Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 141 of 318
Found at i:43838065 original size:14 final size:14
Alignment explanation
Indices: 43838048--43838075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43838038 TACAAAGAAA
43838048 CAAACTCCAAGAGT
1 CAAACTCCAAGAGT
43838062 CAAACTCCAAGAGT
1 CAAACTCCAAGAGT
43838076 TGAAAACTTT
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:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (14 bp):
CAAACTCCAAGAGT
Found at i:43841147 original size:18 final size:18
Alignment explanation
Indices: 43841126--43841162 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43841116 GGTGTACGGG
* *
43841126 CCACACGGGTGTGTGGGC
1 CCACACGAGTATGTGGGC
43841144 CCACACGAGTATGTGGGC
1 CCACACGAGTATGTGGGC
43841162 C
1 C
43841163 TATTATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.30, G:0.38, T:0.16
Consensus pattern (18 bp):
CCACACGAGTATGTGGGC
Found at i:43841934 original size:18 final size:17
Alignment explanation
Indices: 43841910--43841949 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
43841900 TTGGTAAAAC
43841910 ATTTTATTAGAAACAATG
1 ATTTTATT-GAAACAATG
* *
43841928 GTTTTATTTAAACAATG
1 ATTTTATTGAAACAATG
43841945 ATTTT
1 ATTTT
43841950 CCTAAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (17 bp):
ATTTTATTGAAACAATG
Found at i:43848684 original size:20 final size:20
Alignment explanation
Indices: 43848656--43848702 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
43848646 ATGGAGGTAG
*
43848656 GATTTTGTACATTTGA-ATCT
1 GATTCTGTA-ATTTGATATCT
43848676 GATTCTGTAATTTGATATCT
1 GATTCTGTAATTTGATATCT
*
43848696 GAATCTG
1 GATTCTG
43848703 GATCTGGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (20 bp):
GATTCTGTAATTTGATATCT
Found at i:43855659 original size:15 final size:14
Alignment explanation
Indices: 43855641--43855677 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
43855631 TATAAAGGTT
43855641 ATAATAATAAAAGCA
1 ATAATAATAAAAG-A
43855656 ATAATAATAAAAGA
1 ATAATAATAAAAGA
43855670 ATGAATAA
1 AT-AATAA
43855678 AGAAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (14 bp):
ATAATAATAAAAGA
Found at i:43857528 original size:30 final size:30
Alignment explanation
Indices: 43857492--43857549 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
43857482 CTTGTATACT
43857492 ACCATAATAAGTAAGAAATGTAAATTAATA
1 ACCATAATAAGTAAGAAATGTAAATTAATA
*
43857522 ACCATAATAGGTAAGAAATGTAAATTAA
1 ACCATAATAAGTAAGAAATGTAAATTAA
43857550 CTATTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (30 bp):
ACCATAATAAGTAAGAAATGTAAATTAATA
Found at i:43860267 original size:33 final size:33
Alignment explanation
Indices: 43860205--43860271 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
43860195 TCCGTGTATT
* * * *
43860205 TATGGCGTAAAAATCTGTCTGCTTTAGTGGTTA
1 TATGGCATAAAAATCCGTCTACTTCAGTGGTTA
*
43860238 TATGGCATAAACATCCGTCTACTTCAGTGGTTA
1 TATGGCATAAAAATCCGTCTACTTCAGTGGTTA
43860271 T
1 T
43860272 GTGTTCTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (33 bp):
TATGGCATAAAAATCCGTCTACTTCAGTGGTTA
Found at i:43866534 original size:10 final size:10
Alignment explanation
Indices: 43866511--43866563 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
43866501 TTAGTTTTTC
*
43866511 AAATAATTAAA
1 AAAT-ATTATA
43866522 AAATATTATA
1 AAATATTATA
43866532 AAATATTATA
1 AAATATTATA
*
43866542 AAA-ATTTTA
1 AAATATTATA
43866551 AAA-ATTATTA
1 AAATATTA-TA
43866561 AAA
1 AAA
43866564 ATAATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 11 0.29
10 23 0.61
11 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATATTATA
Found at i:43866535 original size:21 final size:19
Alignment explanation
Indices: 43866511--43866564 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
43866501 TTAGTTTTTC
43866511 AAATAATTAAAAAATATTATA
1 AAAT-ATTAAAAAATATTA-A
*
43866532 AAATATTATAAAAATTTTAA
1 AAATATTA-AAAAATATTAA
43866552 AAATTATTAAAAA
1 AAA-TATTAAAAA
43866565 TAATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTAAAAAATATTAA
Found at i:43866562 original size:19 final size:21
Alignment explanation
Indices: 43866511--43866566 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
43866501 TTAGTTTTTC
43866511 AAATAATTA-AAAAATATTATA
1 AAAT-ATTATAAAAATATTATA
43866532 AAATATTATAAAAAT-TT-TA
1 AAATATTATAAAAATATTATA
43866551 AAA-ATTATTAAAAATA
1 AAATATTA-TAAAAATA
43866567 ATATTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 6 0.19
21 10 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATATTATAAAAATATTATA
Found at i:43866969 original size:29 final size:29
Alignment explanation
Indices: 43866934--43867008 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
43866924 AATTAATTTT
*
43866934 TAATTTTAATATTTTTTTGTAATT-TTAAA
1 TAATTTTAATATTTTTTTATAATTCTT-AA
43866963 TAATTTTAATA-TTTTTTATAATTCTTAA
1 TAATTTTAATATTTTTTTATAATTCTTAA
43866991 TAATTTTTAATCATTTTT
1 TAA-TTTTAAT-ATTTTT
43867009 CATAATTACT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 16 0.39
29 20 0.49
30 1 0.02
31 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (29 bp):
TAATTTTAATATTTTTTTATAATTCTTAA
Found at i:43866978 original size:19 final size:21
Alignment explanation
Indices: 43866956--43867000 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
43866946 TTTTTTGTAA
43866956 TTTTAAATAATT-TTAAT-AT
1 TTTTAAATAATTCTTAATAAT
*
43866975 TTTT-TATAATTCTTAATAAT
1 TTTTAAATAATTCTTAATAAT
43866995 TTTTAA
1 TTTTAA
43867001 TCATTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAATAATTCTTAATAAT
Found at i:43867008 original size:10 final size:10
Alignment explanation
Indices: 43866937--43867015 Score: 72
Period size: 10 Copynumber: 8.1 Consensus size: 10
43866927 TAATTTTTAA
*
43866937 TTTTAATATT
1 TTTTAATAAT
**
43866947 TTTTTGTAAT
1 TTTTAATAAT
*
43866957 TTTAAATAA-
1 TTTTAATAAT
43866966 TTTTAAT-AT
1 TTTTAATAAT
*
43866975 TTTTTATAAT
1 TTTTAATAAT
*
43866985 TCTTAATAAT
1 TTTTAATAAT
*
43866995 TTTTAATCAT
1 TTTTAATAAT
*
43867005 TTTTCATAAT
1 TTTTAATAAT
43867015 T
1 T
43867016 ACTTGAAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
8 1 0.02
9 12 0.23
10 40 0.75
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:43867105 original size:19 final size:17
Alignment explanation
Indices: 43867077--43867119 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
43867067 TTCAAATAAT
43867077 TATTAAAAAAATTTGTTTA
1 TATT-AAAAAATTT-TTTA
*
43867096 TATTATAAAATTTTTTA
1 TATTAAAAAATTTTTTA
*
43867113 TTTTAAA
1 TATTAAA
43867120 GTTATTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATTAAAAAATTTTTTA
Found at i:43871718 original size:18 final size:19
Alignment explanation
Indices: 43871685--43871722 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
43871675 AGACTCCAGG
*
43871685 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
43871704 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
43871722 T
1 T
43871723 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:43878680 original size:26 final size:28
Alignment explanation
Indices: 43878626--43878681 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
43878616 CTGACCTCAC
* *
43878626 TATTTTTTTATTATTAAATAAAAGTAAAT
1 TATTTTTTTATGA-TAAATAAAAGCAAAT
43878655 TATTTTTTTATGA-AAATAAAA-CAAAT
1 TATTTTTTTATGATAAATAAAAGCAAAT
43878681 T
1 T
43878682 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 8 0.32
29 12 0.48
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TATTTTTTTATGATAAATAAAAGCAAAT
Found at i:43884061 original size:17 final size:19
Alignment explanation
Indices: 43884019--43884062 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43884009 ACGAAATTTT
*
43884019 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
43884038 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
43884056 AA-TATTA
1 AATTATTA
43884063 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:43884659 original size:16 final size:16
Alignment explanation
Indices: 43884638--43884668 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
43884628 AAGAGCTTCA
43884638 GTGCAGTGGCAGCAGC
1 GTGCAGTGGCAGCAGC
43884654 GTGCAGTGGCAGCAG
1 GTGCAGTGGCAGCAG
43884669 GTTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.45, T:0.13
Consensus pattern (16 bp):
GTGCAGTGGCAGCAGC
Found at i:43886466 original size:27 final size:27
Alignment explanation
Indices: 43886427--43886555 Score: 86
Period size: 27 Copynumber: 4.5 Consensus size: 27
43886417 ACTTGTAATA
*
43886427 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATACTGATAT
*
43886455 GGGCTAGGCCCA-ATATACTCTGATACT-ATAAG
1 GGGCTAGGCCCAGAT-TA-----ATACTGAT-AT
*
