Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 72 of 310
Found at i:22957892 original size:30 final size:28
Alignment explanation
Indices: 22957842--22957904 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
22957832 AATAAAAATC
* *
22957842 ATTTTACAAGTCTAGAGGCAAAAGTGTA
1 ATTTTACAAGTCTAGAGGCAAAAATATA
* *
22957870 ATTTTGACAAAGTTTAGGGGCAAAAATATA
1 ATTTT-AC-AAGTCTAGAGGCAAAAATATA
22957900 ATTTT
1 ATTTT
22957905 TCCAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 2 0.07
30 22 0.76
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (28 bp):
ATTTTACAAGTCTAGAGGCAAAAATATA
Found at i:22972998 original size:42 final size:42
Alignment explanation
Indices: 22972935--22973050 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
22972925 TTACTAAGAT
*
22972935 TACATGTAAGACCATATCTGGGATATGGCATCGACATGAGAC
1 TACATGTAAGACCATATCTGGGATATGGCATCGACAAGAGAC
* * * * * * *
22972977 TTCGTGTAAGACCATAGCTGGGCTATTGACATTGATAAGAGAC
1 TACATGTAAGACCATATCTGGGATA-TGGCATCGACAAGAGAC
* *
22973020 TACATGTAATACCATATCTAGGATATGGCAT
1 TACATGTAAGACCATATCTGGGATATGGCAT
22973051 TGGTACGATA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TACATGTAAGACCATATCTGGGATATGGCATCGACAAGAGAC
Found at i:22976630 original size:20 final size:21
Alignment explanation
Indices: 22976605--22976643 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22976595 CTCTTGAAAC
*
22976605 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCATGTGAA
22976625 AGGGCAACACGCCCATGTG
1 AGGGCAACACGCCCATGTG
22976644 GTCAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGAA
Found at i:22977926 original size:46 final size:47
Alignment explanation
Indices: 22977793--22978052 Score: 218
Period size: 46 Copynumber: 5.6 Consensus size: 47
22977783 AGGGTATAAT
* *
22977793 GCCGATGCCATGTCCCAGACATGATCTTACACTGGCTTA-TTCATCAA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTTACATCATCTA
** * * * * * *
22977840 GTTGATGCCATATCCTAGACATGGTCTTACATTGAC--ACATCTTGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCATCTA
*
22977886 GCTGATG-CATGTCCCAGACATGTCTTACACTGGCTTACATC-TCTA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCATCTA
* *
22977931 GGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCA-CAATA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCATC--TA
* * *
22977979 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCATCTA
*
22978026 GCCAATG-CATGTCCCAGACATGTCTTA
1 GCCGATGCCATGTCCCAGACATGTCTTA
22978053 TACTAGAACA
Statistics
Matches: 175, Mismatches: 25, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 64 0.37
47 58 0.33
48 26 0.15
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCATCTA
Found at i:22978034 original size:94 final size:92
Alignment explanation
Indices: 22977889--22978058 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
22977879 TCTTGTAGCT
* *
22977889 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCTAGGCCGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCTAGGCCAATGCATGTCCCAGACATG
22977954 TCTTACACTAGCTCTCGTCACAATACC
66 TCTTACACTAGCTCTCGTCACAATACC
*
22977981 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGT-GGCCAATGCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCTAGGCCAATGCATGTCCCAGA
*
22978044 CATGTCTTATACTAG
62 CATGTCTTACACTAG
22978059 AACACAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 49 0.70
95 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCTAGGCCAATGCATGTCCCAGACATG
TCTTACACTAGCTCTCGTCACAATACC
Found at i:22981053 original size:27 final size:25
Alignment explanation
Indices: 22980979--22981121 Score: 88
Period size: 27 Copynumber: 5.4 Consensus size: 25
22980969 TCAAATGGTA
* *
22980979 GTAATTTTACAATCGACGATATTTCG
1 GTAATTTTACAATCGAAGGTATTT-G
* * **
22981005 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTA-CAATCGAAGGTA-TTTG
*
22981032 GTAATTTTACAAGTCGAAGGTATTTTA
1 GTAATTTTACAA-TCGAAGGTA-TTTG
* * * *
22981059 GTAATTTTACAAATTGAGGGCATTTCA
1 GTAATTTTAC-AATCGAAGGTATTT-G
* *
22981086 GTAATTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTT-G
22981113 GTAATTTTA
1 GTAATTTTA
22981122 ATAAACTAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
26 17 0.19
27 69 0.76
28 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (25 bp):
GTAATTTTACAATCGAAGGTATTTG
Found at i:22983243 original size:42 final size:42
Alignment explanation
Indices: 22983196--22983287 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22983186 TGGCCCATAG
* ** *
22983196 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
22983238 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
22983280 GCCCATTT
1 GCCCATTT
22983288 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:22983450 original size:24 final size:24
Alignment explanation
Indices: 22983423--22983480 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
22983413 TTGGAGGCCT
* *
22983423 AGCCTCTTTTAAT-AACTGGGGTAA
1 AGCC-CTTTTAATAAACAGGGGCAA
22983447 AGCCCTTTCTAATAAACAGGGGCAA
1 AGCCCTTT-TAATAAACAGGGGCAA
22983472 AGCCCTTTT
1 AGCCCTTTT
22983481 CGGTAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 9 0.30
25 17 0.57
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACAGGGGCAA
Found at i:22984465 original size:27 final size:27
Alignment explanation
Indices: 22984435--22984542 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
22984425 GTAAATCTAC
22984435 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
22984462 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
22984488 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
22984518 AAA-TAAGGGGTATTTTGGTAATTTT
1 AAACCAA-GGGTATTTCAGTAATTTT
22984543 ACAAGCTAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
26 3 0.04
27 38 0.57
28 7 0.10
29 18 0.27
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:22984553 original size:27 final size:28
Alignment explanation
Indices: 22984523--22984596 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
22984513 TTTGTAAATA
*
22984523 AGGGGTATTTTGGTAATTTTAC-AAGCT
1 AGGGGTATTTTGGTAATTTTACTAAGCG
* *
22984550 AGGGGTATTTTGGTAATTTTCCTAATCG
1 AGGGGTATTTTGGTAATTTTACTAAGCG
*
22984578 A-GGGTATTTTTGTAATTTT
1 AGGGGTATTTTGGTAATTTT
22984597 GTAATTCGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 38 0.90
28 4 0.10
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACTAAGCG
Found at i:22984605 original size:27 final size:26
Alignment explanation
Indices: 22984497--22984610 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 26
22984487 TAGAAAGTCA
*
22984497 AGGGTATTTCT-GTAATTTTGTAAAT-A
1 AGGGTATTT-TGGTAATTTTGT-AATCG
** * *
22984523 AGGGGTATTTTGGTAATTTTACAAGCT
1 A-GGGTATTTTGGTAATTTTGTAATCG
*
22984550 AGGGGTATTTTGGTAATTTTCCTAATCG
1 A-GGGTATTTTGGTAATTTT-GTAATCG
*
22984578 AGGGTATTTTTGTAATTTTGTAATTCG
1 AGGGTATTTTGGTAATTTTGTAA-TCG
22984605 AGGGTA
1 AGGGTA
22984611 AAACGATAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.10
27 62 0.85
28 4 0.05
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTGTAATCG
Found at i:22984620 original size:27 final size:27
Alignment explanation
Indices: 22984589--22984934 Score: 433
Period size: 27 Copynumber: 12.8 Consensus size: 27
22984579 GGGTATTTTT
* *
22984589 GTAATTTTGTAATTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22984616 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
22984643 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
22984670 GTAATTCTAG-GAATCGAGGGTAAAATG
1 GTAATTCT-GTAAATCGAGGGTAAAACG
* **
22984697 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
22984724 GTAATTCTATAAATTGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
22984751 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22984778 GTAATTCTGTAAATCGAGGGAAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22984805 GTAATTCTGTAAATCGAGAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
22984832 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
22984859 GTAATTCTATAAATCGAGGGAAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
22984886 GTAATTCTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22984913 GTAATTTTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
22984935 CTTTGGTAAT
Statistics
Matches: 281, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
27 281 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:22984953 original size:27 final size:26
Alignment explanation
Indices: 22984912--22985086 Score: 154
Period size: 27 Copynumber: 6.5 Consensus size: 26
22984902 AGGGTAAAAC
**
22984912 AGTAATTTTGTAAATCGAGGGTACTTT
1 AGTAATTTTACAAATCGAGGGTA-TTT
* * * *
22984939 GGTAATTTTAGAAATTGAGGGCATTTT
1 AGTAATTTTACAAATCGAGGGTA-TTT
*
22984966 AGTAATTTTAC-AATCGACGGTATTT
1 AGTAATTTTACAAATCGAGGGTATTT
* * * *
22984991 CGGTAATTTTATAAACCGGGGGTACTTT
1 -AGTAATTTTACAAATCGAGGGTA-TTT
* * *
22985019 GGTAATTTTACAAGTCGAAGGTATTT
1 AGTAATTTTACAAATCGAGGGTATTT
*
22985045 CAGTAATTTTACAAATCGAGGGCATTTT
1 -AGTAATTTTACAAATCGAGGGTA-TTT
22985073 AGTAATTTTACAAA
1 AGTAATTTTACAAA
22985087 CTAATGGTAT
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
25 3 0.03
26 20 0.17
27 89 0.75
28 6 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (26 bp):
AGTAATTTTACAAATCGAGGGTATTT
Found at i:22984970 original size:54 final size:53
Alignment explanation
Indices: 22984912--22985109 Score: 188
Period size: 54 Copynumber: 3.7 Consensus size: 53
22984902 AGGGTAAAAC
* * *
22984912 AGTAATTTTGTAAATCGAGGGTACTTT-GGTAATTTTAGAAATTGAGGGCATTTT
1 AGTAATTTT-TAAATCGAAGGTA-TTTCGGTAATTTTACAAATCGAGGGCATTTT
* * * * * *
22984966 AGTAA-TTTTACAATCGACGGTATTTCGGTAATTTTATAAACCGGGGGTACTTT
1 AGTAATTTTTA-AATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGCATTTT
* *
22985019 GGTAA-TTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGCATTTT
1 AGTAATTTTTA-AA-TCGAAGGTATTTCGGTAATTTTACAAATCGAGGGCATTTT
* *
22985073 AGTAA-TTTTACAAACTAATGGTATTTCGGTAATTTTA
1 AGTAATTTTTA-AATCGAA-GGTATTTCGGTAATTTTA
22985110 GTAAACTAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
52 5 0.04
53 49 0.40
54 67 0.55
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGTAATTTTTAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGCATTTT
Found at i:22984971 original size:81 final size:81
Alignment explanation
Indices: 22984626--22985028 Score: 319
Period size: 81 Copynumber: 5.0 Consensus size: 81
22984616 ATAATTCTGT
* * * ** * *
22984626 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAG-GAATCGAGGG
1 AAATCGAGGGAAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-TTGTAAATCGAGGG
