAAGTTGCAACATCCTTCTGTCACCGGCTTGCTTAAGATCCAAATTTAATTGC
261 TCTCTAACTAATCAAGTTGCAACATCCTTCTGTCACCGGCTTGCTTAAGATCCAAATTTAATTGC
30856013 TTTAAAGCCTAGTGAGCTTTATTCTCC
326 TTTAAAGCCTAGTGAGCTTTATTCTCC
30856040 AACT
1 AACT
30856044 CAAGTGAAAA
Statistics
Matches: 354, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 354 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (352 bp):
AACTTGATAGGTGGTATAACTTGCTCAACGTACCTCCCCTGTTGTTGTACAATTCTACCACTCCA
TATGGGTAAAATTTATAGATGGTATAAGGTCTTTTCCATCAGGATTTGAGTTTTACCTGAAATAA
CCTTAACCTCGAATTAAACAACAATATTTTTTGTCTTTCTCAAAATTCACGAGGTTGTATACGGT
TGTCATGCCATCTTTTAGTCTTTTATTTATACATCTTGGAATTCTCATACGAAATAACCTCAACT
TCTCTAACTAATCAAGTTGCAACATCCTTCTGTCACCGGCTTGCTTAAGATCCAAATTTAATTGC
TTTAAAGCCTAGTGAGCTTTATTCTCC
Found at i:30871797 original size:16 final size:16
Alignment explanation
Indices: 30871767--30871808 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30871757 ATTATCTTTA
*
30871767 TTTTTGAAATCATAACT
1 TTTTTTAAATCATAA-T
30871784 TTTTTTAAAT-ATAAT
1 TTTTTTAAATCATAAT
30871799 TATTTTTAAA
1 T-TTTTTAAA
30871809 AACTATCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 9 0.39
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTTTAAATCATAAT
Found at i:30872690 original size:3 final size:3
Alignment explanation
Indices: 30872682--30872713 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30872672 AGGTGATCTT
30872682 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30872714 TATTTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30873177 original size:19 final size:19
Alignment explanation
Indices: 30873138--30873180 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30873128 GATTTTTTTA
30873138 TTTT-TTTGTGTAAAATCT
1 TTTTCTTTGTGTAAAATCT
*
30873156 TTTTCTTTGTTTAACAAT-T
1 TTTTCTTTGTGTAA-AATCT
30873175 TTTTCT
1 TTTTCT
30873181 AAAATCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTTCTTTGTGTAAAATCT
Found at i:30873200 original size:16 final size:16
Alignment explanation
Indices: 30873181--30873214 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30873171 AATTTTTTCT
*
30873181 AAAATCGTTTTTAAAA
1 AAAATAGTTTTTAAAA
*
30873197 AAAATATTTTTTAAAA
1 AAAATAGTTTTTAAAA
30873213 AA
1 AA
30873215 TAAACATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAATAGTTTTTAAAA
Found at i:30883697 original size:20 final size:18
Alignment explanation
Indices: 30883659--30883697 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
30883649 ATTCAAATAT
*
30883659 ATCATATAACATTCTTAA
1 ATCATATAACATGCTTAA
30883677 ATCATATTAATCATGCTTAA
1 ATCATA-TAA-CATGCTTAA
30883697 A
1 A
30883698 CACACAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (18 bp):
ATCATATAACATGCTTAA
Found at i:30884631 original size:12 final size:12
Alignment explanation
Indices: 30884614--30884643 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30884604 GCACATGGCT
30884614 GTGTCCCAGCCC
1 GTGTCCCAGCCC
*
30884626 GTGTCCCAGCCT
1 GTGTCCCAGCCC
30884638 GTGTCC
1 GTGTCC
30884644 AACCCCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.43, G:0.27, T:0.23
Consensus pattern (12 bp):
GTGTCCCAGCCC
Found at i:30887413 original size:31 final size:31
Alignment explanation
Indices: 30887375--30887436 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30887365 ATATAAATGA
30887375 GTACTCAAATCCTATGGCATGCCAACTATAT
1 GTACTCAAATCCTATGGCATGCCAACTATAT
30887406 GTACTCAAATCCTATGGCATGCCAACTATAT
1 GTACTCAAATCCTATGGCATGCCAACTATAT
30887437 CTAATGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (31 bp):
GTACTCAAATCCTATGGCATGCCAACTATAT
Found at i:30889458 original size:21 final size:21
Alignment explanation
Indices: 30889434--30889477 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
30889424 AGTTTCCCTC
* *
30889434 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATAATCTACTCATT
30889455 TCTTGTAATAATCTACTCATT
1 TCTTGTAATAATCTACTCATT
30889476 TC
1 TC
30889478 AAATCTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (21 bp):
TCTTGTAATAATCTACTCATT
Found at i:30890348 original size:31 final size:31
Alignment explanation
Indices: 30890310--30890373 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30890300 GATTCATATA
*
30890310 ATATATGTTTTGTAACACCCCTACCCGACCC
1 ATATATGTTTTATAACACCCCTACCCGACCC
* *