43886487 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATACTGATAT
*
43886515 GGGCTAAGGCCCA-ATTAACACTGA-AT
1 GGGCT-AGGCCCAGATTAATACTGATAT
43886541 AGGGCTTAGGCCCAG
1 -GGGC-TAGGCCCAG
43886556 TAAAGCTTGA
Statistics
Matches: 81, Mismatches: 6, Indels: 28
0.70 0.05 0.24
Matches are distributed among these distances:
26 4 0.05
27 27 0.33
28 23 0.28
29 3 0.04
31 2 0.02
32 12 0.15
33 8 0.10
34 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATACTGATAT
Found at i:43886467 original size:60 final size:59
Alignment explanation
Indices: 43886391--43886529 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
43886381 AACTATGTTA
* * * *
43886391 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATATAA-AGGGCTACGGCCCAGATTAATACTG
* * *
43886451 ATATGGGCTAGGCCCAATATACTCTGATACTATAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TATAAAGGGCTACGGCCCAGATTAATACTG
43886511 ATATGGGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
43886530 TAACACTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.75
61 16 0.24
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATATAAAGGGCTACGGCCCAGATTAATACTG
Found at i:43887514 original size:49 final size:49
Alignment explanation
Indices: 43887442--43887542 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
43887432 TCTGTTGATT
*
43887442 GTGAATGCTAGGCATGTATAGGATAGCATAGGTAATTCGTTATCCGTAG
1 GTGAATGCTAGGCAAGTATAGGATAGCATAGGTAATTCGTTATCCGTAG
* * *
43887491 GTGAATGCTAGGCAAGTATAGGATGGGATAGGTAATTGGTTATCCGTAG
1 GTGAATGCTAGGCAAGTATAGGATAGCATAGGTAATTCGTTATCCGTAG
43887540 GTG
1 GTG
43887543 TGGCTGTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.30
Consensus pattern (49 bp):
GTGAATGCTAGGCAAGTATAGGATAGCATAGGTAATTCGTTATCCGTAG
Found at i:43889690 original size:5 final size:6
Alignment explanation
Indices: 43889677--43889724 Score: 69
Period size: 6 Copynumber: 7.5 Consensus size: 6
43889667 ATAATTTAAT
43889677 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAATTAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA-TAA AAA
43889725 ATATATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.69
7 6 0.15
8 6 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:43889702 original size:20 final size:18
Alignment explanation
Indices: 43889677--43889724 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 18
43889667 ATAATTTAAT
43889677 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAA--TAA
43889697 AAATAAAAATAAAAATAA
1 AAATAAAAATAAAAATAA
43889715 AAATTAAAAA
1 AAA-TAAAAA
43889725 ATATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.22
19 6 0.22
20 15 0.56
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAAATAAAAATAA
Found at i:43889711 original size:21 final size:22
Alignment explanation
Indices: 43889654--43889711 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
43889644 GAACCCAATC
*
43889654 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
43889679 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
43889699 ATAAAAATAAAAA
1 ATAAAAATAAAAA
43889712 TAAAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:43889725 original size:26 final size:27
Alignment explanation
Indices: 43889654--43889732 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 27
43889644 GAACCCAATC
43889654 ATAAAAATTACAAATAATTTAATAAATAAAA
1 ATAAAAATTA-AAA-AA--TAATAAATAAAA
43889685 ATAAAAATCT-AAAAATAA-AAATAAAA
1 ATAAAAAT-TAAAAAATAATAAATAAAA
43889711 ATAAAAATTAAAAAATATATAA
1 ATAAAAATTAAAAAATA-ATAA
43889733 TTTTATACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
25 1 0.02
26 23 0.52
27 4 0.09
28 2 0.05
29 2 0.05
30 3 0.07
31 8 0.18
32 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (27 bp):
ATAAAAATTAAAAAATAATAAATAAAA
Found at i:43889734 original size:15 final size:14
Alignment explanation
Indices: 43889681--43889727 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
43889671 TTTAATAAAT
43889681 AAAAATAAAAATCT-
1 AAAAATAAAAAT-TA
43889695 AAAAATAAAAA-T-
1 AAAAATAAAAATTA
43889707 AAAAATAAAAATTA
1 AAAAATAAAAATTA
43889721 AAAAATA
1 AAAAATA
43889728 TATAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.39
13 1 0.03
14 18 0.58
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAAAATTA
Found at i:43889784 original size:35 final size:36
Alignment explanation
Indices: 43889744--43889819 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
43889734 TTTATACAAA
*
43889744 TAATTCGGTTAATTCGGTTAATTTAG-TAATTCGGT
1 TAATTCGGTTAATTCGATTAATTTAGTTAATTCGGT
* *
43889779 TAATTCGGTTAATTCGATTAATTTGGTTAATTTGGT
1 TAATTCGGTTAATTCGATTAATTTAGTTAATTCGGT
43889815 TAATT
1 TAATT
43889820 TTATACTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (36 bp):
TAATTCGGTTAATTCGATTAATTTAGTTAATTCGGT
Found at i:43889820 original size:9 final size:9
Alignment explanation
Indices: 43889744--43889819 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
43889734 TTTATACAAA
43889744 TAATTCGGT
1 TAATTCGGT
43889753 TAATTCGGT
1 TAATTCGGT
**
43889762 TAATTTAG-
1 TAATTCGGT
43889770 TAATTCGGT
1 TAATTCGGT
43889779 TAATTCGGT
1 TAATTCGGT
*
43889788 TAATTCGAT
1 TAATTCGGT
*
43889797 TAATTTGGT
1 TAATTCGGT
*
43889806 TAATTTGGT
1 TAATTCGGT
43889815 TAATT
1 TAATT
43889820 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
8 6 0.10
9 53 0.90
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (9 bp):
TAATTCGGT
Found at i:43891927 original size:146 final size:146
Alignment explanation
Indices: 43891663--43891957 Score: 590
Period size: 146 Copynumber: 2.0 Consensus size: 146
43891653 GAATGCCTAT
43891663 AAAAGGCTAAGACTTATTCAGAATTTTTTGCTAAATTTTCACTCTCTCACACTGAGATTATTTTC
1 AAAAGGCTAAGACTTATTCAGAATTTTTTGCTAAATTTTCACTCTCTCACACTGAGATTATTTTC
43891728 TCTCAAAAATATTCTTTTCCTCTCCATATTTTCTAATGTTCCGTGATTAGAAAAAGACAATGTTT
66 TCTCAAAAATATTCTTTTCCTCTCCATATTTTCTAATGTTCCGTGATTAGAAAAAGACAATGTTT
43891793 GTTCATTGATCGCTGC
131 GTTCATTGATCGCTGC
43891809 AAAAGGCTAAGACTTATTCAGAATTTTTTGCTAAATTTTCACTCTCTCACACTGAGATTATTTTC
1 AAAAGGCTAAGACTTATTCAGAATTTTTTGCTAAATTTTCACTCTCTCACACTGAGATTATTTTC
43891874 TCTCAAAAATATTCTTTTCCTCTCCATATTTTCTAATGTTCCGTGATTAGAAAAAGACAATGTTT
66 TCTCAAAAATATTCTTTTCCTCTCCATATTTTCTAATGTTCCGTGATTAGAAAAAGACAATGTTT
43891939 GTTCATTGATCGCTGC
131 GTTCATTGATCGCTGC
43891955 AAA
1 AAA
43891958 GGTGTTACTA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 149 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (146 bp):
AAAAGGCTAAGACTTATTCAGAATTTTTTGCTAAATTTTCACTCTCTCACACTGAGATTATTTTC
TCTCAAAAATATTCTTTTCCTCTCCATATTTTCTAATGTTCCGTGATTAGAAAAAGACAATGTTT
GTTCATTGATCGCTGC
Found at i:43892223 original size:18 final size:18
Alignment explanation
Indices: 43892165--43892224 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
43892155 AAATATAAAT
43892165 TATTCTATTTATATTT-TA
1 TATT-TATTTATATTTATA
* **
43892183 T-TTTATATATATAAATAA
1 TATTTATTTATATTTAT-A
43892201 TTATTTATTTATATTTATA
1 -TATTTATTTATATTTATA
43892220 TATTT
1 TATTT
43892225 TCTTCGCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 7 0.22
19 2 0.06
20 12 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTTATATTTATA
Found at i:43893472 original size:61 final size:61
Alignment explanation
Indices: 43893355--43893505 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 61
43893345 TTGGACCAAT
* * * *
43893355 AAAAGTTCAAATCTCGATGTGGAAACAATTACCAAACTTAGAAGTTAATTTGGACAAAAAA
1 AAAAGTTCAAATCTCAATGTGAAAACAATTACCAAACTTAGAAGTTAACTTAGACAAAAAA
* ** *
43893416 AAAAGTTCAAATCTCAATGTGAAAATAATTATTAAATTTATGAA-TTAACTTAGAC---AAA
1 AAAAGTTCAAATCTCAATGTGAAAACAATTACCAAACTTA-GAAGTTAACTTAGACAAAAAA
43893474 AAAA-TTCAAA-CATCAATGT-AAAACAATTACCA
1 AAAAGTTCAAATC-TCAATGTGAAAACAATTACCA
43893506 TTAAGATTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
56 11 0.14
57 13 0.17
58 7 0.09
61 43 0.56
62 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (61 bp):
AAAAGTTCAAATCTCAATGTGAAAACAATTACCAAACTTAGAAGTTAACTTAGACAAAAAA
Found at i:43898339 original size:19 final size:18
Alignment explanation
Indices: 43898297--43898333 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
43898287 ATTATTATTC
43898297 TATTTA-AAATAAAATAT
1 TATTTATAAATAAAATAT
43898314 TATTTATAAATAAAA-AT
1 TATTTATAAATAAAATAT
43898331 TAT
1 TAT
43898334 ATTTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTTATAAATAAAATAT
Found at i:43898353 original size:13 final size:13
Alignment explanation
Indices: 43898337--43898362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43898327 AAATTATATT
43898337 TATTTAATTAAAA
1 TATTTAATTAAAA
43898350 TATTTAATTAAAA
1 TATTTAATTAAAA
43898363 AACTTGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:43899094 original size:12 final size:12
