Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 127 of 344
Found at i:43080382 original size:46 final size:45
Alignment explanation
Indices: 43080323--43080490 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 45
43080313 AAGAGTTAGC
*
43080323 GTAAGACATGTCTGGGACATGT-ATCGGCCT-CGAGATGTAAGCCAGT
1 GTAAGACATGTCTGGGACATGTCATCGG-CTACGACATGT--GCCAGT
**
43080369 GTAAGACATGTCTGGGACAT-TCATCGGCTACGACATGTGTTAGT
1 GTAAGACATGTCTGGGACATGTCATCGGCTACGACATGTGCCAGT
* * * * *
43080413 GTAAGACCATGTCTGGGACATGGCATCAG-TACGTATAGAGGTGTCAGT
1 GTAAGA-CATGTCTGGGACATGTCATCGGCTACG---ACATGTGCCAGT
*
43080461 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGA-CATGTCTGGGACATGTCATCGGC
43080491 ACGGATATGT
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
44 10 0.10
45 21 0.20
46 37 0.35
48 37 0.35
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGTCATCGGCTACGACATGTGCCAGT
Found at i:43080471 original size:48 final size:49
Alignment explanation
Indices: 43080365--43080587 Score: 200
Period size: 48 Copynumber: 4.7 Consensus size: 49
43080355 AGATGTAAGC
* * *
43080365 CAGTGTAAGA-CATGTCTGGGACAT-TCATCGGCTACG---ACATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGTATAGAGGTGT
* *
43080409 TAGTGTAAGACCATGTCTGGGACATGGCATCAG-TACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGTATAGAGGTGT
*
43080457 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTTAGAGT-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGTATA-G--AG-GTGT
* * * *
43080508 -AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCT-CGATTTTGA--TAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACG-TATAGAGGT-GT
*
43080556 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
43080588 ACTTTATACC
Statistics
Matches: 148, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
44 9 0.06
45 18 0.12
46 6 0.04
48 44 0.30
49 31 0.21
50 30 0.20
51 7 0.05
52 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGTATAGAGGTGT
Found at i:43087797 original size:27 final size:26
Alignment explanation
Indices: 43087766--43087816 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
43087756 GAATACTTTA
*
43087766 GTTTACCAAATTAGTGAAATACCCTTG
1 GTTTACAAAATTAGTG-AATACCCTTG
*
43087793 GTTTACAAAATTATTGAATACCCT
1 GTTTACAAAATTAGTGAATACCCT
43087817 CGATTAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
GTTTACAAAATTAGTGAATACCCTTG
Found at i:43087855 original size:27 final size:27
Alignment explanation
Indices: 43087825--43087922 Score: 144
Period size: 27 Copynumber: 3.6 Consensus size: 27
43087815 CTCGATTAGC
43087825 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
43087852 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
43087879 GAAATTACCAAAATACCACT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* *
43087906 GAAATTACTAAAATACC
1 AAAATTACCAAAATACC
43087923 TTCGACCTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
26 1 0.01
27 66 0.99
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:43087937 original size:27 final size:27
Alignment explanation
Indices: 43087849--43087981 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 27
43087839 ACCCCTAGTT
* * **
43087849 TGTAAAATTACCAAAATACCC-CTAGTT
1 TGTAAAATTACTAAAATACCCTCGA-CC
* * **
43087876 TGTGAAATTACCAAAATACCACT-GATT
1 TGTAAAATTACTAAAATACC-CTCGACC
* *
43087903 TGTGAAATTACTAAAATACCTTCGACC
1 TGTAAAATTACTAAAATACCCTCGACC
*
43087930 TGTAAAATTACTAAAATACCCTCGACT
1 TGTAAAATTACTAAAATACCCTCGACC
* * *
43087957 TGTAAAATTTCCAAAGTACCCTCGA
1 TGTAAAATTACTAAAATACCCTCGA
43087982 TTTACAGAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 88 0.97
28 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTCGACC
Found at i:43087938 original size:54 final size:54
Alignment explanation
Indices: 43087825--43087977 Score: 141
Period size: 54 Copynumber: 2.8 Consensus size: 54
43087815 CTCGATTAGC
* * **
43087825 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCGAGCCTGT
* * * *
43087879 GAAATTACCAAAATACCACT-GATTTGTGAAATTACTAAAATACCTTCGA-CCTGT
1 AAAATTACCAAAATACCACTAG-TTTGTAAAATTACCAAAATACC-CCGAGCCTGT
* * * * *
43087933 AAAATTACTAAAATACC-CTCGACTTGTAAAATTTCCAAAGTACCC
1 AAAATTACCAAAATACCACTAG-TTTGTAAAATTACCAAAATACCC
43087978 TCGATTTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
53 3 0.04
54 75 0.94
55 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCGAGCCTGT
Found at i:43088030 original size:27 final size:27
Alignment explanation
Indices: 43087973--43088031 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
43087963 ATTTCCAAAG
* * ***
43087973 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATAACTGAAA
*
43088000 TACCCTCGATTTACAAAATAATTGAAA
1 TACCCTCGATTTACAAAATAACTGAAA
43088027 TACCC
1 TACCC
43088032 CTGTAGGGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATAACTGAAA
Found at i:43088052 original size:27 final size:27
Alignment explanation
Indices: 43088023--43088157 Score: 153
Period size: 27 Copynumber: 5.0 Consensus size: 27
43088013 CAAAATAATT
* *
43088023 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
43088050 GAAATACCCTTGTAGAGTGGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * * *
43088077 AAAATACCCTTGCAGGGTGGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
43088104 GAAATACCCCTGTAGGGTACAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
43088131 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
43088158 ATTTTGCCCC
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:43088709 original size:22 final size:22
Alignment explanation
Indices: 43088671--43088735 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
43088661 GCCAATTATT
*
43088671 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTATGTGCCAAC
43088693 CT-ATATATGGC-ACTGTGCCAAC
1 CTGAT-TATGGCTA-TGTGCCAAC
43088715 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
43088736 ACGTACTTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 2 0.05
22 33 0.87
23 3 0.08
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:43088940 original size:27 final size:26
Alignment explanation
Indices: 43088910--43088960 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
43088900 AGCCACATTA
*
43088910 TCTATATCTAGTGGGTATGCCACAAAT
1 TCTAT-TCTAGTGGCTATGCCACAAAT
* *
43088937 TCTATTCTGGTGGCTCTGCCACAA
1 TCTATTCTAGTGGCTATGCCACAA
43088961 TATCTGTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
TCTATTCTAGTGGCTATGCCACAAAT
Found at i:43088956 original size:26 final size:28
Alignment explanation
Indices: 43088908--43088992 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 28
43088898 TTAGCCACAT
* ** *
43088908 TATCTATATCTAGTGGGTATGCCACAAA
1 TATCTATATCTGGTGACTCTGCCACAAA
*
43088936 T-TCTAT-TCTGGTGGCTCTGCCAC-AA
1 TATCTATATCTGGTGACTCTGCCACAAA
* *
43088961 TATCTGTATCTGGTGACTCTGTCAC-AA
1 TATCTATATCTGGTGACTCTGCCACAAA
43088988 TATCT
1 TATCT
43088993 GTTCTGGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.06
26 18 0.37
27 27 0.55
28 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
TATCTATATCTGGTGACTCTGCCACAAA
Found at i:43088980 original size:27 final size:26
Alignment explanation
Indices: 43088927--43088999 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
43088917 CTAGTGGGTA
* *
43088927 TGCCACAA-ATTCTATTCTGGTGGCTC
1 TGCCACAATA-TCTGTTCTGGTGACTC
43088953 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
43088980 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
43089000 CAACCATGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 17 0.40
27 25 0.60
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:43092407 original size:30 final size:30
Alignment explanation
Indices: 43092373--43092433 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43092363 TCCTTAACTC
43092373 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43092403 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43092433 A
1 A
43092434 GGCTCTGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43094662 original size:27 final size:26
Alignment explanation
Indices: 43094622--43094680 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
43094612 TCCCTGTTTA
*
43094622 GAATA-CTTTAGTTTACCAAATTACT
1 GAATACCTTTAGTTTACAAAATTACT
*
43094647 GAAATACCTTTGGTTTACAAAATTACT
1 G-AATACCTTTAGTTTACAAAATTACT
43094674 GAATACC
1 GAATACC
43094681 CTCGATTAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.33
27 19 0.63
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (26 bp):
GAATACCTTTAGTTTACAAAATTACT
Found at i:43094721 original size:27 final size:27
Alignment explanation
Indices: 43094691--43094789 Score: 153
Period size: 27 Copynumber: 3.7 Consensus size: 27
43094681 CTCGATTAGC
*
43094691 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
43094718 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
*
43094745 GAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* **
43094772 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
43094790 TCGACCTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:43094804 original size:54 final size:53
Alignment explanation
Indices: 43094665--43094833 Score: 153
Period size: 54 Copynumber: 3.2 Consensus size: 53
43094655 TTTGGTTTAC
* *
43094665 AAAATTACTG-AATACCCTCGATTAGCAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTCGATTA-TAAAATTACCAAAATACCCCTAATTTGT
** * * *
43094718 AAAATTACCAAAATACCC-CTAATTTGTGAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCTC-GA-TTATAAAATTACCAAAATACCCCTAATTTGT
* * *** * * *
43094772 GAAATTACTGAAATACCCTCGACCTATAAAATTATTGAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCGA-TTATAAAATTACCAAAATACCCCTAATTTGT
43094826 AAAATTAC
1 AAAATTAC
43094834 CAAAGTACCC
Statistics
Matches: 90, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
53 9 0.10
54 78 0.87
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACTGAAATACCCTCGATTATAAAATTACCAAAATACCCCTAATTTGT
Found at i:43094896 original size:27 final size:27
Alignment explanation
Indices: 43094773--43094897 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
43094763 CTAATTTGTG
* * *
43094773 AAATTACTGAAATACCCTCGACCTATA
1 AAATTATTGAAATACCCTCGACTTACA
* **
43094800 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTATTGAAATACCCTCGACTTACA
** * *
43094827 AAATTA-CCAAAGTACCCCCGATTTACA