*** * *
22984690 TAAAATGGTAATTCTAT
65 TACTTTGGTAATTTTAG
* * * * * * * * *
22984707 AAATCGAGGGTAAAATAGTAATTCTATAAATTGAAGGTAAAATGGTAATTCTATAAATTGAGGGT
1 AAATCGAGGGAAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
*** *
22984772 AAAATGGTAATTCT-G
66 ACTTTGGTAATTTTAG
* *
22984787 TAAATCGAGGGAAAAACGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTTTGTAAATCGAGGG
1 -AAATCGAGGGAAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
*** * *
22984852 TAAAATGGTAATTCTAT
65 TACTTTGGTAATTTTAG
* * *
22984869 AAATCGAGGGAAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGT
1 AAATCGAGGGAAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
22984934 ACTTTGGTAATTTTAG
66 ACTTTGGTAATTTTAG
* * **** * *** * * *
22984950 AAATTGAGGGCATTTTAGTAATT-T-TACAATCGACGGTATTTCGGTAATTTTATAAACCGGGGG
1 AAATCGAGGGAAAAACAGTAATTCTGTA-AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
22985013 TACTTTGGTAATTTTA
65 TACTTTGGTAATTTTA
22985029 CAAGTCGAAG
Statistics
Matches: 271, Mismatches: 47, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.01
80 44 0.16
81 225 0.83
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
AAATCGAGGGAAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
ACTTTGGTAATTTTAG
Found at i:22985020 original size:80 final size:81
Alignment explanation
Indices: 22984911--22985109 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
22984901 GAGGGTAAAA
* * * * * *
22984911 CAGTAATTTTGTAAATCGAGGGTACTTTGGTAATTTTAGAAATTGAGGGCATTTTAGTAATTTTA
1 CAGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTA
*
22984976 C-AATCGACGGTATTT
66 CAAATCGACGGCATTT
* * * *
22984991 CGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTA
1 CAGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTA
*
22985056 CAAATCGAGGGCATTT
66 CAAATCGACGGCATTT
* * ** *
22985072 TAGTAATTTTACAAACTAATGGTA-TTTCGGTAATTTTA
1 CAGTAATTTTATAAACCGAGGGTACTTT-GGTAATTTTA
22985110 GTAAACTAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
80 59 0.60
81 39 0.40
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
CAGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTA
CAAATCGACGGCATTT
Found at i:22985098 original size:27 final size:27
Alignment explanation
Indices: 22984940--22985118 Score: 96
Period size: 27 Copynumber: 6.6 Consensus size: 27
22984930 GGGTACTTTG
* * * * *
22984940 GTAATTTTAGAAATTGAGGGCATTTTA
1 GTAATTTTACAAACTAAGGGTATTTCA
* * * *
22984967 GTAATTTTACAATC-GACGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
* *** *
22984993 GTAATTTTATAAACCGGGGGTACTTT-G
1 GTAATTTTACAAACTAAGGGTA-TTTCA
* *
22985020 GTAATTTTACAAGTCGAA-GGTATTTCA
1 GTAATTTTACAA-ACTAAGGGTATTTCA
* * *
22985047 GTAATTTTACAAA-TCGAGGGCATTTTA
1 GTAATTTTACAAACT-AAGGGTATTTCA
* *
22985074 GTAATTTTACAAACTAATGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
*
22985101 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
22985119 AGTATTCTAA
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
26 24 0.21
27 80 0.69
28 12 0.10
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCA
Found at i:22987964 original size:20 final size:21
Alignment explanation
Indices: 22987939--22987977 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22987929 CTCTTGCAAC
*
22987939 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCATGTGAA
22987959 AGGGCAACACGCCCATGTG
1 AGGGCAACACGCCCATGTG
22987978 GTCATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGAA
Found at i:22989176 original size:48 final size:49
Alignment explanation
Indices: 22989065--22989186 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 49
22989055 AAGTCGATGC
* *
22989065 CATGTCCCATACATGGTCTTACACTAACTATCGAAATCGAGGCTGACGC
1 CATGTCCCAAACATGGTCTTACACTAACTATCGAAATCGAGGCTGACGA
* *** * *
22989114 CATGTCCCAGACATGGTCTTACACTAAC-ATCTCTATAC-ATGCTGATGA
1 CATGTCCCAAACATGGTCTTACACTAACTATCGAAAT-CGAGGCTGACGA
*
22989162 TATGTCCCAAACATGGTCTTACACT
1 CATGTCCCAAACATGGTCTTACACT
22989187 GGCACATCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 35 0.56
49 28 0.44
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (49 bp):
CATGTCCCAAACATGGTCTTACACTAACTATCGAAATCGAGGCTGACGA
Found at i:22989251 original size:46 final size:46
Alignment explanation
Indices: 22989163--22989370 Score: 219
Period size: 46 Copynumber: 4.5 Consensus size: 46
22989153 TGCTGATGAT
* * *
22989163 ATGTCCCAAACATGGTCTTACACTGG--CACATCTC-ATAGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-GGCCGATGC
*
22989208 ATGTCCCGGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGC
* * ** *
22989254 ATGTCCCAGACATGTCTTACACTGGCTCTCTTCTCAATACTGATGCC
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-C
* * *
22989301 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATAC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATGC
22989348 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
22989371 AGCACACAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
44 12 0.09
45 11 0.08
46 61 0.45
47 30 0.22
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGC
Found at i:22989326 original size:48 final size:48
Alignment explanation
Indices: 22989013--22989333 Score: 247
Period size: 46 Copynumber: 6.8 Consensus size: 48
22989003 GTATAATATC
* *
22989013 GATGCCATGTCCCAGACATGGTTTTACACTAG--CTCATCCATCAA-G-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TCAATGCT
* ** * ** * *
22989059 CGATGCCATGTCCCATACATGGTCTTACACTAACTATCGAAATCGAGGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATGCT
* ** *
22989109 GACGCCATGTCCCAGACATGGTCTTACACTAACATCTC-TAT-ACATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATCTCA-ATGCT
** * * *
22989157 GATGATATGTCCCAAACATGGTCTTACACTGG--CACATCTC-ATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-GCT
* * * *
22989203 GATG-CATGTCCCGGACAT-GTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATGCT
* *
22989249 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCTTCTCAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCT
22989295 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
22989334 AATGTGGCCG
Statistics
Matches: 223, Mismatches: 34, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.05
45 15 0.07
46 59 0.26
47 45 0.20
48 53 0.24
49 34 0.15
50 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCT
Found at i:22989328 original size:94 final size:90
Alignment explanation
Indices: 22989163--22989570 Score: 272
Period size: 97 Copynumber: 4.3 Consensus size: 90
22989153 TGCTGATGAT
* *
22989163 ATGTCCCAAACATGGTCTTACACTGGCACATCTCATAGCCGATGCATGTCCCGGACATGTCTTAC
1 ATGTCCCAGACAT-GTCTTACACTGGCACATCTCATAGCCGATGCATGTCCCAGACATGTCTTAC
* *
22989228 ACTGGCT-TACAT-CTCGAGGCCGATGC
65 ACTGGCTCT-CATAAT-GAGGCCGATAC
* * *
22989254 ATGTCCCAGACATGTCTTACACTGGCTCTCTTCTCAATA-CTGATGCCATGTCCCAGACATGGTC
1 ATGTCCCAGACATGTCTTACACTGG--CACATCTC-ATAGCCGATG-CATGTCCCAGACAT-GTC
*
22989318 TTACACTGGCTCTCATAATGTGGCCGATAC
61 TTACACTGGCTCTCATAATGAGGCCGATAC
* * * * *** *
22989348 ATGTCCCAGACATGTCTTACACTAGCACA-CAAACA-ACCCAAATGTCATGGCATGAATATACAT
1 ATGTCCCAGACATGTCTTACACTGGCACATC--TCATAGCC-GATG-CAT-G--T-CCCAGACAT
* *
22989411 GGTCTTACACTGGCTCTCATAATGTGGTCGATAC
58 -GTCTTACACTGGCTCTCATAATGAGGCCGATAC
* * * * *** *
22989445 ATGTCCCAGACATGTCTTACACTAGCACA-CAAACA-ACCCAAATGTCATGGCATGAATATACAT
1 ATGTCCCAGACATGTCTTACACTGGCACATC--TCATAGCC-GATG-CAT-G--T-CCCAGACAT
* *
22989508 GGTCTTACACTGGCTCTCATAATGTGGTCGATAC
58 -GTCTTACACTGGCTCTCATAATGAGGCCGATAC
*
22989542 ATGTCCCAGACATGTCTTACACTAGCACA
1 ATGTCCCAGACATGTCTTACACTGGCACA
22989571 CAAACAACCC
Statistics
Matches: 282, Mismatches: 20, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
90 12 0.04
91 14 0.05
92 15 0.05
93 23 0.08
94 51 0.18
95 2 0.01
96 1 0.00
97 164 0.58
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (90 bp):
ATGTCCCAGACATGTCTTACACTGGCACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACA
CTGGCTCTCATAATGAGGCCGATAC
Found at i:22989416 original size:51 final size:50
Alignment explanation
Indices: 22989357--22989518 Score: 131
Period size: 51 Copynumber: 3.3 Consensus size: 50
22989347 CATGTCCCAG
22989357 ACATGTCTTACACTAGCACACAAACAACCCAAATGTCATGGCATGAATAT
1 ACATGTCTTACACTAGCACACAAACAACCCAAATGTCATGGCATGAATAT
* * * * ** * *** *
22989407 ACATGGTCTTACACTGGCTCTC--A-TA---ATGTGGTCGAT-ACATGTCCCAG
1 ACAT-GTCTTACACTAGCACACAAACAACCCAAAT-GTC-ATGGCATG-AATAT
22989454 ACATGTCTTACACTAGCACACAAACAACCCAAATGTCATGGCATGAATAT
1 ACATGTCTTACACTAGCACACAAACAACCCAAATGTCATGGCATGAATAT
22989504 ACATGGTCTTACACT
1 ACAT-GTCTTACACT
22989519 GGCTCTCATA
Statistics
Matches: 78, Mismatches: 22, Indels: 23
0.63 0.18 0.19
Matches are distributed among these distances:
45 2 0.03
46 21 0.27
47 7 0.09
48 2 0.03
49 2 0.03
50 11 0.14
51 31 0.40
52 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (50 bp):
ACATGTCTTACACTAGCACACAAACAACCCAAATGTCATGGCATGAATAT
Found at i:22989437 original size:97 final size:97
Alignment explanation
Indices: 22989310--22989600 Score: 564
Period size: 97 Copynumber: 3.0 Consensus size: 97
22989300 CATGTCCCAG
*
22989310 ACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACATGTCCCAGACATGTCTTACACTAGCA
1 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
22989375 CACAAACAACCCAAATGTCATGGCATGAATAT
66 CACAAACAACCCAAATGTCATGGCATGAATAT
22989407 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
1 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
22989472 CACAAACAACCCAAATGTCATGGCATGAATAT
66 CACAAACAACCCAAATGTCATGGCATGAATAT
22989504 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
1 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
*
22989569 CACAAACAACCCAAATATCATGGCATGAATAT
66 CACAAACAACCCAAATGTCATGGCATGAATAT
22989601 CTGATTTATT
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 192 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (97 bp):
ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAGACATGTCTTACACTAGCA
CACAAACAACCCAAATGTCATGGCATGAATAT
Found at i:22989462 original size:46 final size:47
Alignment explanation
Indices: 22989407--22989564 Score: 119
Period size: 46 Copynumber: 3.3 Consensus size: 47
22989397 GCATGAATAT
22989407 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAG
* * * * ** * *** *
22989454 ACAT-GTCTTACACTAGCACACAAACAACCCAAAT-GTC-ATGGCATG-AATAT
1 ACATGGTCTTACACTGGCTCTC--A-TA---ATGTGGTCGAT-ACATGTCCCAG
22989504 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAG
22989551 ACAT-GTCTTACACT
1 ACATGGTCTTACACT
22989565 AGCACACAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 23
0.63 0.18 0.19
