Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 74 of 79
Found at i:24635599 original size:23 final size:22
Alignment explanation
Indices: 24635560--24635610 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
24635550 TTATAAATTT
* * * *
24635560 TTATTTTTTTTGAGTTATTTTA
1 TTATTATTTTTAAGTTATATAA
24635582 TTATTATTTTTAATGTTATATAA
1 TTATTATTTTTAA-GTTATATAA
24635605 TTATTA
1 TTATTA
24635611 AATTATTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATTATTTTTAAGTTATATAA
Found at i:24637969 original size:20 final size:20
Alignment explanation
Indices: 24637944--24637983 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24637934 CGTAAAATGA
*
24637944 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24637964 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24637984 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24637973 original size:34 final size:34
Alignment explanation
Indices: 24637930--24637995 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
24637920 AGTAAAATGT
*
24637930 TTTTCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
24637963 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
24637996 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:24637999 original size:14 final size:15
Alignment explanation
Indices: 24637923--24637999 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24637913 GATTGCCAGT
* *
24637923 AAAATGTTTTTC-GT
1 AAAATGATTTTCTGG
24637937 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
24637951 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
24637971 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
24637986 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
24638000 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 21 0.42
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:24638435 original size:13 final size:13
Alignment explanation
Indices: 24638417--24638444 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24638407 ATTCTTTCTC
24638417 TATTTATGAAGTT
1 TATTTATGAAGTT
24638430 TATTTATGAAGTT
1 TATTTATGAAGTT
24638443 TA
1 TA
24638445 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:24640584 original size:18 final size:18
Alignment explanation
Indices: 24640557--24640633 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
24640547 AAATTTGAAG
*
24640557 GAATGAATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
**
24640575 GAATGGATGAA-GGATGCT
1 GAATGGATGAAGGGA-GAA
* *
24640593 TACTGGATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
24640611 GAATGGATGAAGGGAGAA
1 GAATGGATGAAGGGAGAA
24640629 GAATG
1 GAATG
24640634 CCTGAGAGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
17 3 0.06
18 42 0.88
19 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.40, T:0.16
Consensus pattern (18 bp):
GAATGGATGAAGGGAGAA
Found at i:24643985 original size:13 final size:13
Alignment explanation
Indices: 24643962--24643999 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
24643952 ACCTTCTGGT
24643962 GGTTC-TAATGGC
1 GGTTCTTAATGGC
24643974 GGTTCTTAATGGC
1 GGTTCTTAATGGC
*
24643987 GGTTTTTAATGGC
1 GGTTCTTAATGGC
24644000 TATTCCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (13 bp):
GGTTCTTAATGGC
Found at i:24644399 original size:27 final size:27
Alignment explanation
Indices: 24644333--24644429 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
24644323 TCTCGATAAG
* * **
24644333 CTATCTCACTTTAAATTTCTAGACAGA
1 CTATCTCACTTTTAATTTCTTGATGGA
**
24644360 CTATCTCGTTTTTAATTTCTTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
* * *
24644387 CTATCCCACTTTTAATGTCCTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
*
24644414 TTATCTCACTTTTAAT
1 CTATCTCACTTTTAAT
24644430 GTCCCGGCAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (27 bp):
CTATCTCACTTTTAATTTCTTGATGGA
Found at i:24645611 original size:17 final size:18
Alignment explanation
Indices: 24645589--24645624 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24645579 GAGCAACCCG
*
24645589 AGAAGAAGATGAA-AAAA
1 AGAAGAAAATGAATAAAA
24645606 AGAAGAAAATGAATAAAA
1 AGAAGAAAATGAATAAAA
24645624 A
1 A
24645625 ATGAGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AGAAGAAAATGAATAAAA
Found at i:24648129 original size:17 final size:17
Alignment explanation
Indices: 24648109--24648147 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24648099 CACATCTCTT
24648109 TTTCACTCTCCTTTGCC
1 TTTCACTCTCCTTTGCC
* * *
24648126 TTTCATTTTCTTTTGCC
1 TTTCACTCTCCTTTGCC
24648143 TTTCA
1 TTTCA
24648148 TTTTCTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.31, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTCACTCTCCTTTGCC
Found at i:24648148 original size:17 final size:17
Alignment explanation
Indices: 24648120--24648155 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24648110 TTCACTCTCC
24648120 TTTGCCTTTCATTTTCT
1 TTTGCCTTTCATTTTCT
24648137 TTTGCCTTTCATTTTCT
1 TTTGCCTTTCATTTTCT
24648154 TT
1 TT
24648156 CCCCTTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTGCCTTTCATTTTCT
Found at i:24648161 original size:17 final size:17
Alignment explanation
Indices: 24648124--24648168 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
24648114 CTCTCCTTTG
**
24648124 CCTTTCATTTTCTTTTG
1 CCTTTCATTTTCTTTCC
24648141 CCTTTCATTTTCTTTCC
1 CCTTTCATTTTCTTTCC
*
24648158 CCTTTCCTTTT
1 CCTTTCATTTT
24648169 ATGATTTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.04, C:0.31, G:0.02, T:0.62
Consensus pattern (17 bp):
CCTTTCATTTTCTTTCC
Found at i:24661184 original size:47 final size:47
Alignment explanation
Indices: 24661130--24661284 Score: 120
Period size: 47 Copynumber: 3.2 Consensus size: 47
24661120 ATATTTTGGG
24661130 TTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTA
1 TTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTA
* * * * * * * *
24661177 TTGAGTTA-ATATATAATTATTA--TTTAACATATAT-AATTAAATAATATTTTGGG
1 TTGAGTTACGT-T-T-TTTTTTAGGTTTTAGATA-ATGAGTT---TAAT-TATT--A
24661230 TTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTA
1 TTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTA
24661277 TTGAGTTA
1 TTGAGTTA
24661285 ATATATAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 28
0.64 0.13 0.23
Matches are distributed among these distances:
46 1 0.01
47 27 0.35
48 3 0.04
49 8 0.10
50 8 0.10
51 8 0.10
52 3 0.04
53 19 0.24
54 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (47 bp):
TTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTA
Found at i:24661257 original size:100 final size:100
Alignment explanation
Indices: 24661120--24661326 Score: 398
Period size: 100 Copynumber: 2.1 Consensus size: 100
24661110 TAAAAATTTT
24661120 ATATTTTGGGTTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTATTGAGTTA
1 ATATTTTGGGTTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTATTGAGTTA
24661185 ATATATAATTATTATTTAACATATATAATTAA-ATA
66 ATATATAATTATT-TTTAACATATATAATTAATATA
24661220 ATATTTTGGGTTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTATTGAGTTA
1 ATATTTTGGGTTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTATTGAGTTA
24661285 ATATATAATTATTTTTAACATATATAATTAATATA
66 ATATATAATTATTTTTAACATATATAATTAATATA
24661320 ATATTTT
1 ATATTTT
24661327 TTATAACATA
Statistics
Matches: 106, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 18 0.17
100 88 0.83
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (100 bp):
ATATTTTGGGTTGAGTTACGTTTTTTTTTAGGTTTTAGATAATGAGTTTAATTATTATTGAGTTA
ATATATAATTATTTTTAACATATATAATTAATATA
Found at i:24662589 original size:12 final size:12
Alignment explanation
Indices: 24662572--24662596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24662562 ACCAAAATAG
24662572 GCTTTTAGCGGC
1 GCTTTTAGCGGC
24662584 GCTTTTAGCGGC
1 GCTTTTAGCGGC
24662596 G
1 G
24662597 TTTGGACAAA
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:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:24662853 original size:41 final size:41
Alignment explanation
Indices: 24662803--24662973 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
24662793 TTTACATAAT
* * *
24662803 CGCCACTAATGCTGCGGTCTTTAGCGGCGTTTTTTACTAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
*
24662844 CGCCGCTAATGCTACGGTCTTTCGCGGCGTTTTTTACGAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
*
24662885 CGCCGCAAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
1 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
* * **
24662926 CGCCGCTAATGCT-CAGGTATTTAGCGGCGTTTCTTAAAAAG
1 CGCCGCTAATGCTAC-GGTCTTTAGCGGCGTTTTTTACGAAG
24662967 CGCCGCT
1 CGCCGCT
24662974 CAAAACTGCA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 117 0.99
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (41 bp):
CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
Found at i:24662991 original size:41 final size:41
Alignment explanation
Indices: 24662946--24663039 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
24662936 GCTCAGGTAT
*
24662946 TTAGCGGCGTTTCTTA-AAAAGCGCCGCTCAAA-A-CTGCAGCA
1 TTAGCGGCGTTTATTAGAAAA-CGCCGCT-AAAGATC-GCAGCA
** *
24662987 TTAGCGGCGCATATTAGAAAACGCCGCTAAAGATCGGAGCA
1 TTAGCGGCGTTTATTAGAAAACGCCGCTAAAGATCGCAGCA
24663028 TTAGCGGCGTTT
1 TTAGCGGCGTTT
24663040 TGTAGCTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
40 3 0.07
41 36 0.82
42 5 0.11
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGTTTATTAGAAAACGCCGCTAAAGATCGCAGCA
Found at i:24662991 original size:82 final size:82
Alignment explanation
Indices: 24662823--24662995 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 82
24662813 GCTGCGGTCT
* * * * **
24662823 TTAGCGGCGTTTTTTACTAAGCGCCGCTAATGCTACGGTCTTTCGCGGCGTTTTTTACGAAGCGC
1 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTACGGTATTTAGCGGCGTTTCTTAAAAAGCGC
* * *
24662888 CGCAAATGCTACGGTCT
66 CGCAAATACTACAGTCA