1 AAATTATTGAAA-TACCCTCGACTTACA
* *** *
43094854 GAATTATTGTTTTACCCTCGATTTACA
1 AAATTATTGAAATACCCTCGACTTACA
*
43094881 AAATTATTAAAATACCC
1 AAATTATTGAAATACCC
43094898 CTATAAGGTA
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
26 3 0.04
27 70 0.96
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGACTTACA
Found at i:43094912 original size:27 final size:27
Alignment explanation
Indices: 43094882--43094951 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
43094872 CGATTTACAA
*
43094882 AATTATTAAAATACCCCTATAAGGTAG
1 AATTATCAAAATACCCCTATAAGGTAG
* * * * *
43094909 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCAAAATACCCCTATAAGGTAG
* *
43094936 AATTATCGAGATACCC
1 AATTATCAAAATACCC
43094952 TTGTGGGGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
AATTATCAAAATACCCCTATAAGGTAG
Found at i:43094952 original size:27 final size:27
Alignment explanation
Indices: 43094890--43094969 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
43094880 AAAATTATTA
* * *
43094890 AAATACCCCTATAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
43094917 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
43094944 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
43094970 ATTTTGCCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:43095534 original size:22 final size:22
Alignment explanation
Indices: 43095481--43095546 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
43095471 AGAAAATTAT
* *
43095481 TCTGATTATGGCTTTGCGCCAA
1 TCTGATTATGGCTCTGTGCCAA
* *
43095503 CCT-ACATATGGCTCTGTGCCAA
1 TCTGA-TTATGGCTCTGTGCCAA
* *
43095525 TCTGATTATGGCTGTGTCCCAA
1 TCTGATTATGGCTCTGTGCCAA
43095547 ACGTACTTGC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (22 bp):
TCTGATTATGGCTCTGTGCCAA
Found at i:43096121 original size:56 final size:56
Alignment explanation
Indices: 43096035--43096154 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
43096025 ACAAGGGATG
43096035 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
43096091 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
43096147 ATGGGCAA
1 ATGGGCAA
43096155 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:43097512 original size:40 final size:40
Alignment explanation
Indices: 43097281--43097505 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
43097271 TCGAATGATG
* * * *
43097281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43097321 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43097361 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43097400 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43097440 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43097481 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43097506 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43097527 original size:119 final size:119
Alignment explanation
Indices: 43097281--43097538 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
43097271 TCGAATGATG
* *
43097281 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
43097346 GTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
43097400 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
43097463 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
43097520 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
43097539 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:43100954 original size:6 final size:6
Alignment explanation
Indices: 43100945--43101032 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
43100935 TTGCATTCAC
* * *
43100945 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG GTTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
43100995 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
43101033 AATGCTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:43100976 original size:25 final size:25
Alignment explanation
Indices: 43100948--43101011 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
43100938 CATTCACATT
*
43100948 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* * *
43100973 CTGATTCTGGTTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
43100998 CTGATTCTGATTCT
1 CTGATTCTGATTCT
43101012 CATTTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:43103079 original size:27 final size:27
Alignment explanation
Indices: 43103049--43103201 Score: 132
Period size: 27 Copynumber: 5.7 Consensus size: 27
43103039 CTCGATTAGA
*
43103049 AAAATTACCTAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
43103076 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
43103103 GAATTTACCAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* ** * **
43103130 GAAATTACTGAAATA-CCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
** **
43103157 AAAATTACTGAAATA-CCCTCAACTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
*
43103184 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
43103202 TCGATTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.05
27 100 0.93
28 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:43103171 original size:54 final size:53
Alignment explanation
Indices: 43102997--43103207 Score: 162
Period size: 54 Copynumber: 3.9 Consensus size: 53
43102987 TTTGTTTACC
* * ** *
43102997 AAATTACTGAAATACCCTTGGTTTACAAAATTACTG-AATACCCTCGATTAGAA
1 AAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCTCGATT-GTA
** * * *
43103050 AAATTACCT-AAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTG
1 AAATTA-CTGAAATACCCCTGA-TTTGTAAAATTACTGAAATA-CCCTCGATTGTA
* ** * *
43103104 AATTTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCTCGA-TTGTA
* * *
43103158 AAATTACTGAAATA-CCCTCAACTTGTAAAATTAC-CAAAGTACCCTCGATT
1 AAATTACTGAAATACCCCT-GATTTGTAAAATTACTGAAA-TACCCTCGATT
43103208 TACAAAATTA
Statistics
Matches: 122, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
53 40 0.33
54 74 0.61
55 8 0.07
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
AAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCTCGATTGTA
Found at i:43103254 original size:27 final size:27
Alignment explanation
Indices: 43102991--43103255 Score: 108
Period size: 27 Copynumber: 9.9 Consensus size: 27
43102981 AATACTTTTG
* ** * *
43102991 TTTACCAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
**
43103018 TTTACAAAATTA-CTGAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
43103044 -TTAGAAAAATTACCTAAATACCC-CTA
1 TTTA-CAAAATTACCAAAATACCCTCGA
** *
43103070 GTTTGTAAAATTACCAAAATACCC-CTA
1 -TTTACAAAATTACCAAAATACCCTCGA
*** *
43103097 GTTTGTGAATTTACCAAAATACCC-CTGA
1 -TTTACAAAATTACCAAAATACCCTC-GA
*** **
43103125 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** ** ** *
43103152 CCTGTAAAATTACTGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** *
43103179 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
****
43103206 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
**
43103233 TTTACAAAATTATTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
43103256 CTGTAGGGTA
Statistics
Matches: 192, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.02
26 18 0.09
27 167 0.87
28 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:43103270 original size:27 final size:27
Alignment explanation
Indices: 43103247--43103381 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
43103237 CAAAATTATT
*
43103247 AAAATACCCCTGTAGGGTAGAATTACT
1 AAAATACCCCTGTAGGGTAGAATTACC
*
43103274 AAAACACCCCTGTAGGGTAGAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
* * * *
43103301 GAAATACCCTTGTAAGGTAGAAGTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
* *
43103328 AAAATA-CCCTATAGGGTAGAATTATC
1 AAAATACCCCTGTAGGGTAGAATTACC
* * * * *
43103354 GAGATACCCTTGTGGGGTAAAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
43103381 A
1 A
43103382 TTTTCCCCCT
Statistics
Matches: 86, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 19 0.22
27 67 0.78
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAATACCCCTGTAGGGTAGAATTACC
Found at i:43103381 original size:53 final size:54
Alignment explanation
Indices: 43103248--43103381 Score: 171
Period size: 53 Copynumber: 2.5 Consensus size: 54
43103238 AAAATTATTA
* * *
43103248 AAATACCCCTGTAGGGTAGAATTACTAAAACACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCAAAACACCCCTATAGGGTAGAATTACCG
* * * *
43103302 AAATACCCTTGTAAGGTAGAAGTACCAAAATA-CCCTATAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCAAAACACCCCTATAGGGTAGAATTACCG
* * *
43103355 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCA
43103382 TTTTCCCCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 41 0.60
54 27 0.40
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACCAAAACACCCCTATAGGGTAGAATTACCG
Found at i:43104145 original size:27 final size:27
Alignment explanation
Indices: 43104115--43104218 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 27
43104105 ATTCTGTTAA
* * *
43104115 GTGGCTTTGCCATATTATCTGTTTCTG
1 GTGGCTATGCCAAAATATCTGTTTCTG
*
43104142 GTGGGTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCA-AAATATCTGTTTCTG
* * * *
43104169 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCAAAATATCTGTTTCTG
* * * *
43104196 GTGACTCTGTCACAATATCTGTT
1 GTGGCTATGCCAAAATATCTGTT
43104219 ATGGCAACCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCAAAATATCTGTTTCTG
Found at i:43104368 original size:25 final size:26
Alignment explanation
Indices: 43104340--43104406 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
43104330 TTGCATTCAC
43104340 ATACTGATTCTGATTCTGCT-ACCTG
1 ATACTGATTCTGATTCTGCTCACCTG
* **
43104365 ATACTGATTCTGGTT-TTTTCACCTG
1 ATACTGATTCTGATTCTGCTCACCTG
*
43104390 ATTCTGATTCTGATTCT
1 ATACTGATTCTGATTCT
43104407 CATTTTGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 2 0.06
25 32 0.91
26 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (26 bp):
ATACTGATTCTGATTCTGCTCACCTG
Found at i:43106405 original size:27 final size:26
Alignment explanation
Indices: 43106374--43106427 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
43106364 TTAGAATACT
*
43106374 TTAGTTTACCAAATTACTGAAATACCC
1 TTAGTTTACAAAATTACTG-AATACCC
43106401 TTAGTTTACAAAATTACTGAATACCC
1 TTAGTTTACAAAATTACTGAATACCC
43106427 T
1 T
43106428 CGACCAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.35
Consensus pattern (26 bp):
TTAGTTTACAAAATTACTGAATACCC