30890341 ATATATGTTTTATAACACCCCTGCCTGACCC
1 ATATATGTTTTATAACACCCCTACCCGACCC
30890372 AT
1 AT
30890374 TCGCTAGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (31 bp):
ATATATGTTTTATAACACCCCTACCCGACCC
Found at i:30892240 original size:15 final size:16
Alignment explanation
Indices: 30892220--30892249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30892210 TTTGACTAAG
30892220 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
30892235 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
30892250 GTTCCAATGC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:30893788 original size:10 final size:10
Alignment explanation
Indices: 30893773--30893815 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
30893763 GTAGAAAATG
30893773 ATCAAAATTA
1 ATCAAAATTA
30893783 ATCAAAATTTA
1 ATCAAAA-TTA
30893794 TTAT-AAAATTA
1 --ATCAAAATTA
30893805 ATCAAAATTA
1 ATCAAAATTA
30893815 A
1 A
30893816 ACATGTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.07
10 15 0.52
11 6 0.21
12 4 0.14
13 2 0.07
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:30893834 original size:8 final size:8
Alignment explanation
Indices: 30893821--30893845 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30893811 ATTAAACATG
30893821 TTAATAAT
1 TTAATAAT
30893829 TTAATAAT
1 TTAATAAT
30893837 TTAATAAT
1 TTAATAAT
30893845 T
1 T
30893846 ATTATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAATAAT
Found at i:30894529 original size:5 final size:5
Alignment explanation
Indices: 30894519--30894550 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30894509 AAAGTGTGAA
30894519 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
30894551 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:30894544 original size:9 final size:9
Alignment explanation
Indices: 30894520--30894550 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
30894510 AAGTGTGAAA
30894520 AAATAAAAT
1 AAATAAAAT
30894529 AAAATAAAAT
1 -AAATAAAAT
30894539 AAATAAAAT
1 AAATAAAAT
30894548 AAA
1 AAA
30894551 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:30898960 original size:5 final size:5
Alignment explanation
Indices: 30898950--30898981 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30898940 AATTTGTGAA
30898950 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
30898982 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:30898975 original size:9 final size:9
Alignment explanation
Indices: 30898951--30898981 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
30898941 ATTTGTGAAA
30898951 AAATAAAAT
1 AAATAAAAT
30898960 AAAATAAAAT
1 -AAATAAAAT
30898970 AAATAAAAT
1 AAATAAAAT
30898979 AAA
1 AAA
30898982 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:30900883 original size:16 final size:15
Alignment explanation
Indices: 30900853--30900891 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30900843 TATGCAAAGT
* *
30900853 TAATAATAATTAATA
1 TAATTATAATAAATA
30900868 TATATTATAATAAATA
1 TA-ATTATAATAAATA
30900884 TAATTATA
1 TAATTATA
30900892 TACTAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTATAATAAATA
Found at i:30902788 original size:40 final size:40
Alignment explanation
Indices: 30902742--30902966 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
30902732 CTTGCGCAAG
* * *
30902742 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
30902782 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
30902822 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
30902862 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
30902902 GCCTTCGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
30902943 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
30902967 CATTCGAATA
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:30902837 original size:80 final size:80
Alignment explanation
Indices: 30902706--30902966 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
30902696 CTCAAGTAAT
* * * * * * * *
30902706 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
30902769 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
30902784 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
30902848 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * * *
30902864 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