24662905 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCT-CAGGTATTTAGCGGCGTTTCTTAAAAAGCG
1 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTAC-GGTATTTAGCGGCGTTTCTTAAAAAGCG
*
24662969 CCGCTCAAA-ACTGCAG-CA
65 CCG--CAAATACTACAGTCA
24662987 TTAGCGGCG
1 TTAGCGGCG
24662996 CATATTAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 69 0.88
83 4 0.05
84 4 0.05
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (82 bp):
TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTACGGTATTTAGCGGCGTTTCTTAAAAAGCGC
CGCAAATACTACAGTCA
Found at i:24663840 original size:73 final size:74
Alignment explanation
Indices: 24663721--24663893 Score: 276
Period size: 74 Copynumber: 2.4 Consensus size: 74
24663711 GCACGAATTT
* * * * *
24663721 GCGGCGTTTATTGTAAAAACGCCGCAAAAGTTTAACCAAAACGACTTTG-TTTTTATGCTGTTTA
1 GCGGCGTTTCTGGTACAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTTATACTGTTTA
24663785 TTAGTATTA
66 TTAGTATTA
*
24663794 GCGGCGTTTCTGGTACAAACGCCGCAAAAGTTTAACCAAAATGACTTCGTTTTTTATACTGTTTA
1 GCGGCGTTTCTGGTACAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTTATACTGTTTA
*
24663859 TTGGTATTA
66 TTAGTATTA
24663868 GCGGCGTTTCTGGTACAAACGCCGCA
1 GCGGCGTTTCTGGTACAAACGCCGCA
24663894 TATGATAGTT
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 44 0.48
74 48 0.52
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (74 bp):
GCGGCGTTTCTGGTACAAACGCCGCAAAAGTTTAACCAAAACGACTTCGTTTTTTATACTGTTTA
TTAGTATTA
Found at i:24664399 original size:17 final size:16
Alignment explanation
Indices: 24664372--24664403 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24664362 TTACTTCTTA
24664372 TTATAATATATATATG
1 TTATAATATATATATG
24664388 TTATATATATATATAT
1 TTATA-ATATATATAT
24664404 ATATTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTATAATATATATATG
Found at i:24664399 original size:19 final size:18
Alignment explanation
Indices: 24664373--24664410 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
24664363 TACTTCTTAT
*
24664373 TATAATATATATATGTTA
1 TATAATATATATATATTA
24664391 TATATATATATATATATTA
1 TATA-ATATATATATATTA
24664410 T
1 T
24664411 GAAACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAATATATATATATTA
Found at i:24664658 original size:74 final size:73
Alignment explanation
Indices: 24664515--24664665 Score: 214
Period size: 74 Copynumber: 2.1 Consensus size: 73
24664505 ATAAACGCTG
* *
24664515 CAAAAGTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTGGTAA
1 CAAAACTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTAGTAA
24664580 AAACGCCA
66 AAACGCCA
* * *
24664588 CAAAACTTTAACCAAAACGACTTCGTTTTT-TCAACTGTTTATTGGTATTAGCGGCGTTTCTATT
1 CAAAACTTTAACCAAAACGACTTCATTTTTAT--ACTATTTATTGGTATTAGCGGCGTTTCTAGT
* *
24664652 ACAAACGCCG
64 AAAAACGCCA
24664662 CAAA
1 CAAA
24664666 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 1 0.01
73 28 0.41
74 40 0.58
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (73 bp):
CAAAACTTTAACCAAAACGACTTCATTTTTATACTATTTATTGGTATTAGCGGCGTTTCTAGTAA
AAACGCCA
Found at i:24690478 original size:13 final size:13
Alignment explanation
Indices: 24690460--24690487 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24690450 AACTATATCG
24690460 ATTTCTCATAACT
1 ATTTCTCATAACT
24690473 ATTTCTCATAACT
1 ATTTCTCATAACT
24690486 AT
1 AT
24690488 CCACTTACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTCTCATAACT
Found at i:24690848 original size:42 final size:41
Alignment explanation
Indices: 24690802--24690938 Score: 166
Period size: 42 Copynumber: 3.3 Consensus size: 41
24690792 ATAGCCAGCT
*
24690802 ATGGTCTTACACGAATCTCATACCGATGCCAACATCCCAGAC
1 ATGGTCTTACACGAATCTCATAACGATGCC-ACATCCCAGAC
* *
24690844 ATGGTCTTACACGAATCTCGTATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGAATCTCATAACGATGCCAC-ATCCCAGAC
* * ** *
24690886 ATGGTCTTACACCAATCACATAACGATGCCGATGTCGCAGAC
1 ATGGTCTTACACGAATCTCATAACGATGCC-ACATCCCAGAC
*
24690928 ATAGTCTTACA
1 ATGGTCTTACA
24690939 TGTAATCACA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.02
42 80 0.96
43 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (41 bp):
ATGGTCTTACACGAATCTCATAACGATGCCACATCCCAGAC
Found at i:24717900 original size:26 final size:24
Alignment explanation
Indices: 24717870--24717940 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
24717860 AGACTCACCA
24717870 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGAT-T-T
*
24717896 CAGCTCTTATGAGCTTACCG-TTT
1 CAGCTCGTATGAGCTTACCGATTT
*
24717919 CAGCTCG-ATAGAGTTTACCGAT
1 CAGCTCGTAT-GAGCTTACCGAT
24717941 CATGGCTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 16 0.40
24 2 0.05
25 1 0.03
26 19 0.47
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGATTT
Found at i:24721399 original size:4 final size:4
Alignment explanation
Indices: 24721390--24721447 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
24721380 GCAAAGTATC
* * *
24721390 AAAT AAAT AAA- AATAT GAAA- ACAT AAAT CAAC AAA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
24721437 AAAT AAAT AAA
1 AAAT AAAT AAA
24721448 GAAAAGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
3 7 0.16
4 34 0.77
5 1 0.02
6 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:24721821 original size:23 final size:22
Alignment explanation
Indices: 24721774--24721819 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
24721764 AAACATTAGT
24721774 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
*
24721797 TAAACAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
24721818 TA
1 TA
24721820 TATATAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:24722736 original size:70 final size:70
Alignment explanation
Indices: 24722623--24722762 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
24722613 TGTTTTATTT
24722623 CCTTTTTGTACTTATATTTATACGCATGCAAATAAAAAAATAGTAAACTAAAATAAAGCAAATAA
1 CCTTTTTGTACTTATATTTATACGCATGCAAATAAAAAAATAGTAAACTAAAATAAAGCAAATAA
24722688 ATATA
66 ATATA
24722693 CCTTTTTGTACTTATATTTATACGCATGCAAATAAAAAAATAGTAAACTAAAATAAAGCAAATAA
1 CCTTTTTGTACTTATATTTATACGCATGCAAATAAAAAAATAGTAAACTAAAATAAAGCAAATAA
24722758 ATATA
66 ATATA
24722763 GACCTTTAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (70 bp):
CCTTTTTGTACTTATATTTATACGCATGCAAATAAAAAAATAGTAAACTAAAATAAAGCAAATAA
ATATA
Found at i:24725111 original size:99 final size:100
Alignment explanation
Indices: 24724939--24725138 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
24724929 TTTTAAGTAA
24724939 TAAATTTTTTTATTATATATATACTTTTATTTTTTATTTTTTTTAAAGAGCATGAAAGTAAACTG
1 TAAATTTTTTTATTATATATATACTTTTATTTTTTATTTTTTTTAAAGAGCATGAAAGTAAACTG
24725004 AAAGATAAAAACACTCAGGTTGCCTCTCAAGAAAT
66 AAAGATAAAAACACTCAGGTTGCCTCTCAAGAAAT
24725039 TAAATTTTTTT-TTATATATATACTTTTATTTTTTATTTTTTTTAAAGAGCATGAAAGTAAACTG
1 TAAATTTTTTTATTATATATATACTTTTATTTTTTATTTTTTTTAAAGAGCATGAAAGTAAACTG
24725103 AAAGATAAAAACACTCAGGTTGCCTCTCAAGAAAT
66 AAAGATAAAAACACTCAGGTTGCCTCTCAAGAAAT
24725138 T
1 T
24725139 CTTATTTAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 89 0.89
100 11 0.11
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (100 bp):
TAAATTTTTTTATTATATATATACTTTTATTTTTTATTTTTTTTAAAGAGCATGAAAGTAAACTG
AAAGATAAAAACACTCAGGTTGCCTCTCAAGAAAT
Found at i:24727834 original size:11 final size:12
Alignment explanation
Indices: 24727800--24727842 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
24727790 CAAACAAACG
24727800 AAAAATTAGAATGT
1 AAAAATTA-AAT-T
24727814 AAAAATTAAATT
1 AAAAATTAAATT
* *
24727826 AAAAATAAAAAT
1 AAAAATTAAATT
24727838 AAAAA
1 AAAAA
24727843 ATGGATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAATTAAATT
Found at i:24731072 original size:40 final size:39
Alignment explanation
Indices: 24730990--24731073 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
24730980 AAATACAGGT
* *
24730990 AAAAATCGAGCATTAGCAGCGCTTTATGGAAATCGCCAC
1 AAAAATCGAGCATTAGCAGCGCTTTATGAAAAACGCCAC
* * *
24731029 AAAAGATCGAGCATTAGCAGCGTTTTTTGAAAAACGCCGC
1 AAAA-ATCGAGCATTAGCAGCGCTTTATGAAAAACGCCAC
24731069 AAAAA
1 AAAAA
24731074 ACTAAAGCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.13
40 34 0.87
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (39 bp):
AAAAATCGAGCATTAGCAGCGCTTTATGAAAAACGCCAC
Found at i:24731173 original size:41 final size:41
Alignment explanation
Indices: 24731113--24731307 Score: 219
Period size: 41 Copynumber: 4.8 Consensus size: 41
24731103 CTTTCGGGGC
* * *
24731113 TTTAGCAGCGTTTTAAAAAAAGCGCCGCTAATGCTCTATGT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGT
* * * * **
24731154 TTTAGAGGCGTTTTTAAAAAAGCGTCGCTAAAGCTTGGGGT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGT
* * *
24731195 TTTAGTGGCGTTTTTGAAAAAGTGCCGCTAATGCTCGATGT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGT
* * * * *
24731236 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGTTGGGTGC
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGT
* *
24731277 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
24731308 AAACATTTTA
Statistics
Matches: 129, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGT
Found at i:24731250 original size:82 final size:82
Alignment explanation
Indices: 24731111--24731307 Score: 261
Period size: 82 Copynumber: 2.4 Consensus size: 82
24731101 ACCTTTCGGG
* * *
24731111 GCTTTAGCAGCGTTTTAAAAAAAGCGCCGCTAATGCTCTATGTTTTAGAGGCGTTTTTAAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGTTTTAGAGGCGTTTTTAAAAAAG
*
24731176 CGTCGCTAAAGCTTGGG-
66 CGCCGCTAAAG-TTGGGT
* * * * * *
24731193 GTTTTAGTGGCGTTTTTGAAAAAGTGCCGCTAATGCTCGATGTTTTAGCGGCGTTTTTTAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGTTTTAGAGGCGTTTTTAAAAAAG
*
24731258 CGCCGCTAATGTTGGGT
66 CGCCGCTAAAGTTGGGT
* *
24731275 GCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAA
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
24731308 AAACATTTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 5 0.05
82 93 0.95