Found at i:43106549 original size:54 final size:54
Alignment explanation
Indices: 43106384--43106577 Score: 166
Period size: 54 Copynumber: 3.6 Consensus size: 54
43106374 TTAGTTTACC
** * ** * *
43106384 AAATTACTGAAATACCCTTAGTTTACAAAATTACTG-AATACCCTCGACCAGCA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCTCGACCTGTA
* ** * * *
43106437 AAATTACCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCC-CTA-GTTTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCTCGACCTGTA
*
43106489 TGAAATTACCAAAATACCCCTGAG-TTGTGAAATTACTGAAATACCCTCGACCTGTA
1 --AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTGAAATACCCTCGACCTGTA
* *
43106545 AAATTACTAAAATA-CCCTCA-CTTGTAAAATTAC
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTAC
43106578 CAACATACCC
Statistics
Matches: 111, Mismatches: 23, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.01
53 46 0.41
54 57 0.51
55 4 0.04
56 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCTCGACCTGTA
Found at i:43106577 original size:26 final size:27
Alignment explanation
Indices: 43106420--43106630 Score: 144
Period size: 27 Copynumber: 7.9 Consensus size: 27
43106410 AAAATTACTG
** *
43106420 AATACCCTCGACCAGCAAAATTACCAA
1 AATACCCTCGACTTGTAAAATTACCAA
* *
43106447 AATA-CCTCTAGTTTGTAAAATTACCAA
1 AATACCCTCGA-CTTGTAAAATTACCAA
* *
43106474 AATACCC-CTAGTT-TATGAAATTACCAA
1 AATACCCTCGACTTGTA--AAATTACCAA
* * **
43106501 AATACCC-CTGAGTTGTGAAATTACTGA
1 AATACCCTC-GACTTGTAAAATTACCAA
* *
43106528 AATACCCTCGACCTGTAAAATTACTAA
1 AATACCCTCGACTTGTAAAATTACCAA
43106555 AATACCCTC-ACTTGTAAAATTACCAA
1 AATACCCTCGACTTGTAAAATTACCAA
* * * * * *
43106581 CATACCCCCGATTTATAGAATTACCAT
1 AATACCCTCGACTTGTAAAATTACCAA
** * *
43106608 TTTACCCTCGATTTATAAAATTA
1 AATACCCTCGACTTGTAAAATTA
43106631 TTGAAATACC
Statistics
Matches: 150, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.01
26 29 0.19
27 111 0.74
28 7 0.05
29 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
AATACCCTCGACTTGTAAAATTACCAA
Found at i:43106596 original size:107 final size:107
Alignment explanation
Indices: 43106411--43106606 Score: 274
Period size: 107 Copynumber: 1.8 Consensus size: 107
43106401 TTAGTTTACA
*
43106411 AAATTACTGAATACCCTCGACCAGCAAAATTACCAAAATACCTCTAGTTTGTAAAATTACCAAAA
1 AAATTACTGAATACCCTCGACCAGCAAAATTACCAAAATACCTCTAGCTTGTAAAATTACCAAAA
*
43106476 TACCCCTAGTTTAT-GAAATTACCAAAATACCCCTGAGTTGTG
66 TACCCCGAGTTTATAG-AATTACCAAAATACCCCTGAGTTGTG
* * *
43106518 AAATTACTGAAATACCCTCGACCTGTAAAATTACTAAAATACC-CTCA-CTTGTAAAATTACCAA
1 AAATTACTG-AATACCCTCGACCAGCAAAATTACCAAAATACCTCT-AGCTTGTAAAATTACCAA
*
43106581 CATACCCCCGA-TTTATAGAATTACCA
64 AATA-CCCCGAGTTTATAGAATTACCA
43106607 TTTTACCCTC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
107 42 0.53
108 37 0.47
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (107 bp):
AAATTACTGAATACCCTCGACCAGCAAAATTACCAAAATACCTCTAGCTTGTAAAATTACCAAAA
TACCCCGAGTTTATAGAATTACCAAAATACCCCTGAGTTGTG
Found at i:43106614 original size:107 final size:108
Alignment explanation
Indices: 43106384--43106641 Score: 269
Period size: 107 Copynumber: 2.4 Consensus size: 108
43106374 TTAGTTTACC
** * *
43106384 AAATTACTGAAATACCCT-TAGTTTACAAAATTACTG-AATACCCTCGACCAGCAAAATTACCAA
1 AAATTACCAAAATACCCTCGAG-TTATAAAATTACTGAAATACCCTCGACCAGCAAAATTACCAA
* *
43106447 AATACCTCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTATG
65 AATACCTCTAGCTTGTAAAATTACCAAAATACCCCGAGTTTATG
* * * * *
43106491 AAATTACCAAAATACCC-CTGAGTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTACTAA
1 AAATTACCAAAATACCCTC-GAGTTATAAAATTACTGAAATACCCTCGACCAGCAAAATTACCAA
*
43106555 AATACC-CTCA-CTTGTAAAATTACCAACATACCCCCGA-TTTAT-
65 AATACCTCT-AGCTTGTAAAATTACCAAAATA-CCCCGAGTTTATG
*** * *
43106597 AGAATTACCATTTTACCCTCGATTTATAAAATTATTGAAATACCC
1 A-AATTACCAAAATACCCTCGAGTTATAAAATTACTGAAATACCC
43106642 CTATAGGGTA
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
106 1 0.01
107 85 0.68
108 39 0.31
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.29
Consensus pattern (108 bp):
AAATTACCAAAATACCCTCGAGTTATAAAATTACTGAAATACCCTCGACCAGCAAAATTACCAAA
ATACCTCTAGCTTGTAAAATTACCAAAATACCCCGAGTTTATG
Found at i:43106656 original size:27 final size:27
Alignment explanation
Indices: 43106626--43106766 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
43106616 CGATTTATAA
* *
43106626 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
43106653 AATTATTGAAATACCCTTGCAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43106680 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
43106707 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
43106734 AATTACTGAGATACACTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
43106761 AATTAC
1 AATTAC
43106767 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:43106930 original size:16 final size:16
Alignment explanation
Indices: 43106909--43106939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43106899 CAAATATGGG
43106909 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
43106925 CATGACATTTTGCAT
1 CATGACATTCTGCAT
43106940 GGGTTGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:43107499 original size:216 final size:217
Alignment explanation
Indices: 43107120--43107512 Score: 517
Period size: 216 Copynumber: 1.8 Consensus size: 217
43107110 TACCGAAGGC
*
43107120 TGTGTGCCAAACGTATTTGCCTAAGGCCATGTGCCAATATATGATTATTGACGACTCTGTGTCGA
1 TGTGTGCCAAACGTACTTGCCTAAGGCCATGTGCCAATATATGATTATTGACGACTCTGTGTCGA
* * * *
43107185 TCATATTTACTCAAGGCTGTGTATCGACTATATTATCGTCGCTGATGGCTATGTGCCTAACATGA
66 TCACATTTACTCAAGGATGTGTATCGACTATATTATCGTAGCTGATGGCTATGTGCCTAACATAA
*
43107250 TACAACTACCAATGGCTTAAAGCCAATTATTCTGATT-A-TGGCTTTGTCGCCAACCTACATATG
131 TACAACTACCAATGGCTTAAAGCCAAGTATTCTG-TTAAGTGGCTTTGTCGCCAACCTACATATG
43107313 GCTCTCTTCCAACTGATTATGGT
195 GCTCTCTTCCAACTGATTATGGT
* * *
43107336 TGTGTGCCAAACGTACTTGCCTAAGGCTATGTGCCAATATATGGTTATTGATGACTCTGTGTCGA
1 TGTGTGCCAAACGTACTTGCCTAAGGCCATGTGCCAATATATGATTATTGACGACTCTGTGTCGA
* * * * *
43107401 TCACATTTAC-CTAGGGATGTGTGTC-AGTTATGTTACTC-TAGTTGATGGCTATGTGCCTAACA
66 TCACATTTACTC-AAGGATGTGTATCGA-CTATATTA-TCGTAGCTGATGGCTATGTGCCTAACA
* * * * *** *
43107463 TAATGCAATTATCGATGGCTTTGTGCCACGTATTCTGTTAAGTGGCTTTG
128 TAATACAACTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTG
43107513 CCATATTATC
Statistics
Matches: 150, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
215 4 0.03
216 136 0.91
217 10 0.07
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (217 bp):
TGTGTGCCAAACGTACTTGCCTAAGGCCATGTGCCAATATATGATTATTGACGACTCTGTGTCGA
TCACATTTACTCAAGGATGTGTATCGACTATATTATCGTAGCTGATGGCTATGTGCCTAACATAA
TACAACTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGTCGCCAACCTACATATGG
CTCTCTTCCAACTGATTATGGT
Found at i:43107534 original size:27 final size:27
Alignment explanation
Indices: 43107504--43107587 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
43107494 ATTCTGTTAA
* * * *
43107504 GTGGCTTTGCCATATTATCTGTTTCTG
1 GTGGCTATGCCAAAATATCTGTATCTG
* *
43107531 GTGGGTATGCCACAAATATCTG-GTCTG
1 GTGGCTATGCCA-AAATATCTGTATCTG
* *
43107558 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCAAAATATCTGTATCTG
43107585 GTG
1 GTG
43107588 ACTCAGTCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.17
27 31 0.67
28 7 0.15
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCAAAATATCTGTATCTG
Found at i:43107598 original size:27 final size:26
Alignment explanation
Indices: 43107539--43107611 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
43107529 TGGTGGGTAT
* * *
43107539 GCCACAAATATCTGGTCTGGTGGCTCT
1 GCCAC-AATATCTGTTCTGGTGACTCA
43107566 GCCACAATATCTGTATCTGGTGACTCA
1 GCCACAATATCTGT-TCTGGTGACTCA
*
43107593 GTCACAATATCTGTTCTGG
1 GCCACAATATCTGTTCTGG
43107612 CATCCATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 13 0.32
27 28 0.68
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGTGACTCA
Found at i:43107765 original size:25 final size:25
Alignment explanation
Indices: 43107737--43107795 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
43107727 GCATTTTGAT
43107737 TCTGATTCTG-CTACCTGATACTGAG
1 TCTGATTCTGTC-ACCTGATACTGAG
** *
43107762 TCTGATTCTGTCACCTGATTTTGAT
1 TCTGATTCTGTCACCTGATACTGAG
43107787 TCTGATTCT
1 TCTGATTCT
43107796 AGTTCTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (25 bp):
TCTGATTCTGTCACCTGATACTGAG
Found at i:43109584 original size:47 final size:45
Alignment explanation
Indices: 43109473--43109648 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 45
43109463 TTATTTGTGT
*
43109473 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCATATTATGAGAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATTATGAGAG
* *
43109520 CCT-GTGTAAGATGATGTCTGGGACATGGCATCGG-TATTGA-GACGAG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATT-ATGA-GAG
* ****
43109566 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCCCGA-GATGTAG
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATTATGA-G-AG
* *
43109613 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTA
43109649 CGAGATGTGT
Statistics
Matches: 105, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
45 6 0.06
46 53 0.50
47 32 0.30
48 14 0.13
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATTATGAGAG
Found at i:43109622 original size:46 final size:44
Alignment explanation
Indices: 43109570--43109684 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 44
43109560 GACGAGAGCT
* *
43109570 AGTGTAAGACATGTCTGGGACATGCATCGACCCCGAGATGTAGGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGACCACGAGATGT--GCC
* * *
43109616 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTTTGGGACATGCATCGACCACGAGATGTGCC
43109660 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
43109685 GCGTCAGCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 11 0.17
45 15 0.24
46 37 0.59
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGACCACGAGATGTGCC
Found at i:43111467 original size:40 final size:43
Alignment explanation
Indices: 43111405--43111527 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
43111395 ATTACATGCC
* * * *
43111405 ATCACATATTGATGCCACTGTCCCAGACA-GGTCTTACACG-A
1 ATCAAATATCGATGCCAATGTCCTAGACATGGTCTTACACGTA
* *
43111446 ATCAAATA-CGATGCCAATGTCCTAGACATGGCCTTACATGTA
