Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 163 of 230
Found at i:48334694 original size:18 final size:18
Alignment explanation
Indices: 48334671--48334707 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48334661 TGCAAATGGA
*
48334671 TCATTTCCATTTTAATTT
1 TCATTTCCATTTCAATTT
48334689 TCATTTCCATTTCAATTT
1 TCATTTCCATTTCAATTT
48334707 T
1 T
48334708 TGGAAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTCCATTTCAATTT
Found at i:48334817 original size:10 final size:10
Alignment explanation
Indices: 48334790--48334822 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
48334780 TTCTCATTTC
48334790 TCATTTCTTAT
1 TCATTTC-TAT
48334801 TCA-TTCTAT
1 TCATTTCTAT
48334810 TCATTTCTAT
1 TCATTTCTAT
48334820 TCA
1 TCA
48334823 AATACACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 12 0.57
11 3 0.14
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:48335511 original size:26 final size:25
Alignment explanation
Indices: 48335482--48335540 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
48335472 TAACCCCAAC
*
48335482 AAAATTTTAACGATTTTACCCCTTGT
1 AAAATTTTAACGATTTT-CCCCTGGT
*
48335508 AAAATTTTGACGATTTTCCCCTGGT
1 AAAATTTTAACGATTTTCCCCTGGT
48335533 AAAATTTT
1 AAAATTTT
48335541 GAGAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (25 bp):
AAAATTTTAACGATTTTCCCCTGGT
Found at i:48335534 original size:25 final size:26
Alignment explanation
Indices: 48335482--48335542 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
48335472 TAACCCCAAC
* *
48335482 AAAATTTTAACGATTTTACCCCTTGT
1 AAAATTTTGACGATTTTACCCCTGGT
48335508 AAAATTTTGACGATTTT-CCCCTGGT
1 AAAATTTTGACGATTTTACCCCTGGT
48335533 AAAATTTTGA
1 AAAATTTTGA
48335543 GAAAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 17 0.52
26 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
AAAATTTTGACGATTTTACCCCTGGT
Found at i:48347114 original size:22 final size:22
Alignment explanation
Indices: 48347086--48347134 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48347076 ACTGGTGTTG
* *
48347086 TGACACCTTAGTGTTTATGTAA
1 TGACACCCTAGTGTCTATGTAA
* *
48347108 TGACACCCTATTGTCTATGTCA
1 TGACACCCTAGTGTCTATGTAA
48347130 TGACA
1 TGACA
48347135 TTGAAGGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (22 bp):
TGACACCCTAGTGTCTATGTAA
Found at i:48350306 original size:119 final size:119
Alignment explanation
Indices: 48350095--48350329 Score: 425
Period size: 119 Copynumber: 2.0 Consensus size: 119
48350085 CAAGTCTCTT
*
48350095 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAT
1 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
* *
48350160 TAATCATGAGATGATTGTAATCACATACTTGTTTTACCCTATTTGCTAATATAA
66 TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATATAA
48350214 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
1 GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
* *
48350279 TAATCATGAGATTATTGTAATCACATACTCGTTTTACCCTGTTTGCGAATA
66 TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATA
48350330 AAGTCCTGAG
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 111 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (119 bp):
GGCATTAGATATATGATTGATTGGTCTTAGTGTTAGTGGGATATTGTTAGAGTATGCCTAAAGAC
TAATCATGAGATGATTGTAATCACATACTCGTTTTACCCTATTTGCGAATATAA
Found at i:48352556 original size:59 final size:58
Alignment explanation
Indices: 48352477--48352660 Score: 208
Period size: 59 Copynumber: 3.1 Consensus size: 58
48352467 TAAGTGTGGG
* * ** *
48352477 AAACGGTTGTGATTTTAAATCAGCAAACTATAAGATTCTAAAAATCTTGTAACCAGAGT
1 AAAC-GTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
* * * *
48352536 AAACAGTTGTGATTGTAAATCAACGAATTGCAAGATTCTGAAAATCTTGTATGC-GAAGT
1 AAAC-GTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAG-AGT
* * * *
48352595 AAACGATTGTGATTGTAAATCAGTGAACCGCAAGATTCTAAAAATATTGTAAGCAAAGT
1 AAACG-TTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
48352654 AAACGTT
1 AAACGTT
48352661 TATGATCATA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
58 4 0.04
59 100 0.96
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (58 bp):
AAACGTTGTGATTGTAAATCAGCGAACTGCAAGATTCTAAAAATCTTGTAAGCAGAGT
Found at i:48352673 original size:59 final size:58
Alignment explanation
Indices: 48352508--48352680 Score: 202
Period size: 59 Copynumber: 2.9 Consensus size: 58
48352498 AGCAAACTAT
* * ** **
48352508 AAGATTCTAAAAATCTTGTAACCAGAGTAAACAGTTGTGATTGTAAATCAACGAATTGC
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAAC-GTTGTGATTGTAAATCAGTGAACCGC
* * *
48352567 AAGATTCTGAAAATCTTGTATGCGAAGTAAACGATTGTGATTGTAAATCAGTGAACCGC
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAACG-TTGTGATTGTAAATCAGTGAACCGC
* * **
48352626 AAGATTCTAAAAATATTGTAAGCAAAGTAAACGTTTATGATCATAAATCAGTGAA
1 AAGATTCTAAAAATCTTGTAAGCAAAGTAAACG-TTGTGATTGTAAATCAGTGAA
48352681 ACTTAAGTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 1 0.01
59 95 0.99
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (58 bp):
AAGATTCTAAAAATCTTGTAAGCAAAGTAAACGTTGTGATTGTAAATCAGTGAACCGC
Found at i:48357640 original size:20 final size:19
Alignment explanation
Indices: 48357586--48357640 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
48357576 TACTTTCAAA
*
48357586 TTATATATATATGTAATAT
1 TTATATATATATATAATAT
* *
48357605 TTATAATTTATTTATAATATT
1 TTAT-ATATATATATAATA-T
*
48357626 TTATATATACATATA
1 TTATATATATATATA
48357641 TAAGAATGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATATATATATATAATAT
Found at i:48358376 original size:30 final size:30
Alignment explanation
Indices: 48358342--48358404 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
48358332 ACTTATTTTA
48358342 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
48358372 TTGTTATTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
48358402 TTG
1 TTG
48358405 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:48372632 original size:21 final size:22
Alignment explanation
Indices: 48372601--48372651 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
48372591 TTAGTTTTAG
48372601 ATGTTATTTAGTCC-TTAAAAC-C