Alignment explanation
Indices: 43899073--43899106 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43899063 TATATATTTT
*
43899073 AAAATTATATAA
1 AAAATAATATAA
43899085 AAAATAATATAA
1 AAAATAATATAA
*
43899097 AAATTAATAT
1 AAAATAATAT
43899107 GGAAGGGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:43899723 original size:12 final size:13
Alignment explanation
Indices: 43899705--43899743 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
43899695 TAAAACACAT
43899705 AAAAA-TTATAAA
1 AAAAAGTTATAAA
* *
43899717 CAAAATTTATAAA
1 AAAAAGTTATAAA
43899730 AAAAAGTTATAAA
1 AAAAAGTTATAAA
43899743 A
1 A
43899744 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAAGTTATAAA
Found at i:43899870 original size:17 final size:17
Alignment explanation
Indices: 43899848--43899882 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43899838 TTATTTTTAA
43899848 TAAAAAATTTATAACTT
1 TAAAAAATTTATAACTT
43899865 TAAAAAATTTATAACTT
1 TAAAAAATTTATAACTT
43899882 T
1 T
43899883 TATTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAAATTTATAACTT
Found at i:43899903 original size:20 final size:21
Alignment explanation
Indices: 43899870--43899924 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
43899860 AACTTTAAAA
* *
43899870 AATTTATAACTTTTATTT-AT
1 AATTTTTAAATTTTATTTAAT
*
43899890 AATTTTTATATTTT-TTTAAT
1 AATTTTTAAATTTTATTTAAT
*
43899910 TATTTTTAAATTTTA
1 AATTTTTAAATTTTA
43899925 AAAGTGTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTTTTAAATTTTATTTAAT
Found at i:43901490 original size:26 final size:26
Alignment explanation
Indices: 43901431--43901490 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
43901421 TCAATTAATA
* *
43901431 AAGTTCTCTTTGAGTTTTCTTTTTAAG
1 AAGTTTTC-TTGAGTTTTCTTTTAAAG
*
43901458 AATTTTTCTTGAGTTTTCTTTTAAA-
1 AAGTTTTCTTGAGTTTTCTTTTAAAG
43901483 AGAGTTTT
1 A-AGTTTT
43901491 AACAATCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 6 0.21
ACGTcount: A:0.22, C:0.08, G:0.13, T:0.57
Consensus pattern (26 bp):
AAGTTTTCTTGAGTTTTCTTTTAAAG
Found at i:43902446 original size:26 final size:26
Alignment explanation
Indices: 43902401--43902450 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
43902391 ACTTTTTCTT
*
43902401 AAAGAAAACTCAAGAGAAATTTTAAA
1 AAAGAAAACTCAAGAAAAATTTTAAA
43902427 AAAGAAAACTCAA-ATAAAATTTTA
1 AAAGAAAACTCAAGA-AAAATTTTA
43902451 TTAATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (26 bp):
AAAGAAAACTCAAGAAAAATTTTAAA
Found at i:43904771 original size:63 final size:62
Alignment explanation
Indices: 43904583--43904774 Score: 208
Period size: 63 Copynumber: 3.1 Consensus size: 62
43904573 ACACAGCTGA
* * ** *
43904583 GTAACTCACTATTTT-GAAGTTAGAGTCACA-TGAGCCAGAGACACGGATGTGTGTCTAGGCTGT
1 GTAACTCACT-TTTTGGAA-TTAGAGTCACACAGA-CCAAAGACACGGGCGTGTGTCTAGGCCGT
* * * * * *
43904646 ATAACTCACTATTTGGAATTAGAGTCACACGGGCCAAGGACACGGGCGTGTGTTTAGGCCGT
1 GTAACTCACTTTTTGGAATTAGAGTCACACAGACCAAAGACACGGGCGTGTGTCTAGGCCGT
* * *
43904708 GTAACTCACTGTTTTGGAATTAGAGACACACAGACCAAAGACACGGGCATGTGTCCAGGCCGT
1 GTAACTCACT-TTTTGGAATTAGAGTCACACAGACCAAAGACACGGGCGTGTGTCTAGGCCGT
43904771 GTAA
1 GTAA
43904775 GATATATTTT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
62 46 0.43
63 61 0.57
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (62 bp):
GTAACTCACTTTTTGGAATTAGAGTCACACAGACCAAAGACACGGGCGTGTGTCTAGGCCGT
Found at i:43904992 original size:108 final size:108
Alignment explanation
Indices: 43904817--43905027 Score: 305
Period size: 108 Copynumber: 2.0 Consensus size: 108
43904807 GTGTTGAACT
* * *
43904817 GTGTGCTAAACCGTGTAACTCAATATTTTGAGCTACATGGGCGTGTGTTAGGACATGTGACAGGT
1 GTGTGCTAAACCGTGTAACTCAATATTTTGAGCCACATGGGCGTGTGTTAGGACATATGACAAGT
* *
43904882 CATGTGCGACACTGAGGTAGGCCACACTGGTATGTGCTGGGTC
66 CATGTACGACACTGAGGTAGGCCACACGGGTATGTGCTGGGTC
* * * * *
43904925 GTGTGCTATACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAGGCCATATGATAAGT
1 GTGTGCTAAACCGTGTAACTCAATATTTTGAGCCACATGGGCGTGTGTTAGGACATATGACAAGT
* * *
43904990 CATGTACGACATTGAGGTAGGCCATACGGGTGTGTGCT
66 CATGTACGACACTGAGGTAGGCCACACGGGTATGTGCT
43905028 AGGCTGTGTG
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 90 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (108 bp):
GTGTGCTAAACCGTGTAACTCAATATTTTGAGCCACATGGGCGTGTGTTAGGACATATGACAAGT
CATGTACGACACTGAGGTAGGCCACACGGGTATGTGCTGGGTC
Found at i:43922327 original size:7 final size:7
Alignment explanation
Indices: 43922311--43922376 Score: 89
Period size: 7 Copynumber: 9.4 Consensus size: 7
43922301 TCCCTTCCTA
*
43922311 TTCCAAT
1 TTCCAGT
43922318 TTCCAGT
1 TTCCAGT
43922325 TTCCAG-
1 TTCCAGT
43922331 TTCCTAGT
1 TTCC-AGT
*
43922339 TTCTAGT
1 TTCCAGT
43922346 TTCCAGT
1 TTCCAGT
43922353 TTCCAGT
1 TTCCAGT
43922360 TTCCAGT
1 TTCCAGT
*
43922367 TTCCATT
1 TTCCAGT
43922374 TTC
1 TTC
43922377 TTTTCTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
6 4 0.08
7 46 0.87
8 3 0.06
ACGTcount: A:0.15, C:0.27, G:0.11, T:0.47
Consensus pattern (7 bp):
TTCCAGT
Found at i:43924904 original size:22 final size:22
Alignment explanation
Indices: 43924879--43924924 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
43924869 GAGAAAAAGT
43924879 TTTGGGGGAAAAAGTA-AAAATA
1 TTTGGGGGAAAAA-TATAAAATA
*
43924901 TTTGGGGTAAAAATATAAAATA
1 TTTGGGGGAAAAATATAAAATA
43924923 TT
1 TT
43924925 ATAGTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (22 bp):
TTTGGGGGAAAAATATAAAATA
Found at i:43926241 original size:41 final size:41
Alignment explanation
Indices: 43926184--43926265 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
43926174 TTGGTGGAAC
*
43926184 ACTGGTATAATCATAAGGCATCAAGGGTTTCCTAGGACAAT
1 ACTGGTATAATCATAAGGCATCAAGGGTATCCTAGGACAAT
43926225 ACTGGTATAATCATAAGGCATCAAGGGTATCCTAGGACAAT
1 ACTGGTATAATCATAAGGCATCAAGGGTATCCTAGGACAAT
43926266 CATTTGTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (41 bp):
ACTGGTATAATCATAAGGCATCAAGGGTATCCTAGGACAAT
Found at i:43931032 original size:14 final size:15
Alignment explanation
Indices: 43931008--43931036 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43930998 AGTAAATCTT
43931008 TAATATAAAATATTA
1 TAATATAAAATATTA
43931023 TAATAT-AAATATTA
1 TAATATAAAATATTA
43931037 AAAAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATATAAAATATTA
Found at i:43932445 original size:76 final size:80
Alignment explanation
Indices: 43932358--43932705 Score: 219
Period size: 76 Copynumber: 4.5 Consensus size: 80
43932348 AAAGAAAACG
* * * *
43932358 AAATAAATAATATATAAAAAAATTTGAAGTAGATAATA-T-AAAACAA-TTTAAAGTAAATAATA
1 AAATAAATAATATATAAAAAAATTTAAAATAAATAATAGTAAAAACAAGTTTAAAATAAATAATA
**
43932420 TGTAAAACAAATT-A
66 TACAAAACAAATTAA
** ** *
43932434 AAATAAATAATATACGAAGCAATTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAAT
1 AAATAAATAATATATAAAAAAATTTAAAATAAATAATA-GTAAAAACAAGTTTAAAATAAATAAT
**
43932499 ATACAAAACAGTTTAA
65 ATACAAAACAAATTAA
* **
43932515 AAATAAATGATATATAAAAAAATAATTCAAAATAAATAATA-TATATGAC-AGTTTAAAAATAAA
1 AAATAAATAATATATAAAAAAAT--TT-AAAATAAATAATAGTA-AAAACAAGTTT-AAAATAAA
** *
43932578 TAATATA-TGAA-AAATTTA
61 TAATATACAAAACAAATTAA
** * * * * *
43932596 AAATGGATAATAGTTTGAAATAGTTTAAAAT--AT-GTAG--AAAAC----TTAAAATAAATAAT
1 AAATAAATAATA-TATAAAAAAATTTAAAATAAATAATAGTAAAAACAAGTTTAAAATAAATAAT
* *
43932652 A-ATAAAACAATTTAA
65 ATACAAAACAAATTAA
*
43932667 AAATAAATAATATATGAGAAAAAGTTTTAAAATAAATAA
1 AAATAAATAATATAT-A-AAAAA-ATTTAAAATAAATAA
43932706 ATAAATAACA
Statistics
Matches: 205, Mismatches: 47, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
69 1 0.00
70 17 0.08
71 17 0.08
72 4 0.02
73 8 0.04
74 3 0.01
75 2 0.01
76 33 0.16
77 2 0.01
78 1 0.00
79 11 0.05
80 26 0.13
81 32 0.16
82 16 0.08
83 19 0.09
84 13 0.06
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (80 bp):
AAATAAATAATATATAAAAAAATTTAAAATAAATAATAGTAAAAACAAGTTTAAAATAAATAATA
TACAAAACAAATTAA
Found at i:43932517 original size:27 final size:26
Alignment explanation
Indices: 43932358--43932705 Score: 236
Period size: 26 Copynumber: 13.4 Consensus size: 26
43932348 AAAGAAAACG
* *
43932358 AAATAAATAATATATAAAAAAATTTG
1 AAATAAATAATATATAAAACAATTTA
* *
43932384 AAGTAGAT-A-ATATAAAACAATTTA
1 AAATAAATAATATATAAAACAATTTA
* * *
43932408 AAGTAAATAATATGTAAAACAAATTA
1 AAATAAATAATATATAAAACAATTTA
** *
43932434 AAATAAATAATATACGAAGCAATTTA
1 AAATAAATAATATATAAAACAATTTA
* *
43932460 AAATAAATAATATGTAAAAAGAAGTTTA
1 AAATAAATAATATAT-AAAACAA-TTTA
* *
43932488 AAATAAATAATATACAAAACAGTTTAA
1 AAATAAATAATATATAAAACAATTT-A
* *
43932515 AAATAAATGATATATAAAAAAATAATTCA
1 AAATAAATAATATATAAAACAAT--TT-A
** *
43932544 AAATAAATAATATATATGACAGTTTAA