Matches are distributed among these distances:
45 2 0.03
46 31 0.40
47 11 0.14
48 2 0.03
49 2 0.03
50 7 0.09
51 21 0.27
52 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCTCTCATAATGTGGTCGATACATGTCCCAG
Found at i:22992205 original size:29 final size:29
Alignment explanation
Indices: 22992166--22992301 Score: 130
Period size: 29 Copynumber: 4.7 Consensus size: 29
22992156 TCAAAGCCTT
* *
22992166 GCCACAAAGGCATCCTTTTAAGAGAGATA
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
* *
22992195 GCCAAAAAGGCTTCCTTTTAACATAGATCA
1 GCCACAAAGGCTTCCTTTTAACAGAGAT-A
* ** * *
22992225 -CCACAAATGCTTTATTTTAATAGAGACA
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
* * *
22992253 GCTACAAATGCTTCCTTTTAACAAAGATA
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
* *
22992282 GCCACAAAGACATCCTTTTA
1 GCCACAAAGGCTTCCTTTTA
22992302 CGAAAACTGG
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 1 0.01
29 82 0.98
30 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAACAGAGATA
Found at i:22992301 original size:58 final size:58
Alignment explanation
Indices: 22992166--22992301 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 58
22992156 TCAAAGCCTT
* *
22992166 GCCACAAAGGCATCCTTTTAAGAGAGATAGCCAAAAAGGCTTCCTTTTAACATAGATCA
1 GCCACAAA-GCATCCTTTTAAGAGAGACAGCCAAAAAGGCTTCCTTTTAACAAAGATCA
* ** * * * *
22992225 -CCACAAATGCTTTATTTTAATAGAGACAGCTACAAATGCTTCCTTTTAACAAAGAT-A
1 GCCACAAA-GCATCCTTTTAAGAGAGACAGCCAAAAAGGCTTCCTTTTAACAAAGATCA
22992282 GCCACAAAGACATCCTTTTA
1 GCCACAAAG-CATCCTTTTA
22992302 CGAAAACTGG
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
57 2 0.03
58 60 0.97
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (58 bp):
GCCACAAAGCATCCTTTTAAGAGAGACAGCCAAAAAGGCTTCCTTTTAACAAAGATCA
Found at i:23007462 original size:6 final size:6
Alignment explanation
Indices: 23007452--23007492 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
23007442 GTCTAATAGA
* *
23007452 ATAAAA ATAAAC ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
23007493 ACAAATGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (6 bp):
ATAAAT
Found at i:23010367 original size:19 final size:19
Alignment explanation
Indices: 23010324--23010367 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
23010314 TTTTGCAAGA
* *
23010324 TAGCTGAGCAAACTGCATT
1 TAGCTTAGCAAACTCCATT
23010343 TAGCTTAGCAAACTTCCATT
1 TAGCTTAGCAAAC-TCCATT
23010363 T-GCTT
1 TAGCTT
23010368 GTCAAAAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (19 bp):
TAGCTTAGCAAACTCCATT
Found at i:23018127 original size:93 final size:93
Alignment explanation
Indices: 23018020--23018190 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23018010 GCCCCTAAGT
* *
23018020 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23018085 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23018113 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23018178 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23018191 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23018187 original size:46 final size:46
Alignment explanation
Indices: 23018015--23018187 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
23018005 AACCCGCCCC
* * *
23018015 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
23018061 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
23018109 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23018154 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23018188 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23018644 original size:30 final size:30
Alignment explanation
Indices: 23018610--23018669 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23018600 ATTTAATACG
23018610 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23018640 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23018670 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23025264 original size:46 final size:46
Alignment explanation
Indices: 23025206--23025380 Score: 298
Period size: 46 Copynumber: 3.8 Consensus size: 46
23025196 TGTAACCCGC
* * * *
23025206 CCATAAGCGAACTCGGACTCAACTCAATGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
23025252 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23025298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23025344 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23025381 TGCTCAACCA
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 123 0.99
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23027784 original size:18 final size:18
Alignment explanation
Indices: 23027747--23027784 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
23027737 TAAATGATGA
23027747 ATTTAAAGTATTAGTTGTT
1 ATTTAAAGTATTA-TTGTT
23027766 ATTTATAAGTATT-TTGTT
1 ATTTA-AAGTATTATTGTT
23027784 A
1 A
23027785 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:23032834 original size:30 final size:30
Alignment explanation
Indices: 23032798--23032858 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23032788 TCCTTAACTC
*
23032798 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
23032828 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
23032858 A
1 A
23032859 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:23037834 original size:27 final size:26
Alignment explanation
Indices: 23037799--23037910 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
23037789 AGCATGGCTG
* *
23037799 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
23037825 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
23037853 CCAGAGCAGATATATGTGGCAGCGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
23037880 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
23037907 CCAG
1 CCAG
23037911 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23037864 original size:54 final size:54
Alignment explanation
Indices: 23037799--23037910 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23037789 AGCATGGCTG
*
23037799 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
23037853 CCAGAGCAGATATATGTGGCAGCGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
23037907 CCAG
1 CCAG
23037911 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:23041679 original size:92 final size:92
Alignment explanation
Indices: 23041522--23041704 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 92
23041512 TCACTTTCTA
*
23041522 ACAGTTCTGACCTCTCTTCACTAAAAATTAACTATCTCACAGTACAGAACTCATATAATGTTCTT
1 ACAGTTCTGACCTCTCTTCACTAAAAATTAACTATCTCACAGTACAGAACTCAGATAATGTTCTT
23041587 GTTGATTTATTTTGAAAATAGACTCAG
66 GTTGATTTATTTTGAAAATAGACTCAG
*
23041614 ACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCAGATAATGTTCTT
1 ACAGTTCTGACCTCTCTTCACTAAAAATTAACTATCTCACAGTACAGAACTCAGATAATGTTCTT
23041679 GTTGATTTATTTTGAAAATAGACTCA
66 GTTGATTTATTTTGAAAATAGACTCA
23041705 TTAGGGATTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (92 bp):
ACAGTTCTGACCTCTCTTCACTAAAAATTAACTATCTCACAGTACAGAACTCAGATAATGTTCTT
GTTGATTTATTTTGAAAATAGACTCAG
Found at i:23046781 original size:27 final size:27
Alignment explanation
Indices: 23046735--23046800 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
23046725 GGCAAAACAA
* * * *
23046735 TCATTTTACCCTATAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATGTCAG
*
23046762 TCATTTTACACTACAAGGGTATTTCAG
1 TCATTTTACACTACAAGGGTATGTCAG
*
23046789 TAATTTTACACT
1 TCATTTTACACT
23046801 TCGATAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCAG
Found at i:23046830 original size:27 final size:27
Alignment explanation
Indices: 23046800--23047024 Score: 244
Period size: 27 Copynumber: 8.4 Consensus size: 27
23046790 AATTTTACAC
*
23046800 TTCGATAATTTTACAAATCGAGGGTGT
1 TTCGATAATTTTACAAATCGAGGGTAT
* *
23046827 TTCGGTAATTTTACAAATCGAGGGTGT
1 TTCGATAATTTTACAAATCGAGGGTAT
*
23046854 TTCGATAATTTTACAAATCGGGGGTAT
1 TTCGATAATTTTACAAATCGAGGGTAT
*
23046881 TTC-AGTAATTTTACAAATCGAGCGTAT
1 TTCGA-TAATTTTACAAATCGAGGGTAT
*
23046908 TTC-AGTAATTTTACAAATTGAGGGTAT
1 TTCGA-TAATTTTACAAATCGAGGGTAT
* * **
23046935 TTTGGTAATTTTACAAATTAAGGGTAT
1 TTCGATAATTTTACAAATCGAGGGTAT
* * *
23046962 TTCGGTAATTTCAC-AATTGAGGGTAT
1 TTCGATAATTTTACAAATCGAGGGTAT
*
23046988 TT-TAGTAATTTTACAAATCGA-GGTAT
1 TTCGA-TAATTTTACAAATCGAGGGTAT
**
23047014 TTTAATAATTT
1 TTCGATAATTT
23047025 CTCTTTATTA
Statistics
Matches: 174, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
26 35 0.20
27 139 0.80
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TTCGATAATTTTACAAATCGAGGGTAT
Found at i:23046889 original size:54 final size:54
Alignment explanation
Indices: 23046800--23047024 Score: 276
Period size: 54 Copynumber: 4.2 Consensus size: 54
23046790 AATTTTACAC
* * *
23046800 TTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGT
1 TTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT
* *
23046854 TTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTTACAAATCGAGCGTAT
1 TTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT
* ** **
23046908 TTC-AGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTAAGGGTAT
1 TTCGA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT
* * * *
23046962 TTCGGTAATTTCAC-AATTGAGGGTATTTTAGTAATTTTACAAATCGA-GGTAT
1 TTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT
**
23047014 TTTAATAATTT
1 TTCGATAATTT
23047025 CTCTTTATTA
Statistics
Matches: 149, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
52 13 0.09
53 31 0.21
54 105 0.70
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT
Found at i:23046944 original size:81 final size:81
Alignment explanation
Indices: 23046805--23047024 Score: 291
Period size: 81 Copynumber: 2.7 Consensus size: 81
23046795 TACACTTCGA
* * * *
23046805 TAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
**
23046870 ATCGGGGGTATTTCAG
66 ATCAAGGGTATTTCAG
* * *
23046886 TAATTTTACAAATCGAGCGTATTTCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
* *
23046951 ATTAAGGGTATTTCGG
66 ATCAAGGGTATTTCAG
* * * *
23046967 TAATTTCAC-AATTGAGGGTATTTTAGTAATTTTACAAATCGA-GGTATTTTAATAATTT
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTT
23047025 CTCTTTATTA
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 14 0.12
80 29 0.24
81 78 0.64
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
ATCAAGGGTATTTCAG
Found at i:23052548 original size:20 final size:21
Alignment explanation
Indices: 23052523--23052572 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
23052513 AAGCTTATGC
23052523 TAAGTAAATGA-AATGGA-AAG
1 TAAGTAAATGAGAAT-GATAAG
23052543 TAAGTAAAT-AGAATGATAAG