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (82 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATGTTTTAGAGGCGTTTTTAAAAAAG
CGCCGCTAAAGTTGGGT
Found at i:24731672 original size:22 final size:21
Alignment explanation
Indices: 24731647--24731696 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
24731637 GAGTTACCAT
* *
24731647 TTTAAGGTTTATGGAGTATGGG
1 TTTAAGGATTAGGGAGTAT-GG
* *
24731669 TTTAGGGATTAGGGATTATGG
1 TTTAAGGATTAGGGAGTATGG
24731690 TTTAAGG
1 TTTAAGG
24731697 GTCGGGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (21 bp):
TTTAAGGATTAGGGAGTATGG
Found at i:24732030 original size:15 final size:15
Alignment explanation
Indices: 24731977--24732033 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 15
24731967 TAGGGATTGT
24731977 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
24731991 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
*
24732006 GG-TTATGGGTTAGG
1 GGTTTAAGGGTTAGG
24732020 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
24732034 ACGTTAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:24732039 original size:29 final size:29
Alignment explanation
Indices: 24731984--24732046 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
24731974 TGTGGTTTAA
* ** *
24731984 GGGTT-GGGATTTAAGGTTTAGGGGTTAT
1 GGGTTAGGGATTTAAGGGTTAGACGTTAG
*
24732012 GGGTTAGGGGTTTAAGGGTTAGACGTTAG
1 GGGTTAGGGATTTAAGGGTTAGACGTTAG
24732041 GGGTTA
1 GGGTTA
24732047 AGAGTTAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.19, C:0.02, G:0.44, T:0.35
Consensus pattern (29 bp):
GGGTTAGGGATTTAAGGGTTAGACGTTAG
Found at i:24732053 original size:21 final size:22
Alignment explanation
Indices: 24732014--24732054 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24732004 GGGGTTATGG
*
24732014 GTTAGGGGTTTAAGGGTTAGAC
1 GTTAGGGGTTTAAGAGTTAGAC
24732036 GTTAGGGG-TTAAGAGTTAG
1 GTTAGGGGTTTAAGAGTTAG
24732055 GGTTTTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.32
Consensus pattern (22 bp):
GTTAGGGGTTTAAGAGTTAGAC
Found at i:24732115 original size:297 final size:292
Alignment explanation
Indices: 24731582--24732172 Score: 836
Period size: 297 Copynumber: 2.0 Consensus size: 292
24731572 TTCACTATGG
* * ***
24731582 TTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGTCGGTTTAGGAGTTACCAT
1 TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCGGTTTAGGAGTTACCAT
*
24731647 TTTAAGGTTTATGGAGTATGGGTTTAGGGATTAGGGATTATGGTTTAAGGGTCGGGATTTAAGGT
66 TTTAAGGTTTAGGGAGTATGGG--TA--GATTAGGGATTATGGTTTAAGGGTCGGGATTTAAGGT
*
24731712 TTCAAGGTAAGGGTTTAGGGGTTAGACATTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGAT
127 TTCAAGGTAAGGGTTTAAGGGTTAGACATTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGAT
24731777 TCAAGGGCCAGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATGT
192 TCAAGGGCCAGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATGT
24731842 TCTTATATAATTGTAAAAGAGATAATAATAAATTTA
257 TCTTATATAATTGTAAAAGAGATAATAATAAATTTA
* *
24731878 TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCGGTTTCGGAGTT-CATA
1 TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCGGTTTAGGAGTTAC-CA
* *
24731942 TTTTAAGGTTTAGGGAGTAT-GG-A-ATTAGGGATTGTGGTTTAAGGGTTGGGATTTAAGGTTT-
65 TTTTAAGGTTTAGGGAGTATGGGTAGATTAGGGATTATGGTTTAAGGGTCGGGATTTAAGGTTTC
* * * *
24732003 AGGGGTTATGGGTTAGGGGTTTAAGGGTTAGACGTTAGGGGTTAAGAGTTAGGG-TTTTAGGATT
130 A------A--GG-TAAGGGTTTAAGGGTTAGACATTAAGGGTTAAGAGTTAGGGATTTAAGG-TT
*
24732067 TAGGGATTCAAGGGTC-GAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTT
185 TAGGGATTCAAGGGCCAG-GTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTT
*
24732131 AACTATGTTCTTATATAATTGTAAAAGAGATAATAATAAATT
249 AAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATT
24732173 AAATATATTG
Statistics
Matches: 266, Mismatches: 17, Indels: 23
0.87 0.06 0.08
Matches are distributed among these distances:
288 1 0.00
289 36 0.14
292 1 0.00
294 1 0.00
295 3 0.01
296 83 0.31
297 141 0.53
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.41
Consensus pattern (292 bp):
TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCGGTTTAGGAGTTACCAT
TTTAAGGTTTAGGGAGTATGGGTAGATTAGGGATTATGGTTTAAGGGTCGGGATTTAAGGTTTCA
AGGTAAGGGTTTAAGGGTTAGACATTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTCAA
GGGCCAGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTT
ATATAATTGTAAAAGAGATAATAATAAATTTA
Found at i:24732459 original size:40 final size:40
Alignment explanation
Indices: 24732411--24732560 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
24732401 AAAATAAAAG
* *
24732411 GCATTAGCGGCACTTTTTAAAAAACGCCACTATAGATAGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATAGA
*
24732451 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATAGA
* * * *
24732491 GCATTAGCGGC-TTTTCTTCAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCGCTTT-TTAAAAAACGCCGCTATAGATAGA
* *
24732531 GCTTTAGCAGCGCTATTTT-AAAAACGCCGC
1 GCATTAGCGGCGCT-TTTTAAAAAACGCCGC
24732561 AAAAAATAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 88 0.92
41 3 0.03
42 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATAGA
Found at i:24735432 original size:20 final size:20
Alignment explanation
Indices: 24735407--24735445 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24735397 CTCTTAATAT
24735407 GTTAATCATAAATGGTGATC
1 GTTAATCATAAATGGTGATC
24735427 GTTAATCATAAATGGTGAT
1 GTTAATCATAAATGGTGAT
24735446 TGTAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (20 bp):
GTTAATCATAAATGGTGATC
Found at i:24740147 original size:23 final size:23
Alignment explanation
Indices: 24740119--24740205 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
24740109 TGTGTAACCT
24740119 TTCATATTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTA
* * * * *
24740142 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTA
* *
24740161 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTA
24740184 TTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGTCTCTTCACT
24740206 CTTCTAACTT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
19 9 0.19
20 4 0.08
22 4 0.08
23 31 0.65
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTA
Found at i:24740156 original size:42 final size:42
Alignment explanation
Indices: 24740095--24740189 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
24740085 AGGAGTTGTG
*
24740095 ACTATTCATGCATGTGTGTAACCTTTCATATTCAAGTCTCTTC
1 ACTATTCAT-AATGTGTGTAACCTTTCATATTCAAGTCTCTTC
* *
24740138 ACTATTCATAATGTGTGTAACTTTTCATCTTCAAGTCTCTTC
1 ACTATTCATAATGTGTGTAACCTTTCATATTCAAGTCTCTTC
*
24740180 ACTCTTCATA
1 ACTATTCATA
24740190 TTCAAGTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 39 0.81
43 9 0.19
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.43
Consensus pattern (42 bp):
ACTATTCATAATGTGTGTAACCTTTCATATTCAAGTCTCTTC
Found at i:24740206 original size:23 final size:23
Alignment explanation
Indices: 24740161--24740209 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24740151 TGTGTAACTT
*
24740161 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
24740184 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
24740207 TTC
1 TTC
24740210 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:24740244 original size:19 final size:22
Alignment explanation
Indices: 24740220--24740259 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
24740210 TAACTTTTCA
24740220 TAATTT-ATT-TGTG-CAATAT
1 TAATTTAATTATGTGCCAATAT
24740239 TAATTTAATTATGTGCCAATA
1 TAATTTAATTATGTGCCAATA
24740260 ATGCCTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 4 0.22
22 5 0.28
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (22 bp):
TAATTTAATTATGTGCCAATAT
Found at i:24744638 original size:23 final size:23
Alignment explanation
Indices: 24744610--24744700 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
24744600 TGTGTAACCT
24744610 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
24744633 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
24744652 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
*
24744675 TTCATATTCAAGTCTCTTCAGTC
1 TTCATATTCAAGTCTCTTCACTC
24744698 TTC
1 TTC
24744701 TAACTTTTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.21, C:0.26, G:0.08, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:24744655 original size:42 final size:42
Alignment explanation
Indices: 24744597--24744680 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
24744587 CTATTCATGC
24744597 ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
* *
24744639 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
24744681 TTCAAGTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.44
Consensus pattern (42 bp):
ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
Found at i:24745299 original size:71 final size:71
Alignment explanation
Indices: 24745183--24745323 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
24745173 TCCTTACACT
24745183 TGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAGTGAATAAATGTGAATTGAACTCGAA
1 TGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAGTGAATAAATGTGAATTGAACTCGAA
24745248 CTAACC
66 CTAACC
* *
24745254 TGCTTTTGCCAGAGTATCAACCATACCATTATCTTGCCAGTGAATATATGTGAATTGAACTCGAA
1 TGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAGTGAATAAATGTGAATTGAACTCGAA
24745319 CTAAC
66 CTAAC
24745324 GAGTAAATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (71 bp):
TGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAGTGAATAAATGTGAATTGAACTCGAA
CTAACC
Found at i:24746447 original size:4 final size:4
Alignment explanation
Indices: 24746438--24746479 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
24746428 GCCATGAGGT
24746438 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
24746480 TTTACCTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:24750957 original size:13 final size:13
Alignment explanation