1 ATCAAATATCGATGCCAATGTCCTAGACATGGTCTTACACGTA
* * *
43111488 ATCACATATCGATGCCAACGTCTTAGACATGGTCTTACAC
1 ATCAAATATCGATGCCAATGTCCTAGACATGGTCTTACAC
43111528 AAGAACACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 17 0.25
41 16 0.24
42 8 0.12
43 27 0.40
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
ATCAAATATCGATGCCAATGTCCTAGACATGGTCTTACACGTA
Found at i:43111537 original size:43 final size:43
Alignment explanation
Indices: 43111405--43111541 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
43111395 ATTACATGCC
* *
43111405 ATCACATATTGATGCC-ACTGTCCCAGACA-GGTCTTACAC-GA
1 ATCACATATCGATGCCAAC-GTCCTAGACATGGTCTTACACAGA
* * * *
43111446 ATCAAATA-CGATGCCAATGTCCTAGACATGGCCTTACA-TGTA
1 ATCACATATCGATGCCAACGTCCTAGACATGGTCTTACACAG-A
*
43111488 ATCACATATCGATGCCAACGTCTTAGACATGGTCTTACACAAGA
1 ATCACATATCGATGCCAACGTCCTAGACATGGTCTTACAC-AGA
43111532 A-CACATATCG
1 ATCACATATCG
43111542 GAAATCCTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
40 15 0.19
41 17 0.22
42 8 0.10
43 36 0.46
44 2 0.03
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCACATATCGATGCCAACGTCCTAGACATGGTCTTACACAGA
Found at i:43114298 original size:15 final size:16
Alignment explanation
Indices: 43114269--43114298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43114259 CAAACATGCT
43114269 TTAACACATTATCAAA
1 TTAACACATTATCAAA
43114285 TTAACACA-TATCAA
1 TTAACACATTATCAA
43114299 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:43117329 original size:43 final size:42
Alignment explanation
Indices: 43117223--43117337 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
43117213 GAAGTCTGAA
* * * *
43117223 CTCGTTGAGTGGTCTAGGCTCGTGA-GGTATGTAGCATCTGAG
1 CTCGTTGAGTGGTCCAGGTTCATGATGG-ATGTAGCATCCGAG
* * *
43117265 CTCGTTGAGAGGTTC-GAGTTCATTATGGATGTGAGCATCCGAG
1 CTCGTTGAGTGGTCCAG-GTTCATGATGGATGT-AGCATCCGAG
43117308 CTCGTTGAGTGGTCCAGGTTCATGATGGAT
1 CTCGTTGAGTGGTCCAGGTTCATGATGGAT
43117338 CCGATTCATG
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 21 0.36
43 36 0.61
44 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCAGGTTCATGATGGATGTAGCATCCGAG
Found at i:43120947 original size:27 final size:27
Alignment explanation
Indices: 43120874--43120956 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
43120864 TGACAGAGTT
*
43120874 ACCAGATATAGATAATTGTGGCA-GAGCC
1 ACCAGATA-AGATATTTGTGGCATG-GCC
*
43120902 ACTAGA-AAGATATTTGTGGCATGGCC
1 ACCAGATAAGATATTTGTGGCATGGCC
*
43120928 ACCAGATCAGATATTTGTGGCATGGCC
1 ACCAGATAAGATATTTGTGGCATGGCC
43120955 AC
1 AC
43120957 TAGAATGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 21 0.43
27 23 0.47
28 5 0.10
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (27 bp):
ACCAGATAAGATATTTGTGGCATGGCC
Found at i:43122216 original size:27 final size:27
Alignment explanation
Indices: 43122186--43122301 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
43122176 GGCAAAATGG
*
43122186 TAATTTTATCCC-ACAAGGGTATCTCGA
1 TAATTTTA-CCCTACAAGGGTATTTCGA
* *
43122213 TAATTCTACCCTACAAGGGTATTTTGA
1 TAATTTTACCCTACAAGGGTATTTCGA
* *
43122240 T-ATTTCTACCCTACAAGGGTATTTTGG
1 TAATTT-TACCCTACAAGGGTATTTCGA
* *
43122267 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTTTACCCTACAAGGGTATTTCGA
43122294 T-ATTTTAC
1 TAATTTTAC
43122302 AAATCGAGAG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 12 0.16
27 61 0.80
28 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGA
Found at i:43122493 original size:27 final size:27
Alignment explanation
Indices: 43122253--43122488 Score: 215
Period size: 27 Copynumber: 8.8 Consensus size: 27
43122243 TTCTACCCTA
* **
43122253 CAAGGGTATTTTGGTAATTCTACCCTA-
1 CAAGGGTATTTTGGTAATTTTA-CAAAC
* * * *
43122280 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * * * *
43122306 CGAGAGTATTTCGATAATTTCACAGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
43122333 TAAGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTTGGTAATTTTACAAAC
43122360 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
43122387 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
43122414 CAGGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
43122441 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
43122468 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
43122489 GTAAATCGAG
Statistics
Matches: 170, Mismatches: 37, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
25 2 0.01
26 17 0.10
27 151 0.89
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:43122502 original size:27 final size:26
Alignment explanation
Indices: 43122225--43122488 Score: 190
Period size: 27 Copynumber: 9.8 Consensus size: 26
43122215 ATTCTACCCT
* **
43122225 ACAAGGGTATTTTGAT-ATTTCTACCCT
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
* **
43122252 ACAAGGGTATTTTGGTAATTCTACCCT
1 ACAAGGGTATTTTGGTAATTTTA-CAA
* * *
43122279 ACAGGGGTATTTCGAT-ATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * * * *
43122304 ATCGAGAGTATTTCGATAATTTCACAGA
1 A-CAAGGGTATTTTGGTAATTTTACA-A
**
43122332 TTAAGGGTATTTTGGTAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
*
43122358 GCCAAGGGTATTTTGGTAATTTTACAA
1 -ACAAGGGTATTTTGGTAATTTTACAA
* *
43122385 ACCAGGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
43122412 ACCAGGGGTATTTTGGTAATTTTACTGA
1 A-CAAGGGTATTTTGGTAATTTTAC-AA
* * **
43122440 TCGAGGGTATTTTGGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAA
*
43122466 ACCAAGGGTATTTTAGTAATTTT
1 A-CAAGGGTATTTTGGTAATTTT
43122489 GTAAATCGAG
Statistics
Matches: 194, Mismatches: 35, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
25 2 0.01
26 19 0.10
27 168 0.87
28 5 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:43122520 original size:27 final size:27
Alignment explanation
Indices: 43122481--43122690 Score: 323
Period size: 27 Copynumber: 7.8 Consensus size: 27
43122471 GGGTATTTTA
* *
43122481 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
43122508 GTAGTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
43122535 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
43122562 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
43122589 ATAATTCTGTAAATCGAGGAT-AAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
43122615 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
43122642 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
43122669 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
43122691 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.14
27 141 0.86
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:43122524 original size:81 final size:81
Alignment explanation
Indices: 43122439--43122704 Score: 273
Period size: 81 Copynumber: 3.3 Consensus size: 81
43122429 AATTTTACTG
* *** * *
43122439 ATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
*
43122504 AACGGTAGTTCTATAA
66 AACGGTAATTCTATAA
**** * * * * * *
43122520 ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAA
1 ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
* *
43122585 AACGATAATTCTGTAA
66 AACGGTAATTCTATAA
* *** * * * *
43122601 ATCGAGGATA-AACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAA
1 ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
43122665 AACGGTAATTCTATAA
66 AACGGTAATTCTATAA
*
43122681 ATCGAGGGTACTTTGGTAATTTTA
1 ATCGAGGGTATTTTGGTAATTTTA
43122705 CAAATTGAGG
Statistics
Matches: 157, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 75 0.48
81 82 0.52
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (81 bp):
ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
AACGGTAATTCTATAA
Found at i:43122643 original size:80 final size:81
Alignment explanation
Indices: 43122481--43122687 Score: 335
Period size: 80 Copynumber: 2.6 Consensus size: 81
43122471 GGGTATTTTA
* * * * *
43122481 GTAATTTTGTAAATCGAGGGTAAAACGGTAGTTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAACGGTAATTCTATA
43122546 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
43122562 GTAATTCTATAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGAT-AAACGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAACGGTAATTCTATA
43122626 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
43122642 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGG
43122688 GTACTTTGGT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
80 74 0.64
81 41 0.36
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAACGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:43122709 original size:27 final size:27
Alignment explanation
Indices: 43122335--43122714 Score: 210
Period size: 27 Copynumber: 14.1 Consensus size: 27
43122325 TCACAGATTA
* * ** *
43122335 AGGGTATTTTGGTAATTTTACAAGCCA
1 AGGGTAATTTGGTAATTTTATAAATCG
* * *
43122362 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTAATTTGGTAATTTTATAAATCG
* * * *
43122388 AGGGGTATTTTAGTAATTTTACAAA-CC
1 A-GGGTAATTTGGTAATTTTATAAATCG
* *
43122415 AGGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTAATTTGGTAATTTTA-TAAATCG
* * * *
43122443 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTAATTTGGTAATTTTATAAATCG
* * *
43122470 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
*** * *
43122497 AGGGTAAAACGGTAGTTCTATAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
*** * *
43122524 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
** * *
43122551 AGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAATTTGGTAATTTTATAAATCG
*** * * *
43122578 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
* ** *
43122605 AGGATAA-ACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
** *
43122631 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
*** *
43122658 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTTTATAAATCG
* * *
43122685 AGGGTACTTTGGTAATTTTACAAATTG
1 AGGGTAATTTGGTAATTTTATAAATCG
43122712 AGG
1 AGG
43122715 ACATTTCAGT
Statistics
Matches: 304, Mismatches: 44, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 26 0.09
27 276 0.91
28 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTTTATAAATCG
Found at i:43122715 original size:107 final size:108
Alignment explanation
Indices: 43122470--43122703 Score: 335
Period size: 107 Copynumber: 2.2 Consensus size: 108
43122460 TTGTAAACCA
* * * *
43122470 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAGTTCTATAAATCGAGGGTAAAACG