1 ATGTT-TTTAG-CCATTAAAACAC
*
48372623 ATGTTTTTAGCCATTAAATCAC
1 ATGTTTTTAGCCATTAAAACAC
48372645 ATGTTTT
1 ATGTTTT
48372652 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (22 bp):
ATGTTTTTAGCCATTAAAACAC
Found at i:48373378 original size:190 final size:190
Alignment explanation
Indices: 48373042--48373423 Score: 629
Period size: 190 Copynumber: 2.0 Consensus size: 190
48373032 TAATGAATCC
* * *
48373042 TTGGCTAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCTAGATTCGATAGAAT
1 TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
* *
48373107 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCGGCTTTTAAGCAAAAGCG
66 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
* *
48373172 TAATTGGTGACTGTATGGAATAATTGCTTGTGGACATGCTTCAATGCATTATTTGGGAAT
131 TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
* *
48373232 TTGGATAATTTTTGGATGTATTGTTGTGTGAATTTATTGTGTTGAAGTTCCAGATTCGATAGAAC
1 TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
* * * *
48373297 CTTTTATGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCTTTCAGCTTTTAGGCAAAAGCA
66 CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
* *
48373362 TAATTAGTGGCTGTATGGAATAATTACTTGTGGACATGCTTCAATGCGTTATTTGGGAAT
131 TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
48373422 TT
1 TT
48373424 AGTAGTAGCC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 177 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (190 bp):
TTGGATAATTTTTGGATGTATTGTTGTGCGAATTTATTATGTTGAAGTTCCAGATTCGATAGAAC
CTTCTACGAGTAGAGATAAAGGCAAGGAAAAGCTAGTTTGAGCATTCAGCTTTTAAGCAAAAGCA
TAATTAGTGACTGTATGGAATAATTACTTGTGGACATGCTTCAATGCATTATTTGGGAAT
Found at i:48374012 original size:15 final size:16
Alignment explanation
Indices: 48373975--48374018 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
48373965 TTATCTTAAC
48373975 TTGTGAATATGTGTATA
1 TTGTG-ATATGTGTATA
*
48373992 TTGTGATATGTGT-TT
1 TTGTGATATGTGTATA
*
48374007 TTGTGACATGTG
1 TTGTGATATGTG
48374019 ACCATTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 8 0.32
17 5 0.20
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.50
Consensus pattern (16 bp):
TTGTGATATGTGTATA
Found at i:48383554 original size:22 final size:22
Alignment explanation
Indices: 48383527--48383569 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48383517 GCATTCTAAA
*
48383527 TTTGGCGTTTATGACATTCTGG
1 TTTGGCCTTTATGACATTCTGG
* *
48383549 TTTGGCCTTTGTGGCATTCTG
1 TTTGGCCTTTATGACATTCTG
48383570 TTAGACCTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTGGCCTTTATGACATTCTGG
Found at i:48383582 original size:20 final size:20
Alignment explanation
Indices: 48383554--48383603 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
48383544 TCTGGTTTGG
48383554 CCTTTGTGGCATTCTGTTAGA
1 CCTTTGTGGCATTCTGTTA-A
48383575 CC-TTGTGGCATTCTGTTAA
1 CCTTTGTGGCATTCTGTTAA
48383594 CCTTTGTGGC
1 CCTTTGTGGC
48383604 GTATTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.11
20 23 0.82
21 2 0.07
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.42
Consensus pattern (20 bp):
CCTTTGTGGCATTCTGTTAA
Found at i:48383629 original size:25 final size:25
Alignment explanation
Indices: 48383600--48383666 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
48383590 TTAACCTTTG
*
48383600 TGGCGTATTCTATATGTAGCATTTA
1 TGGCGTATTCTATATGTAGCACTTA
* * * *
48383625 TGGCGTATTTTGTATGTTGCCCTTA
1 TGGCGTATTCTATATGTAGCACTTA
* *
48383650 TAGCGTATACTATATGT
1 TGGCGTATTCTATATGT
48383667 TACATGTGTG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (25 bp):
TGGCGTATTCTATATGTAGCACTTA
Found at i:48401955 original size:3 final size:3
Alignment explanation
Indices: 48401947--48401989 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
48401937 TTTCTTTTAT
48401947 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48401990 CACATACGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48402421 original size:21 final size:20
Alignment explanation
Indices: 48402389--48402436 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
48402379 TTTGATGTCG
48402389 ATATTAGATTTTAGGTTTTTT
1 ATATTAGATTTT-GGTTTTTT
48402410 ATATTA-AGTTTT-GTTTTTT
1 ATATTAGA-TTTTGGTTTTTT
48402429 -T-TTAGATT
1 ATATTAGATT
48402437 ATATTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.20
18 2 0.08
19 7 0.28
20 1 0.04
21 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (20 bp):
ATATTAGATTTTGGTTTTTT
Found at i:48402443 original size:22 final size:22
Alignment explanation
Indices: 48402404--48402449 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48402394 AGATTTTAGG
* *
48402404 TTTTTTATATTAAGTTTTGTTT
1 TTTTTTAGATTAAGTTTTGATT
48402426 TTTTTTAGATTATA-TTTTGATT
1 TTTTTTAGATTA-AGTTTTGATT
48402448 TT
1 TT
48402450 GATTCTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTTAGATTAAGTTTTGATT
Found at i:48408241 original size:21 final size:22
Alignment explanation
Indices: 48408217--48408264 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
48408207 TATAAAAGAG
48408217 TTTGAATAAC-TTATATAAAAT
1 TTTGAATAACTTTATATAAAAT
* * * *
48408238 TTTGGATTACTTTTTATATAAT
1 TTTGAATAACTTTATATAAAAT
48408260 TTTGA
1 TTTGA
48408265 GCTGAAACTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (22 bp):
TTTGAATAACTTTATATAAAAT
Found at i:48410052 original size:17 final size:18
Alignment explanation
Indices: 48410014--48410055 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48410004 TACTTCTAAG
48410014 AAGCACTTTTAGGACAAA
1 AAGCACTTTTAGGACAAA
*
48410032 AAGCACTTTTGGGAC-AA
1 AAGCACTTTTAGGACAAA
48410049 AAGCACT
1 AAGCACT
48410056 CTTAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (18 bp):
AAGCACTTTTAGGACAAA
Found at i:48412742 original size:50 final size:50
Alignment explanation
Indices: 48412678--48412964 Score: 334
Period size: 50 Copynumber: 5.8 Consensus size: 50
48412668 GGTAGTGAGT
* * *
48412678 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* *
48412728 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGACAGAGGAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-GA-A
* * *