Indices: 24750939--24750963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24750929 TAGATTGGAT
24750939 TTGATTATGTAAA
1 TTGATTATGTAAA
24750952 TTGATTATGTAA
1 TTGATTATGTAA
24750964 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:24756438 original size:12 final size:11
Alignment explanation
Indices: 24756423--24756464 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
24756413 TTCTTTTTAT
24756423 TTTTATTTGTAC
1 TTTTATTTGT-C
*
24756435 TTTTATTTTTC
1 TTTTATTTGTC
24756446 TTGTTATTTGT-
1 TT-TTATTTGTC
24756457 TTTTATTT
1 TTTTATTT
24756465 TATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.22
11 5 0.19
12 16 0.59
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTTATTTGTC
Found at i:24756443 original size:24 final size:22
Alignment explanation
Indices: 24756402--24756471 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 22
24756392 TAGTTTTGTG
* *
24756402 TTTTATTT-ATTTTCTTTTTAT
1 TTTTATTTGTTTTTATTTTTAT
*
24756423 TTTTATTTGTACTTTTATTTTTCT
1 TTTTATTTGT--TTTTATTTTTAT
*
24756447 TGTTATTTGTTTTTA-TTTTAT
1 TTTTATTTGTTTTTATTTTTAT
24756468 TTTT
1 TTTT
24756472 CAGAATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 16 0.40
22 5 0.12
24 19 0.47
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTATTTGTTTTTATTTTTAT
Found at i:24758146 original size:17 final size:17
Alignment explanation
Indices: 24758120--24758152 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24758110 TCTCAGATTT
24758120 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
24758137 TGATATCCATATCTTT
1 TGATACCCATATCTTT
24758153 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:24762656 original size:12 final size:12
Alignment explanation
Indices: 24762639--24762666 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24762629 GGTAAATAAC
24762639 ACAAATGATGAA
1 ACAAATGATGAA
24762651 ACAAATGATGAA
1 ACAAATGATGAA
24762663 ACAA
1 ACAA
24762667 TTTGATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (12 bp):
ACAAATGATGAA
Found at i:24783378 original size:23 final size:24
Alignment explanation
Indices: 24783351--24783410 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
24783341 TTTAATGCTC
**
24783351 ACGAATATGTTCATTTAAC-TTAA
1 ACGAATATGTTCATCAAACATTAA
* * *
24783374 TCGAACATGCTCA-CAAACATTAA
1 ACGAATATGTTCATCAAACATTAA
24783397 ACGAATATGTTCAT
1 ACGAATATGTTCAT
24783411 GAACATATAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (24 bp):
ACGAATATGTTCATCAAACATTAA
Found at i:24783415 original size:23 final size:23
Alignment explanation
Indices: 24783370--24783439 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
24783360 TTCATTTAAC
* * *
24783370 TTAATCGAACATGCTCACAAACA
1 TTAAACGAACATGTTCACGAACA
* *
24783393 TTAAACGAATATGTTCATGAACA
1 TTAAACGAACATGTTCACGAACA
**
24783416 TATAATTGAACATGTTCACGAACA
1 T-TAAACGAACATGTTCACGAACA
24783440 ATGTTAATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (23 bp):
TTAAACGAACATGTTCACGAACA
Found at i:24787912 original size:20 final size:20
Alignment explanation
Indices: 24787887--24787928 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24787877 AAATAAACAC
**
24787887 ATAACTATTCATTTAATATT
1 ATAACTATTCAAATAATATT
24787907 ATAACTATTCAAATAATATT
1 ATAACTATTCAAATAATATT
24787927 AT
1 AT
24787929 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAATAATATT
Found at i:24790723 original size:20 final size:21
Alignment explanation
Indices: 24790685--24790723 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24790675 TCATTTTCTA
* *
24790685 TTAACTTTTTTATTCTTAAGG
1 TTAACTTTTTTACTATTAAGG
24790706 TTAACTTTTTT-CTATTAA
1 TTAACTTTTTTACTATTAA
24790724 TTTTGTCGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAACTTTTTTACTATTAAGG
Found at i:24790799 original size:5 final size:5
Alignment explanation
Indices: 24790789--24790829 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
24790779 AGCTTAACAA
24790789 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
24790830 AGTAAGTGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:24794063 original size:58 final size:58
Alignment explanation
Indices: 24793937--24794104 Score: 155
Period size: 58 Copynumber: 2.9 Consensus size: 58
24793927 GGTTATGAGA
** * **
24793937 ACTAGATGGCTAGCACCACTATGTTTTTTTATTAAAAAAATGATTTTTGGGGTTTTAGAC
1 ACTAGATGGCCGGCACC-C-ATGTTTTTTTATTAAAAAAATAATTTTTGGGGTGCTAGAC
* *
24793997 ACTAGATGGCCGTCACCCATGTATTTTTT-TTCAAAAAAA-AATTTTTGGGGTGCTGGCAC
1 ACTAGATGGCCGGCACCCATGT-TTTTTTATT-AAAAAAATAATTTTTGGGGTGCTAG-AC
* * * *
24794056 ACT-GATGGCCGGCACCCCT-TTATCTGATTAAAAAAATAATTTTTTGGGG
1 ACTAGATGGCCGGCACCCATGTTTTTTTATTAAAAAAATAA-TTTTTGGGG
24794105 GTGTGGTGCC
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
56 10 0.11
57 5 0.06
58 42 0.47
59 19 0.21
60 14 0.16
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (58 bp):
ACTAGATGGCCGGCACCCATGTTTTTTTATTAAAAAAATAATTTTTGGGGTGCTAGAC
Found at i:24794690 original size:23 final size:25
Alignment explanation
Indices: 24794660--24794705 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
24794650 CTTGTGTTAT
*
24794660 CATTATTATTA-TT-ATTATAGTCG
1 CATTATTACTATTTAATTATAGTCG
24794683 CATTATTACTATTTAATTATAGT
1 CATTATTACTATTTAATTATAGT
24794706 GATCACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (25 bp):
CATTATTACTATTTAATTATAGTCG
Found at i:24795688 original size:22 final size:22
Alignment explanation
Indices: 24795648--24795689 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24795638 CATAGCATCA
*
24795648 AATTTTAATAAAATTTAAATTC
1 AATTATAATAAAATTTAAATTC
24795670 AATTATAA-AAAATTATAAAT
1 AATTATAATAAAATT-TAAAT
24795690 ACCAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTATAATAAAATTTAAATTC
Found at i:24806755 original size:100 final size:98
Alignment explanation
Indices: 24806638--24806836 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 98
24806628 TAAAAAATAA
*
24806638 TAAAGGAAATATTCCGAGTTTGAGATTTTAGAGGAATTGTGCCCTAACGTATTGGGCCGCGATTT
1 TAAAGGAAATATTCCGAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGG-CGCGATTT
24806703 CTTAAATCTTGAATAAATGGATTGTTCTTTTAAAG
65 CTTAAATCTTGAATAAATGGA-TGTTCTTTTAAAG
* * *
24806738 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGGCGCGATTTC
* *
24806803 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAATGGATGTTCTTTTAAAG
24806836 T
1 T
24806837 TTTATTACGA
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 14 0.15
99 25 0.27
100 54 0.58
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGGCGCGATTTC
TTAAATCTTGAATAAATGGATGTTCTTTTAAAG
Found at i:24821064 original size:22 final size:22
Alignment explanation
Indices: 24821055--24821105 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
24821045 GTAGAAATAT
24821055 AACAGCAAAATGGTAGCAAAAC
1 AACAGCAAAATGGTAGCAAAAC
24821077 AACAGCAAAATGGTAGCAAAAC
1 AACAGCAAAATGGTAGCAAAAC
24821099 AACAGCA
1 AACAGCA
24821106 TGACATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.55, C:0.20, G:0.18, T:0.08
Consensus pattern (22 bp):
AACAGCAAAATGGTAGCAAAAC
Found at i:24823376 original size:23 final size:22
Alignment explanation
Indices: 24823345--24823390 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
24823335 AATTCATGTG
* * *
24823345 TTTATATAATATTTTTTTTCATA
1 TTTACATAAAATTATTTTT-ATA
24823368 TTTACATAAAATTATTTTTATA
1 TTTACATAAAATTATTTTTATA
24823390 T
1 T
24823391 ATTTTGGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTACATAAAATTATTTTTATA
Found at i:24829899 original size:30 final size:30
Alignment explanation
Indices: 24829865--24829960 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
24829855 AGGAACTTAA
24829865 TTGTTTGAGTGCATAGTATTAAAACTTTTT
1 TTGTTTGAGTGCATAGTATTAAAACTTTTT
* ** * * * *
24829895 TTGTTTTA-TAGTTTTACTTTTGAAA-TTTTA
1 TTGTTTGAGT-G-CATAGTATTAAAACTTTTT
*
24829925 TTGTATGAGTGCATAGTATTAAAACTTTTT
1 TTGTTTGAGTGCATAGTATTAAAACTTTTT
*
24829955 TGGTTT
1 TTGTTT
24829961 TATAGTTTTA
Statistics
Matches: 45, Mismatches: 17, Indels: 8
0.64 0.24 0.11
Matches are distributed among these distances:
29 9 0.20
30 27 0.60
31 9 0.20
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTTGAGTGCATAGTATTAAAACTTTTT
Found at i:24829961 original size:60 final size:60
Alignment explanation
Indices: 24829864--24829978 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
24829854 GAGGAACTTA
* *
24829864 ATTGTTTGAGTGCATAGTATTAAAACTTTTTTTGTTTTATAGTTTTACTTTTGAAATTTT
1 ATTGTATGAGTGCATAGTATTAAAACTTTTTTGGTTTTATAGTTTTACTTTTGAAATTTT
24829924 ATTGTATGAGTGCATAGTATTAAAACTTTTTTGGTTTTATAGTTTTACTTTTGAA
1 ATTGTATGAGTGCATAGTATTAAAACTTTTTTGGTTTTATAGTTTTACTTTTGAA
24829979 TTCACAGGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (60 bp):
ATTGTATGAGTGCATAGTATTAAAACTTTTTTGGTTTTATAGTTTTACTTTTGAAATTTT
Found at i:24831403 original size:17 final size:18
Alignment explanation
Indices: 24831381--24831421 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
24831371 AATAAATCAT
24831381 TAAAAAA-ATTATAA-AAA
1 TAAAAAATATT-TAACAAA
24831398 TAAAAAATATTTAACAAA
1 TAAAAAATATTTAACAAA
24831416 TAAAAA
1 TAAAAA
24831422 TTAGTTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAAATATTTAACAAA
Found at i:24832121 original size:74 final size:74
Alignment explanation
Indices: 24832000--24832224 Score: 405
Period size: 74 Copynumber: 3.0 Consensus size: 74
24831990 CCCACTCCAT
24832000 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
1 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
*
24832065 AAAAGTAGA
66 AAAAGTAAA
*
24832074 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
1 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
24832139 AAAAGTAAA
66 AAAAGTAAA
*
24832148 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAAAATTAGAAACCTG
1 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGC--AATTAAAAACCTG
24832213 TAAAAAGTAAA
64 TAAAAAGTAAA
24832224 A
1 A
24832225 AAAAAAAAAA
Statistics