30902929 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
30902945 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30902967 CATTCGAATA
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 92 0.61
81 32 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:30907317 original size:28 final size:27
Alignment explanation
Indices: 30907279--30907335 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
30907269 ATGGGGTAAA
30907279 TTATCCCGCATCTAACAACTTGATAAT
1 TTATCCCGCATCTAACAACTTGATAAT
*
30907306 TTATACCCGCATCTAACAACTTGATGAT
1 TTAT-CCCGCATCTAACAACTTGATAAT
30907334 TT
1 TT
30907336 CTTTCTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.35
Consensus pattern (27 bp):
TTATCCCGCATCTAACAACTTGATAAT
Found at i:30916059 original size:46 final size:46
Alignment explanation
Indices: 30916009--30916181 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
30915999 TGGTTGAGCA
30916009 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30916055 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
30916100 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30916148 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30916182 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 2 0.02
46 56 0.53
47 26 0.25
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30916165 original size:93 final size:93
Alignment explanation
Indices: 30916006--30916175 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
30915996 GGATGGTTGA
* * *
30916006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
30916071 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
*
30916099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
30916164 TGAGTCTGAGTT
66 TGAGTCCGAGTT
30916176 CACTTAGGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:30918169 original size:57 final size:57
Alignment explanation
Indices: 30918034--30918182 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
30918024 CAATCTTGTA
* *
30918034 ATATAAAGGATTTAGCCTGGA-TGGGTAATCCCGATATCACACCCCTCGAGCATACATT
1 ATATAAAGGATTTAGCCTGGACT-GGTAAT-CCTATATCACACCCCTCAAGCATACATT
* * * * * *
30918092 ATGAT-TAGGGTTTAGTCTGGACTGGTAATCCTA-ATCGA-GCTCCTCTAAGCATACGTT
1 AT-ATAAAGGATTTAGCCTGGACTGGTAATCCTATATC-ACACCCCTC-AAGCATACATT
30918149 ATATAAAGGATTTAGCCTGGACTGGTAATCCTAT
1 ATATAAAGGATTTAGCCTGGACTGGTAATCCTAT
30918183 TAAATGATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
56 10 0.14
57 40 0.54
58 21 0.28
59 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (57 bp):
ATATAAAGGATTTAGCCTGGACTGGTAATCCTATATCACACCCCTCAAGCATACATT
Found at i:30920226 original size:39 final size:39
Alignment explanation
Indices: 30920181--30920320 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
30920171 GCTCTGATGA
* * * *
30920181 GCTTCAGTTTGGCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
30920220 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
30920259 GCTTCAGTTAGCCTTCGGGATTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
30920298 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
30920321 AGATCACGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.12, C:0.24, G:0.25, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:30925633 original size:130 final size:129
Alignment explanation
Indices: 30925363--30925635 Score: 298
Period size: 130 Copynumber: 2.1 Consensus size: 129
30925353 TTCATCGTCT
* * ***
30925363 GTGATGCTATAGTACCTTTCAACCATGGTCTTACACATTTTTTCTATCAACTCATCTTTTGATGC
1 GTGATGCCATAGTACCTTTCAACCATGGTCTTACACATTTTTTCCATCAACTCATAACTTGATGC
* ** * * * * *
30925428 CATATCATCTTTCAGTTATGGTCTTACTCAATAAAACTTGTGTTTATCGTCCCGCCAGGCTATCT
66 CATAGCATCTTTCAACTATGGTCTTACTCAATAAAACCTGTGTTTATAGTCCAG-CAGGCTACCA
* *
30925493 GTGATGCCATAGTACCTTTCAACCATGGTCTTACACATTTTTTCCGTCAACTCATAACTTGATGT
1 GTGATGCCATAGTACCTTTCAACCATGGTCTTACACATTTTTTCCATCAACTCATAACTTGATGC
* * * * * *
30925558 CATAGCTTCTTTTAACTATGGTCTTACTCATTATAACCCTGTGTTTACTATTCCAG-TGGACTAC
66 CATAGCATCTTTCAACTATGGTCTTACTCAATA-AAACCTGTGTTTA-TAGTCCAGCAGG-CTAC
30925622 CA
128 CA
*
30925624 G-GATTCCATAGT
1 GTGATGCCATAGT
30925636 CCCACTATGG
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 97 0.82
131 16 0.14
132 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (129 bp):