48412780 GT-C-AGTGTAAGACCATGTTTGGGACATGACATCGGCTC-G--AGATG-A
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-GAA
* * * *
48412825 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGTA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* * *
48412875 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
* * * *
48412925 GAGTTATTGTAAGACCATGTTTGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
48412965 CGATATGCGA
Statistics
Matches: 203, Mismatches: 26, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 35 0.17
48 1 0.00
49 2 0.01
50 155 0.76
51 3 0.01
52 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGAA
Found at i:48412856 original size:97 final size:98
Alignment explanation
Indices: 48412682--48412960 Score: 312
Period size: 97 Copynumber: 2.8 Consensus size: 98
48412672 GTGAGTGTGC
* *
48412682 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGAAGTGCCAGTGTAAGACCATG
* *
48412747 TCTGGGACATGGCATCGACACGGACAGAGGAGAG
65 TCTGGGAAATGGCATCGACACAGACAGAGGAGAG
* * *
48412781 TCAGTGTAAGACCATGTTTGGGACATGACATCGGCTC-GA-GATG-AGTGCCAGTGTAAGACCAT
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGA-GAAGTGCCAGTGTAAGACCAT
* * * *
48412843 GTCTGGGAAATGGCATCGGCACAGACCGAGTAGTG
64 GTCTGGGAAATGGCATCGACACAGACAGAGGAGAG
* * * * ** *
48412878 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGACAGAGGAGAGTTATTGTAAGACCAT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GAGAAGTGCCAGTGTAAGACCAT
* *
48412943 GTTTGGGACATGGCATCG
64 GTCTGGGAAATGGCATCG
48412961 GCACCGATAT
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
96 1 0.01
97 80 0.53
98 3 0.02
99 3 0.02
100 65 0.43
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.20
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGAAGTGCCAGTGTAAGACCATGT
CTGGGAAATGGCATCGACACAGACAGAGGAGAG
Found at i:48412945 original size:147 final size:148
Alignment explanation
Indices: 48412678--48413006 Score: 500
Period size: 147 Copynumber: 2.2 Consensus size: 148
48412668 GGTAGTGAGT
* *
48412678 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACCGAGAAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
*
48412743 CATGTCTGGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
66 CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
*
48412808 ACATCGGC-TCGAGATGA
131 ACATCGGCACCGAGATGA
*
48412825 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGTAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
* * *
48412890 CATGTCTAGGACATGGCATCGGCACGGACAGAGGAGAGTTATTGTAAGACCATGTTTGGGACATG
66 CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
* * *
48412955 GCATCGGCACCGATATGC
131 ACATCGGCACCGAGATGA
* * * *
48412973 GATCCCA-TGTAAGACCATATCTAGGATATGGCAT
1 G-TGCCAGTGTAAGACCATGTCTGGGAAATGGCAT
48413007 TGGCGTCCTA
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
147 130 0.79
148 31 0.19
149 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (148 bp):
GTGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCACAGACCGAGAAGTGCTAGTGTAAGAC
CATGTCTAGGACATGGCATCGACACGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
ACATCGGCACCGAGATGA
Found at i:48416836 original size:6 final size:6
Alignment explanation
Indices: 48416825--48416856 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
48416815 TTAAGTCTTT
48416825 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC AT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC AT
48416857 CCAGGATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTC
Found at i:48418256 original size:8 final size:8
Alignment explanation
Indices: 48418243--48418267 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48418233 GAGGATCAAT
48418243 TTGTTAAA
1 TTGTTAAA
48418251 TTGTTAAA
1 TTGTTAAA
48418259 TTGTTAAA
1 TTGTTAAA
48418267 T
1 T
48418268 GTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TTGTTAAA
Found at i:48419756 original size:22 final size:23
Alignment explanation
Indices: 48419731--48419776 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
48419721 AGATGTAGTG
*
48419731 AATAGAAAATGAAAGTTA-GCTT
1 AATAGAAAATGAAAATTATGCTT
* *
48419753 AATATATAATGAAAATTATGCTT
1 AATAGAAAATGAAAATTATGCTT
48419776 A
1 A
48419777 GTTATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (23 bp):
AATAGAAAATGAAAATTATGCTT
Found at i:48419978 original size:20 final size:20
Alignment explanation
Indices: 48419938--48419979 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48419928 ATAATGGTAT
* * *
48419938 GTATAGGATGTTTTGTTATG
1 GTATAGGATGATATGTAATG
48419958 GTATAGGATGATATGTAATG
1 GTATAGGATGATATGTAATG
48419978 GT
1 GT
48419980 GGTTTGGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (20 bp):
GTATAGGATGATATGTAATG
Found at i:48424953 original size:13 final size:13
Alignment explanation
Indices: 48424935--48424959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48424925 TCGTAACATT
48424935 CTTGTTTTATTTA
1 CTTGTTTTATTTA
48424948 CTTGTTTTATTT
1 CTTGTTTTATTT
48424960 GCACATTTTA
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:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (13 bp):
CTTGTTTTATTTA
Found at i:48429134 original size:24 final size:24
Alignment explanation
Indices: 48429107--48429158 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48429097 TTAGTAAGTC
*
48429107 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48429131 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48429155 AAAT
1 AAAT
48429159 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48429331 original size:18 final size:18
Alignment explanation
Indices: 48429308--48429345 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48429298 GTATGTGTAA
*
48429308 GGTTTGGAAAGCTATGTT
1 GGTTTGAAAAGCTATGTT
*
48429326 GGTTTGAAAAGCTTTGTT
1 GGTTTGAAAAGCTATGTT
48429344 GG
1 GG
48429346 AAAGCTATGC
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:0.05, G:0.34, T:0.39
Consensus pattern (18 bp):
GGTTTGAAAAGCTATGTT
Found at i:48434380 original size:8 final size:8
Alignment explanation
Indices: 48434367--48434391 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48434357 TTTTAAATAA