1 AGGGTAATTTGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * *
43122535 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTG
66 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
*** * * *
43122578 AGGGTAAAACGATAATTCTGTAAATCGAGGAT-AAACGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAATTTGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAACG
43122642 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
66 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
*
43122685 AGGGTACTTTGGTAATTTT
1 AGGGTAATTTGGTAATTTT
43122704 ACAAATTGAG
Statistics
Matches: 107, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
107 83 0.78
108 24 0.22
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (108 bp):
AGGGTAATTTGGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAACG
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
Found at i:43124761 original size:18 final size:18
Alignment explanation
Indices: 43124705--43124761 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
43124695 AACTATAGAG
43124705 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
43124724 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
43124741 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
43124759 GAA
1 GAA
43124762 TTGTCAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:43132352 original size:8 final size:8
Alignment explanation
Indices: 43132339--43132364 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43132329 GGGACTTGTT
43132339 TGTAAAAG
1 TGTAAAAG
43132347 TGTAAAAG
1 TGTAAAAG
43132355 TGTAAAAG
1 TGTAAAAG
43132363 TG
1 TG
43132365 AGTAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (8 bp):
TGTAAAAG
Found at i:43142239 original size:44 final size:45
Alignment explanation
Indices: 43142170--43142376 Score: 154
Period size: 46 Copynumber: 4.5 Consensus size: 45
43142160 GCCAATGCCG
* *
43142170 TGTCGCAGACATGGTCTTACACTGAC-ACATCTCGTA-GTCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATGCA
* *
43142215 TGTTCCAGACATGTCTTACACTGACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATGCA
* * * * *
43142261 TGTCCCAGACATGTATTATACTAGCACT-CGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACT-G-ACTACATCTCGAGGCCGATG-CA
* * ** * *
43142308 TGTCCTAGACATGGTCTTACACTGGCT-C-TCATAATATGGCCAATACA
1 TGTCCCAGACAT-GTCTTACACTGACTACATC-T-CGA-GGCCGATGCA
43142355 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
43142377 AGCACACAAT
Statistics
Matches: 133, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 62 0.47
47 30 0.23
48 15 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGATGCA
Found at i:43145516 original size:40 final size:40
Alignment explanation
Indices: 43145432--43145615 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
43145422 TTGAATGCTG
* * * *
43145432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
43145471 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * * *
43145512 TCCGGGTTAAGTCCCGAAGGCCTTTCTGTGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
43145552 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
43145592 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43145616 GTATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:43153464 original size:40 final size:40
Alignment explanation
Indices: 43153380--43153563 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
43153370 TTGAATGCTG
* * * *
43153380 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
43153419 ATCCGGAATAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
43153460 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
43153500 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
43153540 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43153564 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:43153517 original size:80 final size:81
Alignment explanation
Indices: 43153380--43153560 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
43153370 TTGAATGCTG
* *
43153380 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGAATAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGAATAAGATCCGAAGGCATT
* *
43153444 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
43153460 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGAATAAGAT-CCGAAGGC
*
43153521 ATTCGTGTGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
43153540 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
43153561 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGAATAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:43157509 original size:201 final size:201
Alignment explanation
Indices: 43157147--43157551 Score: 607
Period size: 201 Copynumber: 2.0 Consensus size: 201
43157137 CGCAGTCTTC
*
43157147 GGTACATATTGCTCTTTCACCTTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATAC
1 GGTACATATTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATAC
* * * *
43157212 AATGGCTCCATTTAACTGATCAAACAGGTCATCAATCCTTGGCAAAGGATACTTTCTCTTCACTG
66 AATGGCTCCATTTAACTAATCAAACAGGTCATCAATCATTGGCAAAAGATACTTTCTCTTCACTA
* *
43157277 TTACATTATTGGGCTATCTATAGATGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAG
131 TTACATTATTGAGCTATCGATAGATGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAG
43157342 AGCACT
196 AGCACT
* ** * *
43157348 GGTACATCTTGCTCTTTTGCCCTTAACTGGTAGTATCCTGACCTCAGGTTAATCTTGGAAAATAC
1 GGTACATATTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATAC
* *
43157413 AATGGCTCCCTTTACCTAATCAAACAGGTCATCAATCATTGGCAAAAGATACTTGT-TCTTCACT
66 AATGGCTCCATTTAACTAATCAAACAGGTCATCAATCATTGGCAAAAGATACTT-TCTCTTCACT
* * * * *
43157477 ATTACATTATTGAGTTGTCGATAG-TCGATACATAACCTCATTGACCCATCTTTCTTTTTTACAA
130 ATTACATTATTGAGCTATCGATAGAT-GATACATAACCTCATCGACACATCTTTCTTTTTCACAA
43157541 AGAGCACT
194 AGAGCACT
43157549 GGT
1 GGT
43157552 GTGTCCCATT
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
200 1 0.01
201 181 0.99
202 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (201 bp):
GGTACATATTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATAC
AATGGCTCCATTTAACTAATCAAACAGGTCATCAATCATTGGCAAAAGATACTTTCTCTTCACTA
TTACATTATTGAGCTATCGATAGATGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAG
AGCACT
Found at i:43160908 original size:30 final size:30
Alignment explanation
Indices: 43160874--43160934 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43160864 TCCTTAACTC
43160874 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43160904 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43160934 A
1 A
43160935 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43166406 original size:24 final size:24
Alignment explanation
Indices: 43166379--43166461 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
43166369 CTTTTAGGAG
43166379 AGGATTTAGGAGTCGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
* *
43166403 AGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
*
43166427 AGGATTTAGGAG-CTGATAAGGGAG
1 AGGATTTAGGAGTC-GATAAGGGAT
*
43166451 AAGATTTAGGA
1 AGGATTTAGGA
43166462 ACTGATTAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTCGATAAGGGAT
Found at i:43166466 original size:24 final size:24
Alignment explanation
Indices: 43166375--43166475 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
43166365 AAGTCTTTTA
*
43166375 GGAGAGGATTTAGG-AGTCGATAAG
1 GGAGAGGATTTAGGAACT-GATAAG
* ** *
43166399 GGATAGGATTTAGGAGTTGGTAAG
1 GGAGAGGATTTAGGAACTGATAAG
* *
43166423 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAACTGATAAG
* *
43166447 GGAGAAGATTTAGGAACTGATTAG
1 GGAGAGGATTTAGGAACTGATAAG
43166471 GGAGA
1 GGAGA
43166476 ACAGTGTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
24 65 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAACTGATAAG
Found at i:43166473 original size:48 final size:48
Alignment explanation
Indices: 43166379--43166473 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
43166369 CTTTTAGGAG
* * ** *
43166379 AGGATTTAGGAGTCGATAAGGGATAGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAGAAGATTTAGGAACTGATAAGGGAT
*
43166427 AGGATTTAGGAG-CTGATAAGGGAGAAGATTTAGGAACTGATTAGGGA
1 AGGATTTAGGAGTC-GATAAGGGAGAAGATTTAGGAACTGATAAGGGA
43166474 GAACAGTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.34, C:0.03, G:0.38, T:0.25
Consensus pattern (48 bp):
AGGATTTAGGAGTCGATAAGGGAGAAGATTTAGGAACTGATAAGGGAT
Found at i:43167916 original size:27 final size:27
Alignment explanation
Indices: 43167878--43167985 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
43167868 AAGCGTCCGA
* *
43167878 GTGGCTATGCCACATTTATCTGATCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
*
43167905 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
43167932 GTGGCTCTGCCACAATTATTTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
43167959 GTGACTCTGTCACA-TTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
43167985 G
1 G
43167986 CAGCAATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 12 0.17
27 60 0.83
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACATTTATCTGTTCTG
Found at i:43173854 original size:24 final size:24
Alignment explanation
Indices: 43173766--43173866 Score: 132
Period size: 24 Copynumber: 4.2 Consensus size: 24
43173756 AAGTCTGTCA
43173766 GGAGAGGATTTAGGAG-TCGATAAG
1 GGAGAGGATTTAGGAGCT-GATAAG
* * *
43173790 GGATAGGATTTAGGAGTTGGTAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
43173814 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
43173838 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
43173862 GGAGA
1 GGAGA
43173867 ACAGTGTTGG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 68 0.99
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:43175381 original size:26 final size:26
Alignment explanation
Indices: 43175274--43175384 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
43175264 AGGAAGCGTC
* * *
43175274 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGTT
*
43175301 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
43175328 CTGGTGGCTCTACCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
43175355 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
43175381 CTGG
1 CTGG
43175385 CAGCAATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:43177563 original size:28 final size:28