Matches: 145, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
74 121 0.83
76 24 0.17
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (74 bp):
ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
AAAAGTAAA
Found at i:24838939 original size:47 final size:47
Alignment explanation
Indices: 24838885--24838978 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
24838875 AAAAAAGTTT
*
24838885 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTTTGCAA
1 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAA
24838932 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAA
1 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAA
24838979 GTGTGCAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (47 bp):
CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAA
Found at i:24841511 original size:22 final size:22
Alignment explanation
Indices: 24841458--24841513 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
24841448 TTTTTATAAA
24841458 TTTGAAGTTTAATATACTATTTT
1 TTTGAA-TTTAATATACTATTTT
*
24841481 TTTAAGAATTTAATCATTCTA-TTT
1 TTT--GAATTTAAT-ATACTATTTT
24841505 TTTGAATTT
1 TTTGAATTT
24841514 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.21
23 3 0.10
24 12 0.41
25 8 0.28
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTGAATTTAATATACTATTTT
Found at i:24856217 original size:2 final size:2
Alignment explanation
Indices: 24856210--24856240 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24856200 CCCCTCTGAT
24856210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24856241 TCAAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24858652 original size:42 final size:40
Alignment explanation
Indices: 24858606--24858707 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 40
24858596 CAACTCTTTA
*
24858606 TATAGGAGTTGTAAGTGACTATTCATCTACATCAC-TAAATGC
1 TATAGGAGTT-T--GTGACTATTCATCTACATAACTTAAATGC
*
24858648 TATAGGAG-TTGTGACTATTCATTTACATAACTTAAATGC
1 TATAGGAGTTTGTGACTATTCATCTACATAACTTAAATGC
24858687 TATAGGAG--TGTGACTATTCAT
1 TATAGGAGTTTGTGACTATTCAT
24858708 GCATGTGTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
38 32 0.56
39 15 0.26
40 1 0.02
41 1 0.02
42 8 0.14
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (40 bp):
TATAGGAGTTTGTGACTATTCATCTACATAACTTAAATGC
Found at i:24858675 original size:38 final size:38
Alignment explanation
Indices: 24858620--24858707 Score: 142
Period size: 38 Copynumber: 2.3 Consensus size: 38
24858610 GGAGTTGTAA
*
24858620 GTGACTATTCATCTACATCAC-TAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAG-T
*
24858658 GTGACTATTCATTTACATAACTTAAATGCTATAGGAGT
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAGT
24858696 GTGACTATTCAT
1 GTGACTATTCAT
24858708 GCATGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 32 0.68
39 15 0.32
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (38 bp):
GTGACTATTCATCTACATAACTTAAATGCTATAGGAGT
Found at i:24858765 original size:32 final size:32
Alignment explanation
Indices: 24858729--24858790 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
24858719 ACTTTTTATC
24858729 TTCAAGTCTCTTCACATTACTAACTCTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
* *
24858761 TTCAAGTCTCTTCACATTTCTAACTTTTCA
1 TTCAAGTCTCTTCACATTACTAACTCTTCA
24858791 AAATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTACTAACTCTTCATA
Found at i:24862272 original size:26 final size:27
Alignment explanation
Indices: 24862227--24862291 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
24862217 AATTTTATAA
* * *
24862227 TATTTTTAAAATAATTTTTTTATTTTT
1 TATTTTTAAAATAATATTTTTAATGTT
24862254 TATTTTTAAAATAA-ATTTTTAATGTT
1 TATTTTTAAAATAATATTTTTAATGTT
*
24862280 TATTTTAAAAAT
1 TATTTTTAAAAT
24862292 GGGTCGGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTTTAAAATAATATTTTTAATGTT
Found at i:24863746 original size:39 final size:38
Alignment explanation
Indices: 24863672--24863760 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 38
24863662 GGAATTGTAA
24863672 GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
* *
24863710 GTGACTATTCCTTTACATAACT-TAAATGCTATAGGAGTT
1 GTGACTATTCATCTACAT--CTCTAAATGCTATAGGAGTT
*
24863749 GTGATTATTCAT
1 GTGACTATTCAT
24863761 GCATGTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 16 0.36
39 27 0.60
40 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (38 bp):
GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
Found at i:24863818 original size:32 final size:32
Alignment explanation
Indices: 24863782--24863843 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
24863772 ACTTTTTATC
24863782 TTCAAGTCTCTTCACATTACTAACTCTTCATA
1 TTCAAGTCTCTTCACATTACTAACTCTTCATA
* *
24863814 TTCAAGTCTCTTCACATTTCTAACTTTTCA
1 TTCAAGTCTCTTCACATTACTAACTCTTCA
24863844 AAATCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (32 bp):
TTCAAGTCTCTTCACATTACTAACTCTTCATA
Found at i:24874723 original size:3 final size:3
Alignment explanation
Indices: 24874715--24874822 Score: 65
Period size: 3 Copynumber: 36.0 Consensus size: 3
24874705 ATAGAAATAC
** * *
24874715 AAT AAT AAT TGT AAT AAT AAT AAT ATT AAT AAT AAT -AT CAAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * * * * * *
24874760 ACT ACT ACT ACT ACT ACT ACT ACT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
24874808 AAT AGT AAT ATT AAT
1 AAT AAT AAT AAT AAT
24874823 TAATTTTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.02
3 87 0.96
4 2 0.02
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:24876449 original size:44 final size:44
Alignment explanation
Indices: 24876401--24876879 Score: 245
Period size: 44 Copynumber: 10.6 Consensus size: 44
24876391 GTTTTAATTC
*
24876401 GCTCCACTGCAGCTTCAGGGAGATAAGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAGTCT
* * * * *
24876445 GCTCCACTGTATCTTCAGGAAGATAATACTT-GATATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTAG-TAGCTTCAGTCT
* * * * * **
24876490 GCTCCATTGTAATTTCTGGGAGATAAGACTT-GTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAGTCT
* * ** * * * *
24876534 GCTCTACAGCAACTTCAGAAAGATAAGGTT--T-GATATGA-TTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TCAGTCT
* * * *
24876575 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTCAGTCT
* * * *
24876626 GTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAGTCT
* * * * *
24876671 GCTCTATTACAACTTCAGGGAGATAAGACTAGTGGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAGTCT
* * * *
24876715 GCTCCACTGTAACTTCAAGGG-GATAAGATCTGTAATTTATAACTTCAATCT
1 GCTCCACTGCAACTTC-AGGGAGATAAGA--T-T-A---GTAGCTTCAGTCT
** * * * *
24876766 ATTCCACTGCAACTTC-GAGAAATAAGATTTGTTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAGTCT
* * * * * *
24876810 ACTCTACTGCAACTTTAGGGAGATAAGACTAGTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAGTCT
* *
24876854 GCTCTACTGCAACTTCAGAGAGATAA
1 GCTCCACTGCAACTTCAGGGAGATAA
24876880 TATTTGCCAT
Statistics
Matches: 328, Mismatches: 81, Indels: 52
0.71 0.18 0.11
Matches are distributed among these distances:
41 27 0.08
42 3 0.01
43 3 0.01
44 139 0.42
45 89 0.27
47 2 0.01
48 3 0.01
49 3 0.01
50 9 0.03
51 50 0.15
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAGTCT
Found at i:24876729 original size:89 final size:88
Alignment explanation
Indices: 24876408--24876748 Score: 269
Period size: 89 Copynumber: 3.8 Consensus size: 88
24876398 TTCGCTCCAC
* * * * * *
24876408 TGCAGCTTCAGGGAGATAAGATTAGTAGCTTCAGTCTGCTCCACTGTATCTTCAGGAAGATAATA
1 TGCAACTTCAGGGAGATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* *
24876473 CTTGATATCTTCAGTCTGCTCCAT
66 TTTG-TATCTTCAGTCTGCTCTAT
* * * * * * * * * *
24876497 TGTAATTTCTGGGAGATAAGACTTGTATCTTCAACCTGCTCTACAGCAACTTCAGAAAGATAAGG
1 TGCAACTTCAGGGAGATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* * * *
24876562 TTTG-AT-ATGA-TTTGCTCTAC
66 TTTGTATCTTCAGTCTGCTCTAT
* * *
24876582 TGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
1 TGCAACTTCAGGGAGATAAGA-C--T-A---GTAGCTTCAATCTGCTCCACTGCAACTTCA-GGA
24876647 A-ATAAGATTTGCTATCTTCAGTCTGCTCTAT
58 AGATAAGATTTG-TATCTTCAGTCTGCTCTAT
* * * * *
24876678 TACAACTTCAGGGAGATAAGACTAGTGGCTTCAGTCTGCTCCACTGTAACTTCAAGG-GGATAAG
1 TGCAACTTCAGGGAGATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAG
*
24876742 ATCTGTA
65 ATTTGTA
24876749 ATTTATAACT
Statistics
Matches: 190, Mismatches: 48, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
85 24 0.13
86 3 0.02
87 2 0.01
88 3 0.02
89 87 0.46
90 1 0.01
92 34 0.18
93 4 0.02
94 2 0.01
95 3 0.02
96 27 0.14
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (88 bp):
TGCAACTTCAGGGAGATAAGACTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
TTTGTATCTTCAGTCTGCTCTAT
Found at i:24876844 original size:139 final size:141
Alignment explanation
Indices: 24876574--24876879 Score: 467
Period size: 139 Copynumber: 2.2 Consensus size: 141
24876564 TGATATGATT
* *
24876574 TGCTCTACTGCAACTTC-AGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCAA
1 TGCTCTACTGCAACTTCAAGAGAGATAAGATCTGTAACTTATAACTTCAATCTATTCCACTGCAA
* * *
24876638 CTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTATTACAACTTCAGGGAGATAAGACTAG
66 CTTCAGAGAAATAAGATTTGCTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAG
*
24876703 TGGCTTCAGTC
131 TGGCTTCAATC
* * * *
24876714 TGCTCCACTGTAACTTCAAG-GGGATAAGATCTGTAATTTATAACTTCAATCTATTCCACTGCAA
1 TGCTCTACTGCAACTTCAAGAGAGATAAGATCTGTAACTTATAACTTCAATCTATTCCACTGCAA
* * *
24876778 CTTC-GAGAAATAAGATTTGTTATCTTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTAG
66 CTTCAGAGAAATAAGATTTGCTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAG
24876842 TGGCTTCAATC
131 TGGCTTCAATC
24876853 TGCTCTACTGCAACTTC-AGAGAGATAA
1 TGCTCTACTGCAACTTCAAGAGAGATAA
24876880 TATTTGCCAT
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
138 2 0.01
139 85 0.57
140 59 0.40
141 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (141 bp):