1 TAAGTAAATGAGAATGATAAG
23052563 TAAGTAAATG
1 TAAGTAAATG
23052573 GAGTGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAGTAAATGAGAATGATAAG
Found at i:23066120 original size:3 final size:3
Alignment explanation
Indices: 23066105--23066154 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
23066095 AGGGAATGAT
* * * *
23066105 ATA ATA GTA ATA ATA ATA ATA ATA GTA GTA ATA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23066153 AT
1 AT
23066155 TTTAAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23066135 original size:21 final size:21
Alignment explanation
Indices: 23066109--23066149 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23066099 AATGATATAA
*
23066109 TAGTAATAATAATAATAATAG
1 TAGTAATAAAAATAATAATAG
23066130 TAGTAATAAAAATAATAATA
1 TAGTAATAAAAATAATAATA
23066150 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
TAGTAATAAAAATAATAATAG
Found at i:23066848 original size:14 final size:13
Alignment explanation
Indices: 23066825--23066854 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
23066815 AACAGTTTCG
23066825 AAAGGAAAAAAAT
1 AAAGGAAAAAAAT
23066838 AAAGAGAAAAAAAT
1 AAAG-GAAAAAAAT
23066852 AAA
1 AAA
23066855 ATGAACCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (13 bp):
AAAGGAAAAAAAT
Found at i:23067592 original size:51 final size:51
Alignment explanation
Indices: 23067537--23067676 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 51
23067527 ACCCGTAACT
* * * **
23067537 TTTAGCTTCAATCTTCTCTACTACGACTTTAGGGAAATAAGATTCGCTATC
1 TTTAGCTTCAATCTTCTCTACTACAACTTCAGGGAAATAAGATTAGAAATC
* * *
23067588 TTTAG--TCTA-C-TC-CTACTACAACTTCA-GGAAGATAACATTAGAAATT
1 TTTAGCTTCAATCTTCTCTACTACAACTTCAGGGAA-ATAAGATTAGAAATC
* *
23067634 TTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGAT
1 TTTAGCTTCAATCTTCTCTACTACAACTTCAGGGAAATAAGAT
23067677 CTACTATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
45 4 0.06
46 27 0.39
47 2 0.03
48 4 0.06
49 4 0.06
50 1 0.01
51 24 0.34
52 4 0.06
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (51 bp):
TTTAGCTTCAATCTTCTCTACTACAACTTCAGGGAAATAAGATTAGAAATC
Found at i:23067686 original size:51 final size:50
Alignment explanation
Indices: 23067536--23067686 Score: 127
Period size: 51 Copynumber: 3.1 Consensus size: 50
23067526 GACCCGTAAC
* * * * *
23067536 TTTTAGCTTCAATCTTCTCTACTACGACTTTAGGGAAATAAGATTCGCTAT
1 TTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATT-ACTAT
* * **
23067587 CTTTAG------TCTACTCCTACTACAACTTCA-GGAAGATAACATTAGAAAT
1 TTTTAGCTTCAATCTACTCC-ACTACAACTTCAGGGAA-ATAAGATTA-CTAT
23067633 TTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATCTACTAT
1 TTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGAT-TACTAT
23067684 TTT
1 TTT
23067687 CAGTCTGCTC
Statistics
Matches: 76, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
45 10 0.13
46 24 0.32
51 28 0.37
52 14 0.18
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (50 bp):
TTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTACTAT
Found at i:23067692 original size:97 final size:96
Alignment explanation
Indices: 23067519--23067815 Score: 305
Period size: 97 Copynumber: 3.1 Consensus size: 96
23067509 CTACTTTAGA
* ** * * * * *
23067519 GAGATAAGACCCGTAACTTTTAGCTTCAATCTTCTCTACTACGACTTTAGGGAAATAAGATTCGC
1 GAGATAACACCCAAAACTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATT-AC
* *
23067584 TATCTTT-AGTCTACTCCTACTACAACTTC-AG
65 TAT-TTTCAGTCTGCTCCTACTGCAACTTCAAG
** *
23067615 GAAGATAACA-TTAGAAATTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATCT
1 G-AGATAACACCCA-AAACTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGAT-T
23067679 ACTATTTTCAGTCTGCTCCTACTGCAACTTCAAG
63 ACTATTTTCAGTCTGCTCCTACTGCAACTTCAAG
* * * * * * * *
23067713 GAGATAAGACCCATAGCTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTTC
1 GAGATAACACCCAAAACTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGA-TTAC
* *
23067778 TATCTTCAGTCTGCTCC-GCTGCAACTTCAAG
65 TATTTTCAGTCTGCTCCTACTGCAACTTCAAG
23067809 GAGATAA
1 GAGATAA
23067816 GGCTGGTAAC
Statistics
Matches: 168, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
96 24 0.14
97 138 0.82
98 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (96 bp):
GAGATAACACCCAAAACTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTACT
ATTTTCAGTCTGCTCCTACTGCAACTTCAAG
Found at i:23067847 original size:44 final size:45
Alignment explanation
Indices: 23067639--23067861 Score: 162
Period size: 45 Copynumber: 4.8 Consensus size: 45
23067629 AAATTTTTAG
* * * * * * *
23067639 CTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATCTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
* * * *
23067684 TTTCAGTCTGCTCCTACTGCAACTTCAAGGAGATAAGACCCATAGCTTGTAG
1 CTTCAATCTGCTCC-ACTGCAACTTCAAGGAGATAAGA-GC-T-GC---TAA
* * * ** * *
23067736 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTTCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
* * *
23067781 CTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAG-GCTGGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
*
23067825 CTTCAATCTGCTCCACTACAACTTC-AGGAAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGA
23067862 TTCACCATAA
Statistics
Matches: 138, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
43 3 0.02
44 32 0.23
45 44 0.32
46 20 0.14
47 1 0.01
48 2 0.01
49 2 0.01
51 20 0.14
52 14 0.10
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
Found at i:23067894 original size:143 final size:142
Alignment explanation
Indices: 23067685--23068149 Score: 621
Period size: 143 Copynumber: 3.3 Consensus size: 142
23067675 ATCTACTATT
* ** * *
23067685 TTCAGTCTGCTCCTACTGCAACTTCAAGG-AGATAAGA--CCCATAGCTTGTAGCTTCAATCTGC
1 TTCAATCTGCTCC-ACTGCAACTTC-AGGAAGATAAGATTCCCATAATTTGTAGCTTTAATCTGT
* ** * *
23067747 TCCACTGCAACTTCAGGGAAATGAGATTTTCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAG
64 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
**
23067812 ATAAGGCTGGTAAC
129 ATAAGGCTGGTGGC
* *
23067826 TTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTTAGTCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-CCATAATTTGTAGCTTTAATCTGTT
* ** *
23067891 CCACTACAACGCCAGGGAAACAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
65 CCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
*
23067956 TAAGGCTGGTGGG
130 TAAGGCTGGTGGC
* *
23067969 TTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATATGCCATAATTTGTAGCTTTAATCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT-TCCCATAATTTGTAGCTTTAATCTGTT
* * *
23068034 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGAAACTTTAGGGAGA
65 CCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
23068099 TAAGGCTGGTGGC
130 TAAGGCTGGTGGC
* * * *
23068112 TTCAATCTGCTCCACTGCTACTTTAGGGAGATGAGATT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATT
23068150 TGTGGATTCA
Statistics
Matches: 283, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
139 3 0.01
140 18 0.06
141 12 0.04
142 2 0.01
143 247 0.87
144 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCCCATAATTTGTAGCTTTAATCTGTTC
CACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGGCTGGTGGC
Found at i:23068102 original size:45 final size:44
Alignment explanation
Indices: 23068019--23068149 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 44
23068009 CCATAATTTG
* * * *
23068019 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-GC
* * * ** *
23068064 TATCTTCAGTCTGCTCCACTGAAACTTTAGGGAGATAAGGCTGG
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGC
* * *
23068108 TGGCTTCAATCTGCTCCACTGCTACTTTAGGGAGATGAGATT
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
23068150 TGTGGATTCA
Statistics
Matches: 68, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 35 0.51
45 33 0.49
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGC
Found at i:23070967 original size:27 final size:27
Alignment explanation
Indices: 23070937--23071114 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23070927 ATATTGAGTC
* * * *
23070937 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23070964 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23070991 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23071019 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23071046 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23071073 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23071100 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23071115 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23071076 original size:82 final size:81
Alignment explanation
Indices: 23070958--23071113 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23070948 TGCTATATAA
* *
23070958 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23071023 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23071040 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23071104 CACTTAGTGC
65 CACTTAGTGC
23071114 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23079154 original size:27 final size:27
Alignment explanation
Indices: 23079124--23079300 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
23079114 ATATTGAGCC
* * *
23079124 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
23079151 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
23079178 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
23079206 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
23079233 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
23079260 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
23079287 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23079301 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:23084325 original size:43 final size:42
Alignment explanation
Indices: 23084275--23084374 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
23084265 GTCCCAGACA
* *
23084275 TGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAAAAAG
1 TGGTCTTACACGTAATCAAATA-CGACGCCAAC-GTCCC-AAAAG
* *
23084319 -GGTCTTACACGAAATCAAATACGACGCCAACGTCCCAAACG
1 TGGTCTTACACGTAATCAAATACGACGCCAACGTCCCAAAAG
23084360 TGGTCTTACACGTAA
1 TGGTCTTACACGTAA
23084375 ATCATAAGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 4 0.08
42 24 0.49
43 21 0.43
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TGGTCTTACACGTAATCAAATACGACGCCAACGTCCCAAAAG
Found at i:23084377 original size:43 final size:44
Alignment explanation
Indices: 23084260--23084378 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
23084250 TTGTACAATT
* * * * *