Alignment explanation
Indices: 43177521--43177620 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
43177511 AGCATCGGGG
*
43177521 ATGGCACTTTGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* * * *
43177549 ATGGCACTTAATGTGTGAAGTA-A-CAAGG
1 ATGGCACTTAGTGTGCG-A-TACATCCAGA
* *
43177577 ATGGCACTTAGTGTGTGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* *
43177605 ACGACACTTAGTGTGC
1 ATGGCACTTAGTGTGC
43177621 AAGGTATCGG
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 49 0.88
29 2 0.04
30 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGATACATCCAGA
Found at i:43177786 original size:32 final size:32
Alignment explanation
Indices: 43177698--43177789 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 32
43177688 TGAGTATGAG
* * * *
43177698 ATTGGTACGAA-ATGATACAGGTATCTATGGAA
1 ATTGGTAC-AATATGGTACAGGTATGTACGAAA
43177730 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGAAA
*
43177762 ATTGGTACAATATGGTACATGTATGTAC
1 ATTGGTACAATATGGTACAGGTATGTAC
43177790 AGAGATTCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 2 0.04
32 52 0.96
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAGGTATGTACGAAA
Found at i:43179407 original size:22 final size:22
Alignment explanation
Indices: 43179382--43179423 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43179372 TATATAAATA
* *
43179382 TATATATGTATATATATTTGGC
1 TATATATATATATAGATTTGGC
43179404 TATATATATATATAGATTTG
1 TATATATATATATAGATTTG
43179424 ATGTGTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (22 bp):
TATATATATATATAGATTTGGC
Found at i:43180606 original size:39 final size:39
Alignment explanation
Indices: 43180559--43180650 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
43180549 TATATGAGAT
*
43180559 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
* * *
43180598 TGGAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
*
43180637 TGGAAAAATATCCG
1 TGGAAATATATCCG
43180651 AGTTAAAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
Found at i:43190636 original size:20 final size:20
Alignment explanation
Indices: 43190599--43190637 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43190589 TGGTATTTTA
***
43190599 TATGGTTGTTATTTTGATGC
1 TATGGTTGTTAAGATGATGC
43190619 TATGGTTGTTAAGATGATG
1 TATGGTTGTTAAGATGATG
43190638 GTAGGGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (20 bp):
TATGGTTGTTAAGATGATGC
Found at i:43191032 original size:11 final size:11
Alignment explanation
Indices: 43191016--43191041 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43191006 CATGATTACA
43191016 GTTGCAATTGG
1 GTTGCAATTGG
43191027 GTTGCAATTGG
1 GTTGCAATTGG
43191038 GTTG
1 GTTG
43191042 TGCAAGTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (11 bp):
GTTGCAATTGG
Found at i:43195373 original size:47 final size:47
Alignment explanation
Indices: 43195298--43195475 Score: 180
Period size: 47 Copynumber: 3.8 Consensus size: 47
43195288 TAGCCTAGCC
* * * * *
43195298 ATGGTCTTACAC-GGATCACATATCACACTAACGTCATATCCCAGAT
1 ATGGTCTTACACAGAAGCACATATCACACTGATGCCATATCCCAGAT
* *
43195344 ATGGTCTTACATAGAAGCACATATCACACTGATGCCATATCCCAGAC
1 ATGGTCTTACACAGAAGCACATATCACACTGATGCCATATCCCAGAT
* * * * * *
43195391 ATGGTCTTATACGGAAGCTCATATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACACAGAAGCACATATCACACTGATGCCATATCCCAGAT
* * * *
43195438 ATGGTCTTATACGAAAATCACATATCACA-TGTTGCCAT
1 ATGGTCTTACAC-AGAAGCACATATCACACTGATGCCAT
43195476 GGTCCAACCT
Statistics
Matches: 109, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
46 11 0.10
47 86 0.79
48 12 0.11
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
ATGGTCTTACACAGAAGCACATATCACACTGATGCCATATCCCAGAT
Found at i:43204979 original size:25 final size:25
Alignment explanation
Indices: 43204934--43204995 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
43204924 ATGCCCATAA
* * * *
43204934 GAGCTGTA-AACGGTAAGCTCCTCC
1 GAGCTGAATAACGATAACCTCCACC
43204958 GAGCTGAATAACGATAACCTCCACC
1 GAGCTGAATAACGATAACCTCCACC
*
43204983 AAGCTGAATAACG
1 GAGCTGAATAACG
43204996 GTAAGATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (25 bp):
GAGCTGAATAACGATAACCTCCACC
Found at i:43208706 original size:53 final size:53
Alignment explanation
Indices: 43208536--43208738 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
43208526 GGGTTTAAGT
* * * *
43208536 ATACCATGTAAGTCCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAAGCAAGG
1 ATACCATGTAAGACCATGCTAAGGCATGGC-ATTGGTAA-G-TTCATAAGGCAAGG
* * *
43208591 ATACCATGTAAGACCATG-TCAAGACAT-GCATTGATAAGTTACTATAAGGCAAAG
1 ATACCATGTAAGACCATGCT-AAGGCATGGCATTGGTAAGTT-C-ATAAGGCAAGG
* *
43208645 ATCCCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGG
1 ATACCATGTAAGACCATGCTAAGGCATGGCATTGGTAAGTTCATAAGGCAAGG
* * *
43208698 ATACCATGTAAGACCATG-TCGAGACATGGCAATGGTAAGTT
1 ATACCATGTAAGACCATGCT-AAGGCATGGCATTGGTAAGTT
43208739 TCAAAGTGAT
Statistics
Matches: 124, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
51 2 0.02
52 3 0.02
53 51 0.41
54 34 0.27
55 34 0.27
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (53 bp):
ATACCATGTAAGACCATGCTAAGGCATGGCATTGGTAAGTTCATAAGGCAAGG
Found at i:43209719 original size:16 final size:16
Alignment explanation
Indices: 43209698--43209729 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43209688 TTATACTTTA
43209698 TATGTACAGATTTATT
1 TATGTACAGATTTATT
43209714 TATGTACAGATTTATT
1 TATGTACAGATTTATT
43209730 ATTGACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TATGTACAGATTTATT
Found at i:43214943 original size:39 final size:40
Alignment explanation
Indices: 43214739--43214961 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
43214729 TTGAATGCTG
* * * * * *
43214739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * * *
43214779 TCCAGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
43214819 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
43214859 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43214899 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
43214938 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43214962 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43214981 original size:79 final size:80
Alignment explanation
Indices: 43214814--43214996 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
43214804 GTGCGAGATA
* * *
43214814 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
43214879 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43214894 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
43214958 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43214973 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43214997 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:43221631 original size:1 final size:1
Alignment explanation
Indices: 43221627--43221661 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
43221617 AACTAGAAAG
* *
43221627 AAAAAAAAAAAAAAAAAAAAAAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
43221662 TTTTCTCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:43226269 original size:38 final size:38
Alignment explanation
Indices: 43226185--43226400 Score: 230
Period size: 38 Copynumber: 5.6 Consensus size: 38
43226175 GAATGTTGTC
*
43226185 CGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAT-T
*
43226223 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTACTAATT
43226261 CGGGCTAAG-CCCGAAGGCATTT-TGCGAGATACTAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
*
43226298 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* * **
43226337 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTA-ATT
*
43226377 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
43226401 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.04
37 20 0.13
38 57 0.36
39 43 0.27
40 31 0.20
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:43226422 original size:79 final size:77
Alignment explanation
Indices: 43226234--43226433 Score: 194
Period size: 79 Copynumber: 2.6 Consensus size: 77
43226224 GGACTAAGAT
** * * *
43226234 CCGAAGGCATTTGTGCGAGT-ACTAATTCGGGCTAAG-CCCGAAGGCATTTTGCGAGATACTAAT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGTCCCGAAGGCATTTTGCGAGATACTAAT
*
43226297 TCCGGGCTAAGC
66 ACCGGGCTAAGC
** * *
43226309 CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGTCCCGAAGGCATTT-TGCGAGA-TACTA
*
43226372 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
* * *
43226388 CCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAGTCCCGAAGG
43226434 TACGTGATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
75 20 0.19
76 14 0.13
77 16 0.15
78 19 0.18
79 38 0.36
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGTCCCGAAGGCATTTTGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:43244574 original size:22 final size:22
Alignment explanation
Indices: 43244532--43244575 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43244522 AATTATTTAC
* *
43244532 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
43244554 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
43244576 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:43244875 original size:40 final size:40
Alignment explanation
Indices: 43244801--43245022 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
43244791 AACCCAAGTA
* *
43244801 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
43244840 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43244880 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
43244920 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
43244960 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43245000 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43245023 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:43258962 original size:42 final size:42
Alignment explanation
Indices: 43258903--43259013 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
43258893 TCCAAACTCA
* * *
43258903 TTGAGTGGTCCGAGTTCATAAGATATATG-GCATCAGAGCTCG
1 TTGAGAGGTCCGAGTTCATAAG-GATACGAGCATCAGAGCTCG
* * * *
43258945 TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATCTGAGCTTG
1 TTGAGAGGTCCGAGTTCA-TAAGGATACGAGCATCAGAGCTCG
*
43258988 TTGAGAGGTCTGAGTTCATAATGGAT
1 TTGAGAGGTCCGAGTTCATAA-GGAT