TGCTCTACTGCAACTTCAAGAGAGATAAGATCTGTAACTTATAACTTCAATCTATTCCACTGCAA
CTTCAGAGAAATAAGATTTGCTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAG
TGGCTTCAATC
Found at i:24876936 original size:139 final size:139
Alignment explanation
Indices: 24876574--24876923 Score: 445
Period size: 139 Copynumber: 2.5 Consensus size: 139
24876564 TGATATGATT
*
24876574 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCAAC
1 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATA-CTTCAATCTATTCCACTGCAAC
* * * *
24876639 TTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTATTACAACTTCAGGGAGATAAGACTAGT
65 TTTAGGGAAATAAGATTTGTTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAGT
*
24876704 GGCTTCAGTC
130 GGCTTCAATC
* * * *
24876714 TGCTCCACTGTAACTTCA-AGGGGATAAGATCTGTAATTTATAACTTCAATCTATTCCACTGCAA
1 TGCTCTACTGCAACTTCAGA-GAGATAAGATCTGTAACTTAT-ACTTCAATCTATTCCACTGCAA
* * * *
24876778 C-TTCGAGAAATAAGATTTGTTATCTTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTAG
64 CTTTAGGGAAATAAGATTTGTTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAG
24876842 TGGCTTCAATC
129 TGGCTTCAATC
* * ** * * * *
24876853 TGCTCTACTGCAACTTCAGAGAGATAATATTTGCCA-TGATGACTTCAATCCATCCCACTTCAAC
1 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTAT-ACTTCAATCTATTCCACTGCAAC
24876917 TTTAGGG
65 TTTAGGG
24876924 GTATAGGATT
Statistics
Matches: 178, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
138 23 0.13
139 97 0.54
140 57 0.32
141 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (139 bp):
TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAACTTATACTTCAATCTATTCCACTGCAACT
TTAGGGAAATAAGATTTGTTATCTTCAGTCTACTCTACTACAACTTCAGGGAGATAAGACTAGTG
GCTTCAATC
Found at i:24884705 original size:31 final size:31
Alignment explanation
Indices: 24884670--24884728 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24884660 ATTATTAGTG
*
24884670 AACTATTCAAAAATTTTTATTTATGTCACTA
1 AACTATTCAAAAATTTTTATTTAAGTCACTA
* *
24884701 AACTATTCGAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAATTTTTATTTAAGTCA
24884729 TTGGGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTATTCAAAAATTTTTATTTAAGTCACTA
Found at i:24887471 original size:20 final size:20
Alignment explanation
Indices: 24887446--24887493 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24887436 ATCAAGAGTT
*
24887446 CAAAACTATTAATAAAGTCC
1 CAAAACTAATAATAAAGTCC
* *
24887466 CAAAACCAATAATAAAGTCT
1 CAAAACTAATAATAAAGTCC
24887486 CAAAACTA
1 CAAAACTA
24887494 CAAACAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.21
Consensus pattern (20 bp):
CAAAACTAATAATAAAGTCC
Found at i:24893436 original size:114 final size:113
Alignment explanation
Indices: 24893198--24893654 Score: 498
Period size: 114 Copynumber: 4.0 Consensus size: 113
24893188 AGAATAAGAA
* * * *
24893198 TTAGCGGCGTTTTAT-AGAAATCGCCGCAAAAAACCTAATCCGAACGACGTCGTTTGCCGAGCTT
1 TTAGCGGCGTTTT-TGAGAAAGCGCCGCAAAAAACCTAATCCCAACGACGTCGTTTTCTGAGCTT
*
24893262 TCGGGGATTTAGCGGCGTTTCTA-ATAAAGCGCCGTTAATGCTCAGGGAT
65 TCGGGGATTTAGCGGCGTTTCTAGA-AAAGCGCCGCTAATGCTCAGGGAT
*
24893311 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGCCTAATCCCAACGACGTCGTTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCCAACGACGTCG-TTTTCTGAGCTT
* * * * * *
24893376 TCGAGTGA-TTAGTGGCGTTTTTA-ATTAAGCGCCGCTAATTCTTAGGGAT
65 TCG-GGGATTTAGCGGCGTTTCTAGA-AAAGCGCCGCTAATGCTCAGGGAT
* * * * *
24893425 TTAGCGGCGTTTTCGAAAAAGCGCCACAAAAAACCTAAGT-ACAACGACAG-CG-TTTCTGACCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAA-TCCCAACGAC-GTCGTTTTCTGAGC-
* * *
24893487 TTTCGGGAATTTAGCGGCATTTCTAGAGAAGCGCCGCTAATGCTCAGGGAT
63 TTTCGGGGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
* * * * * * *
24893538 TTAGCAGCGTTTTTG-GAGTAGCACCGCAAAAAAAACTAAGCCCAACGTCGTCGTTTTCTGTGCT
1 TTAGCGGCGTTTTTGAGA-AAGCGCCGC-AAAAAACCTAATCCCAACGACGTCGTTTTCTGAGCT
* * *
24893602 TTCAGGGATTTAGCGGCGTTTTTAGAAAAGCGTCGCTAATGCTCAGGGAT
64 TTCGGGGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
24893652 TTA
1 TTA
24893655 AAATAATTTA
Statistics
Matches: 287, Mismatches: 44, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
112 12 0.04
113 105 0.37
114 158 0.55
115 12 0.04
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCCAACGACGTCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
Found at i:24893597 original size:227 final size:227
Alignment explanation
Indices: 24893198--24893654 Score: 552
Period size: 227 Copynumber: 2.0 Consensus size: 227
24893188 AGAATAAGAA
* * * * * *
24893198 TTAGCGGCGTTTTATAGAAATCGCCGCAAAAAACCTAATCCGAACGACGTCGTTTGCCGAGCTTT
1 TTAGCGGCGTTTTAGAAAAAGCGCCACAAAAAACCTAATACGAACGACGTCGTTTGCCGACCTTT
* * * *
24893263 CGGGGATTTAGCGGCGTTTCTAATAAAGCGCCGTTAATGCTCAGGGATTTAGCGGCGTTTTTGAG
66 CGGGAATTTAGCGGCATTTCTAATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTTTGAG
* ** * * *
24893328 AAAGCGCCGCAAAAAGCCTAATCCCAACGACGTCGTTTTTCTGAGCTTTCGAGTGA-TTAGTGGC
131 AAAGCACCGCAAAAAAACTAAGCCCAACGACGTCGTTTTTCTGAGCTTTC-AGGGATTTAGCGGC
* * *
24893392 GTTTTTA-ATTAAGCGCCGCTAATTCTTAGGGAT
195 GTTTTTAGA-AAAGCGCCGCTAATGCTCAGGGAT
* *
24893425 TTAGCGGCGTTTTCGAAAAAGCGCCACAAAAAACCTAAGTAC-AACGACAG-CGTTT-CTGACCT
1 TTAGCGGCGTTTTAGAAAAAGCGCCACAAAAAACCTAA-TACGAACGAC-GTCGTTTGCCGACC-
*
24893487 TTTCGGGAATTTAGCGGCATTTCTAGA-GAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTT
63 TTTCGGGAATTTAGCGGCATTTCTA-ATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTT
* * *
24893551 TG-GAGTAGCACCGCAAAAAAAACTAAGCCCAACGTCGTCG-TTTTCTGTGCTTTCAGGGATTTA
127 TGAGA-AAGCACCGC-AAAAAAACTAAGCCCAACGACGTCGTTTTTCTGAGCTTTCAGGGATTTA
*
24893614 GCGGCGTTTTTAGAAAAGCGTCGCTAATGCTCAGGGAT
190 GCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAGGGAT
24893652 TTA
1 TTA
24893655 AAATAATTTA
Statistics
Matches: 196, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
226 10 0.05
227 160 0.82
228 26 0.13
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (227 bp):
TTAGCGGCGTTTTAGAAAAAGCGCCACAAAAAACCTAATACGAACGACGTCGTTTGCCGACCTTT
CGGGAATTTAGCGGCATTTCTAATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTTTGAG
AAAGCACCGCAAAAAAACTAAGCCCAACGACGTCGTTTTTCTGAGCTTTCAGGGATTTAGCGGCG
TTTTTAGAAAAGCGCCGCTAATGCTCAGGGAT
Found at i:24903272 original size:21 final size:21
Alignment explanation
Indices: 24903258--24903315 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
24903248 GCAGAGGCGA
*
24903258 CAGCGCGAGAAGCAGAAGCTG
1 CAGCGAGAGAAGCAGAAGCTG
24903279 CAGCGAGAGAAGCAGAAGCTG
1 CAGCGAGAGAAGCAGAAGCTG
*
24903300 CAGCAAGAGAAGCAGA
1 CAGCGAGAGAAGCAGA
24903316 GCAGGCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.36, T:0.03
Consensus pattern (21 bp):
CAGCGAGAGAAGCAGAAGCTG
Found at i:24903696 original size:42 final size:42
Alignment explanation
Indices: 24903649--24903895 Score: 395
Period size: 42 Copynumber: 5.9 Consensus size: 42
24903639 AGCGTTTACA
*
24903649 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
24903691 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGTGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
24903733 AAAAAAACGCCTCTAAAGACCGTGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
24903775 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* * * *
24903817 AAATAAACGCCGTTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* * *
24903859 AAAAAAATGTCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
24903896 TTTTCTTCTA
Statistics
Matches: 188, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 188 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
Found at i:24903930 original size:84 final size:83
Alignment explanation
Indices: 24903674--24903937 Score: 314
Period size: 84 Copynumber: 3.1 Consensus size: 83
24903664 AAGACCATGT
* *
24903674 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGTGCTTAGAAAAAA
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAA
* *
24903739 ACGCCTCTAAAG-ACCGTG
66 ACGCCACTAAAGAAACG-G
24903757 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATA
1 -TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATA
** * *
24903822 AACGCCGTTAAAGAACATGT
65 AACGCCACTAAAGAA-ACGG
* * * * * *****
24903842 TCTTTAGAGGCGCTTAGAAAAAAATGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTTCTTCTAA
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAA
*
24903907 GCGCCACTAAAGAATACGG
66 ACGCCACTAAAGAA-ACGG
24903926 TCTTTAGCGGCG
1 TCTTTAGCGGCG
24903938 TTTTTTTCTT
Statistics
Matches: 154, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 152 0.99
85 1 0.01
86 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (83 bp):
TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAA
ACGCCACTAAAGAAACGG
Found at i:24903930 original size:126 final size:126
Alignment explanation
Indices: 24903644--24903937 Score: 327
Period size: 126 Copynumber: 2.3 Consensus size: 126
24903634 AAAAGAGCGT
** * * *
24903644 TTACAAAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG
1 TTAC-AAAAAAACGCCACTAAAGAACACGGTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG
* * * * *
24903709 ACCATGTTCTTTAGCGGTGCTTAGAAAAAAACGCCTCTAAAGACCGTGTTCTTTAGCGGCGC
65 AACATGTTCTTTAGAGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC
* * * * * * *
24903771 TTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAAACGCCGTTAAAGA
1 TTACAAAAAAACGCCACTAAAGAACACGGTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA
* * * *
24903836 ACATGTTCTTTAGAGGCGCTTAGAAAAAAATGTCGCTAAAGATCATGTTCTTTAGCGGCGT
66 ACATGTTCTTTAGAGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC
* **** * *
24903897 TTTCTTCTAAGCGCCACTAAAGAATACGGTCTTTAGCGGCG
1 TTACAAAAAAACGCCACTAAAGAACACGGTCTTTAGCGGCG
24903938 TTTTTTTCTT
Statistics
Matches: 142, Mismatches: 25, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
126 139 0.98
127 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (126 bp):