GTGATGCCATAGTACCTTTCAACCATGGTCTTACACATTTTTTCCATCAACTCATAACTTGATGC
CATAGCATCTTTCAACTATGGTCTTACTCAATAAAACCTGTGTTTATAGTCCAGCAGGCTACCA
Found at i:30929494 original size:35 final size:35
Alignment explanation
Indices: 30929447--30929522 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
30929437 AACTGATGTG
30929447 AGTGATGGTAAATTGGTACTTAGAGTAGGTGACGA
1 AGTGATGGTAAATTGGTACTTAGAGTAGGTGACGA
*
30929482 GGTGATGGTAAATTGGTACTTAGAGTAGGTGACGA
1 AGTGATGGTAAATTGGTACTTAGAGTAGGTGACGA
30929517 AGTGAT
1 AGTGAT
30929523 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.29
Consensus pattern (35 bp):
AGTGATGGTAAATTGGTACTTAGAGTAGGTGACGA
Found at i:30934243 original size:25 final size:26
Alignment explanation
Indices: 30934215--30934269 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
30934205 TTATTTTATG
30934215 TTATATT-A-TTACATATATTAA-TATA
1 TTATATTAATTTACATAT-TTAACT-TA
30934240 TTAT-TTAATTTACATATTTAACTTA
1 TTATATTAATTTACATATTTAACTTA
30934265 TTATA
1 TTATA
30934270 AAATATGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATATTAATTTACATATTTAACTTA
Found at i:30947614 original size:22 final size:22
Alignment explanation
Indices: 30947571--30947681 Score: 125
Period size: 22 Copynumber: 5.0 Consensus size: 22
30947561 GAGTCATGGT
*
30947571 CGGTAAGCTCCT-TCGAGCTGAA
1 CGGTAAGCT-CTATTGAGCTGAA
* * *
30947593 CAGTAAGCTCTATTAAGTTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
*
30947616 CGGCAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
30947638 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* * *
30947660 CGATAAGCTCCAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
30947682 ATAGTAAGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
21 2 0.03
22 55 0.73
23 18 0.24
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:30947689 original size:45 final size:45
Alignment explanation
Indices: 30947585--30947693 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
30947575 AAGCTCCTTC
* * * *
30947585 GAGCTGAACAGTAAGCTCTATTAAGTTGAAACGGCAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTATTAAGCTGAAACGACAAGCTCCAAT
* * *
30947630 GAGCTGAACGGTAAGCTCTATTGAGCTG-AACGATAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTATTAAGCTGAAACGACAAGCTCCAAT
*
30947674 GAGCTGAAATAGTAAGCTCT
1 GAGCTG-AACAGTAAGCTCT
30947694 TACGAGCTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 18 0.33
45 36 0.67
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (45 bp):
GAGCTGAACAGTAAGCTCTATTAAGCTGAAACGACAAGCTCCAAT
Found at i:30948769 original size:38 final size:38
Alignment explanation
Indices: 30948724--30948798 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
30948714 TCACACGGCC
30948724 AGACACACGCCCGTGTCATTGGCCAGAGTCCCTCACAT
1 AGACACACGCCCGTGTCATTGGCCAGAGTCCCTCACAT
30948762 AGACACACGCCCGTGTCATTGGCCAGAGTCCCTCACA
1 AGACACACGCCCGTGTCATTGGCCAGAGTCCCTCACA
30948799 CACTTATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.37, G:0.21, T:0.17
Consensus pattern (38 bp):
AGACACACGCCCGTGTCATTGGCCAGAGTCCCTCACAT
Found at i:30950330 original size:50 final size:50
Alignment explanation
Indices: 30950259--30950402 Score: 216
Period size: 50 Copynumber: 2.9 Consensus size: 50
30950249 CACATAGTGA
* * * *
30950259 GATGCCAATGGCATATCCCAGATATGGTCTTACATGGGTTCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
* *
30950309 GATGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
* *
30950359 GATGCCAATGCCATGTCCCCGACATGGTTTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
30950403 TATCGAAACT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
Found at i:30953720 original size:47 final size:46
Alignment explanation
Indices: 30953632--30953934 Score: 208
Period size: 47 Copynumber: 6.5 Consensus size: 46
30953622 GTCAATGCCG
* *
30953632 TGTCCCAGACA-GGTCTTACACT-GACT--GATGTCAAGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAG-CTCACATCTCAAGCCGATG-CA
* *
30953676 TGTCCTAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATG-CA
* * * * *
30953723 TGTCCCAGAAATGGTCTTACACTAACT-ATCATCATCGAGGCTGATGCG
1 TGTCCCAGACATGGTCTTACACTAGCTCA-CATC-TC-AAGCCGATGCA
* * * * * * *
30953771 TGTCCTAGACA-CGTCTTACACTAGCACTCGTCTCAATACTGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATG-CA
* * * * *
30953818 TGTCCCAGACATGGTCTTACACTAGTATGCATATCTTGAGGCCGGTGCA