1 AAATAAATAATATATAAAACAATTT-A
*
43932571 AAATAAATAATATATGAAA-AATTTA
1 AAATAAATAATATATAAAACAATTTA
** * * * *
43932596 AAATGGATAATAGTTTGAAATAGTTT-
1 AAATAAATAATA-TATAAAACAATTTA
* *
43932622 --A-AAAT-ATGTAGAAAAC---TTA
1 AAATAAATAATATATAAAACAATTTA
43932641 AAATAAATAATA-ATAAAACAATTTAA
1 AAATAAATAATATATAAAACAATTT-A
43932667 AAATAAATAATATATGAGAAA-AAGTTTTA
1 AAATAAATAATATAT-A-AAACAA--TTTA
43932696 AAATAAATAA
1 AAATAAATAA
43932706 ATAAATAACA
Statistics
Matches: 249, Mismatches: 50, Indels: 43
0.73 0.15 0.13
Matches are distributed among these distances:
18 2 0.01
21 5 0.02
22 12 0.05
23 4 0.02
24 21 0.08
25 15 0.06
26 78 0.31
27 54 0.22
28 20 0.08
29 35 0.14
30 3 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATAAATAATATATAAAACAATTTA
Found at i:43932546 original size:29 final size:29
Alignment explanation
Indices: 43932397--43932559 Score: 110
Period size: 28 Copynumber: 5.9 Consensus size: 29
43932387 TAGATAATAT
* * *
43932397 AAAACAATTTAAAGTAAATAATATGT-AA
1 AAAATAATTTAAAATAAATAATATATAAA
* *
43932425 AACA-AA-TTAAAATAAAT-A-ATAT-AC
1 AAAATAATTTAAAATAAATAATATATAAA
* ** *
43932449 GAAGCAATTTAAAATAAATAATATGTAAA
1 AAAATAATTTAAAATAAATAATATATAAA
* * *
43932478 AAGA-AGTTTAAAATAAATAATATACAAA
1 AAAATAATTTAAAATAAATAATATATAAA
* * * *
43932506 ACAGT--TTAAAAATAAATGATATATAAA
1 AAAATAATTTAAAATAAATAATATATAAA
*
43932533 AAAATAATTCAAAATAAATAATATATA
1 AAAATAATTTAAAATAAATAATATATA
43932560 TGACAGTTTA
Statistics
Matches: 102, Mismatches: 25, Indels: 15
0.72 0.18 0.11
Matches are distributed among these distances:
24 5 0.05
25 3 0.03
26 21 0.21
27 25 0.25
28 28 0.27
29 20 0.20
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAATAATTTAAAATAAATAATATATAAA
Found at i:43932556 original size:56 final size:53
Alignment explanation
Indices: 43932358--43932591 Score: 224
Period size: 56 Copynumber: 4.4 Consensus size: 53
43932348 AAAGAAAACG
* * * *
43932358 AAATAAATAATATAT-AAAAAAATTTGAAGTAGATAATAT--AAAACAATTTA
1 AAATAAATAATATATAAAAAAAAATTAAAATAAATAATATACAAAACAATTTA
* * * * *
43932408 AAGTAAATAATATGT-AAAACAAATTAAAATAAATAATATACGAAGCAATTTA
1 AAATAAATAATATATAAAAAAAAATTAAAATAAATAATATACAAAACAATTTA
* ** *
43932460 AAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATATACAAAACAGTTTAA
1 AAATAAATAATATATAAAAA-AAAATTAAAATAAATAATATACAAAACAATTT-A
* * ** *
43932515 AAATAAATGATATATAAAAAAATAATTCAAAATAAATAATATATATGACAGTTTAA
1 AAATAAATAATATATAAAAAAA-AATT-AAAATAAATAATATACAAAACAATTT-A
*
43932571 AAATAAATAATATATGAAAAA
1 AAATAAATAATATATAAAAAA
43932592 TTTAAAATGG
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
50 32 0.21
52 23 0.15
53 4 0.03
54 28 0.18
55 21 0.14
56 44 0.29
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (53 bp):
AAATAAATAATATATAAAAAAAAATTAAAATAAATAATATACAAAACAATTTA
Found at i:43932699 original size:29 final size:26
Alignment explanation
Indices: 43932638--43932732 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 26
43932628 TGTAGAAAAC
43932638 TTAAAATAAATAATAATAAAACAATT
1 TTAAAATAAATAATAATAAAACAATT
*
43932664 TAAAAATAAATAATATATGAGAAA-AAGTT
1 TTAAAATAAATAATA-AT-A-AAACAA-TT
*
43932693 TTAAAATAAATAAATAA-ATAACAAATT
1 TTAAAATAAAT-AATAATAAAAC-AATT
43932720 TGTGAAAATAAAT
1 T-T-AAAATAAAT
43932733 TGAAATCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
26 16 0.28
27 6 0.11
28 6 0.11
29 25 0.44
30 4 0.07
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (26 bp):
TTAAAATAAATAATAATAAAACAATT
Found at i:43945261 original size:46 final size:46
Alignment explanation
Indices: 43945209--43945528 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
43945199 GCTTTCTGAA
*
43945209 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
43945255 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
43945301 ATAAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
43945347 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
43945393 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
43945439 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
43945485 A-GAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
43945529 TCAAAGATAA
Statistics
Matches: 247, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 246 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:43945830 original size:16 final size:17
Alignment explanation
Indices: 43945809--43945841 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43945799 ATGATGGAGC
43945809 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
43945825 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
43945842 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:43955693 original size:7 final size:7
Alignment explanation
Indices: 43955681--43955705 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43955671 TCAAACGTTG
43955681 TTTCCAT
1 TTTCCAT
43955688 TTTCCAT
1 TTTCCAT
43955695 TTTCCAT
1 TTTCCAT
43955702 TTTC
1 TTTC
43955706 ATTGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCCAT
Found at i:43966435 original size:10 final size:11
Alignment explanation
Indices: 43966405--43966437 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
43966395 CGGCCCGCCC
43966405 ATATTAATTTT
1 ATATTAATTTT
43966416 ATATTAATTTT
1 ATATTAATTTT
43966427 ATA-TAATTTT
1 ATATTAATTTT
43966437 A
1 A
43966438 AAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:43966461 original size:18 final size:18
Alignment explanation
Indices: 43966438--43966482 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
43966428 TATAATTTTA
*
43966438 AAAAATATATAAACCATC
1 AAAAATATATAAAACATC
43966456 AAAAATACTA-AAAACATC
1 AAAAATA-TATAAAACATC
43966474 AAAAA-ATAT
1 AAAAATATAT
43966483 TTCTCAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 1 0.04
18 19 0.79
19 2 0.08
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATATATAAAACATC
Found at i:43966595 original size:30 final size:29
Alignment explanation
Indices: 43966561--43966617 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
43966551 TTTAACAAGC
*
43966561 AAATGCCTCTAAAATAGTAACAAAATTAGA
1 AAATGCCTCTAAAATAATAA-AAAATTAGA
* *
43966591 AAATGTCTTTAAAATAATAAAAAATTA
1 AAATGCCTCTAAAATAATAAAAAATTA
43966618 ACAATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATGCCTCTAAAATAATAAAAAATTAGA
Found at i:43972490 original size:6 final size:6
Alignment explanation
Indices: 43972481--43972509 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
43972471 ATTTCAGTAA
43972481 CAGTTT CAGTTT CAGTTT CAGTTT CAGTT
1 CAGTTT CAGTTT CAGTTT CAGTTT CAGTT
43972510 AGGGCCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
CAGTTT
Found at i:43972495 original size:18 final size:18
Alignment explanation
Indices: 43972472--43972509 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43972462 TTTAAGCCCA
43972472 TTTCAGTAACAGTTTCAG
1 TTTCAGTAACAGTTTCAG
**
43972490 TTTCAGTTTCAGTTTCAG
1 TTTCAGTAACAGTTTCAG
43972508 TT
1 TT
43972510 AGGGCCTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (18 bp):
TTTCAGTAACAGTTTCAG
Found at i:43972588 original size:18 final size:19
Alignment explanation
Indices: 43972565--43972603 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
43972555 CTTGGCCTAT
* *
43972565 TACAGTATCA-ATATTCAG
1 TACAGTAACAGATATACAG
43972583 TACAGTAACAGATATACAG
1 TACAGTAACAGATATACAG
43972602 TA
1 TA
43972604 TCAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TACAGTAACAGATATACAG
Found at i:43978847 original size:21 final size:21
Alignment explanation
Indices: 43978818--43978871 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
43978808 TTATATGTTT
43978818 AGTATGATCTGTGATA-AGATA
1 AGTATGATCTGTGATATA-ATA
* * *
43978839 AGTACGATCAGTGATATATTA
1 AGTATGATCTGTGATATAATA
43978860 AGTATGATCTGT
1 AGTATGATCTGT
43978872 ATTTGTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (21 bp):
AGTATGATCTGTGATATAATA
Found at i:43984039 original size:23 final size:21
Alignment explanation
Indices: 43984012--43984053 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
43984002 ATGAATTAGA
43984012 ATGTTGAAATGTTATGTTTAAAT
1 ATGTTGAAATG--ATGTTTAAAT
*
43984035 ATGTTTAAATGATGTTTAA
1 ATGTTGAAATGATGTTTAA
43984054 GTCTCTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (21 bp):
ATGTTGAAATGATGTTTAAAT
Found at i:43984051 original size:11 final size:10
Alignment explanation
Indices: 43984024--43984053 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
43984014 GTTGAAATGT
43984024 TATGTTTAAA
1 TATGTTTAAA
43984034 TATGTTTAAA
1 TATGTTTAAA
43984044 TGATGTTTAA
1 T-ATGTTTAA
43984054 GTCTCTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
TATGTTTAAA