43259014 GCGATTCATG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (42 bp):
TTGAGAGGTCCGAGTTCATAAGGATACGAGCATCAGAGCTCG
Found at i:43258991 original size:43 final size:43
Alignment explanation
Indices: 43258932--43259017 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
43258922 AAGATATATG
*
43258932 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
* * *
43258975 GCATCTGAGCTTGTTGAGAGGTCTGAGTTCATAATGGATGCGA
1 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
43259018 TTCATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (43 bp):
GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
Found at i:43263951 original size:46 final size:46
Alignment explanation
Indices: 43263783--43263956 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
43263773 TGTAACCCGC
* * ** *
43263783 CCATAAGTGAACTCGGACTCAACTCACCGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* *
43263829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCAT
* * * * *
43263879 --TTCA-CGAACTTGTACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
*
43263922 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
43263957 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.58
47 25 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:43271198 original size:18 final size:18
Alignment explanation
Indices: 43271177--43271213 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43271167 AATTCGACGC
* *
43271177 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
43271195 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
43271213 A
1 A
43271214 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:43272177 original size:93 final size:93
Alignment explanation
Indices: 43272066--43272236 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43272056 GCCCATAAGT
* * *
43272066 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43272131 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
43272159 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43272224 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43272237 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:43272233 original size:46 final size:46
Alignment explanation
Indices: 43272058--43272233 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43272048 TGTAACCCGC
* * *
43272058 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43272104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
43272154 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
43272197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43272234 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43272693 original size:30 final size:30
Alignment explanation
Indices: 43272659--43272718 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43272649 ATTTAATACG
43272659 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
43272689 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43272719 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43273599 original size:47 final size:47
Alignment explanation
Indices: 43273530--43273894 Score: 430
Period size: 47 Copynumber: 7.5 Consensus size: 47
43273520 AGGATATTAT
*
43273530 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
**
43273577 AGGCCGAATGGCCAATGTGATGAATGT-AATGTG-ATGAATGTGAACATGCATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT--ATGTG----TG-ATA
* * *
43273629 TATG-TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
1 -AGGCCGA-ATGG-C-------CAATGTGATGAATGTGAACATGCATATGTGTGATA
** *
43273685 AGGTTGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
43273732 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
*
43273779 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
* * *
43273826 AGGCCGAATGGGCAATGTGTTGAATGTGAACATGCATATATGTGATA
1 AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
*
43273873 AGGCAGAATGGCCAATGTGATG
1 AGGCCGAATGGCCAATGTGATG
43273895 CACGTGGAAG
Statistics
Matches: 278, Mismatches: 20, Indels: 40
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.01
46 4 0.01
47 219 0.79
51 2 0.01
52 5 0.02
53 5 0.02
54 2 0.01
55 5 0.02
56 6 0.02
57 2 0.01
61 20 0.07
62 4 0.01
63 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
Found at i:43273609 original size:14 final size:14
Alignment explanation
Indices: 43273590--43273617 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43273580 CCGAATGGCC
43273590 AATGTGATGAATGT
1 AATGTGATGAATGT
43273604 AATGTGATGAATGT
1 AATGTGATGAATGT
43273618 GAACATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
AATGTGATGAATGT
Found at i:43273638 original size:61 final size:61
Alignment explanation
Indices: 43273543--43273664 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
43273533 CCGAATGGCC
43273543 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
43273604 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
43273665 GAACATGCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (61 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
Found at i:43273679 original size:61 final size:60
Alignment explanation
Indices: 43273547--43273679 Score: 205
Period size: 61 Copynumber: 2.2 Consensus size: 60
43273537 ATGGCCAATG
**
43273547 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTAATG
1 TGAT-AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTAACA
43273608 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGAT-AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-AACA
43273670 TGCAT-ATGTG
1 TG-ATAATGTG
43273680 TGATAAGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
61 62 0.91
62 4 0.06
63 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (60 bp):
TGATAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTAACA
Found at i:43273752 original size:22 final size:22
Alignment explanation
Indices: 43273725--43273799 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
43273715 CATGCATATG
43273725 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
43273747 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
43273770 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
43273794 TGTGAT
1 TGTGAT
43273800 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43273912 original size:47 final size:47
Alignment explanation
Indices: 43273604--43273894 Score: 501
Period size: 47 Copynumber: 6.2 Consensus size: 47
43273594 TGATGAATGT
43273604 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* **
43273651 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGTTGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
43273698 AATGTGACGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
43273745 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
43273792 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
43273839 AATGTGTTGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
43273886 AATGTGATG
1 AATGTGATG
43273895 CACGTGGAAG
Statistics
Matches: 231, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 231 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:43273983 original size:46 final size:46
Alignment explanation
Indices: 43273916--43274092 Score: 282
Period size: 46 Copynumber: 3.8 Consensus size: 46
43273906 GTATATAAGT
*
43273916 GGTAAAGCCGAGTGGCTAATGCGAAATGTGTATGAGATGGATATGA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGA
* *
43273962 GGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGGATATGA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGA
*
43274008 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGT
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGA
* * * *
43274054 GGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
43274093 TGTATATATA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGA
Found at i:43276074 original size:40 final size:40
Alignment explanation
Indices: 43275571--43276065 Score: 864
Period size: 40 Copynumber: 12.4 Consensus size: 40
43275561 TGAGAGTTAT
43275571 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275611 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275651 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275691 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275731 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
43275771 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275811 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
43275851 ATATATCTGGGCTAATTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275891 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275931 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43275971 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
43276011 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
43276051 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
43276066 ACCTCGAAGG
Statistics
Matches: 434, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 434 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:43276183 original size:57 final size:57
Alignment explanation
Indices: 43276093--43276249 Score: 206
Period size: 57 Copynumber: 2.8 Consensus size: 57
43276083 GCTGGAATTA
* * * * * *
43276093 TGAGGCACTGTGTGTACAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* **
43276150 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* **
43276207 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGTGCTATGTGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT
43276250 ACGAAATCAG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 88 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
Found at i:43276194 original size:28 final size:27
Alignment explanation
Indices: 43276122--43276249 Score: 112
Period size: 29 Copynumber: 4.5 Consensus size: 27
43276112 GTTCTCCAAC
* * * *
43276122 CGAGCACTATGTGTGCCAGATCAGTAGT
1 CGAGCACTATGTGTGCGAGTTC-TTAAT
*
43276150 TGAGGCACTATGTGTGCGAGTTCTTCAAT
1 CGA-GCACTATGTGTGCGAGTTCTT-AAT
**
43276179 CGAGCACTATGTGTGCGAGATTGGTAAT
1 CGAGCACTATGTGTGCGAG-TTCTTAAT
*
43276207 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 CGA-GCACTATGTGTGCGAGTTC-TTAAT
**
43276236 CGAGTGCTATGTGT
1 CGAGCACTATGTGT
43276250 ACGAAATCAG
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
28 35 0.43
29 46 0.57
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (27 bp):