23084260 CCAATGTCCCAGACATGGTCTTACATGT-AATCAAATATCGATG
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATATCGACG
*
23084303 CC-ACTGTCCCAAAAAG-GGTCTTACACG-AAATCAAATA-CGACG
1 CCAAC-GTCCC-AAACGTGGTCTTACACGTAAATCAAATATCGACG
23084345 CCAACGTCCCAAACGTGGTCTTACACGTAAATCA
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATCA
23084379 TAAGTGATGC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
41 4 0.06
42 23 0.37
43 34 0.54
44 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (44 bp):
CCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATATCGACG
Found at i:23084391 original size:43 final size:42
Alignment explanation
Indices: 23084260--23084413 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 42
23084250 TTGTACAATT
* * * *
23084260 CCAATGTCCCAGACATGGTCTTACATGT-AATCAAATATCGATG
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATC-AA-ATCGATG
* *
23084303 CC-ACTGTCCCAAAAAG-GGTCTTACACG-AAATCAAATACGACG
1 CCAAC-GTCCC-AAACGTGGTCTTACACGTAAATCAAAT-CGATG
23084345 CCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGT-GATG
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATCA-AA-TCGATG
* * * *
23084388 CCAATGTGCCAGACGTGATCTTACAC
1 CCAACGTCCCAAACGTGGTCTTACAC
23084414 AATAACACAT
Statistics
Matches: 90, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
41 6 0.07
42 25 0.28
43 54 0.60
44 4 0.04
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
CCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATCGATG
Found at i:23103074 original size:33 final size:32
Alignment explanation
Indices: 23103037--23103098 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
23103027 TTCATGCTTG
*
23103037 AAACATATACCAAATCATATCATTCTATAAGCC
1 AAACACATACCAAATCATATCATT-TATAAGCC
* *
23103070 AAACACATACCAAATTATATGATTTATAA
1 AAACACATACCAAATCATATCATTTATAA
23103099 CCTTGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 5 0.19
33 21 0.81
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (32 bp):
AAACACATACCAAATCATATCATTTATAAGCC
Found at i:23113245 original size:354 final size:354
Alignment explanation
Indices: 23112596--23113304 Score: 1418
Period size: 354 Copynumber: 2.0 Consensus size: 354
23112586 TGAAATATCA
23112596 TAGAAATGCATATTGATGATAACATGTGAAAAATATCTCGGTTGAGGTTGACAAAGGGAATTCGA
1 TAGAAATGCATATTGATGATAACATGTGAAAAATATCTCGGTTGAGGTTGACAAAGGGAATTCGA
23112661 TGGATAAACCCTCGTTGAAAAGGTAAACTGAGATCCTGCATGTGTTGCAGTAAGGATTTAGCCCG
66 TGGATAAACCCTCGTTGAAAAGGTAAACTGAGATCCTGCATGTGTTGCAGTAAGGATTTAGCCCG
23112726 TACCGGTAATCCCAGATCTCAGGTATGAAAAATAATCTAGCCCAGACGGGTGTTCCTTGAATGAT
131 TACCGGTAATCCCAGATCTCAGGTATGAAAAATAATCTAGCCCAGACGGGTGTTCCTTGAATGAT
23112791 CAAGCCTCCCAAAGAATATGTGCGCATGATGGATTTAGCCCGGACAGGTAATCCAATTAGGGTCT
196 CAAGCCTCCCAAAGAATATGTGCGCATGATGGATTTAGCCCGGACAGGTAATCCAATTAGGGTCT
23112856 AAATTTTGCCTGGATTGGTAATTCAAATCCGAGCTCATTAAGGGTGTTTGTCGCTATAAGGGATT
261 AAATTTTGCCTGGATTGGTAATTCAAATCCGAGCTCATTAAGGGTGTTTGTCGCTATAAGGGATT
23112921 TAGCCCGGACTGGTAATCCCGACATCCCC
326 TAGCCCGGACTGGTAATCCCGACATCCCC
23112950 TAGAAATGCATATTGATGATAACATGTGAAAAATATCTCGGTTGAGGTTGACAAAGGGAATTCGA
1 TAGAAATGCATATTGATGATAACATGTGAAAAATATCTCGGTTGAGGTTGACAAAGGGAATTCGA
23113015 TGGATAAACCCTCGTTGAAAAGGTAAACTGAGATCCTGCATGTGTTGCAGTAAGGATTTAGCCCG
66 TGGATAAACCCTCGTTGAAAAGGTAAACTGAGATCCTGCATGTGTTGCAGTAAGGATTTAGCCCG
23113080 TACCGGTAATCCCAGATCTCAGGTATGAAAAATAATCTAGCCCAGACGGGTGTTCCTTGAATGAT
131 TACCGGTAATCCCAGATCTCAGGTATGAAAAATAATCTAGCCCAGACGGGTGTTCCTTGAATGAT
23113145 CAAGCCTCCCAAAGAATATGTGCGCATGATGGATTTAGCCCGGACAGGTAATCCAATTAGGGTCT
196 CAAGCCTCCCAAAGAATATGTGCGCATGATGGATTTAGCCCGGACAGGTAATCCAATTAGGGTCT
23113210 AAATTTTGCCTGGATTGGTAATTCAAATCCGAGCTCATTAAGGGTGTTTGTCGCTATAAGGGATT
261 AAATTTTGCCTGGATTGGTAATTCAAATCCGAGCTCATTAAGGGTGTTTGTCGCTATAAGGGATT
23113275 TAGCCCGGACTGGTAATCCCGACATCCCC
326 TAGCCCGGACTGGTAATCCCGACATCCCC
23113304 T
1 T
23113305 TATGAGTTCA
Statistics
Matches: 355, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
354 355 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (354 bp):
TAGAAATGCATATTGATGATAACATGTGAAAAATATCTCGGTTGAGGTTGACAAAGGGAATTCGA
TGGATAAACCCTCGTTGAAAAGGTAAACTGAGATCCTGCATGTGTTGCAGTAAGGATTTAGCCCG
TACCGGTAATCCCAGATCTCAGGTATGAAAAATAATCTAGCCCAGACGGGTGTTCCTTGAATGAT
CAAGCCTCCCAAAGAATATGTGCGCATGATGGATTTAGCCCGGACAGGTAATCCAATTAGGGTCT
AAATTTTGCCTGGATTGGTAATTCAAATCCGAGCTCATTAAGGGTGTTTGTCGCTATAAGGGATT
TAGCCCGGACTGGTAATCCCGACATCCCC
Found at i:23114869 original size:12 final size:12
Alignment explanation
Indices: 23114835--23114893 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
23114825 TTTTCCTTTT
23114835 TTTATACTATAT-
1 TTTATA-TATATA
23114847 TTTA-ATATATA
1 TTTATATATATA
23114858 TTTATATATATA
1 TTTATATATATA
* * * * *
23114870 GTTAAAAAAATC
1 TTTATATATATA
23114882 TTTATATATATA
1 TTTATATATATA
23114894 CATAAACAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 25 0.71
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTATATATATA
Found at i:23114929 original size:13 final size:13
Alignment explanation
Indices: 23114908--23114940 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23114898 AACAGTTTCG
23114908 AAAAGAAAAAATA
1 AAAAGAAAAAATA
*
23114921 AAGAGAAAAAATA
1 AAAAGAAAAAATA
23114934 AAAAGAA
1 AAAAGAA
23114941 CCTTTGCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAAATA
Found at i:23115514 original size:23 final size:23
Alignment explanation
Indices: 23115487--23115534 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
23115477 GAAGTGATTA
* * *
23115487 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCAAT
*
23115510 ATGGCTCGCTTGAACTTCCCAAT
1 ATGGCTCGCTAGAACTTCCCAAT
23115533 AT
1 AT
23115535 AAGGCTATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCAAT
Found at i:23123834 original size:37 final size:37
Alignment explanation
Indices: 23123793--23123866 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
23123783 TTTTTTAAAC
* * *
23123793 AATGTTAAAAAACTTGAATCAAAAACTGTAACAAAAA
1 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
23123830 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
1 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
23123867 TTACTTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.64, C:0.08, G:0.07, T:0.22
Consensus pattern (37 bp):
AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
Found at i:23124720 original size:18 final size:18
Alignment explanation
Indices: 23124696--23124734 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23124686 ATAATAAATA
23124696 ATATATAATGTACTACTATT
1 ATATAT-ATG-ACTACTATT
*
23124716 ATATATATGACTATTATT
1 ATATATATGACTACTATT
23124734 A
1 A
23124735 CAATATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATATATGACTACTATT
Found at i:23124869 original size:5 final size:5
Alignment explanation
Indices: 23124797--23124865 Score: 129
Period size: 5 Copynumber: 13.8 Consensus size: 5
23124787 AACTATTAAT
23124797 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
23124847 ATATG ATATG ATATA ATAT
1 ATATG ATATG ATATG ATAT
23124866 AATAGAAGGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 63 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:23134949 original size:30 final size:30
Alignment explanation
Indices: 23134913--23134972 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23134903 TTCCCGAGCC
23134913 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
23134943 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
23134973 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:23135699 original size:49 final size:50
Alignment explanation
Indices: 23135619--23135864 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
23135609 AGCTATTGTG
*
23135619 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
23135669 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
23135719 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
23135769 AGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
23135819 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23135865 GCTTCGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:23135756 original size:28 final size:27
Alignment explanation
Indices: 23135724--23135807 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
23135714 AACTTCGATC
23135724 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
23135752 ACGTGTATCAG-A-T-GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
23135774 ACGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
23135802 ACGTGT
1 ACGTGT
23135808 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:23139779 original size:14 final size:14
Alignment explanation
Indices: 23139760--23139787 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23139750 AAGCTCAGTG
23139760 TGAGTTTTAAGCAT
1 TGAGTTTTAAGCAT
23139774 TGAGTTTTAAGCAT
1 TGAGTTTTAAGCAT
23139788 ACTTAACTAT
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:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGAGTTTTAAGCAT
Found at i:23142018 original size:6 final size:6
Alignment explanation
Indices: 23141999--23142108 Score: 150
Period size: 6 Copynumber: 18.3 Consensus size: 6
23141989 ACCAACACTT
* * *
23141999 ATATAC ATAGAC ATATAC ATATAC ATATAC ATATAT ATATAC ATGTAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
23142047 ATGTAC ATGTAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
23142095 ACATAAC ATA-AC AT
1 ATAT-AC ATATAC AT
23142109 TCAAAATGCA
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
5 4 0.04
6 87 0.92
7 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:23145210 original size:46 final size:46
Alignment explanation
Indices: 23145147--23145319 Score: 265
Period size: 46 Copynumber: 3.8 Consensus size: 46
23145137 TATATCTCGA
* * *
23145147 GGCCAATGCATGTCCCAGATATATCTTACACTGGCTTTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
23145193 GGCCGATGTATGTCCCAGACATATCTTACACTTGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
23145239 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
23145285 GGCTGATGCATGTCCCAGACATGTCTTACACTGGC
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGC
23145320 ACACATGCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
Found at i:23146678 original size:18 final size:18
Alignment explanation
Indices: 23146655--23146706 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
23146645 CAATTTTATA
23146655 TTCCATTTCACATTTCAC
1 TTCCATTTCACATTTCAC
*
23146673 TTCCATTTCACA--TCAT
1 TTCCATTTCACATTTCAC
*
23146689 TTCCCATTTCCCATTTCA
1 TT-CCATTTCACATTTCA