48434367 TATTTTAT
1 TATTTTAT
48434375 TATTTTAT
1 TATTTTAT
48434383 TATTTTAT
1 TATTTTAT
48434391 T
1 T
48434392 GTTTAGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:48434827 original size:11 final size:11
Alignment explanation
Indices: 48434797--48434829 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
48434787 TTGATATGTT
48434797 AGTGAAGAGAA
1 AGTGAAGAGAA
*
48434808 AAT-AAGAGAA
1 AGTGAAGAGAA
48434818 AGTGAAGAGAA
1 AGTGAAGAGAA
48434829 A
1 A
48434830 TAGTATCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:48437114 original size:101 final size:102
Alignment explanation
Indices: 48436989--48437173 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
48436979 AAAGTGATGG
*
48436989 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
48437052 ACTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
48437090 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
48437155 CTATGTGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
48437174 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATATGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:48437116 original size:51 final size:49
Alignment explanation
Indices: 48436986--48437171 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
48436976 GTGAAAGTGA
* *
48436986 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATA-G-T
* * *
48437036 AGGTCACATGTGTAGTACTAT-ATGCAGGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGA-GCAGGCTACTACGTGTACCAGATAG-T
* * * *
48437086 TCGATCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGT
*
48437136 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGAGCAGGCTACTA
48437172 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
50 42 0.37
51 70 0.61
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGT
Found at i:48440649 original size:18 final size:19
Alignment explanation
Indices: 48440610--48440649 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
48440600 GTGGACAGCT
48440610 TGTTATATACATATAAGCA
1 TGTTATATACATATAAGCA
*
48440629 TGTTATATACAT-TAAGGA
1 TGTTATATACATATAAGCA
48440647 TGT
1 TGT
48440650 GGAATGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (19 bp):
TGTTATATACATATAAGCA
Found at i:48443562 original size:30 final size:30
Alignment explanation
Indices: 48443491--48443563 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
48443481 ATAGGCTAGG
*
48443491 ACACGACCATGTGTCCTTAGTTCGAAGGTT
1 ACACGACCATGTGTCCCTAGTTCGAAGGTT
* *
48443521 ACAC-AGTCATGTGTCCCTAGTTCGAATGTT
1 ACACGA-CCATGTGTCCCTAGTTCGAAGGTT
48443551 ACACGACCATGTG
1 ACACGACCATGTG
48443564 ACCCCTGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (30 bp):
ACACGACCATGTGTCCCTAGTTCGAAGGTT
Found at i:48449690 original size:24 final size:24
Alignment explanation
Indices: 48449654--48449701 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48449644 AATAAAAACA
*
48449654 ATTAAAATCATATTTATATTAAAT
1 ATTAAAATCATATTAATATTAAAT
* * *
48449678 ATTAAATTTATATTAATGTTAAAT
1 ATTAAAATCATATTAATATTAAAT
48449702 GATAGTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAAAATCATATTAATATTAAAT
Found at i:48452729 original size:89 final size:88
Alignment explanation
Indices: 48452618--48452785 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 88
48452608 TAGTGAAAAA
* * *
48452618 AATTGTATGGTCGCAATAATAATTAATAATAGTGACATGATATGTTATCACTATTACATCAGTTC
1 AATTGTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAGTTC
48452683 TCAAGAAAAAAAAACTTGAAGGC
66 TCAAGAAAAAAAAACTTGAAGGC
* * * *
48452706 AATTCGTATGGCCACAATAATAATTAATAATAGTGACTTTATATGATGTCACTATTACATCATTT
1 AATT-GTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAGTT
* *
48452771 CTCGAGGAAAAAAAA
65 CTCAAGAAAAAAAAA
48452786 GAATTTGGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 4 0.06
89 66 0.94
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (88 bp):
AATTGTATGGCCACAATAATAATTAATAATAGTGACATGATATGATATCACTATTACATCAGTTC
TCAAGAAAAAAAAACTTGAAGGC
Found at i:48465829 original size:145 final size:145
Alignment explanation
Indices: 48465631--48465904 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
48465621 AACTCAAGGT
* *
48465631 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48465696 CAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 CAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
48465761 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
48465776 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48465841 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 CAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
48465905 TACTTTAAAC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
CAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:48465921 original size:29 final size:30
Alignment explanation
Indices: 48465882--48465960 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
48465872 CTTAATAATC
48465882 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
48465912 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
48465941 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48465961 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:48473902 original size:29 final size:29
Alignment explanation
Indices: 48473839--48473906 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
48473829 TAATCAACCG
48473839 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
48473868 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
48473897 CGCACACTTA
1 CGCACACTTA
48473907 CCTTTCCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:48474023 original size:172 final size:174
Alignment explanation
Indices: 48473728--48474053 Score: 593
Period size: 172 Copynumber: 1.9 Consensus size: 174
48473718 AACTCAAGGT
* *
48473728 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48473793 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
48473858 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
48473902 ACTTACC-TTTCCGCTGTCCAAAATCGACTCGGT-AAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48473965 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