CGAGCACTATGTGTGCGAGTTCTTAAT
Found at i:43276235 original size:29 final size:29
Alignment explanation
Indices: 43276125--43276235 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
43276115 CTCCAACCGA
* * * *
43276125 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGTTCTGTAATTGAG
*
43276154 GCACTATGTGTGCGAGTTCT-TCAATCGA-
1 GCACTATGTGTGCGAGTTCTGT-AATTGAG
*
43276182 GCACTATGTGTGCGAGATT-GGTAATTGAG
1 GCACTATGTGTGCGAG-TTCTGTAATTGAG
*
43276211 GCACTATGTGTGCGAGTTCTTTAAT
1 GCACTATGTGTGCGAGTTCTGTAAT
43276236 CGAGTGCTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
28 24 0.35
29 44 0.65
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (29 bp):
GCACTATGTGTGCGAGTTCTGTAATTGAG
Found at i:43280117 original size:47 final size:47
Alignment explanation
Indices: 43280063--43280441 Score: 535
Period size: 47 Copynumber: 8.1 Consensus size: 47
43280053 TTAGGATTTT
** * * **
43280063 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43280110 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43280157 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43280204 ATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43280251 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
43280298 ATGTGATGAATGTGAATATTCGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
43280345 ATGTGATGAATGTGAACACGCATATATGTGATAAGACAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
43280392 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
43280439 ATG
1 ATG
43280442 CGAAATGTGT
Statistics
Matches: 301, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 298 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43280471 original size:46 final size:46
Alignment explanation
Indices: 43280415--43280597 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
43280405 GGAAGTGTAT
* * *
43280415 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
43280461 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* *
43280507 ATATGAGGTAAAGCCGAATGGCTAATACGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
43280553 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATG
43280598 TGTATATATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:43287972 original size:40 final size:40
Alignment explanation
Indices: 43287919--43288059 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
43287909 CGGATGTAAC
43287919 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
43287959 AACCCGCATGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * ** * *
43287999 AACTAGCAC-AATTGCCTT-TGGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
43288039 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
43288060 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
39 5 0.06
40 77 0.91
41 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:43288062 original size:40 final size:40
Alignment explanation
Indices: 43287909--43288075 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
43287899 GAATTTGGCT
* * * * **
43287909 CGGATGTAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* ** ** * **
43287949 CGGTTATAATAACCCGCATGAATGCCTTTGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCC-TTCGGATCTTAGTC
* * *
43287989 CGGTTATAATAACTAGCACAATTGCCTTTGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
*
43288029 CGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
43288069 CGGATAT
1 CGGATAT
43288076 CATCCGAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.05
40 100 0.93
41 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
Found at i:43294199 original size:93 final size:93
Alignment explanation
Indices: 43294091--43294262 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
43294081 CGCCCATAAG
* * *
43294091 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
43294156 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGAATGCCTAGTTACATTTCA
* * *
43294184 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
43294249 ACGAGTTCGAATGC
66 ACGAGCTCGAATGC
43294263 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATTTCA
Found at i:43294257 original size:46 final size:45
Alignment explanation
Indices: 43294084--43294253 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
43294074 TGTAACCCGC
* * *
43294084 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAC-ATTGCAT
* * *
43294130 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTGCAT
* * *
43294180 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATT-GCAT
*
43294223 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
43294254 TTCGAATGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.56
47 27 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
Found at i:43300494 original size:40 final size:40
Alignment explanation
Indices: 43300464--43300673 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
43300454 GGACTAAGAT
* * * *
43300464 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
43300504 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
43300544 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
43300584 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * * *
43300624 CCAAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
43300663 CCGAAGGCATT
1 CCGAAGGCATT
43300674 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 32 0.21
40 122 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:43300693 original size:79 final size:80
Alignment explanation
Indices: 43300467--43300708 Score: 229
Period size: 80 Copynumber: 3.0 Consensus size: 80
43300457 CTAAGATCCG
* * * * * ** * *
43300467 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAA
*
43300531 TCCGGGTTAAGTCCCG
65 TCCGGGTTAAGTCCCA
* * * ** ** *
43300547 AAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAAT
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
*
43300612 CCGGGTTACGTCCCA
66 CCGGGTTAAGTCCCA
* * * *
43300627 AAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATAT
1 AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
* *
43300691 CC-GGTTAAATCCCG
66 CCGGGTTAAGTCCCA
43300705 AAGG
1 AAGG
43300709 TACGTGATTT
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
78 13 0.09
79 47 0.34
80 78 0.57
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
AAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAAT
CCGGGTTAAGTCCCA
Found at i:43304278 original size:47 final size:47
Alignment explanation
Indices: 43304216--43304384 Score: 229
Period size: 47 Copynumber: 3.6 Consensus size: 47
43304206 ATCCATAAAT
*
43304216 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTCACATTTGAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACATTTGAC
* ** *
43304263 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-TC-CATAAG-T
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTCACATTTGAC
*
43304309 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACATTTGAC
43304356 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
43304385 CATTCGCATC
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 31 0.30
47 60 0.57
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACATTTGAC
Found at i:43304285 original size:93 final size:93
Alignment explanation
Indices: 43304169--43304433 Score: 458
Period size: 93 Copynumber: 2.8 Consensus size: 93
43304159 CGCCCATAAG
* * * * *
43304169 CGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
43304234 ACGAGCTCGGATGCCTAGTCACATTTGA
66 ACGAGTTCGGATGCCTAGTCACATTTCA
43304262 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43304327 ACGAGTTCGGATGCCTAGTCACATTTCA
66 ACGAGTTCGGATGCCTAGTCACATTTCA
43304355 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43304420 ACGAGTTCGAATGC
66 ACGAGTTCGGATGC
43304434 TCAACCATCC
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTCACATTTCA
Found at i:43304449 original size:46 final size:46
Alignment explanation
Indices: 43304162--43304428 Score: 269
Period size: 46 Copynumber: 5.8 Consensus size: 46
43304152 TGTAACCCGC
* * * * * *
43304162 CCATAAGCGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
* *
43304208 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGC-A-T
** * *
43304253 CACATTTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
43304301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGC-A-T
* * *
43304346 CACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
43304394 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
43304429 AATGCTCAAC
Statistics
Matches: 185, Mismatches: 20, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 6 0.03
46 93 0.50
47 61 0.33
48 6 0.03
49 8 0.04
50 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
Found at i:43307406 original size:47 final size:47
Alignment explanation
Indices: 43306899--43307377 Score: 715
Period size: 47 Copynumber: 10.1 Consensus size: 47
43306889 GAAATGATAG
* * *
43306899 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG--TATATGTGTGA
* * * **
43306948 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
43306995 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* *
43307042 TAGGGCCTAATAGCCGACGTAATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
*
43307089 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
43307136 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * *
43307183 TAGGGCCTAATAGCCGATGTCATGAATGTGAAAGTGTATGTGTGTTA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
43307230 TAAGGCCTAATAGCCGACGTGATTAATGCGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* *
43307277 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
43307324 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
*
43307371 CAAGGCC
1 TAAGGCC
43307378 GAGTGGCCAA
Statistics
Matches: 401, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 366 0.91
49 35 0.09
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:43307598 original size:37 final size:37
Alignment explanation
Indices: 43307540--43307618 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43307530 CCGAGCTCTA
* * *
43307540 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
43307577 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
43307614 AAGAC
1 AAGAC
43307619 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Done.