23146707 AATATCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 12 0.41
19 3 0.10
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCCATTTCACATTTCAC
Found at i:23159721 original size:29 final size:29
Alignment explanation
Indices: 23159686--23159759 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
23159676 GTTGTGAGAT
* *
23159686 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
23159715 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
23159744 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23159760 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:23168175 original size:3 final size:3
Alignment explanation
Indices: 23168167--23168213 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23168157 TTGTGATGCT
23168167 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23168214 GTTTGTTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23172859 original size:40 final size:41
Alignment explanation
Indices: 23172804--23173093 Score: 308
Period size: 41 Copynumber: 7.1 Consensus size: 41
23172794 AAAAATTGTA
* * * * * *
23172804 AAAACACATAGCAATAGTGGCG-TTTTACCAAAAACGCCACG
1 AAAA-ACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
* * *
23172845 AAAAACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCGCA
1 AAAAACAGAGCATTAGCGGCGCTTTTAG-CAAAAACGCCGCT
*
23172886 AAAAACAGAGCATTAGCGGCGCTTTTTGC-AAAACGCCGCT
1 AAAAACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
*
23172926 AAAAACTAGAGCATTAGCGGCGCTTTT-GGAAAAACGCCGCT
1 AAAAAC-AGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
**
23172967 AAAAACCAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
23173008 AAAAACCAGAGCATTAGCGGCGCTTTT-G-ATAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCA-AAAACGCCGCT
* * **
23173049 AAAAACCAGAACATTAGCGGCACTTTT-GGTAAAACGCCGCT
1 AAAAA-CAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
23173090 AAAA
1 AAAA
23173094 GTCATATAAC
Statistics
Matches: 226, Mismatches: 16, Indels: 14
0.88 0.06 0.05
Matches are distributed among these distances:
40 37 0.16
41 183 0.81
42 6 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAAACAGAGCATTAGCGGCGCTTTTAGCAAAAACGCCGCT
Found at i:23172937 original size:82 final size:81
Alignment explanation
Indices: 23172834--23173093 Score: 380
Period size: 82 Copynumber: 3.2 Consensus size: 81
23172824 CGTTTTACCA
* * * *
23172834 AAAACGCCACGAAAAACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCGC-AAAAAACAGAGC
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTT-G-AAAAAACGCCGCTAAAAACCAGAGC
* *
23172897 ATTAGCGGCGCTTTTTGC
64 ATTAGCGGCGCTTTTGGT
*
23172915 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
23172980 TTAGCGGCGCTTTTGGT
65 TTAGCGGCGCTTTTGGT
* *
23172997 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAACA
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
*
23173062 TTAGCGGCACTTTTGGT
65 TTAGCGGCGCTTTTGGT
23173079 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
23173094 GTCATATAAC
Statistics
Matches: 164, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
81 26 0.16
82 133 0.81
83 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCGCTTTTGGT
Found at i:23173021 original size:123 final size:121
Alignment explanation
Indices: 23172833--23173093 Score: 373
Period size: 123 Copynumber: 2.1 Consensus size: 121
23172823 GCGTTTTACC
* *
23172833 AAAAACGCCACGAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGCAAAAAACAGAGCA
1 AAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTAGT-AAAAACGCCGCAAAAAACAGAGCA
* * *
23172898 TTAGCGGCGCTTTTTG-CAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGG
65 TTAGCGGCGC-TTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
* * *
23172955 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAACCAGAG
1 AAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCG-TTTTAGTAAAAACGCCGC-AAAAAACAGAG
*
23173019 CATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
63 CATTAGCGGCGCTTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
*
23173078 TAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
23173094 GTCATATAAC
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
122 30 0.24
123 89 0.71
124 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (121 bp):
AAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAACGCCGCAAAAAACAGAGCAT
TAGCGGCGCTTTTGACAAAACGCCGCTAAAAACCAGAACATTAGCGGCACTTTTGG
Found at i:23173303 original size:21 final size:21
Alignment explanation
Indices: 23173255--23173303 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23173245 TATCATTATA
*
23173255 GTTTATGGTTTATGGTTCAAG
1 GTTTATGGTTTAGGGTTCAAG
* * * *
23173276 ATATATGGTTTCGGGTTTAAG
1 GTTTATGGTTTAGGGTTCAAG
23173297 GTTTATG
1 GTTTATG
23173304 AGTTAACTAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (21 bp):
GTTTATGGTTTAGGGTTCAAG
Found at i:23173352 original size:21 final size:21
Alignment explanation
Indices: 23173328--23173520 Score: 63
Period size: 21 Copynumber: 8.7 Consensus size: 21
23173318 TAAGATATAT
23173328 GGTTTAGGGTTTAGGGTTTAA
1 GGTTTAGGGTTTAGGGTTTAA
**
23173349 GGTTTAGGAGTTAACTAGTATTTGAA
1 GGTTTAGG-GTT---TAGGGTTT-AA
** *
23173375 GGTTTATGATGAATTATGGGTTTAG
1 GGTTTA-G--GGTTTA-GGGTTTAA
* * * *
23173400 GGATTATGATTTAGGGTTTAG
1 GGTTTAGGGTTTAGGGTTTAA
*
23173421 GGGTTAGGG-TT-GGAGTTTAA
1 GGTTTAGGGTTTAGG-GTTTAA
* *
23173441 GGTGTAAGGGTTT-GGGGTTAA
1 GGT-TTAGGGTTTAGGGTTTAA
* *
23173462 GGGTTAAGGGTTTAGAGTTT-A
1 -GGTTTAGGGTTTAGGGTTTAA
* *
23173483 GTGTTTATGGG-ATAGGGGTTAAGA
1 G-GTTTA-GGGTTTA-GGGTTTA-A
23173507 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
23173521 ATTAATTAGT
Statistics
Matches: 128, Mismatches: 24, Indels: 39
0.67 0.13 0.20
Matches are distributed among these distances:
19 2 0.02
20 10 0.08
21 48 0.38
22 30 0.23
23 7 0.05
24 2 0.02
25 14 0.11
26 12 0.09
27 1 0.01
28 1 0.01
29 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.39
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTAA
Found at i:23173421 original size:7 final size:7
Alignment explanation
Indices: 23173392--23173520 Score: 75
Period size: 7 Copynumber: 18.1 Consensus size: 7
23173382 GATGAATTAT
23173392 GGGTTTA
1 GGGTTTA
*
23173399 GGGATTA
1 GGGTTTA
* *
23173406 TGATTTA
1 GGGTTTA
23173413 GGGTTTA
1 GGGTTTA
*
23173420 GGGGTTA
1 GGGTTTA
23173427 GGG-TT-
1 GGGTTTA
23173432 GGAGTTTA
1 GG-GTTTA
* *
23173440 AGGTGTAA
1 GGGT-TTA
*
23173448 GGGTTTG
1 GGGTTTA
*
23173455 GGGTTAA
1 GGGTTTA
*
23173462 GGGTTAA
1 GGGTTTA
23173469 GGGTTTA
1 GGGTTTA
*
23173476 GAGTTTA
1 GGGTTTA
*
23173483 GTGTTTA
1 GGGTTTA
*
23173490 TGGG-ATA
1 -GGGTTTA
*
23173497 GGGGTTAA
1 -GGGTTTA
23173505 GAGGTTTA
1 G-GGTTTA
23173513 GGGTTTA
1 GGGTTTA
23173520 G
1 G
23173521 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 72 0.78
8 15 0.16
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:23174819 original size:15 final size:15
Alignment explanation
Indices: 23174799--23174829 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23174789 TTGAAGGTAA
23174799 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
23174814 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
23174829 C
1 C
23174830 TAATTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.13, T:0.52
Consensus pattern (15 bp):
CCTACTGGTTTTCTT
Found at i:23176032 original size:12 final size:12
Alignment explanation
Indices: 23176015--23176064 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23176005 AGTTGCTGGA
23176015 AATTGAGATGTT
1 AATTGAGATGTT
*
23176027 AATTGAGGTGTAT
1 AATTGAGATGT-T
* *
23176040 AAAT--GTTGTT
1 AATTGAGATGTT
23176050 AATTGAGATGTT
1 AATTGAGATGTT
23176062 AAT
1 AAT
23176065 ATGTGTGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 4 0.13
11 4 0.13
12 18 0.60
13 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (12 bp):
AATTGAGATGTT
Found at i:23176068 original size:23 final size:23
Alignment explanation
Indices: 23176023--23176068 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23176013 GAAATTGAGA
*
23176023 TGTTAATTGAGGTGTATAAATGT
1 TGTTAATTGAGATGTATAAATGT
23176046 TGTTAATTGAGATGT-TAATATGT
1 TGTTAATTGAGATGTATAA-ATGT
23176069 GTGTGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
TGTTAATTGAGATGTATAAATGT
Found at i:23176472 original size:23 final size:23
Alignment explanation
Indices: 23176446--23176891 Score: 378
Period size: 23 Copynumber: 19.4 Consensus size: 23
23176436 AAATGTTGTT
23176446 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
*
23176469 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
23176492 AATTGAACTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* **
23176515 AATTGAAGTGTTAGAGTGCTATA
1 AATTGAAGTGTTAAAGTGCTGCA
* * *
23176538 AATTGGAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
23176561 AATTGAAGTGTT-TAGTTGCTGGA
1 AATTGAAGTGTTAAAG-TGCTGCA
* **
23176584 AATTG-AGATGTTTAAA-TGTTGTT
1 AATTGAAG-TG-TTAAAGTGCTGCA
*
23176607 AATTGAAATGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
23176630 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
23176653 AATTG-AGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* **
23176675 AATTGAAGTGTTTAAA-TGTTGTT
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
23176698 AATTGAAATGTTAAAGTGCCGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
23176721 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
23176744 AATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTG-TTAAAGTGCTGCA
** **
23176767 AATTGAAGTGCTATAAA-TATTGTT
1 AATTGAAGTG-T-TAAAGTGCTGCA
* *
23176791 AATTGAAATGTTTAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
23176814 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
23176837 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
23176860 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
23176883 AATTGAAGT
1 AATTGAAGT
23176892 TGTGGATTGA
Statistics
Matches: 342, Mismatches: 61, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
21 4 0.01
22 41 0.12
23 247 0.72
24 49 0.14
25 1 0.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:23176504 original size:46 final size:45
Alignment explanation
Indices: 23176456--23176891 Score: 446
Period size: 46 Copynumber: 9.5 Consensus size: 45
23176446 AATTGAGATG
* * *
23176456 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAACTG-
1 TTAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGT
* * ** *
23176502 TTAAAGTGCTGCAAATTGAAGTGTTAGAGTGCTATAAATTGGAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGTTA-AATGCTGCAAATTGAAGTGT