48474030 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
48474054 TGTACAATTT
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
172 115 0.78
173 25 0.17
174 7 0.05
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:48474045 original size:29 final size:30
Alignment explanation
Indices: 48474006--48474084 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
48473996 CTTAATAATC
48474006 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
48474036 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
48474065 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48474085 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:48476519 original size:20 final size:20
Alignment explanation
Indices: 48476482--48476519 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48476472 TTTATATTAT
*
48476482 TTTCATATATTATTATTTAA
1 TTTCATATATTATAATTTAA
48476502 TTTCATA-ATGTATAATTT
1 TTTCATATAT-TATAATTT
48476520 TATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTCATATATTATAATTTAA
Found at i:48491081 original size:27 final size:27
Alignment explanation
Indices: 48491042--48491118 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
48491032 TTCCTTTCCT
* *
48491042 TAGATCGCTACAAAGGCTTCTATCTCA
1 TAGATTGCTACAAAGGCTTCCATCTCA
*
48491069 TAGATTGCCACAAAGGCTTCCATCTCA
1 TAGATTGCTACAAAGGCTTCCATCTCA
* *
48491096 TAGGTTGCTACAAAGACTTCCAT
1 TAGATTGCTACAAAGGCTTCCAT
48491119 TTTCTAGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (27 bp):
TAGATTGCTACAAAGGCTTCCATCTCA
Found at i:48501065 original size:19 final size:20
Alignment explanation
Indices: 48501038--48501080 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
48501028 TCAAATTTCT
*
48501038 TAATTAAAAAAATAT-AAAA
1 TAATAAAAAAAATATAAAAA
* *
48501057 TAATAAAAAACATTTAAAAA
1 TAATAAAAAAAATATAAAAA
48501077 TAAT
1 TAAT
48501081 CTTTTCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
TAATAAAAAAAATATAAAAA
Found at i:48504983 original size:27 final size:27
Alignment explanation
Indices: 48504945--48504998 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
48504935 GTATCTGAAT
* *
48504945 TAGCCGCTCGGACTGACCATCGGTCTA
1 TAGCCACTCGGACTGACCATCAGTCTA
48504972 TAGCCACTCGGACTGACCATCAGTCTA
1 TAGCCACTCGGACTGACCATCAGTCTA
48504999 AGGATGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGCCACTCGGACTGACCATCAGTCTA
Found at i:48509144 original size:20 final size:20
Alignment explanation
Indices: 48509121--48509159 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48509111 TAAGAAAAAG
48509121 ATAGAAAAATTGGACTGCAA
1 ATAGAAAAATTGGACTGCAA
48509141 ATAGAAAAATTGGACTGCA
1 ATAGAAAAATTGGACTGCA
48509160 GGGGTCACAC
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:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (20 bp):
ATAGAAAAATTGGACTGCAA
Found at i:48523755 original size:30 final size:30
Alignment explanation
Indices: 48523721--48523779 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
48523711 TTTTTCGTTA
* * *
48523721 TTCGATAATCAAAGTTATCCCTTTTCATAG
1 TTCGACAATCAAAGCTATCCCGTTTCATAG
* *
48523751 TTCGACATTCGAAGCTATCCCGTTTCATA
1 TTCGACAATCAAAGCTATCCCGTTTCATA
48523780 ATTTGATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (30 bp):
TTCGACAATCAAAGCTATCCCGTTTCATAG
Found at i:48523801 original size:30 final size:30
Alignment explanation
Indices: 48523767--48523965 Score: 119
Period size: 30 Copynumber: 6.7 Consensus size: 30
48523757 ATTCGAAGCT
* *
48523767 ATCCCGTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
48523797 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* * * *
48523827 ATCCCTTTTCATATATT-GATAGCCG-AAGCT
1 ATCCCTTTTCATA-ATTCGATGGTCGTCA-CC
* * * * *
48523857 AACCATTTTCAGAGATT-GATAG-C-TGAAGCC
1 ATCCCTTTTCATA-ATTCGATGGTCGT-CA-CC
* *
48523887 ATCCCTTTTCATAGATT-GATAG-C-TAAAGCC
1 ATCCCTTTTCATA-ATTCGATGGTCGT-CA-CC
* *
48523917 ATCCCTTTTCATAGTTCGATGGTCATCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
48523947 ATCCCTTTTCATAA-TCGAT
1 ATCCCTTTTCATAATTCGAT
48523966 AGCCGAAGCT
Statistics
Matches: 141, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
29 9 0.06
30 127 0.90
31 4 0.03
32 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.35
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:48523846 original size:60 final size:58
Alignment explanation
Indices: 48523767--48523988 Score: 186
Period size: 60 Copynumber: 3.7 Consensus size: 58
48523757 ATTCGAAGCT
* * *
48523767 ATCCCGTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAA-TTGATAG-CGTAAGCCATCCCTTTTCATAGTTCGATGGTC-TCACC
* * * * * *
48523827 ATCCCTTTTCATATATTGATAGCCG-AAGCTAACCATTTTCAGAGATT-GATAG-CTGAAGCC
1 ATCCCTTTTCATA-ATTGATAG-CGTAAGCCATCCCTTTTCATAG-TTCGATGGTCT-CA-CC
48523887 ATCCCTTTTCATAGATTGATAGC-TAAAGCCATCCCTTTTCATAGTTCGATGGTCATCACC
1 ATCCCTTTTCATA-ATTGATAGCGT-AAGCCATCCCTTTTCATAGTTCGATGGTC-TCACC
* * *
48523947 ATCCCTTTTCATAATCGATAGCCG-AAGCTATCCCTTTCCATA
1 ATCCCTTTTCATAATTGATAG-CGTAAGCCATCCCTTTTCATA
48523989 TCCGATAGCT
Statistics
Matches: 130, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
58 1 0.01
59 29 0.22
60 94 0.72
61 5 0.04
62 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (58 bp):
ATCCCTTTTCATAATTGATAGCGTAAGCCATCCCTTTTCATAGTTCGATGGTCTCACC
Found at i:48523979 original size:29 final size:30
Alignment explanation
Indices: 48523795--48523988 Score: 153
Period size: 30 Copynumber: 6.5 Consensus size: 30
48523785 ATGGTCGTCA
* * * *
48523795 CCATCCCTTTTCATAGTTCGATGGTCGTCA-
1 CCATCCCTTTTCATAGATCGATAGCCG-AAG
* *
48523825 CCATCCCTTTTCATATATTGATAGCCGAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* * * * * *
48523855 CTAACCATTTTCAGAGATTGATAGCTGAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* **
48523885 CCATCCCTTTTCATAGATTGATAGCTAAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* * *
48523915 CCATCCCTTTTCATAGTTCGATGGTC-ATCA-
1 CCATCCCTTTTCATAGATCGATAGCCGA--AG
48523945 CCATCCCTTTTCATA-ATCGATAGCCGAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* *