Found at i:43984948 original size:12 final size:12
Alignment explanation
Indices: 43984931--43984956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43984921 ATATATTTTA
43984931 ATATTTTAAGGT
1 ATATTTTAAGGT
43984943 ATATTTTAAGGT
1 ATATTTTAAGGT
43984955 AT
1 AT
43984957 TTGGAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
ATATTTTAAGGT
Found at i:43985491 original size:20 final size:20
Alignment explanation
Indices: 43985446--43985492 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
43985436 AGTACCTTCA
* *
43985446 TACTCCTGTTAGTATTATTG
1 TACTCCTGATAGTATTACTG
*
43985466 TGCTCCTGATAGTACTT-CTG
1 TACTCCTGATAGTA-TTACTG
43985486 TACTCCT
1 TACTCCT
43985493 ATTAGCACTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (20 bp):
TACTCCTGATAGTATTACTG
Found at i:43990289 original size:15 final size:14
Alignment explanation
Indices: 43990257--43990297 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
43990247 TTATATTTTT
43990257 TAAAAAAATT-ATA
1 TAAAAAAATTAATA
*
43990270 T-AAAAATTTAATA
1 TAAAAAAATTAATA
43990283 TAAAAAAATTAATA
1 TAAAAAAATTAATA
43990297 T
1 T
43990298 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAAAATTAATA
Found at i:43990523 original size:17 final size:17
Alignment explanation
Indices: 43990501--43990535 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
43990491 TTATAAAATT
* *
43990501 ATCTTTTAAAATTTAAA
1 ATCTTTAAAAATATAAA
43990518 ATCTTTAAAAATATAAA
1 ATCTTTAAAAATATAAA
43990535 A
1 A
43990536 ATGTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
ATCTTTAAAAATATAAA
Found at i:43990943 original size:35 final size:35
Alignment explanation
Indices: 43990904--43991003 Score: 132
Period size: 35 Copynumber: 2.9 Consensus size: 35
43990894 GTCAAAGTCG
* *
43990904 ACCTTAAAGAGGTTGGGATAGACCCGTCTAA-GACA
1 ACCTTAAAAAGGTTGGGATAGACACGTCTAAGGA-A
* * *
43990939 ACCTTAAAAAGGTTGGGACAAACTCGTCTAAGGAA
1 ACCTTAAAAAGGTTGGGATAGACACGTCTAAGGAA
43990974 ACCTTAAAAAGGTTGGGATAGA-ACGTCTAA
1 ACCTTAAAAAGGTTGGGATAGACACGTCTAA
43991004 TAGGGTAGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
34 7 0.12
35 48 0.84
36 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (35 bp):
ACCTTAAAAAGGTTGGGATAGACACGTCTAAGGAA
Found at i:43992561 original size:13 final size:13
Alignment explanation
Indices: 43992543--43992567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43992533 TATGATCTTA
43992543 AATCTTCCATGCG
1 AATCTTCCATGCG
43992556 AATCTTCCATGC
1 AATCTTCCATGC
43992568 TAAGCTACAA
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:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (13 bp):
AATCTTCCATGCG
Found at i:43993090 original size:16 final size:15
Alignment explanation
Indices: 43993058--43993097 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
43993048 TTCTTTTTCA
*
43993058 TTTTAATCCTTGATT
1 TTTTTATCCTTGATT
43993073 TTTTTATCCTTGATT
1 TTTTTATCCTTGATT
43993088 TTTTTATCCT
1 TTTTTATCCT
43993098 AATCAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTATCCTTGATT
Found at i:43994436 original size:20 final size:20
Alignment explanation
Indices: 43994411--43994480 Score: 94
Period size: 19 Copynumber: 3.7 Consensus size: 20
43994401 ATTATAAAAT
43994411 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
43994431 AATTCAAAATAATTTTT-AA
1 AATTCAAAATAATTTTTAAA
* *
43994450 AATTGAAAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
43994469 AATT-AAAA-AATT
1 AATTCAAAATAATT
43994481 GGAATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.26
19 17 0.37
20 17 0.37
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:43994451 original size:19 final size:19
Alignment explanation
Indices: 43994411--43994469 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
43994401 ATTATAAAAT
43994411 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTT-AA
43994431 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTTAA
* *
43994450 AATTGAAAAT-ATTTATAA
1 AATTCAAAATAATTTTTAA
43994468 AA
1 AA
43994470 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.24
19 11 0.30
20 17 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
AATTCAAAATAATTTTTAA
Found at i:43996939 original size:22 final size:22
Alignment explanation
Indices: 43996914--43996960 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
43996904 ACTTATAGGT
*
43996914 TTGACTCAATTGGGTTGGCAAG
1 TTGACTCAATTGGGGTGGCAAG
43996936 TTGACTCAATTGGGGTGGCAAG
1 TTGACTCAATTGGGGTGGCAAG
43996958 TTG
1 TTG
43996961 GCTATTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (22 bp):
TTGACTCAATTGGGGTGGCAAG
Found at i:44003294 original size:3 final size:3
Alignment explanation
Indices: 44003286--44003320 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44003276 ATTTATTTGT
44003286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44003321 CTTTTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44006883 original size:44 final size:44
Alignment explanation
Indices: 44006820--44006907 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
44006810 ATTACATGTA
* * * * * *
44006820 TCGCATCCATTATGAACTCAGACCAATTTAACGAGTTCGGATGC
1 TCGCATCCATAATGAACTCAAACCAACTCAACGAGCTCAGATGC
44006864 TCGCATCCATAATGAACTCAAACCAACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAAACCAACTCAACGAGCTCAGATGC
44006908 CTCATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCAAACCAACTCAACGAGCTCAGATGC
Found at i:44008905 original size:31 final size:31
Alignment explanation
Indices: 44008870--44008931 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
44008860 AATATAAGAC
44008870 TAAATCAACCACAACATGACAATTAAATACA
1 TAAATCAACCACAACATGACAATTAAATACA
44008901 TAAATCAACCACAACATGACAATTAAATACA
1 TAAATCAACCACAACATGACAATTAAATACA
44008932 AATCTCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (31 bp):
TAAATCAACCACAACATGACAATTAAATACA
Found at i:44009731 original size:49 final size:48
Alignment explanation
Indices: 44009571--44009845 Score: 213
Period size: 49 Copynumber: 5.7 Consensus size: 48
44009561 AGGGTATGAT
* * * * * *
44009571 GTCGATGTCATGTTCCAAACATGGTCTTACACTGACTCTCAC-ATCTAA
1 GTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACTATATAG
* ** *
44009619 GTCAATGCCATG-CACCAGACAGGTCTTACACTAACT-TCCAC-ACATAAG
1 GTCGATGCCATGTC-CCAGACAGGTCTTACACTGGCTCT-CACTATAT-AG
* * **
44009667 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTTATATTT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC-TATATAG
* *
44009716 GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCA-TATCTTGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CACTAT-AT-AG
* * * * *
44009765 GCCGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCA-TCTATCG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATATAG
*
44009812 GTGCTGATGCCATGTCCCAGATAGGTCTTACACT
1 GT-C-GATGCCATGTCCCAGACAGGTCTTACACT
44009846 AGCACACACA
Statistics
Matches: 183, Mismatches: 31, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
46 1 0.01
47 24 0.13
48 53 0.29
49 101 0.55
50 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATATAG
Found at i:44009793 original size:98 final size:96
Alignment explanation
Indices: 44009573--44009848 Score: 306
Period size: 98 Copynumber: 2.8 Consensus size: 96
44009563 GGTATGATGT
* * * * *
44009573 CGATGTCATGTTCCAAACATGGTCTTACACTGACTCTCAC-ATCTAAGTCAATGCCATG-CACCA
1 CGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCACTATATAAGTCGATGCCATGTC-CCA
*
44009636 GACAGGTCTTACACTAACTTCCACACATAAGGC
64 GACAGGTCTTACACTAGCTTCCACACATAAGGC
**
44009669 CGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTTATATTTGTCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCAC-TATATAAGTCGATGCCATGTCCCAG
* * * *
44009734 ACAGGTCTTACACTAGCTTGCATATCTTGAGGC
65 ACAGGTCTTACACTAGCTTCCACA-CATAAGGC
* * * * **
44009767 CGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCA-TCTATCGGTGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATATAAGT-C-GATGCCATGTCCCA
*
44009831 GATAGGTCTTACACTAGC
64 GACAGGTCTTACACTAGC
44009849 ACACACATCA
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
95 19 0.12
96 23 0.15
97 40 0.26
98 73 0.47
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATATAAGTCGATGCCATGTCCCAGA
CAGGTCTTACACTAGCTTCCACACATAAGGC
Found at i:44011891 original size:20 final size:21
Alignment explanation
Indices: 44011866--44011907 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
44011856 AATATGCTGT
*
44011866 AAAATGAAAG-TTTTTGATAG
1 AAAATGAAAGATTATTGATAG
44011886 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
44011907 A
1 A
44011908 TAAACCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:44012691 original size:33 final size:33