1 TGTCCCAGACATGGTCTTACACTAG-CT-CACATC-TCAAGCCGATGCA
* * * * *
30953867 TGTCCTAGACAT-GTCTTACGCTGGCTCTCGTCTCAAAGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTC-AAGCCGATGCA
30953913 TGTCCCAGACAT-GTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
30953935 GATGCACATA
Statistics
Matches: 199, Mismatches: 45, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 42 0.21
47 70 0.35
48 34 0.17
49 19 0.10
50 7 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCA
Found at i:30953818 original size:95 final size:94
Alignment explanation
Indices: 30953626--30953934 Score: 309
Period size: 95 Copynumber: 3.3 Consensus size: 94
30953616 ATCTGCGTCA
* * *
30953626 ATGCCGTGTCCCAGACA-GGTCTTACACTGAC--TG-ATGTC--AAGCCGATGCCATGTCCTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTATGCATATCTGAGGCCGATG-CATGTCCTAGA
* * *
30953685 CATGGTCTTACACTAGCTCACATCTCAAGT-CG
64 CA-CGTCTTACACTAGCTCTCGTCTCAA-TACG
* * *
30953717 ATGCCATGTCCCAGAAATGGTCTTACACTAACTAT-CATCATC-GAGGCTGATGCGTGTCCTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACT-ACTATGCAT-ATCTGAGGCCGATGCATGTCCTAGA
*
30953780 CACGTCTTACACTAGCACTCGTCTCAATACTG
64 CACGTCTTACACTAGCTCTCGTCTCAATAC-G
* *
30953812 ATGCCATGTCCCAGACATGGTCTTACACTAGTATGCATATCTTGAGGCCGGTGCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTACTATGCATATC-TGAGGCCGATGCATGTCCTAGAC
* * *
30953877 ATGTCTTACGCTGGCTCTCGTCTCAA-AGCCG
65 ACGTCTTACACTAGCTCTCGTCTCAATA--CG
30953908 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
30953935 GATGCACATA
Statistics
Matches: 185, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
91 15 0.08
92 13 0.07
93 1 0.01
94 42 0.23
95 61 0.33
96 52 0.28
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTACTATGCATATCTGAGGCCGATGCATGTCCTAGACA
CGTCTTACACTAGCTCTCGTCTCAATACG
Found at i:30956467 original size:50 final size:50
Alignment explanation
Indices: 30956400--30956541 Score: 189
Period size: 50 Copynumber: 2.9 Consensus size: 50
30956390 CACATAGTGA
* * *
30956400 GATGCCAATGGCA--TCCCAGATAAGGTCTTACATGGGTTCACACATATC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACACATATC
* * *
30956448 GATGCCAATGTCATGTCCCAAACATGGTCTTACATGGGATCACACATATC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACACATATC
* * *
30956498 GATGTCAATGCCATGTCCCTGATATGGTTTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACA
30956542 TATCGAAACT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 12 0.15
50 69 0.85
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACACATATC
Found at i:30961823 original size:16 final size:18
Alignment explanation
Indices: 30961804--30961838 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
30961794 ATTTTTTTAA
30961804 TTGAAAA-TAATTT-TTT
1 TTGAAAATTAATTTATTT
30961820 TTGAAAATTAATTTATTT
1 TTGAAAATTAATTTATTT
30961838 T
1 T
30961839 CTAGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 6 0.35
18 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TTGAAAATTAATTTATTT
Found at i:30961898 original size:17 final size:18
Alignment explanation
Indices: 30961864--30961901 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30961854 TCTTTTGGGG
30961864 TTTTTGCTTAAAATATTT
1 TTTTTGCTTAAAATATTT
*
30961882 TTTTTGTTTAACAAT-TTT
1 TTTTTGCTTAA-AATATTT
30961900 TT
1 TT
30961902 ACTAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTGCTTAAAATATTT
Found at i:30962000 original size:18 final size:17
Alignment explanation
Indices: 30961972--30962009 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
30961962 AATTAAAATT
30961972 TAAAAAATATTTTATAA
1 TAAAAAATATTTTATAA
30961989 TAAAATAATATTTTATAA
1 TAAAA-AATATTTTATAA
30962007 TAA
1 TAA
30962010 GTTATGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAAATATTTTATAA
Found at i:30972091 original size:43 final size:43
Alignment explanation
Indices: 30972029--30972141 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
30972019 GTTTATGTAA
30972029 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCAC
* ** *
30972072 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTTTCAT
1 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCAC
* * *
30972115 AAATGCCGCTAAAAATCATCGCCTTTA
1 AAACGCCGCTAAAGATCATGGCCTTTA
30972142 AAAAAATATT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTCCCAC
Found at i:30972453 original size:31 final size:32
Alignment explanation
Indices: 30972378--30972463 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
30972368 CAAAGTTATC
*
30972378 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATAATAAAATAAAAATAAAAATTTAGAA
*
30972410 TTAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATAATAAAATAAA-AATAAAAATTTAGAA
* **
30972440 TTAAATAAAAAAATATCAATAAAA
1 TTAAATAATAAAATAAAAATAAAA
30972464 TAAGATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 13 0.28
31 21 0.45
32 13 0.28
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (32 bp):
TTAAATAATAAAATAAAAATAAAAATTTAGAA
Found at i:30977593 original size:496 final size:493
Alignment explanation
Indices: 30976610--30977735 Score: 2074
Period size: 496 Copynumber: 2.3 Consensus size: 493
30976600 TTTTAAGTTT
* *
30976610 TTTATTTTTGATTTAATCATAGACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
*
30976675 AAATATAAATATTTATGTATGCAATAAATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
*
30976740 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTTTACCCTGATCCCCATATTTA
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATATTTA
*
30976805 TCCCTAAAAGCTAAAAATTAAACCTTGATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
196 TCCCTAAAAGCTAAAAATTAAACCTTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
*
30976870 TCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCTAAACTCTAAACCATAAAACA
261 CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCTAAACTCTAAACCATAAAACA
30976935 TAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACACC
326 TAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACACC
*
30977000 TAAATTTTGATAGAGATACATCTCAAAATTATATATGAATTTCGATTTAATATGTAATTGTAGAT
391 TAAATTTTGATAGAGATACATCTCAAAATTATATATGAATTTCGATTTAATATATAATTGTAGAT
30977065 GTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
456 GTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
30977103 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
30977168 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
30977233 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATACATT
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCAT--ATT
* * *
30977298 TATCCCTAAATGCTAAAAATTAAA-CTCTAATCCCCAAACGCCAAACCTTAAATCCTAGATTATA
194 TATCCCTAAAAGCTAAAAATTAAACCT-TAATCCCCAAACACCAAACCTTAAATCCTAGATCATA
*
30977362 AATCCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATTCCCTAAACTCTAAACTATAA
258 AATCCTAAACCCCAAAATAATGAACATTATATCATAACCCCTA-TCCCTAAACTCTAAACCATAA
30977427 AACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACA
322 AACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACA
* *
30977492 CACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATGTATAATTGT
387 CACCTAAATTTTGATAGAGATACATCTCAAAATTATATATGAATTTCGATTTAATATATAATTGT
30977557 AGATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
452 AGATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
30977599 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
* *
30977664 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTATGTTCA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
30977729 TAATTTA
131 TAATTTA
30977736 TGCTTTTGGG
Statistics
Matches: 614, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
493 186 0.30
494 2 0.00
495 102 0.17
496 324 0.53
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (493 bp):
TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATATTTA
TCCCTAAAAGCTAAAAATTAAACCTTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCTAAACTCTAAACCATAAAACA
TAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACACC
TAAATTTTGATAGAGATACATCTCAAAATTATATATGAATTTCGATTTAATATATAATTGTAGAT
GTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
Found at i:30978092 original size:41 final size:41
Alignment explanation
Indices: 30977991--30978093 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
30977981 TTTTTACGGT
* *
30977991 GTTTTTCCAAAAGTGCCACTAAAACCTCGACCTATAGCGGC
1 GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
* * *
30978032 GTTTTTCTAAAAGCACCGCTAAAACCTCGATCTATAGCGGC
1 GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
30978073 GTTTTTCCAAAAGCGCCGCTA
1 GTTTTTCCAAAAGCGCCGCTA