TTACAAAAAAACGCCACTAAAGAACACGGTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA
ACATGTTCTTTAGAGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC
Found at i:24903984 original size:42 final size:42
Alignment explanation
Indices: 24903869--24903984 Score: 169
Period size: 42 Copynumber: 2.8 Consensus size: 42
24903859 AAAAAAATGT
* *
24903869 CGCTAAAGATCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGC
1 CGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
* * * * *
24903911 CACTAAAGAATACGGTCTTTAGCGGCGTTTTTTTCTTAGCGC
1 CGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
24903953 CGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
1 CGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
24903985 GTTTGTAAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (42 bp):
CGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
Found at i:24905816 original size:24 final size:22
Alignment explanation
Indices: 24905767--24905817 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
24905757 CATAAATAAT
* * *
24905767 ATTTATTATTTAAAAAATTGTC
1 ATTTATCATTTAAAAAATTATA
24905789 ATTTATCAGTTTAATAAAATTATA
1 ATTTATCA-TTTAA-AAAATTATA
24905813 ATTTA
1 ATTTA
24905818 AAAGTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 5 0.21
24 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTATCATTTAAAAAATTATA
Found at i:24906586 original size:16 final size:16
Alignment explanation
Indices: 24906565--24906595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24906555 AGACTAGTTG
*
24906565 TTGTAGTGATGAGATA
1 TTGTAGTAATGAGATA
24906581 TTGTAGTAATGAGAT
1 TTGTAGTAATGAGAT
24906596 TCAAATCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
TTGTAGTAATGAGATA
Found at i:24909430 original size:31 final size:31
Alignment explanation
Indices: 24909395--24909453 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
24909385 ATGATCAGTG
*
24909395 AACTATTCAAAAAATTTTATTTATGTCACTA
1 AACTATTCAAAAAATTTTATTTAAGTCACTA
* **
24909426 AACTATTCGAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAAATTTTATTTAAGTCA
24909454 TTGGGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAAATTTTATTTAAGTCACTA
Found at i:24918686 original size:18 final size:18
Alignment explanation
Indices: 24918663--24918749 Score: 74
Period size: 18 Copynumber: 4.9 Consensus size: 18
24918653 AGTCAAGCTT
*
24918663 AATATTATTATAATAATA
1 AATATTATTAAAATAATA
* *
24918681 AATATTTTTAAAATATTTA
1 AATATTATTAAAATA-ATA
24918700 AA-ATTATTAAAAT-A-A
1 AATATTATTAAAATAATA
* *
24918715 AATATTTATTACAATTATA
1 AATA-TTATTAAAATAATA
24918734 AATA-TATTAATAATAA
1 AATATTATTAA-AATAA
24918750 AATTTTTGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 3 0.05
16 1 0.02
17 14 0.25
18 28 0.51
19 9 0.16
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTATTAAAATAATA
Found at i:24918706 original size:33 final size:32
Alignment explanation
Indices: 24918669--24918756 Score: 92
Period size: 34 Copynumber: 2.7 Consensus size: 32
24918659 GCTTAATATT
*
24918669 ATTA-TAATAATAAATATTTTTAAAATATTTAAA
1 ATTATTAATAATAAATATTTTTAAAAT-TAT-AA
*
24918702 ATTATTAA-AATAAAATATTTATTACAATTATAA
1 ATTATTAATAAT-AAATATTT-TTAAAATTATAA
24918735 ATATATTAATAATAAA-ATTTTT
1 AT-TATTAATAATAAATATTTTT
24918757 GTAGTAGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
32 2 0.04
33 15 0.31
34 22 0.46
35 9 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
ATTATTAATAATAAATATTTTTAAAATTATAA
Found at i:24919032 original size:12 final size:12
Alignment explanation
Indices: 24919015--24919039 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24919005 TAATACTAAC
24919015 AGCTGAACCTGA
1 AGCTGAACCTGA
24919027 AGCTGAACCTGA
1 AGCTGAACCTGA
24919039 A
1 A
24919040 TTTTGATATC
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:0.24, G:0.24, T:0.16
Consensus pattern (12 bp):
AGCTGAACCTGA
Found at i:24923869 original size:31 final size:28
Alignment explanation
Indices: 24923792--24923871 Score: 72
Period size: 31 Copynumber: 2.7 Consensus size: 28
24923782 TATATGATTG
*
24923792 TATACATG-AACTTTAATTTGGTACAAT
1 TATACTTGAAACTTTAATTTGGTACAAT
* * *
24923819 TATACATATAAAATTTTAATTGTGGTTCAAAT
1 TATAC-T-TGAAACTTTAATT-TGGTAC-AAT
24923851 ATATACTTGAAACTTTAATTT
1 -TATACTTGAAACTTTAATTT
24923872 TGATTTAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.12
29 1 0.02
30 10 0.24
31 16 0.39
32 4 0.10
33 5 0.12
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (28 bp):
TATACTTGAAACTTTAATTTGGTACAAT
Found at i:24928764 original size:46 final size:46
Alignment explanation
Indices: 24928712--24928804 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
24928702 TTATTTATCC
24928712 GTTAATTTATATTTTTTGAGTTGATTATTGTGGTAGGAACTGGATG
1 GTTAATTTATATTTTTTGAGTTGATTATTGTGGTAGGAACTGGATG
24928758 GTTAATTTATATTTTTTGAGTTGATTATTGTGGTAGGAACTGGATG
1 GTTAATTTATATTTTTTGAGTTGATTATTGTGGTAGGAACTGGATG
24928804 G
1 G
24928805 ACCAAATGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (46 bp):
GTTAATTTATATTTTTTGAGTTGATTATTGTGGTAGGAACTGGATG
Found at i:24934418 original size:45 final size:45
Alignment explanation
Indices: 24934347--24934481 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
24934337 CTACGTGTAT
* * * *
24934347 CGAGTATCATTGATTGTAACGGTGGTTGCTATGTGCTGATTCCGC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
* *
24934392 CGGGTACCATTGATTATAAAGGTGGTTACTATGTGCTGATTCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
* * * * * *
24934437 TGAGTATCAATGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
24934480 CG
1 CG
24934482 TGTATCTGTT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 6 0.08
44 11 0.15
45 58 0.77
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (45 bp):
CGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
Found at i:24944919 original size:11 final size:11
Alignment explanation
Indices: 24944903--24944942 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
24944893 GGTTTTTTAC
24944903 AAAAATATTAT
1 AAAAATATTAT
24944914 AAAAATA--AT
1 AAAAATATTAT
24944923 AAAAAT-TTAT
1 AAAAATATTAT
*
24944933 CAAAATATTA
1 AAAAATATTA
24944943 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:24945023 original size:27 final size:27
Alignment explanation
Indices: 24944927--24945021 Score: 140
Period size: 27 Copynumber: 3.5 Consensus size: 27
24944917 AATAATAAAA
*
24944927 ATTTATCAAAATATTACAATTTTTTTT
1 ATTTATCAAAATATTACAACTTTTTTT
24944954 ATTTATCAAAATATTACAACTTTTTTT
1 ATTTATCAAAATATTACAACTTTTTTT
*
24944981 A-TTAACTAAAATATATA-AACTTTTTTT
1 ATTTATC-AAAATAT-TACAACTTTTTTT
24945008 ATTTATCAAAATAT
1 ATTTATCAAAATAT
24945022 ATCAAAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
26 4 0.06
27 52 0.84
28 6 0.10
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTATCAAAATATTACAACTTTTTTT
Found at i:24945208 original size:22 final size:23
Alignment explanation
Indices: 24945183--24945284 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 23
24945173 AGAAGGAGGA
24945183 AAAGAAAGAAAGGAG-AGGAAAG
1 AAAGAAAGAAAGGAGAAGGAAAG
*
24945205 AAAGAAGAAGAAAAGGAGAAGGGAAG
1 AAAG-A-AAG-AAAGGAGAAGGAAAG
* *
24945231 AAA-AAAGAAAGAAAGAAGGAATG
1 AAAGAAAGAAAG-GAGAAGGAAAG
*
24945254 AAAG--GGAAAGGAGAAGAGAAA-
1 AAAGAAAGAAAGGAGAAG-GAAAG
*
24945275 AAAAAAAGAA
1 AAAGAAAGAA
24945285 GAAGAAGAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
21 8 0.13
22 16 0.26
23 18 0.29
24 4 0.06
25 7 0.11
26 9 0.15
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (23 bp):
AAAGAAAGAAAGGAGAAGGAAAG
Found at i:24945217 original size:14 final size:14
Alignment explanation
Indices: 24945184--24945217 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24945174 GAAGGAGGAA
*
24945184 AAGAAAGAAAGGAG
1 AAGAAAGAAAGAAG
*
24945198 AGGAAAGAAAGAAG
1 AAGAAAGAAAGAAG
24945212 AAGAAA
1 AAGAAA
24945218 AGGAGAAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAGAAG
Found at i:24945241 original size:37 final size:37
Alignment explanation
Indices: 24945200--24945321 Score: 126
Period size: 37 Copynumber: 3.2 Consensus size: 37
24945190 GAAAGGAGAG
*
24945200 GAAAGAAAGAAGAAGAAAAGGAGAAGGGAAGAAAAAA
1 GAAAGAAAGAAGAAGAAAGGGAGAAGGGAAGAAAAAA
*
24945237 GAAAGAAAGAAGGAATGAAAGGGA-AAGGAGAAGAGAAAA
1 GAAAGAAAGAA-GAA-GAAAGGGAGAAGG-GAAGAAAAAA
*
24945276 -AAA-AAAGAAGAAGAAGAGGGAAGAAAGGAA-AAAAAA
1 GAAAGAAAGAAGAAGAA-AGGG-AGAAGGGAAGAAAAAA
*
24945312 GGAAAAAAAG
1 -GAAAGAAAG
24945322 GTAATTTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
35 3 0.04
36 12 0.17
37 21 0.29
38 16 0.22
39 20 0.28
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (37 bp):
GAAAGAAAGAAGAAGAAAGGGAGAAGGGAAGAAAAAA
Found at i:24945306 original size:44 final size:42
Alignment explanation
Indices: 24945200--24945320 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 42
24945190 GAAAGGAGAG
* * * *
24945200 GAAAGAAAGAAG-AAGAAAAGGAGAAGGGAAGAAAAAAGAAA
1 GAAAGAAGGAAGAAAGGAAAGGAGAAGGAAAAAAAAAAGAAA
24945241 GAAAGAAGGAATGAAAGGGAAAGGAGAAGAGAAAAAAAAAAG-AA
1 GAAAGAAGGAA-GAAA-GGAAAGGAGAAG-GAAAAAAAAAAGAAA
* * *
24945285 GAAGAAGAGGGAAGAAAGGAAA-AAAAAGGAAAAAAA
1 G-A-AAGAAGGAAGAAAGGAAAGGAGAAGGAAAAAAA
24945321 GGTAATTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
41 10 0.15
42 9 0.13
43 6 0.09
44 19 0.28
45 15 0.22
46 8 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (42 bp):
GAAAGAAGGAAGAAAGGAAAGGAGAAGGAAAAAAAAAAGAAA
Found at i:24945348 original size:19 final size:19
Alignment explanation
Indices: 24945324--24945361 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24945314 AAAAAAAGGT
24945324 AATTTTATTTATAA-ATTTG
1 AATTTT-TTTATAATATTTG
*
24945343 AATTTTTTTGTAATATTTG
1 AATTTTTTTATAATATTTG
24945362 TGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTTTTTATAATATTTG
Found at i:24945810 original size:11 final size:11
Alignment explanation
Indices: 24945796--24945830 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24945786 TTCGGGTTAT