Alignment explanation
Indices: 44012588--44012703 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
44012578 ACCCAAAATG
* ** * * *
44012588 GTACAACTTGAAAAGGTTATGTACACTTTTTGT
1 GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
** *
44012621 GTA-CACTTGAAAAGGTTAGGTATACTTTGTAT
1 GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
*
44012653 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGAAAGGTATACTTTGTGT
*
44012686 GTACCACTTGGAAAGGAA
1 GTACCACTTGAAAAGGAA
44012704 TGCACACCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 27 0.39
33 41 0.59
34 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAAGGTATACTTTGTGT
Found at i:44020199 original size:49 final size:48
Alignment explanation
Indices: 44019950--44020266 Score: 190
Period size: 49 Copynumber: 6.6 Consensus size: 48
44019940 GTACGATGCC
* * * **
44019950 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCT-CAAATC-TAAGTTA
1 GATGCCATGTCCCAAACA-GGTCTTACACT-GCT-TGCATATCTTGAGGCA
* * * * * * *
44019999 -ATGCCATGTCCTAGACAGGTTTTACACTAACTTCCATA-CGTCGAGGCT
1 GATGCCATGTCCCAAACAGGTCTTACACT-GCTTGCATATC-TTGAGGCA
* * * * *
44020047 GATGCCATGTCTCAGACAGGTCTTACACTGGTTCTCACTTATC-T-ATGTC-
1 GATGCCATGTCCCAAACAGGTCTTACACTGCTT-GCA--TATCTTGA-GGCA
* * * * *
44020096 GATGCCATGTCCCAGACAGGTCTTACACTG---GCACACCTTAAGCCA
1 GATGCCATGTCCCAAACAGGTCTTACACTGCTTGCATATCTTGAGGCA
*
44020141 -ATGCCATGTCCCAAACATGTCTTACACTAGCTTGCATATCTTGAGGCA
1 GATGCCATGTCCCAAACAGGTCTTACACT-GCTTGCATATCTTGAGGCA
* * * * *
44020189 GATGCCATGTCCCAAACAGGTCTTACACTGACTCT-CATCTATCGATGCC
1 GATGCCATGTCCCAAACAGGTCTTACACTG-CT-TGCATATCTTGAGGCA
44020238 GATGCCATGTCCCAAACAGGTCTTACACT
1 GATGCCATGTCCCAAACAGGTCTTACACT
44020267 AGCACATACA
Statistics
Matches: 212, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 29 0.14
45 4 0.02
46 2 0.01
47 15 0.07
48 30 0.14
49 124 0.58
50 3 0.01
51 2 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGCTTGCATATCTTGAGGCA
Found at i:44020257 original size:142 final size:143
Alignment explanation
Indices: 44019943--44020272 Score: 396
Period size: 142 Copynumber: 2.3 Consensus size: 143
44019933 ACATAGGGTA
* * **
44019943 CGATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAATCTAAGTTAATGCCATGT
1 CGATGCCGATGCCATGTCCCAAACA-GGTCTTACACTGG--CACAAATCTAAGCCAATGCCATGT
* * * * * *
44020008 CCTAGACAGGTTTTACACTAACTTCCATACGTCGAGGCTGATGCCATGTCTCAGACAGGTCTTAC
63 CCCAAACAGGTCTTACACTAACTTCCATACGTCGAGGCAGATGCCATGTCCCAAACAGGTCTTAC
**
44020073 ACTGGTTCTCACTTAT
128 ACTGACTCTCACTTAT
* * * **
44020089 CTATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCACACCT-TAAGCCAATGCCATGTCCC
1 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTGGCACAAATCTAAGCCAATGCCATGTCCC
* * * *
44020153 AAACATGTCTTACACTAGCTTGCATATC-TTGAGGCAGATGCCATGTCCCAAACAGGTCTTACAC
66 AAACAGGTCTTACACTAACTTCCATA-CGTCGAGGCAGATGCCATGTCCCAAACAGGTCTTACAC
44020217 TGACTCTCA-TCTAT
130 TGACTCTCACT-TAT
*
44020231 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCACA
1 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTGGCACA
44020273 TACATCACCC
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
141 1 0.01
142 117 0.75
143 5 0.03
145 13 0.08
146 21 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (143 bp):
CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTGGCACAAATCTAAGCCAATGCCATGTCCC
AAACAGGTCTTACACTAACTTCCATACGTCGAGGCAGATGCCATGTCCCAAACAGGTCTTACACT
GACTCTCACTTAT
Found at i:44020268 original size:98 final size:94
Alignment explanation
Indices: 44019943--44020269 Score: 290
Period size: 98 Copynumber: 3.4 Consensus size: 94
44019933 ACATAGGGTA
* * * *
44019943 CGATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAAATCTAAGTTA-ATGCCATG
1 CGATGCCGATGCCATGTCCCAAACA-GGTCTTACACTAGCT-TCATATCT-AGTCAGATGCCATG
* * * *
44020007 TCCTAGACAGGTTTTACACTAACT-TCCATACGT
63 TCCCAGACAGGTCTTACACTGACTCT-CAT-CTT
* * * * * *
44020040 CGAGGCTGATGCCATGTCTCAGACAGGTCTTACACTGGTTCTCACTTATCTATGTC-GATGCCAT
1 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCT-TCA--TATCTA-GTCAGATGCCAT
* * *
44020104 GTCCCAGACAGGTCTTACACTG--GCACACCTT
62 GTCCCAGACAGGTCTTACACTGACTCTCATCTT
* * * *
44020135 --AAGCCAATGCCATGTCCCAAACATGTCTTACACTAGCTTGCATATCTTGAGGCAGATGCCATG
1 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTT-CATATC-T-AGTCAGATGCCATG
*
44020198 TCCCAAACAGGTCTTACACTGACTCTCATCTAT
63 TCCCAGACAGGTCTTACACTGACTCTCATCT-T
44020231 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGC
1 CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGC
44020270 ACATACATCA
Statistics
Matches: 185, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
91 4 0.02
92 4 0.02
93 62 0.34
95 7 0.04
96 21 0.11
97 21 0.11
98 66 0.36
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
CGATGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTTCATATCTAGTCAGATGCCATGTCC
CAGACAGGTCTTACACTGACTCTCATCTT
Found at i:44021361 original size:180 final size:179
Alignment explanation
Indices: 44021001--44021364 Score: 613
Period size: 180 Copynumber: 2.0 Consensus size: 179
44020991 ACCACCAAAA
* *
44021001 TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTTCAAAACCCTTATTTTGGTAAA
1 TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
*
44021066 AATTGGTGGAGAGGAGGAAAATGAAAGGTGATATCCTTTTCTCTTTATTTTATTTTATTTTATTT
66 AATTGGTGGAGAGAAGGAAAATGAAAGGTGATATCCTTTTCTC----TTTTATTTTATTTTATTT
*
44021131 CAAGTCAAATTAGTCACCAAATTTTAGCTAACCTTTGACCATTTCATTTTCTT
127 CAAGTCAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
*
44021184 TCACTTACTTGCAAGGGTGAAGAGTTGCTGAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
1 TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
44021249 AATTTCGGTGGAGAGAAGGAAAATGAAAGGTGATATCCTTTTCTC-TTTATTTTATTTTATTTCA
66 AA-TT-GGTGGAGAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTTATTTTATTTTATTTCA
*
44021313 AGTTAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
129 AGTCAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
44021364 T
1 T
44021365 ATCTCTATGG
Statistics
Matches: 173, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
180 69 0.40
183 64 0.37
184 2 0.01
185 38 0.22
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (179 bp):
TCACTTACTTGCAAGGGTGAAGAGTTGCTAAAATTTCAAGCTTCCAAAACCCTTATTTTGCTAAA
AATTGGTGGAGAGAAGGAAAATGAAAGGTGATATCCTTTTCTCTTTTATTTTATTTTATTTCAAG
TCAAATTAGTCACCAAATTTCAGCTAACCTTTGACCATTTCATTTTCTT
Found at i:44026401 original size:10 final size:9
Alignment explanation
Indices: 44026365--44026485 Score: 83
Period size: 10 Copynumber: 13.4 Consensus size: 9
44026355 ATTTTATTTG
44026365 AAAATTA-A
1 AAAATTATA
44026373 AATAATTATA
1 AA-AATTATA
*
44026383 TAAATTTATA
1 -AAAATTATA
44026393 AAAACTTATA
1 AAAA-TTATA
*
44026403 AAAATTCTAAA
1 AAAA-T-TATA
*
44026414 AAAATTCTA
1 AAAATTATA
44026423 ATAAATTATA
1 A-AAATTATA
44026433 AAAA-TATA
1 AAAATTATA
*
44026441 AATATTA-A
1 AAAATTATA
44026449 AAAATTAT-
1 AAAATTATA
*
44026457 -AAATTATT
1 AAAATTATA
*
44026465 AATA-TATA
1 AAAATTATA
*
44026473 TAAATTATA
1 AAAATTATA
44026482 AAAA
1 AAAA
44026486 AAATCATTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.08
8 21 0.24
9 25 0.28
10 26 0.30
11 9 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:44026407 original size:38 final size:34
Alignment explanation
Indices: 44026365--44026485 Score: 102
Period size: 32 Copynumber: 3.4 Consensus size: 34
44026355 ATTTTATTTG
44026365 AAAATTAAAATAATTATATAAATTTATAAAAACTTATA
1 AAAATTAAAA-AATTATATAAA-TTATAAAAA--TATA
*
44026403 AAAATTCTAAAAAAATTCTAATAAATTATAAAAATATA
1 AAAA-T-T-AAAAAATTAT-ATAAATTATAAAAATATA
* * *
44026441 AATATTAAAAAA-T-TATAAATTATTAATATATA
1 AAAATTAAAAAATTATATAAATTATAAAAATATA
*
44026473 TAAATTATAAAAA
1 AAAATTA-AAAAA
44026486 AAATCATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
32 21 0.29
33 6 0.08
34 1 0.01
35 6 0.08
36 1 0.01
37 1 0.01
38 11 0.15
39 1 0.01
40 15 0.21
41 9 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (34 bp):
AAAATTAAAAAATTATATAAATTATAAAAATATA
Found at i:44026452 original size:17 final size:18
Alignment explanation
Indices: 44026427--44026489 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
44026417 ATTCTAATAA
*
44026427 ATTATAAAAATATAAA-T
1 ATTAAAAAAATATAAATT
*
44026444 ATTAAAAAATTATAAATT
1 ATTAAAAAAATATAAATT
* *
44026462 ATT-AATATATATAAATT
1 ATTAAAAAAATATAAATT
*
44026479 ATAAAAAAAAT
1 ATTAAAAAAAT
44026490 CATTTATTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 27 0.75
18 9 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAAAAAATATAAATT
Found at i:44026487 original size:36 final size:36
Alignment explanation