48523974 CTATCCCTTTCCATA
1 CCATCCCTTTTCATA
48523989 TCCGATAGCT
Statistics
Matches: 132, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 22 0.17
30 108 0.82
31 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (30 bp):
CCATCCCTTTTCATAGATCGATAGCCGAAG
Found at i:48523994 original size:29 final size:29
Alignment explanation
Indices: 48523947--48524013 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
48523937 GGTCATCACC
* *
48523947 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTCCATAATCGATAGCCGAACCT
*
48523976 ATCCCTTTCCAT-ATCCGATAGCTGAACCT
1 ATCCCTTTCCATAAT-CGATAGCCGAACCT
48524005 ATTCCCTTT
1 A-TCCCTTT
48524014 TATTCATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 24 0.73
30 7 0.21
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (29 bp):
ATCCCTTTCCATAATCGATAGCCGAACCT
Found at i:48531488 original size:60 final size:59
Alignment explanation
Indices: 48531421--48531615 Score: 189
Period size: 60 Copynumber: 3.3 Consensus size: 59
48531411 AGTTCGACAA
* *
48531421 CCGAAGCTATCCCGTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATGTGATAC
1 CCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAAT-TGATAG
* * * * * * * *
48531481 CCAAAGCTATCCATTTTTAGAGA-TTGATAGTAG-AAGCCATCCTTTTTCATATATTGATAG
1 CCGAAGCTATCCCTTTTCATA-ATTTGATGGTCGTCA-CCATCCCTTTTCATA-ATTGATAG
** * * *
48531541 GTGAATCCATCCCTTTTCAT-ATTTCGATGGTCGTCACCATCCCTTTTCATAATCGATAG
1 CCGAAGCTATCCCTTTTCATAATTT-GATGGTCGTCACCATCCCTTTTCATAATTGATAG
48531600 CCGAAGCTATCCCTTT
1 CCGAAGCTATCCCTTT
48531616 CCGTATCCGA
Statistics
Matches: 102, Mismatches: 27, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
58 1 0.01
59 22 0.22
60 75 0.74
61 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (59 bp):
CCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATTGATAG
Found at i:48531537 original size:30 final size:30
Alignment explanation
Indices: 48531503--48531615 Score: 92
Period size: 30 Copynumber: 3.8 Consensus size: 30
48531493 ATTTTTAGAG
*
48531503 ATTGATA-GTAGAAGCCATCCTTTTTCATAT
1 ATTGATAGGT-GAAGCCATCCCTTTTCATAT
*
48531533 ATTGATAGGTGAATCCATCCCTTTTCATAT
1 ATTGATAGGTGAAGCCATCCCTTTTCATAT
*
48531563 -TTCGAT-GGTCGTCA-CCATCCCTTTTCATA-
1 ATT-GATAGGT-G-AAGCCATCCCTTTTCATAT
* ** *
48531592 ATCGATAGCCGAAGCTATCCCTTT
1 ATTGATAGGTGAAGCCATCCCTTT
48531616 CCGTATCCGA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
28 1 0.01
29 18 0.26
30 46 0.68
31 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (30 bp):
ATTGATAGGTGAAGCCATCCCTTTTCATAT
Found at i:48534413 original size:48 final size:48
Alignment explanation
Indices: 48534357--48534451 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
48534347 CAAGAGTAGA
* *
48534357 AGCAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTTATTAAAAG
1 AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAAG
*
48534405 AGCAACTAACTCTAGGTTGATTAATTAAAATCTTTTTCTAATTAAAA
1 AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAA
48534452 CCCTATCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (48 bp):
AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAAG
Found at i:48538125 original size:23 final size:23
Alignment explanation
Indices: 48538074--48538130 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
48538064 ATTCATAATC
* *
48538074 ATAAT-AAAAATAAAACTAAGTA
1 ATAATAAAAAATAAAAATAAGGA
48538096 ATAATAAAAAATAAAAATAAAGGA
1 ATAATAAAAAATAAAAAT-AAGGA
*
48538120 AT-ATAATAAAT
1 ATAATAAAAAAT
48538131 CAACAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.17
23 19 0.63
24 6 0.20
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAATAAAAAATAAAAATAAGGA
Found at i:48538305 original size:17 final size:18
Alignment explanation
Indices: 48538260--48538306 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
48538250 AAAAAAATGA
48538260 AAATAAATATAATATAAAT
1 AAATAAA-ATAATATAAAT
*
48538279 AAGA-ATAATAA-ATAAAT
1 AA-ATAAAATAATATAAAT
48538296 AAATAAAATAA
1 AAATAAAATAA
48538307 GGAAGAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 4 0.17
19 4 0.17
20 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAATAATATAAAT
Found at i:48551937 original size:21 final size:21
Alignment explanation
Indices: 48551913--48551953 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48551903 TGTTGATGGA
*
48551913 AGGAAGTTGCTGCTGCAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
*
48551934 AGGAAGTTGTTGCTGAAGAA
1 AGGAAGTTGCTGCTGAAGAA
48551954 TAACAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.37, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:48554359 original size:48 final size:48
Alignment explanation
Indices: 48554288--48554390 Score: 147
Period size: 48 Copynumber: 2.1 Consensus size: 48
48554278 TTGAGTTTAC
*
48554288 ATAAACCTACACGAATAATGAATAATAGTGT-TTGGTTACTTGTTAGGG
1 ATAAACCTACACGAATAATGAATAATAGTGTCTT-GTTACCTGTTAGGG
*
48554336 ATAAACCTAC-CTGAATAGTGAATAATAGTGTCTTGTTACCTGTTAGGG
1 ATAAACCTACAC-GAATAATGAATAATAGTGTCTTGTTACCTGTTAGGG
*
48554384 TTAAACC
1 ATAAACC
48554391 CATATGATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 1 0.02
48 47 0.94
49 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (48 bp):
ATAAACCTACACGAATAATGAATAATAGTGTCTTGTTACCTGTTAGGG
Found at i:48559695 original size:106 final size:106
Alignment explanation
Indices: 48559507--48559714 Score: 362
Period size: 106 Copynumber: 2.0 Consensus size: 106
48559497 TAGTCCGGGG
* *
48559507 TTAAGGTGTTCACAGGTAAGCCATACCAATTTTGGGTTAATTCCCACCTAAATGGCTTCCTAAGG
1 TTAAGGTGTTCACAGATAAGCCATACCAATTTTGGGTTAATTCCCACCTAAATGACTTCCTAAGG
48559572 TCGTCAAGCCTAAGGTTTAAGTTCTTCCTCTCCCAAACAGC
66 TCGTCAAGCCTAAGGTTTAAGTTCTTCCTCTCCCAAACAGC
* *
48559613 TTAAGGTGTTCACAGATAAGCCATACCAATTTTGGGTTAATTCCCACCTAAATGACTTTCTAGGG
1 TTAAGGTGTTCACAGATAAGCCATACCAATTTTGGGTTAATTCCCACCTAAATGACTTCCTAAGG
* *
48559678 TCGTCAAGCGTAGGGTTTAAGTTCTTCCTCTCCCAAA
66 TCGTCAAGCCTAAGGTTTAAGTTCTTCCTCTCCCAAA
48559715 TAGCAAATCC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (106 bp):
TTAAGGTGTTCACAGATAAGCCATACCAATTTTGGGTTAATTCCCACCTAAATGACTTCCTAAGG