* * * ** *
23176549 TTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAG-TGT
* * *
23176595 TTAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
*
23176641 TTTAATGCTGTAAATTG-AGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* * * *
23176686 TTAAATGTTGTTAATTGAAATGTTAAAGTGCCGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* *
23176732 TTGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGCT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTG-T
* ** * * *
23176779 ATAAATATTGTTAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGT
*
23176825 TTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
*
23176871 TTGAATGCTGTAAATTGAAGT
1 TTAAATGCTGTAAATTGAAGT
23176892 TGTGGATTGA
Statistics
Matches: 329, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
45 53 0.16
46 225 0.68
47 51 0.16
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (45 bp):
TTAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGT
Found at i:23176808 original size:93 final size:92
Alignment explanation
Indices: 23176462--23176889 Score: 510
Period size: 92 Copynumber: 4.7 Consensus size: 92
23176452 GATGTTAAAG
* * * * ** *
23176462 TGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAACTGT-TAAAGTGCTGCAAATTGAAGTG
1 TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTATAAA-TGTTGTTAATTGAAATG
* ** *
23176525 TTAGAGTGCTATAAATTGGAGTG-TTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
* * * * *
23176553 GTACTGCAAATTGAAGTGTT-TAGTTGCTGGAAATTG-AGATGTTTAAATGTTGTTAATTGAAAT
1 -TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTATAAATGTTGTTAATTGAAAT
23176616 GTTAAAGTGCTGCAAATTGAAGTGTTTTAA
63 GTTAAAGTGCTGCAAATTGAAGTGTTTTAA
*
23176646 TGCTGTAAATTG-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTT
1 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAAATGTT
* *
23176710 AAAGTGCCGCAAATTGAAGTGTTTGAA
66 AAAGTGCTGCAAATTGAAGTGTTTTAA
* *
23176737 TGCTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGCTATAAATATTGTTAATTGAAATG
1 TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG-TATAAATGTTGTTAATTGAAATG
*
23176801 TTTAAGTGCTGCAAATTGAAGTGTTTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
* * * *
23176830 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAA
1 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAA
23176890 GTTGTGGATT
Statistics
Matches: 295, Mismatches: 30, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.00
91 84 0.28
92 116 0.39
93 94 0.32
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (92 bp):
TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAAATGTT
AAAGTGCTGCAAATTGAAGTGTTTTAA
Found at i:23176902 original size:13 final size:13
Alignment explanation
Indices: 23176884--23176926 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23176874 AATGCTGTAA
23176884 ATTGAAGTTGTGG
1 ATTGAAGTTGTGG
* **
23176897 ATTGAATGCTGTAA
1 ATTGAA-GTTGTGG
23176911 ATTGAAGTTGTGG
1 ATTGAAGTTGTGG
23176924 ATT
1 ATT
23176927 ATTACCTCTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.40
Consensus pattern (13 bp):
ATTGAAGTTGTGG
Found at i:23176909 original size:27 final size:27
Alignment explanation
Indices: 23176871--23176926 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
23176861 ATTGAAGTGT
23176871 TTGAATGCTGTAAATTGAAGTTGTGGA
1 TTGAATGCTGTAAATTGAAGTTGTGGA
23176898 TTGAATGCTGTAAATTGAAGTTGTGGA
1 TTGAATGCTGTAAATTGAAGTTGTGGA
23176925 TT
1 TT
23176927 ATTACCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (27 bp):
TTGAATGCTGTAAATTGAAGTTGTGGA
Found at i:23176916 original size:14 final size:14
Alignment explanation
Indices: 23176871--23176916 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
23176861 ATTGAAGTGT
23176871 TTGAATGCTGTAAA
1 TTGAATGCTGTAAA
* **
23176885 TTGAA-GTTGTGGA
1 TTGAATGCTGTAAA
23176898 TTGAATGCTGTAAA
1 TTGAATGCTGTAAA
23176912 TTGAA
1 TTGAA
23176917 GTTGTGGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (14 bp):
TTGAATGCTGTAAA
Found at i:23178557 original size:19 final size:19
Alignment explanation
Indices: 23178534--23178580 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
23178524 ATTTAATCTA
*
23178534 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
23178552 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
23178572 ATTTTTATT
1 ATTTTTATT
23178581 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:23178919 original size:12 final size:12
Alignment explanation
Indices: 23178904--23178928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23178894 TTTCAACATT
23178904 ACTATGATTATG
1 ACTATGATTATG
23178916 ACTATGATTATG
1 ACTATGATTATG
23178928 A
1 A
23178929 GTAAATCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ACTATGATTATG
Found at i:23180384 original size:12 final size:12
Alignment explanation
Indices: 23180367--23180400 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
23180357 GGAGAAGTAA
23180367 GAATACATACTT
1 GAATACATACTT
23180379 GAATACATACTT
1 GAATACATACTT
*
23180391 GCATACATAC
1 GAATACATAC
23180401 ATATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (12 bp):
GAATACATACTT
Found at i:23182004 original size:21 final size:21
Alignment explanation
Indices: 23181943--23182004 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
23181933 TTATTTTTAA
*
23181943 TCTA-TTTTTTTCTTTCATAT
1 TCTATTTTTTTTCTTTCATTT
* *
23181963 T-TATTTTTTTCCTTTCTTTT
1 TCTATTTTTTTTCTTTCATTT
*
23181983 TCTATTTTTTTTCTTTCCTTT
1 TCTATTTTTTTTCTTTCATTT
23182004 T
1 T
23182005 TCCGCTTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.06
20 15 0.43
21 18 0.51
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (21 bp):
TCTATTTTTTTTCTTTCATTT
Found at i:23182261 original size:27 final size:27
Alignment explanation
Indices: 23182227--23182278 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
23182217 TAGGTTACAA
23182227 AAAAGAAAA-ATAAG-GAGAACGAGAGAG
1 AAAAGAAAAGA-AAGAGAGAA-GAGAGAG
23182254 AAAAGAAAAGAAAGAGAGAAGAGAG
1 AAAAGAAAAGAAAGAGAGAAGAGAG
23182279 TTTTGGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (27 bp):
AAAAGAAAAGAAAGAGAGAAGAGAGAG
Found at i:23184513 original size:40 final size:40
Alignment explanation
Indices: 23184468--23184616 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
23184458 GCTACTTGCT
23184468 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23184508 TAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
23184548 CAATTGCCTTCGGGACTTAGCCCGG-AATTGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
23184588 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
23184617 CATCCGAATA
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23201962 original size:42 final size:42
Alignment explanation
Indices: 23201901--23201981 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
23201891 CAGCAATCTT
23201901 TTTTCAAAAATACTAGCACATAGTAGGAACTGAGGTAATATC
1 TTTTCAAAAATACTAGCACATAGTAGGAACTGAGGTAATATC
* *
23201943 TTTTCAAAACTACTGGCACATAGTAGGAACTGAGGTAAT
1 TTTTCAAAAATACTAGCACATAGTAGGAACTGAGGTAAT
23201982 GTGTTTTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (42 bp):
TTTTCAAAAATACTAGCACATAGTAGGAACTGAGGTAATATC
Found at i:23205201 original size:23 final size:23
Alignment explanation
Indices: 23205154--23205201 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
23205144 CCTAGTATAA
*
23205154 AAATATGAATATTTTAATTATAT
1 AAATATGAATATTTTAATTAAAT
* **
23205177 AAATATGAGTATTTTGTTTAAAT
1 AAATATGAATATTTTAATTAAAT
23205200 AA
1 AA
23205202 CGCTTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
AAATATGAATATTTTAATTAAAT
Found at i:23208071 original size:21 final size:21
Alignment explanation
Indices: 23208045--23208084 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
23208035 GGATTCACTG
23208045 TATCTATTT-TGTTTATCTGCA
1 TATCTATTTCTG-TTATCTGCA
23208066 TATCTATTTCTGTTATCTG
1 TATCTATTTCTGTTATCTG
23208085 AATCTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (21 bp):
TATCTATTTCTGTTATCTGCA
Found at i:23211006 original size:16 final size:18
Alignment explanation
Indices: 23210975--23211007 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23210965 GTTAATAGAA
23210975 TAAATTTAGATTTAATTG
1 TAAATTTAGATTTAATTG
23210993 TAAATTT-G-TTTAATT
1 TAAATTTAGATTTAATT
23211008 TTTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGATTTAATTG
Found at i:23212326 original size:18 final size:18
Alignment explanation
Indices: 23212303--23212341 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
23212293 ATATAATTGT
23212303 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
23212321 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
23212339 TCT
1 TCT
23212342 TATGCTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTCATTTAACTTTACAA
Found at i:23212658 original size:16 final size:17
Alignment explanation
Indices: 23212637--23212669 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23212627 CATATTGAAG
23212637 TGTTTT-TCGAAAACCT
1 TGTTTTATCGAAAACCT
23212653 TGTTTTCATCGAAAACC
1 TGTTTT-ATCGAAAACC
23212670 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTATCGAAAACCT
Found at i:23215958 original size:23 final size:24
Alignment explanation
Indices: 23215928--23215975 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
23215918 TTCAAGTCTA
23215928 AAACCAAT-TATTGTCCCTTAAAT
1 AAACCAATATATTGTCCCTTAAAT
23215951 AAACCAATCATATTGTCCCTTAAAT
1 AAACCAAT-ATATTGTCCCTTAAAT
23215976 GGACCCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (24 bp):
AAACCAATATATTGTCCCTTAAAT
Found at i:23232598 original size:37 final size:37
Alignment explanation
Indices: 23232501--23232607 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 37
23232491 CTGAAAGTAT
* * * *
23232501 GCTCAAATGAGCAATATCTAATGAATATATTGAATGT
1 GCTCAAAAGAGCAATATCTATTGAATATACTGAATGA
* * *
23232538 GCTCAAACGAGCAATATCCATTGAATATACTGATTGA
1 GCTCAAAAGAGCAATATCTATTGAATATACTGAATGA
* * *
23232575 GCTCAAAAGAGCAATGTTTATTGATTATACTGA
1 GCTCAAAAGAGCAATATCTATTGAATATACTGA
23232608 GTGTTTTCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (37 bp):
GCTCAAAAGAGCAATATCTATTGAATATACTGAATGA
Found at i:23235184 original size:42 final size:44
Alignment explanation
Indices: 23235136--23235236 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
23235126 TCCCAGATAG
* *
23235136 GGTCTTACAC-AAAATCA-AA-TATGATTCCAACGTCCCAGACGT
1 GGTCTTACACGAAAATCATAAGT-CGATGCCAACGTCCCAGACGT
* * *
23235178 GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCTAGAGGT
1 GGTCTTACACGAAAATCATAAGTCGATGCCAACGTCCCAGACGT