30978094 TTGTTCAGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (41 bp):
GTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATAGCGGC
Found at i:30978124 original size:41 final size:41
Alignment explanation
Indices: 30978079--30978157 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30978069 CGGCGTTTTT
* *
30978079 CCAAAAGCGCCGCTATTGTTCAGTTTTTAGCGACGTTTGGA
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGACGTTTGGA
* *
30978120 CCAAAAACGCCGCTATTGCTCAGTTTTTTGCGGCGTTT
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGACGTTT
30978158 TATTGCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (41 bp):
CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGACGTTTGGA
Found at i:30985498 original size:37 final size:37
Alignment explanation
Indices: 30985438--30985510 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
30985428 TTAACATCTT
* * *
30985438 TTTTTTTCTTTATTTATTATTATAA-ATTCATTAAAAA
1 TTTTGTTCTTTAATAATTATTATAACA-TCATTAAAAA
*
30985475 TTTTGTTCTTTAATAATTGTTATAACATCATTAAAA
1 TTTTGTTCTTTAATAATTATTATAACATCATTAAAA
30985511 CTTAAATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (37 bp):
TTTTGTTCTTTAATAATTATTATAACATCATTAAAAA
Found at i:30986157 original size:172 final size:173
Alignment explanation
Indices: 30985880--30986198 Score: 462
Period size: 172 Copynumber: 1.8 Consensus size: 173
30985870 CTTATTATTG
* * * * * *
30985880 AGTTAACTTATAATTGAAAAACTAAGTAACATTATTTGCCTTTTTGGAGTCTTATATTTTAAAAA
1 AGTTAACTTATAATCGAAAAACTAACTAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAA
* * * **
30985945 TGAGTGAATGAATCATTTAAATTCAATCTAAGATTCATATAATATATGTTTTTTTATCCTTACAA
66 TGAGTGAATGAATCATTTAAATTAAATCCAAGATTCATATAATATATATTTACTTATCCTTACAA
30986010 CTTT-ATTAAAATTTGTACTATCAATAATGAGGTTGTGGCATTC
131 -TTTCATTAAAATTTGTACTATCAATAATGAGGTTGTGGCATTC
*** * *
30986053 AGTTAACTTATAATCGAAATGTTAACTAACATTGTTTACCTTATTAGAGTCTTAGATTTT-AAAT
1 AGTTAACTTATAATCGAAAAACTAACTAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAA
30986117 TGAGTGAATGAATCATTTAAATTAAATCCAAGATTCATATAATATATATTTACTTATCCTTACAA
66 TGAGTGAATGAATCATTTAAATTAAATCCAAGATTCATATAATATATATTTACTTATCCTTACAA
*
30986182 TTTCATTTAAATTTGTA
131 TTTCATTAAAATTTGTA
30986199 TGATCCTTAA
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
171 3 0.02
172 75 0.59
173 50 0.39
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (173 bp):
AGTTAACTTATAATCGAAAAACTAACTAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAA
TGAGTGAATGAATCATTTAAATTAAATCCAAGATTCATATAATATATATTTACTTATCCTTACAA
TTTCATTAAAATTTGTACTATCAATAATGAGGTTGTGGCATTC
Found at i:30986232 original size:172 final size:173
Alignment explanation
Indices: 30985842--30986248 Score: 461
Period size: 172 Copynumber: 2.4 Consensus size: 173
30985832 TTCAATATTC
* * * *
30985842 ATTAAAATTT-TACCAT-AATCAATGAGGTCT-TATTATTGAGTTAACTTATAATTGAAAAACTA
1 ATTAAAATTTGTACTATCAAT-AATGAGGT-TATATTATTCAGTTAACTTATAATTGAAATATTA
* * * * * *
30985904 AGTAACATTATTTGCCTTTTTGGAGTCTTATATTTTAAAAATGAGTGAATGAATCATTTAAATTC
64 ACTAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAATGAGTGAATGAATCATTTAAATTA
* * **
30985969 AATCTAAGATTCATATAATATATGTTTTTTTATCCTTACAACTTT
129 AATCCAAGATTCATATAATATATATTTACTTATCCTTACAACTTT
* *** * *
30986014 ATTAAAATTTGTACTATCAATAATGAGGTTGTGGCATTCAGTTAACTTATAATCGAAATGTTAAC
1 ATTAAAATTTGTACTATCAATAATGAGGTTATATTATTCAGTTAACTTATAATTGAAATATTAAC
* *
30986079 TAACATTGTTTACCTTATTAGAGTCTTAGATTTT-AAATTGAGTGAATGAATCATTTAAATTAAA
66 TAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAATGAGTGAATGAATCATTTAAATTAAA
30986143 TCCAAGATTCATATAATATATATTTACTTATCCTTACAA-TTT
131 TCCAAGATTCATATAATATATATTTACTTATCCTTACAACTTT
* ** * **
30986185 CATTTAAATTTGTA-TGATCCTTAATTA-GTTCATATTATTTTGTTAAC-TATAATTGAAATATT
1 -ATTAAAATTTGTACT-ATCAATAATGAGGTT-ATATTATTCAGTTAACTTATAATTGAAATATT
30986247 AA
63 AA
30986249 TTAAATTTTG
Statistics
Matches: 196, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
171 22 0.11
172 104 0.53
173 67 0.34
174 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (173 bp):
ATTAAAATTTGTACTATCAATAATGAGGTTATATTATTCAGTTAACTTATAATTGAAATATTAAC
TAACATTATTTACCTTATTAGAGTCTTAGATTTTAAAAATGAGTGAATGAATCATTTAAATTAAA
TCCAAGATTCATATAATATATATTTACTTATCCTTACAACTTT
Found at i:30989604 original size:11 final size:11