TCGTCAAGCCTAAGGTTTAAGTTCTTCCTCTCCCAAACAGC
Found at i:48565811 original size:66 final size:66
Alignment explanation
Indices: 48565699--48565824 Score: 216
Period size: 66 Copynumber: 1.9 Consensus size: 66
48565689 CATTTCAGAG
* * *
48565699 AGCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCATTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCAAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
48565764 T
66 T
*
48565765 AGCACACTCCCGCAAACCTCATCCTTACAGCGGGATTACTAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCGCAAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
48565825 TAATATAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.21
Consensus pattern (66 bp):
AGCACACTCCCGCAAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:48566040 original size:57 final size:59
Alignment explanation
Indices: 48565946--48566095 Score: 198
Period size: 57 Copynumber: 2.5 Consensus size: 59
48565936 ACCCTAATTC
* * * *
48565946 GGATTACCCGTCCGAGCTAAATCAATTTTACACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATC-TTTTTACACATATTCTTCGGGAGGGCTATATCGATA
48566004 -GATCACCCGTCCGGGCTAGATCTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCTTTTT-ACACATATTCTTCGGGAGGGCTATATC--GATA
48566065 GGATCACCCGTCCGGGCTAGATCCTTTTTAC
1 GGATCACCCGTCCGGGCTAGAT-CTTTTTAC
48566096 CGTCAATTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
56 4 0.05
57 46 0.57
60 1 0.01
61 1 0.01
62 23 0.28
63 6 0.07
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (59 bp):
GGATCACCCGTCCGGGCTAGATCTTTTTACACATATTCTTCGGGAGGGCTATATCGATA
Found at i:48566240 original size:21 final size:21
Alignment explanation
Indices: 48566208--48566249 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48566198 ATAAACATCC
48566208 AAATCATATTCACATCA-ATAA
1 AAATCATATTCA-ATCATATAA
48566229 AAAT-ATATTTCAATCATATAA
1 AAATCATA-TTCAATCATATAA
48566250 GCATATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATCATATTCAATCATATAA
Found at i:48581875 original size:21 final size:21
Alignment explanation
Indices: 48581837--48581876 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
48581827 AATCTTTATT
*
48581837 TCTATTATCCAAAACAAAAAA
1 TCTATTATCAAAAACAAAAAA
*
48581858 TCTATTAT-AAAAACCAAAA
1 TCTATTATCAAAAACAAAAA
48581877 TTTTACCACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTATTATCAAAAACAAAAAA
Found at i:48582389 original size:22 final size:21
Alignment explanation
Indices: 48582364--48582407 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
48582354 TATAATAGCG
*
48582364 AAATGATAGCAAAACAATGAAA
1 AAATAATAGCAAAACAAT-AAA
*
48582386 AAATAATGGCAAAACAATAAA
1 AAATAATAGCAAAACAATAAA
48582407 A
1 A
48582408 TTTACTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.66, C:0.09, G:0.11, T:0.14
Consensus pattern (21 bp):
AAATAATAGCAAAACAATAAA
Found at i:48586747 original size:21 final size:22
Alignment explanation
Indices: 48586718--48586769 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
48586708 AAAATAAAAT
48586718 AAACGAAAAAG-AACAAAGAAGA
1 AAACG-AAAAGTAACAAAGAAGA
48586740 AAAC-AAAAGTAACAAAGAAGA
1 AAACGAAAAGTAACAAAGAAGA
*
48586761 AAAGGAAAA
1 AAACGAAAA
48586770 ACTAAAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 14 0.52
22 8 0.30
ACGTcount: A:0.73, C:0.08, G:0.17, T:0.02
Consensus pattern (22 bp):
AAACGAAAAGTAACAAAGAAGA
Found at i:48592561 original size:20 final size:19
Alignment explanation
Indices: 48592528--48592567 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
48592518 AAATGAATCG
*
48592528 AAAAAGAACGAAGAAGAAA
1 AAAAAGAACAAAGAAGAAA
48592547 AAAAAGTAACAAAGAAGAAA
1 AAAAAG-AACAAAGAAGAAA
48592567 A
1 A
48592568 GGAAAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAGAACAAAGAAGAAA
Found at i:48593297 original size:51 final size:51
Alignment explanation
Indices: 48593221--48593318 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
48593211 AATTGTGAGC
48593221 TCACTAAACCTGCGAGCTAACCAAATATGCAAGCTCTACAAAACTGTATGT
1 TCACTAAACCTGCGAGCTAACCAAATATGCAAGCTCTACAAAACTGTATGT
* *
48593272 TCACTAAACCTGCGAGCTCACCAAATATGCAAGGTCTACAAAACTGT
1 TCACTAAACCTGCGAGCTAACCAAATATGCAAGCTCTACAAAACTGT
48593319 GAGCCTACCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (51 bp):
TCACTAAACCTGCGAGCTAACCAAATATGCAAGCTCTACAAAACTGTATGT
Found at i:48594161 original size:22 final size:20
Alignment explanation
Indices: 48594133--48594178 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48594123 TAGTTGATTG
*
48594133 AATAAAGGAAAAGCAACAAGTA
1 AATAAA-GAAAACCAA-AAGTA
*
48594155 AATAAAGAAAACCAAAATTA
1 AATAAAGAAAACCAAAAGTA
48594175 AATA
1 AATA
48594179 CGTAAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 8 0.36
22 6 0.27
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (20 bp):
AATAAAGAAAACCAAAAGTA
Found at i:48597136 original size:20 final size:20
Alignment explanation
Indices: 48597111--48597155 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48597101 AAATCTGTCG
*
48597111 AAAATAA-ATAAAAATAAATT
1 AAAATAATA-AAAAATAAAAT
*
48597131 AAAATATTAAAAAATAAAAT
1 AAAATAATAAAAAATAAAAT
48597151 AAAAT
1 AAAAT
48597156 TCAACATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAATAAAAAATAAAAT
Found at i:48604383 original size:33 final size:33
Alignment explanation
Indices: 48604339--48604404 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
48604329 TGCTAGGAAA
48604339 GGCCTTCCTAGGATGATTGACAACTCTTTATCT
1 GGCCTTCCTAGGATGATTGACAACTCTTTATCT
* *
48604372 GGCCTTTCTAGGATGATTGACACCTCTTTATCT
1 GGCCTTCCTAGGATGATTGACAACTCTTTATCT
48604405 ACTTCAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (33 bp):
GGCCTTCCTAGGATGATTGACAACTCTTTATCT
Found at i:48609123 original size:5 final size:5
Alignment explanation
Indices: 48609113--48609137 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48609103 TTTAACTAAG
48609113 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
48609138 GCTCAAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:48610523 original size:10 final size:10
Alignment explanation