24945796 TTACCAAAATA
1 TTACCAAAATA
* *
24945807 TTACAAAAAAA
1 TTACCAAAATA
24945818 TTACCAAAATA
1 TTACCAAAATA
24945829 TT
1 TT
24945831 CTAAAGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (11 bp):
TTACCAAAATA
Found at i:24951533 original size:3 final size:3
Alignment explanation
Indices: 24951525--24951568 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
24951515 NNNNNNNNNN
24951525 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
24951569 TAATAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:24951665 original size:19 final size:21
Alignment explanation
Indices: 24951641--24951679 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24951631 ACTACAACAA
*
24951641 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
24951660 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
24951680 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:24958471 original size:15 final size:14
Alignment explanation
Indices: 24958448--24958505 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
24958438 TTTAATTTTT
*
24958448 TATAAATTTTAAAA
1 TATAAATTTAAAAA
24958462 TATGAAATTTAAAAA
1 TAT-AAATTTAAAAA
* *
24958477 AATTAATTTAAAACA
1 TATAAATTTAAAA-A
24958492 TATAAATTTTAAAA
1 TATAAA-TTTAAAA
24958506 GAAATTAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.33
15 17 0.47
16 7 0.19
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
TATAAATTTAAAAA
Found at i:24958484 original size:14 final size:15
Alignment explanation
Indices: 24958467--24958513 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
24958457 TAAAATATGA
24958467 AATTTAAAA-AAATT
1 AATTTAAAACAAATT
* *
24958481 AATTTAAAACATATA
1 AATTTAAAACAAATT
*
24958496 AATTTTAAAAGAAATT
1 AA-TTTAAAACAAATT
24958512 AA
1 AA
24958514 GCTTTGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 9 0.35
15 5 0.19
16 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
AATTTAAAACAAATT
Found at i:24958485 original size:29 final size:31
Alignment explanation
Indices: 24958452--24958513 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
24958442 ATTTTTTATA
*
24958452 AATTTTAAA-ATATGAAA-TTTAAAA-AAATT
1 AATTTAAAACATAT-AAATTTTAAAAGAAATT
24958481 AATTTAAAACATATAAATTTTAAAAGAAATT
1 AATTTAAAACATATAAATTTTAAAAGAAATT
24958512 AA
1 AA
24958514 GCTTTGAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (31 bp):
AATTTAAAACATATAAATTTTAAAAGAAATT
Found at i:24958590 original size:21 final size:23
Alignment explanation
Indices: 24958564--24958605 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24958554 TCATTCCAAT
*
24958564 AAAAAT-AATTT-TTTTATTTAA
1 AAAAATGAATTTATTATATTTAA
24958585 AAAAATGAATTTATTATATTT
1 AAAAATGAATTTATTATATTT
24958606 TGTTGACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAAATGAATTTATTATATTTAA
Found at i:24970613 original size:130 final size:130
Alignment explanation
Indices: 24970408--24970847 Score: 634
Period size: 130 Copynumber: 3.4 Consensus size: 130
24970398 CAATCAGAGT
* * * * *
24970408 TGATATTATTAAGGTTTACTAATTTACGGTCACAACCTAATTTCATTGATTTACTATCATGAGCA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* * * * * *
24970473 ATCTTCTCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAACTCGCCAATTTACGATCACAAT
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAC
* * * *
24970538 TGATATTATTAAGGTTCATTGATTTATGATCAGAACCTAAGTTAATTGATTTACTATCATGAACA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* * * *
24970603 ATCTCCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAATAGCTCACCGATTTACGATCACAAC
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAC
24970668 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
* * *
24970733 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGCTGATTTACGATCACAGC
66 ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAC
* * *
24970798 TGATATTATTAAGGTTCATTGATTTATGATCACAA---AGGTTCATTGATTTA
1 TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTA
24970848 TGATCACAAC
Statistics
Matches: 278, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
127 14 0.05
130 264 0.95
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (130 bp):
TGATATTATTAAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACA
ATCTTCTCTGAGTTAGTTGATTTACTATCTCTATTCCAAAAAACTCGCCGATTTACGATCACAAC
Found at i:24970835 original size:24 final size:24
Alignment explanation
Indices: 24970808--24970874 Score: 98
Period size: 24 Copynumber: 2.7 Consensus size: 24
24970798 TGATATTATT
24970808 AAGGTTCATTGATTTATGATCACA
1 AAGGTTCATTGATTTATGATCACA
24970832 AAGGTTCATTGATTTATGATCACA
1 AAGGTTCATTGATTTATGATCACA
*
24970856 ACCTAAGTTCATTGATTTA
1 A---AGGTTCATTGATTTA
24970875 CTATCATGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 25 0.64
27 14 0.36
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
AAGGTTCATTGATTTATGATCACA
Found at i:24970963 original size:154 final size:154
Alignment explanation
Indices: 24970678--24970965 Score: 445
Period size: 154 Copynumber: 1.9 Consensus size: 154
24970668 TGATATTATT
*
24970678 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
1 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTCTCTG
* * * * **
24970743 AGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGCTGATTTACGATCACAGCTGATATTATT
66 AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGCTGATTTACAATCACAGCTGATACCATT
24970808 AAGGTTCATTGATTTATGATCACA
131 AAGGTTCATTGATTTATGATCACA
* * *
24970832 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTTTCTG
1 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTCTCTG
*
24970897 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCG-TCGATTTACAATCACTA-CTGATACCA
66 AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGCT-GATTTACAATCAC-AGCTGATACCA
24970960 TTAAGG
129 TTAAGG
24970966 CTTGCTGATT
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
153 1 0.01
154 119 0.98
155 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (154 bp):
AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTCTCTG
AGTTAGTTGATTTACTATCGCTACTCCAAAAAACTCGCTGATTTACAATCACAGCTGATACCATT
AAGGTTCATTGATTTATGATCACA
Found at i:24971071 original size:284 final size:284
Alignment explanation
Indices: 24970548--24971116 Score: 816
Period size: 284 Copynumber: 2.0 Consensus size: 284
24970538 TGATATTATT
* *
24970548 AAGGTTCATTGATTTATGATCAGAACCTAAGTTAATTGATTTACTATCATGAACAATCTCCTCTG
1 AAGGTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAATATCCTCTG
* * * * * **
24970613 AGTTAGTTGATTTACTATCTCTATTCCAAATAGCTCACCGATTTACGATCACAACTGATATTATT
66 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATT
**
24970678 AAGGTTCACTAATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
131 AAGGTTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
* * * ***
24970743 AGTTAGTTGATTTACTATCTCTATTCCAAAAAACTTGCTGATTTACGATCACAGCTGATATTATT
196 AGTTAGCTGATTTACTATCGCTAGTCCAAAAAACCCACTGATTTACGATCACAGCTGATATTATT
* *
24970808 AAGGTTCATTGATTTATGATCACA
261 AAGGTTCACTGATTTACGATCACA
* **
24970832 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTTTCTG
1 AAGGTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAATATCCTCTG
** *
24970897 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACTACTGATACCATT
66 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATT
* * * *
24970962 AAGGCTT-GCTGATTTACAATCACAACTTAAGTTTATTGATTTACTATCATGAACAATCTTCTCT
131 AAGG-TTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCT
* * *
24971026 GAGTTAGCTGATTTACTATGGCTAGTCCAAACAACCCATTGATTTACGATCACAGCTGATATTAT
195 GAGTTAGCTGATTTACTATCGCTAGTCCAAAAAACCCACTGATTTACGATCACAGCTGATATTAT
* *
24971091 TAAGGTTCGCTGATTTACGATTACA
260 TAAGGTTCACTGATTTACGATCACA
24971116 A
1 A
24971117 CTGTCATTTT
Statistics
Matches: 250, Mismatches: 34, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
284 248 0.99
285 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (284 bp):
AAGGTTCATTGATTTATGATCACAACCTAAGTTAATTGATTTACTATCATGAACAATATCCTCTG
AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCACCGATTTACAATCACAACTGATACCATT
AAGGTTCACTAATTTACAATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTG
AGTTAGCTGATTTACTATCGCTAGTCCAAAAAACCCACTGATTTACGATCACAGCTGATATTATT
AAGGTTCACTGATTTACGATCACA
Found at i:24971078 original size:130 final size:130
Alignment explanation
Indices: 24970832--24971118 Score: 380
Period size: 130 Copynumber: 2.2 Consensus size: 130
24970822 TATGATCACA
** * * *
24970832 AAGGTTCATTGATTTATGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATATTTTCTG
1 AAGGTTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATATTCTCTG
* * *
24970897 AGTTAGTTGATTTACTATCGCTACTCCAAACAACTCGTCGATTTACAATCACTA-CTGATACCAT
66 AGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCAC-AGCTGATACCAT
24970961 T
130 T
* * *
24970962 AAGGCTT-GCTGATTTACAATCACAACTTAAGTTTATTGATTTACTATCATGAACAATCTTCTCT
1 AAGG-TTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATATTCTCT
* * * * **
24971026 GAGTTAGCTGATTTACTATGGCTAGTCCAAACAACCCATTGATTTACGATCACAGCTGATATTAT
65 GAGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCACAGCTGATACCAT
24971091 T
130 T
*
24971092 AAGGTTCGCTGATTTACGATTACAACT
1 AAGGTTCGCTGATTTACGATCACAACT
24971119 GTCATTTTTA
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
129 3 0.02
130 130 0.96
131 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (130 bp):
AAGGTTCGCTGATTTACGATCACAACTTAAGTTCATTGATTTACTATCATGAACAATATTCTCTG
AGTTAGCTGATTTACTATCGCTACTCCAAACAACCCATCGATTTACAATCACAGCTGATACCATT
Found at i:24975112 original size:17 final size:17
Alignment explanation
Indices: 24975072--24975113 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
24975062 TGTTTAAGAA
*
24975072 TATTTTTATCTCAAAAG
1 TATTTTTATCCCAAAAG
*
24975089 TACTTTTTGTCCCAAAAG
1 TA-TTTTTATCCCAAAAG
24975107 TATTTTT
1 TATTTTT
24975114 TAGAAGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (17 bp):
TATTTTTATCCCAAAAG
Done.