*
23235222 GGTCTTACATGAAAA
1 GGTCTTACACGAAAA
23235237 CACATATTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 10 0.20
43 6 0.12
44 32 0.65
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGAAAATCATAAGTCGATGCCAACGTCCCAGACGT
Found at i:23235194 original size:43 final size:43
Alignment explanation
Indices: 23235086--23235230 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
23235076 GGCAACATCT
* *
23235086 CAGATGTGGTCTTACATGT-AATCAAATATCGATGT-C-ACTGTCC
1 CAGAAGTGGTCTTACACGTAAATCAAATAT-GAT-TCCAAC-GTCC
*
23235129 CAGATAG-GGTCTTACAC-AAAATCAAATATGATTCCAACGTCC
1 CAGA-AGTGGTCTTACACGTAAATCAAATATGATTCCAACGTCC
* * *
23235171 CAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCC
1 CAGAAGTGGTCTTACACGTAAATCA-AA-TATGATTCCAACGTCC
* *
23235215 TAGAGGTGGTCTTACA
1 CAGAAGTGGTCTTACA
23235231 TGAAAACACA
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 22 0.26
43 31 0.36
44 29 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
CAGAAGTGGTCTTACACGTAAATCAAATATGATTCCAACGTCC
Found at i:23243786 original size:27 final size:27
Alignment explanation
Indices: 23243756--23243932 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
23243746 AAATTGTACA
* *
23243756 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
23243783 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
23243810 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
23243837 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
23243865 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
23243892 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
23243919 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
23243933 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:23243869 original size:82 final size:81
Alignment explanation
Indices: 23243756--23243911 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
23243746 AAATTGTACA
* * * *
23243756 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
23243820 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23243837 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
23243902 TGCGAGTTGA
65 TGCGAATTGA
23243912 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23250383 original size:48 final size:46
Alignment explanation
Indices: 23250214--23250422 Score: 198
Period size: 46 Copynumber: 4.5 Consensus size: 46
23250204 ATATGTACCA
* * * * *
23250214 ATGCCATGTCCCCGACATGGTCTTACACT-GACACATCTCGTAGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGACTCGTCTCGAAGCCG
*
23250260 ATG-CATGTCCCAGACATGTCTTACACTA-ACTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGAC-T-CGTCTCGAAGCCG
* * *
23250306 AT-ACATATCCCAGACATGTCTTACACTAGCACTCGTCTCAAAGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAG-ACTCGTCTCGAAGCCG
* *
23250352 ATGCCATGTCCCAGACATGATCTTACACTAG-CTC-TCTTGATGTGGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTAGACTCGTCTCGA---AGCCG
23250400 ATG-CATGTCCCAGACATGTCTTA
1 ATGCCATGTCCCAGACATGTCTTA
23250423 TAGTAGCTCA
Statistics
Matches: 138, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
44 12 0.09
45 17 0.12
46 59 0.43
47 30 0.22
48 20 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGACTCGTCTCGAAGCCG
Found at i:23250399 original size:94 final size:91
Alignment explanation
Indices: 23250160--23250422 Score: 241
Period size: 94 Copynumber: 2.8 Consensus size: 91
23250150 GGGATAAGGT
* * * *
23250160 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAACATAT-ATGT-ACCAATGCCATGT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCT--C-T-TGATGTGGCCGAT-ACATGT
* **
23250223 CCCCGACATGGTCTTACACTGACACATCTCGTA
60 CCCAGACAT-GTCTTACACTGACACATCTCAAA
* * * *
23250256 GCTGATG-CATGTCCCAGACATGTCTTACACTAACTTACGTCTCGA---GGCCGATACATATCCC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC-T-C-TCTTGATGTGGCCGATACATGTCCC
* *
23250317 AGACATGTCTTACACTAGCACTCGTCTCAAA
63 AGACATGTCTTACACT-G-ACACATCTCAAA
*
23250348 GCCGATGCCATGTCCCAGACATGATCTTACACTAGCTCTCTTGATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCTTGATGTGGCCGATACATGTCCCAG
23250413 ACATGTCTTA
65 ACATGTCTTA
23250423 TAGTAGCTCA
Statistics
Matches: 137, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
90 10 0.07
91 18 0.13
92 19 0.14
93 16 0.12
94 50 0.36
95 16 0.12
96 7 0.05
97 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTTGATGTGGCCGATACATGTCCCAGA
CATGTCTTACACTGACACATCTCAAA
Found at i:23251761 original size:51 final size:49
Alignment explanation
Indices: 23251706--23251841 Score: 130
Period size: 52 Copynumber: 2.7 Consensus size: 49
23251696 TTTAAAATGT
* * *
23251706 AAACTAAATGAACAAATGAGTTACCTAATGCATGACTTAATTTAATGATGC
1 AAACTAAAT-AACAAAGGAGTTACATAATGCATGACATAATTT-ATGATGC
* ** *
23251757 AAACTTTAACTAACATGGGAGTTACATAATGCATGTCATAATTTATGATGC
1 AAAC--TAAATAACAAAGGAGTTACATAATGCATGACATAATTTATGATGC
* *
23251808 AAACTTAACTAAC-ATGAGAGTTACATAATGCATG
1 AAAC-TAAATAACAAAG-GAGTTACATAATGCATG
23251842 GTTTTATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 1 0.01
50 26 0.36
51 15 0.21
52 27 0.37
53 4 0.05
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (49 bp):
AAACTAAATAACAAAGGAGTTACATAATGCATGACATAATTTATGATGC
Found at i:23251833 original size:50 final size:52
Alignment explanation
Indices: 23251723--23251841 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 52
23251713 ATGAACAAAT
* * *
23251723 GAGTTACCTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
*
23251775 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
23251825 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
23251842 GTTTTATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 29 0.46
51 11 0.17
52 23 0.37
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:23254162 original size:22 final size:22
Alignment explanation
Indices: 23254136--23254179 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23254126 AACTATTAAC
*
23254136 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
23254158 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
23254180 GATCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:23258467 original size:30 final size:30
Alignment explanation
Indices: 23258433--23258494 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
23258423 GAATTTAATG
23258433 ATTAAGGATTAAATTGT-TGAAAT-AGAAAAA
1 ATTAA-GA-TAAATTGTGTGAAATGAGAAAAA
* *
23258463 ATTAATATAAATTGTGTGAAATGAGGAAAA
1 ATTAAGATAAATTGTGTGAAATGAGAAAAA
23258493 AT
1 AT
23258495 ATGGGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 7 0.25
30 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.31
Consensus pattern (30 bp):
ATTAAGATAAATTGTGTGAAATGAGAAAAA
Found at i:23264785 original size:31 final size:30
Alignment explanation
Indices: 23264743--23264829 Score: 147
Period size: 31 Copynumber: 2.9 Consensus size: 30
23264733 GTCAAATTAG
*
23264743 TAAAAAGTAAATGAAAATATTTAGTTTTAC
1 TAAAAAATAAATGAAAATATTTAGTTTTAC
*
23264773 TAAAAAAATAAATGAAAATATGTAGTTTTAC
1 T-AAAAAATAAATGAAAATATTTAGTTTTAC
23264804 TAAAAAATAAATGAAAATATTTAGTT
1 TAAAAAATAAATGAAAATATTTAGTT
23264830 AACTTTTTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
30 25 0.47
31 28 0.53
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.34
Consensus pattern (30 bp):
TAAAAAATAAATGAAAATATTTAGTTTTAC
Found at i:23267078 original size:25 final size:26
Alignment explanation
Indices: 23267003--23267132 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 26
23266993 TATTCCAAAA
* *
23267003 AAAATTAT-TTTAATAATTTTAATGTT
1 AAAATTATATTTATTAA-TTTAATATT
* * * *
23267029 AAATTTA-ATTTAAT-ACTT-ATCTT
1 AAAATTATATTTATTAATTTAATATT
*
23267052 AAAAATAT-TTTATTAATTTAATATT
1 AAAATTATATTTATTAATTTAATATT
* *
23267077 AAATTGATTATCTTAATATTAAATTAA-ATT
1 AAA---ATTATATT--TATTAATTTAATATT
*
23267107 AAAATTTTATTTATTAATTTAATATT
1 AAAATTATATTTATTAATTTAATATT
23267133 TAGCTTGATA
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
23 14 0.17
24 5 0.06
25 18 0.22
26 15 0.19
27 6 0.08
28 4 0.05
29 2 0.03
30 6 0.08
31 10 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AAAATTATATTTATTAATTTAATATT
Found at i:23267173 original size:56 final size:56
Alignment explanation
Indices: 23267060--23267175 Score: 130
Period size: 57 Copynumber: 2.1 Consensus size: 56
23267050 TTAAAAATAT
* * *
23267060 TTTATTAATTTAATATTAAATTGATTATCTTAATATTAAATTAAATTAAAATTTTA
1 TTTATTAATTTAATATTAAATTGATAATATTAATATTAAATTAAATTAAAATGTTA
** *
23267116 TTTATTAATTTAATATTTAGCTTGATAAGTATT-ATATTAATTTAATATT-AAA-GTTA
1 TTTATTAATTTAATA-TTAAATTGATAA-TATTAATATTAAATTAA-ATTAAAATGTTA
23267172 TTTA
1 TTTA
23267176 GTGTCACACC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
56 22 0.43
57 23 0.45
58 6 0.12
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (56 bp):
TTTATTAATTTAATATTAAATTGATAATATTAATATTAAATTAAATTAAAATGTTA
Found at i:23271800 original size:41 final size:40
Alignment explanation
Indices: 23271712--23271832 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 40
23271702 ATTGTCAAAC
* ** *
23271712 ACAGAGCAATAGCGGCGTCTTACAAAAAATGCCGCTAAAA
1 ACAGAGCAATAGCGGCGTTTTAGTAAAAACGCCGCTAAAA
*
23271752 ACAGAGCAATAGCGACGTTTTAGTAAAAACGCCGCTAAAGA
1 ACAGAGCAATAGCGGCGTTTTAGTAAAAACGCCGCTAAA-A
* * * *
23271793 CCCGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGCTAAAA
1 ACAGAGCAATAGCGGCG-TTTTAGTAAAAACGCCGCTAAAA
23271833 GTCATATAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 35 0.51
41 28 0.41
42 6 0.09
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (40 bp):
ACAGAGCAATAGCGGCGTTTTAGTAAAAACGCCGCTAAAA
Found at i:23272205 original size:7 final size:7
Alignment explanation
Indices: 23272193--23272248 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
23272183 GATTTGGGAA
23272193 TTAGGGT
1 TTAGGGT
23272200 TTAGGGT
1 TTAGGGT
23272207 TTAGGGT
1 TTAGGGT
*
23272214 TTAAGGAT
1 TT-AGGGT
*
23272222 TTAAGTGT
1 TT-AGGGT
* *
23272230 TCATGGT
1 TTAGGGT
23272237 TTAGGGT
1 TTAGGGT
23272244 TTAGG
1 TTAGG
23272249 CCAGTTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 29 0.73
8 11 0.28
ACGTcount: A:0.20, C:0.02, G:0.36, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:23288367 original size:29 final size:29
Alignment explanation
Indices: 23288295--23288352 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
23288285 GCCGAAAAAT
23288295 AATGACCTCTAATCATCAAAGGGCATTTC
1 AATGACCTCTAATCATCAAAGGGCATTTC
23288324 AATGACCTCTAATCATCAAAGGGCATTTC
1 AATGACCTCTAATCATCAAAGGGCATTTC
23288353 TTACATACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (29 bp):
AATGACCTCTAATCATCAAAGGGCATTTC
Done.