Alignment explanation
Indices: 30989588--30989625 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
30989578 TTTACATTAT
*
30989588 AATTTTTTTAA
1 AATTTTTTAAA
30989599 AA-TTTTTAAA
1 AATTTTTTAAA
*
30989609 AATTTTTAAAA
1 AATTTTTTAAA
30989620 AATTTT
1 AATTTT
30989626 AATTAATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AATTTTTTAAA
Found at i:30989610 original size:10 final size:10
Alignment explanation
Indices: 30989591--30989627 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
30989581 ACATTATAAT
*
30989591 TTTTTTAAAA
1 TTTTTAAAAA
30989601 TTTTTAAAAA
1 TTTTTAAAAA
30989611 TTTTTAAAAA
1 TTTTTAAAAA
*
30989621 ATTTTAA
1 TTTTTAA
30989628 TTAATCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:30997626 original size:21 final size:20
Alignment explanation
Indices: 30997587--30997626 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30997577 CAAAATTTGT
*
30997587 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
30997607 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
30997627 AAAATACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:31016114 original size:98 final size:99
Alignment explanation
Indices: 31015942--31016151 Score: 305
Period size: 98 Copynumber: 2.1 Consensus size: 99
31015932 CACTCATTTA
* * *
31015942 GCCGAATACACAAGATCAAATATAACATCACATATGTACATACCTATATGGCTGAATATACAAGA
1 GCCGAATATACAACATCAAATATAACATCACATA-GTACATACCTATATGGCCGAATATACAAGA
* * *
31016007 TCAAATATAACATCACATATGTATATACCTATGTG
65 TCAAATATAACACCACATATATACATACCTATGTG
* * * *
31016042 GCCGAATATTCAACATCAAATATAACATCACATA-TATATACCTATGTGGCCGAATATACAAGGT
1 GCCGAATATACAACATCAAATATAACATCACATAGTACATACCTATATGGCCGAATATACAAGAT
*
31016106 CAAATATAACACCACATCTATACATACCTATGTG
66 CAAATATAACACCACATATATACATACCTATGTG
31016140 GCCGAATATACA
1 GCCGAATATACA
31016152 TGGTCATTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
98 67 0.68
100 31 0.32
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (99 bp):
GCCGAATATACAACATCAAATATAACATCACATAGTACATACCTATATGGCCGAATATACAAGAT
CAAATATAACACCACATATATACATACCTATGTG
Found at i:31016157 original size:50 final size:50
Alignment explanation
Indices: 31015942--31016151 Score: 307
Period size: 50 Copynumber: 4.2 Consensus size: 50
31015932 CACTCATTTA
* * *
31015942 GCCGAATACACAAGATCAAATATAACATCACATATGTACATACCTATATG
1 GCCGAATATACAAGATCAAATATAACATCACATATATACATACCTATGTG
* * *
31015992 GCTGAATATACAAGATCAAATATAACATCACATATGTATATACCTATGTG
1 GCCGAATATACAAGATCAAATATAACATCACATATATACATACCTATGTG
* *
31016042 GCCGAATATTCAACATCAAATATAACATCACATATAT--ATACCTATGTG
1 GCCGAATATACAAGATCAAATATAACATCACATATATACATACCTATGTG
* * *
31016090 GCCGAATATACAAGGTCAAATATAACACCACATCTATACATACCTATGTG
1 GCCGAATATACAAGATCAAATATAACATCACATATATACATACCTATGTG
31016140 GCCGAATATACA
1 GCCGAATATACA
31016152 TGGTCATTTA
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
48 43 0.30
50 102 0.70
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (50 bp):
GCCGAATATACAAGATCAAATATAACATCACATATATACATACCTATGTG
Found at i:31020876 original size:40 final size:40
Alignment explanation
Indices: 31020827--31020913 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
31020817 GTGTTGTACA
*
31020827 TAGCTGAAGCTAT-CTCAAATCGCACACTAAGCGCCACATT
1 TAGCCGAAGCTATAC-CAAATCGCACACTAAGCGCCACATT
* * * * *
31020867 TAGCCGAAGCTATACCGAATCGCATACTAAGTGTCATATT
1 TAGCCGAAGCTATACCAAATCGCACACTAAGCGCCACATT
31020907 TAGCCGA
1 TAGCCGA
31020914 TATGTCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATACCAAATCGCACACTAAGCGCCACATT
Found at i:31022233 original size:12 final size:13
Alignment explanation
Indices: 31022216--31022253 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31022206 ATCCTGGAAT
31022216 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
31022228 ATTAAGAACACATA
1 ATTAAGAACA-AGA
31022242 ATTAAGAACAAG
1 ATTAAGAACAAG
31022254 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:31024756 original size:6 final size:6
Alignment explanation
Indices: 31024739--31024772 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
31024729 TAAAGAAGAT
*
31024739 AAATAA AGATAA AAATAA AAATAAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAAT-AA AAATAA AAA
31024773 GTCTTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Done.