Indices: 44026399--44026490 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 36
44026389 TATAAAAACT
* * *
44026399 TATAAAAATTCTAAAAAAATTCTAATAAATTATAAA
1 TATATAAATTATAAAAAAAATCTAATAAATTATAAA
* *
44026435 AATATAAA-TAT-TAAAAAAT-T-ATAAATTATTAATA
1 TATATAAATTATAAAAAAAATCTAATAAATTA-TAA-A
44026469 TATATAAATTATAAAAAAAATC
1 TATATAAATTATAAAAAAAATC
44026491 ATTTATTGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
32 8 0.18
33 4 0.09
34 14 0.32
35 5 0.11
36 13 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (36 bp):
TATATAAATTATAAAAAAAATCTAATAAATTATAAA
Found at i:44026950 original size:11 final size:10
Alignment explanation
Indices: 44026925--44026966 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
44026915 AATTTATTAG
*
44026925 AATTTCTATA
1 AATTTTTATA
44026935 AATTTTTATGA
1 AATTTTTAT-A
44026946 AATTTTTA-A
1 AATTTTTATA
44026955 TAATTTTTATA
1 -AATTTTTATA
44026966 A
1 A
44026967 GTTCATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 1 0.04
10 17 0.61
11 10 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (10 bp):
AATTTTTATA
Found at i:44026950 original size:21 final size:21
Alignment explanation
Indices: 44026913--44026964 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
44026903 GATAAATTTG
44026913 ATAATTTATTA-G-AATTTCT-
1 ATAATTT-TTATGAAATTTCTA
*
44026932 ATAAATTTTTATGAAATTTTTA
1 AT-AATTTTTATGAAATTTCTA
44026954 ATAATTTTTAT
1 ATAATTTTTAT
44026965 AAGTTCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.18
20 6 0.21
21 15 0.54
22 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (21 bp):
ATAATTTTTATGAAATTTCTA
Found at i:44033252 original size:22 final size:22
Alignment explanation
Indices: 44033205--44033252 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
44033195 GAAGCAAAGG
*
44033205 GACAAAGGCGTGCCAACAAGCC
1 GACAAAGGCGTGCCAACAAGCA
*
44033227 GACAAAGGCGTGCCAACAGGCA
1 GACAAAGGCGTGCCAACAAGCA
44033249 GACA
1 GACA
44033253 GGAATAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.29, T:0.04
Consensus pattern (22 bp):
GACAAAGGCGTGCCAACAAGCA
Found at i:44043630 original size:3 final size:3
Alignment explanation
Indices: 44043622--44043659 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
44043612 GAAATGTTGA
*
44043622 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44043660 AATATATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:44045150 original size:34 final size:35
Alignment explanation
Indices: 44045044--44045186 Score: 146
Period size: 35 Copynumber: 4.1 Consensus size: 35
44045034 ATGCCTTAAT
* *
44045044 TAAAGGCAACCTTAAAAAGGTTGGGATAGACCCGTC
1 TAAA-GCAATCTTAAAAAGGTTGGGATAGACACGTC
* *
44045080 T-AAGACAATCTTAAAAAGGTTGGGATATACTCGTC
1 TAAAG-CAATCTTAAAAAGGTTGGGATAGACACGTC
* * *
44045115 TAAAGTAATCTTAAAAA-GTTAGGATAGACAAGTC
1 TAAAGCAATCTTAAAAAGGTTGGGATAGACACGTC
* * * * *
44045149 TAAGGCAACCTCAAAAAGTTTGGGATAGACACATC
1 TAAAGCAATCTTAAAAAGGTTGGGATAGACACGTC
44045184 TAA
1 TAA
44045187 TAGGGTAGAT
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
34 27 0.31
35 57 0.65
36 4 0.05
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (35 bp):
TAAAGCAATCTTAAAAAGGTTGGGATAGACACGTC
Found at i:44045186 original size:69 final size:70
Alignment explanation
Indices: 44045054--44045186 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 70
44045044 TAAAGGCAAC
* ** * * * * *
44045054 CTTAAAAAGGTTGGGATAGACCCGTCTAAGACAATCTTAAAAAGGTTGGGATATACTCGTCTAAA
1 CTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATAGACACATCTAAA
44045119 GTAAT
66 GTAAT
* *
44045124 CTTAAAAA-GTTAGGATAGACAAGTCTAAGGCAACCTCAAAAAGTTTGGGATAGACACATCTAA
1 CTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATAGACACATCTAA
44045187 TAGGGTAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
69 45 0.85
70 8 0.15
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (70 bp):
CTTAAAAAGGTTAGGATAGACAAGTCTAAGACAACCTCAAAAAGGTTGGGATAGACACATCTAAA
GTAAT
Found at i:44046516 original size:7 final size:7
Alignment explanation
Indices: 44046504--44046538 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
44046494 ATCTTGTCTT
44046504 CCATCCC
1 CCATCCC
44046511 CCAT-CC
1 CCATCCC
44046517 CCAT-CC
1 CCATCCC
44046523 CCATCCC
1 CCATCCC
44046530 CCATCCC
1 CCATCCC
44046537 CC
1 CC
44046539 TAATCTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (7 bp):
CCATCCC
Found at i:44046520 original size:6 final size:6
Alignment explanation
Indices: 44046504--44046537 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
44046494 ATCTTGTCTT
44046504 CCATCCC CCATCC CCATCC CCATCCC CCATCC CC
1 CCAT-CC CCATCC CCATCC CCAT-CC CCATCC CC
44046538 CTAATCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.15, C:0.71, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCC
Found at i:44046522 original size:13 final size:14
Alignment explanation
Indices: 44046504--44046538 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
44046494 ATCTTGTCTT
44046504 CCATCCCCCAT-CC
1 CCATCCCCCATCCC
44046517 CCAT-CCCCATCCC
1 CCATCCCCCATCCC
44046530 CCATCCCCC
1 CCATCCCCC
44046539 TAATCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 10 0.50
14 4 0.20
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (14 bp):
CCATCCCCCATCCC
Found at i:44048699 original size:22 final size:22
Alignment explanation
Indices: 44048671--44048729 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
44048661 TAAAGTTATC
* *
44048671 ATGTCTCAAGACAAATGGGTGT
1 ATGTCTCAAGACAAAAGGGTAT
44048693 ATGTCTCAAGACAAAAGGGTAT
1 ATGTCTCAAGACAAAAGGGTAT
*
44048715 ATTTCTCAAGACAAA
1 ATGTCTCAAGACAAA
44048730 GTCTAATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (22 bp):
ATGTCTCAAGACAAAAGGGTAT
Found at i:44048738 original size:22 final size:21
Alignment explanation
Indices: 44048674--44048749 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
44048664 AGTTATCATG
* * *
44048674 TCTCAAGACAAATGGGTGTATG
1 TCTCAAGACAAA-GGCTATATC
* *
44048696 TCTCAAGACAAAAGGGTATATT
1 TCTCAAGAC-AAAGGCTATATC
*
44048718 TCTCAAGACAAAGTCTAATATC
1 TCTCAAGACAAAGGCT-ATATC
*
44048740 TCTCGAGACA
1 TCTCAAGACA
44048750 TGGCCCTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.11
22 38 0.83
23 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (21 bp):
TCTCAAGACAAAGGCTATATC
Found at i:44050289 original size:3 final size:3
Alignment explanation
Indices: 44050281--44050528 Score: 68
Period size: 3 Copynumber: 84.0 Consensus size: 3
44050271 ATTGGACATT
* * * *
44050281 TTA TTA TTA TT- TTA ATA ATA TTA TTG TT- GTA TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * * * *
44050325 TATG TTA CTA TTA TGT- TCA TTA TTT TTA CTT- TTA TTA TTC TTT TTA
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
** * * * * * *
44050371 TTA AGA TTA TTT TTA CTA TTA TT- TTT TTA -TA CTA TAA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * *
44050417 TTA ATA -TA TTA TT- TTC TCC CTA TTA TTA TTA -TA TCA TTA TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
44050462 TTA TTGA TGTA TTA TTA TTT TTA TTT TCTA CT- TTA ATA TTA TTA TT-
1 TTA TT-A T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
44050508 GTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
44050529 CCATATCATT
Statistics
Matches: 173, Mismatches: 54, Indels: 36
0.66 0.21 0.14
Matches are distributed among these distances:
2 17 0.10
3 142 0.82
4 13 0.08
5 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:44050457 original size:17 final size:17
Alignment explanation
Indices: 44050437--44050480 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
44050427 ATTTTCTCCC
44050437 TATTATTATTATATCAT-
1 TATTATTATTAT-TCATG
* *
44050454 TATTATTCTTATTGATG
1 TATTATTATTATTCATG
44050471 TATTATTATT
1 TATTATTATT
44050481 TTTATTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (17 bp):
TATTATTATTATTCATG
Found at i:44050460 original size:20 final size:20
Alignment explanation
Indices: 44050437--44050539 Score: 64
Period size: 20 Copynumber: 5.0 Consensus size: 20
44050427 ATTTTCTCCC
44050437 TATTATTATTATATCATTAT
1 TATTATTATTATATCATTAT
* *
44050457 TATTCTTATTGATGT-ATTAT
1 TATTATTATT-ATATCATTAT
* * * * *
44050477 TATTTTTATTTTCTACTTTAA
1 TATTATTATTATAT-CATTAT
*
44050498 TATTATTATTGTATTATCACTAT
1 TATTATTA-T-TA-TATCATTAT
**
44050521 TATTATTACCATATCATTA
1 TATTATTATTATATCATTA
44050540 ATCTAATTAA
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 14 0.23
22 1 0.02
23 12 0.20
24 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTATTATTATATCATTAT
Found at i:44057102 original size:14 final size:14
Alignment explanation
Indices: 44057083--44057109 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44057073 ATTGGTTTAT
44057083 TTATAATTTAGTCC
1 TTATAATTTAGTCC
44057097 TTATAATTTAGTC
1 TTATAATTTAGTC
44057110 ATTAGCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
TTATAATTTAGTCC
Found at i:44066717 original size:33 final size:33
Alignment explanation
Indices: 44066670--44066733 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
44066660 TGTGTACACT
**
44066670 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
44066703 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
44066734 CTTGGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:44073066 original size:16 final size:16
Alignment explanation
Indices: 44073040--44073087 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
44073030 TAGTACATTT
44073040 TAATT-ATTTATATAA
1 TAATTAATTTATATAA
*
44073055 TAATTAATTTATATTA
1 TAATTAATTTATATAA
44073071 T-ATATAATTT-TATAA
1 TAAT-TAATTTATATAA
44073086 TA
1 TA
44073088 TAATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTAATTTATATAA
Found at i:44073366 original size:20 final size:20
Alignment explanation
Indices: 44073339--44073381 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44073329 TATTGAGTAT
44073339 ATTAAAAATGCTTTAATTATA
1 ATTAAAAA-GCTTTAATTATA
* *
44073360 ATTAAAAAGTTTTTATTATA
1 ATTAAAAAGCTTTAATTATA
44073380 AT
1 AT
44073382 ATTTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTAAAAAGCTTTAATTATA
Found at i:44083549 original size:40 final size:40
Alignment explanation
Indices: 44083512--44083735 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
44083502 GCTACTCGTT
*
44083512 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44083552 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
44083592 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44083631 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44083670 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44083711 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44083736 CATCATTCGA
Statistics
Matches: 160, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 6 0.04
39 58 0.36
40 83 0.52
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44084929 original size:56 final size:56
Alignment explanation
Indices: 44084862--44085037 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
44084852 TATTAGTTTA
44084862 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44084918 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAATATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44084974 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44085030 TTGCCCAT
1 TTGCCCAT
44085038 CATCCCTTGT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44086170 original size:32 final size:32
Alignment explanation
Indices: 44086127--44086188 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
44086117 TGGGGTTCGT
*
44086127 GGGTCCGTAACTGAACGACTTCGGCCCAATGG
1 GGGTCCATAACTGAACGACTTCGGCCCAATGG
44086159 GGGTCCATAACTGAACGACTTCGGCCCAAT
1 GGGTCCATAACTGAACGACTTCGGCCCAAT
44086189 AAAGTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.19
Consensus pattern (32 bp):
GGGTCCATAACTGAACGACTTCGGCCCAATGG
Found at i:44091731 original size:16 final size:16
Alignment explanation
Indices: 44091712--44091743 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44091702 ATATCTAGAT
*
44091712 TTTGTATCTGTGGAGG
1 TTTGTATATGTGGAGG
44091728 TTTGTATATGTGGAGG
1 TTTGTATATGTGGAGG
44091744 AAGTGTTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.44
Consensus pattern (16 bp):
TTTGTATATGTGGAGG
Found at i:44103074 original size:41 final size:41
Alignment explanation
Indices: 44103014--44103096 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
44103004 TATATAGGAC
44103014 TTAAATTAAAGTTTAGAAGACAATTGATTCAAACTTTTTTT
1 TTAAATTAAAGTTTAGAAGACAATTGATTCAAACTTTTTTT
*
44103055 TTAAATTAAAGTTTGGAAGACAATTGATTCAAACTTTTTTT
1 TTAAATTAAAGTTTAGAAGACAATTGATTCAAACTTTTTTT
44103096 T
1 T
44103097 CCTTATTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (41 bp):
TTAAATTAAAGTTTAGAAGACAATTGATTCAAACTTTTTTT
Found at i:44103188 original size:23 final size:23
Alignment explanation
Indices: 44103162--44103211 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
44103152 ATGCAATATA
*
44103162 TGAATTAAAAGCATTTATTATGT
1 TGAAGTAAAAGCATTTATTATGT
* *
44103185 TGAAGTACAATCATTTATTATGT
1 TGAAGTAAAAGCATTTATTATGT
44103208 TGAA
1 TGAA
44103212 AATAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (23 bp):
TGAAGTAAAAGCATTTATTATGT
Found at i:44113994 original size:5 final size:5
Alignment explanation
Indices: 44113984--44114009 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44113974 ACACTAGAAC
44113984 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
44114010 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:44114253 original size:2 final size:2
Alignment explanation
Indices: 44114248--44114278 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44114238 AGGGGGAAGG
44114248 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
44114279 GTGAGCTTTT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44118874 original size:19 final size:19
Alignment explanation
Indices: 44118868--44118904 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44118858 TGAAAAAAAT
44118868 AGAAAAAACTAAAAAATAA
1 AGAAAAAACTAAAAAATAA
* *
44118887 AGAAAAAATTTAAAAATA
1 AGAAAAAACTAAAAAATA
44118905 TTTTTTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (19 bp):
AGAAAAAACTAAAAAATAA
Found at i:44122734 original size:20 final size:20
Alignment explanation
Indices: 44122701--44122760 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
44122691 GAAAACTATA
44122701 AATTTA-AC-TAATAATTAT
1 AATTTATACATAATAATTAT
*
44122719 AATTTATACATAATAA-GAT
1 AATTTATACATAATAATTAT
*
44122738 AAATTGATA-ATAA-AATTAT
1 -AATTTATACATAATAATTAT
44122757 AATT
1 AATT
44122761 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.34
19 10 0.29
20 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
AATTTATACATAATAATTAT
Found at i:44132276 original size:15 final size:17
Alignment explanation
Indices: 44132251--44132285 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
44132241 TAAAATATAT
44132251 AAAGTAAAT-AAAAGAA
1 AAAGTAAATAAAAAGAA
44132267 AAAG-AAATAAAAAGAA
1 AAAGTAAATAAAAAGAA
44132283 AAA
1 AAA
44132286 AAGCAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAGTAAATAAAAAGAA
Found at i:44136488 original size:18 final size:18
Alignment explanation
Indices: 44136451--44136489 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44136441 TTGGAAATCA
*
44136451 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
44136469 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
44136487 AAA
1 AAA
44136490 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:44137281 original size:7 final size:7
Alignment explanation
Indices: 44137271--44137297 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44137261 GATAATGTCC
44137271 GATAAAT
1 GATAAAT
44137278 GATAAAT
1 GATAAAT
44137285 GATAAAT
1 GATAAAT
44137292 GATAAA
1 GATAAA
44137298 AATGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:44138160 original size:60 final size:60
Alignment explanation
Indices: 44138087--44138208 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
44138077 ATATAAGAGA
44138087 TGATTTATACATGTTAAGTGAATACATGTTATGGAAAGCATATGTGCATGGAAACTTAAT
1 TGATTTATACATGTTAAGTGAATACATGTTATGGAAAGCATATGTGCATGGAAACTTAAT
*
44138147 TGATTTATACATGTTAAGTGAATACATGTTATGGAAAGCATATGTGCATGGAAACTTGAT
1 TGATTTATACATGTTAAGTGAATACATGTTATGGAAAGCATATGTGCATGGAAACTTAAT
44138207 TG
1 TG
44138209 TTTGTTGAGC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (60 bp):
TGATTTATACATGTTAAGTGAATACATGTTATGGAAAGCATATGTGCATGGAAACTTAAT
Found at i:44141891 original size:43 final size:42
Alignment explanation
Indices: 44141824--44142000 Score: 185
Period size: 43 Copynumber: 4.1 Consensus size: 42
44141814 ATTTTGTACA
* * * *
44141824 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCTCATACCG
1 ATGCCAACGTCCCAGAC-AGGTCTTACATGTAATCACATATCG
* * *
44141867 ATGCC-ACTGTCCCAGACAGAGTCTTACTTTTAAACACATATCG
1 ATGCCAAC-GTCCCAGACAG-GTCTTACATGTAATCACATATCG
* * *
44141910 ATGCCAACGTCCCAGACGTGGTCTTAAACGTAATCACATATCG
1 ATGCCAACGTCCCAGAC-AGGTCTTACATGTAATCACATATCG
* * *
44141953 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCA
1 ATGCCAACGTCCCAGACA-GGTCTTACATGTAATCACATATCG
44141996 ATGCC
1 ATGCC
44142001 TCATATACAT
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.03
43 106 0.95
44 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGTCTTACATGTAATCACATATCG
Done.