Indices: 48610508--48610532 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48610498 AAATCTGTTG
48610508 AAAATAAATC
1 AAAATAAATC
48610518 AAAATAAATC
1 AAAATAAATC
48610528 AAAAT
1 AAAAT
48610533 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:48611753 original size:56 final size:55
Alignment explanation
Indices: 48611637--48611768 Score: 144
Period size: 55 Copynumber: 2.4 Consensus size: 55
48611627 ATTACTTTCC
* * *
48611637 CCCAAA-CCCTAAAAC-TTTTTCCCTTTTACTTTCCCCCCAAAACTTTTACTTCG
1 CCCAAACCCCAAAAACTTTTTTTCCTTTTACTTTCCCCCCAAAACTTTTAATTCG
* * * *
48611690 CCCAAACCCCCCAAAACTTTTTTTCCTTTTTCTTT-CCCTCAAAACTTTTAATTCAT
1 CCCAAA-CCCCAAAAACTTTTTTTCCTTTTACTTTCCCCCCAAAACTTTTAATTC-G
* *
48611746 CCTAAACCTCAAAAACTTTTTTT
1 CCCAAACCCCAAAAACTTTTTTT
48611769 TCGATTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
53 6 0.09
55 40 0.61
56 20 0.30
ACGTcount: A:0.27, C:0.34, G:0.01, T:0.39
Consensus pattern (55 bp):
CCCAAACCCCAAAAACTTTTTTTCCTTTTACTTTCCCCCCAAAACTTTTAATTCG
Found at i:48623054 original size:3 final size:3
Alignment explanation
Indices: 48623046--48623076 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48623036 CTAATTTGGC
48623046 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48623077 TTGTTCTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48627476 original size:374 final size:369
Alignment explanation
Indices: 48626719--48627445 Score: 1203
Period size: 374 Copynumber: 2.0 Consensus size: 369
48626709 TAGTATTTTT
*
48626719 TCTTTGAGTCTTGAGTTTAGAGGTGAATCTAGAGGGGTTGGCAAGGTGCTCGACTCCTTAAAATA
1 TCTTTGAGTCTTGAGTTTAGAGGTGAATCTAGAGGGGTTGGCAAGGTGCTAGACTCCTTAAAATA
48626784 GAAAATTACTATTTAGGCCCTTAAATTTTAAAAAATTTTAAATTAGTAAATGTAAAATTACACTT
66 GAAAATTACTATTTAGGCCCTTAAATTTTAAAAAATTTTAAATTAGTAAATGTAAAATTACACTT
48626849 TAGCCTCCTTAAAATTATAAAAATTCGATTTAATCCTTTAAAAATGATAAAGATATAGACAATAA
131 TAGCCTCCTTAAAATTATAAAAATTCGATTTAATCCTTTAAAAATGATAAAGATATAGACAATAA
* * *
48626914 AAAAAATTAAAATTTCATTCGGACCCCGCTAAAAAATTATTTTGGCTTTGCCCCTGGTTGAGTTC
196 AAAAAATTAAAATTTCATTCGGACCCCGCTAAAAAATTATTCTGCCTTCGCCCCTGGTTGAGTTC
*
48626979 GATTCTTCTACTACTCACATTTCTATTTTTTATTTCAATTGCTTCAAGCTTTTAAATTTTTAATT
261 GATTCTTCTACTACTCACATTTCTATTTTTTATTTCAATTACTTCAAGC-TTT--ATTTTTAATT
* *
48627044 AATATTTTTTTTAATATATTAGTTCTTTTGTTAGATAGTTGTAATTACA
323 AATA--TTTTTTAACATATTAGCTCTTTTGTTAGATAGTTGTAATTACA
*
48627093 TCTTTGAGTCTTGAGTTTAGAGGTGAATCTAGAGGGGTTGGCAGGGTGCTAGACTCCTTAAAATA
1 TCTTTGAGTCTTGAGTTTAGAGGTGAATCTAGAGGGGTTGGCAAGGTGCTAGACTCCTTAAAATA
* * * * *
48627158 GAAAATTATTATTTAGGCCCTTAATTTTTTAAAATTTTTAAATTAGTAAATGTAAAATTGCACTT
66 GAAAATTACTATTTAGGCCCTTAAATTTTAAAAAATTTTAAATTAGTAAATGTAAAATTACACTT
*
48627223 TGGCCTCCTTAAAATTATAAAAATTCGATTTAATCCTTTAAAAATGATAAAGATATAGACAAT-A
131 TAGCCTCCTTAAAATTATAAAAATTCGATTTAATCCTTTAAAAATGATAAAGATATAGACAATAA
* * *
48627287 AAAAAATTAAAATTTCATTCGGACCCTGCTAAAAAATTGTTCTGCCTTCGCCCCTGGTTGAGTTT
196 AAAAAATTAAAATTTCATTCGGACCCCGCTAAAAAATTATTCTGCCTTCGCCCCTGGTTGAGTTC
48627352 GATTCTTCTACTACTCACATTTCTATTTTTTATTTCATATTACTTCAAG-TTT-TTTTT-ATTAA
261 GATTCTTCTACTACTCACATTTCTATTTTTTATTTCA-ATTACTTCAAGCTTTATTTTTAATTAA
48627414 TA-TTTTTAACATATTAGCTCATTTTGTTAGAT
325 TATTTTTTAACATATTAGCTC-TTTTGTTAGAT
48627446 GGTTAGATAA
Statistics
Matches: 334, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
365 16 0.05
366 11 0.03
368 7 0.02
369 5 0.01
372 3 0.01
373 97 0.29
374 195 0.58
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (369 bp):
TCTTTGAGTCTTGAGTTTAGAGGTGAATCTAGAGGGGTTGGCAAGGTGCTAGACTCCTTAAAATA
GAAAATTACTATTTAGGCCCTTAAATTTTAAAAAATTTTAAATTAGTAAATGTAAAATTACACTT
TAGCCTCCTTAAAATTATAAAAATTCGATTTAATCCTTTAAAAATGATAAAGATATAGACAATAA
AAAAAATTAAAATTTCATTCGGACCCCGCTAAAAAATTATTCTGCCTTCGCCCCTGGTTGAGTTC
GATTCTTCTACTACTCACATTTCTATTTTTTATTTCAATTACTTCAAGCTTTATTTTTAATTAAT
ATTTTTTAACATATTAGCTCTTTTGTTAGATAGTTGTAATTACA
Found at i:48631022 original size:56 final size:54
Alignment explanation
Indices: 48630945--48631087 Score: 128
Period size: 56 Copynumber: 2.6 Consensus size: 54
48630935 TTATATTAAA
* * * *
48630945 ATTTTTCATCCATAA-AGTACTTATTCTAGCTATATAA-AAAAAAGTTGTTATATTGT
1 ATTTTACATCAATAATA-TACTTATT-TA-CAATATAAGAAAAAAATT-TTATATTGT
* * *
48631001 ATTTTACATCAATAATATACTTATTTACAATCTAAGAAAAAAATTTTGTATTTT
1 ATTTTACATCAATAATATACTTATTTACAATATAAGAAAAAAATTTTATATTGT
* * *
48631055 ATTTCATATCAATAATATATATCTATTTACAAT
1 ATTTTACATCAATAATATA-CT-TATTTACAAT
48631088 CTACGAACTA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
54 30 0.41
55 11 0.15
56 31 0.42
57 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (54 bp):
ATTTTACATCAATAATATACTTATTTACAATATAAGAAAAAAATTTTATATTGT
Found at i:48631066 original size:54 final size:58
Alignment explanation
Indices: 48630981--48631090 Score: 147
Period size: 54 Copynumber: 2.0 Consensus size: 58
48630971 TAGCTATATA
* *
48630981 AAAAAAAGTTGTTATATTGTATTTTACATCAATAATATA-CT-TATTTACAATCTAAG
1 AAAAAAAGTTGTTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTAAG
* * *
48631037 AAAAAAA-TT-TTGTATTTTATTTCATATCAATAATATATATCTATTTACAATCTA
1 AAAAAAAGTTGTTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTA
48631091 CGAACTAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 24 0.51
55 3 0.06
56 20 0.43
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (58 bp):
AAAAAAAGTTGTTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTAAG
Found at i:48639264 original size:39 final size:39
Alignment explanation
Indices: 48639210--48639287 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
48639200 AATAAACACT
48639210 TAATTAAAACTTTTCATTTTTCGATTCATTCAGGATGAA
1 TAATTAAAACTTTTCATTTTTCGATTCATTCAGGATGAA
48639249 TAATTAAAACTTTTCATTTTTCGATTCATTCAGGATGAA
1 TAATTAAAACTTTTCATTTTTCGATTCATTCAGGATGAA
48639288 CGCTTCAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (39 bp):
TAATTAAAACTTTTCATTTTTCGATTCATTCAGGATGAA
Found at i:48639601 original size:12 final size:12
Alignment explanation
Indices: 48639584--48639608 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48639574 AATTAACTAC
48639584 TTTAATATTAAA
1 TTTAATATTAAA
48639596 TTTAATATTAAA
1 TTTAATATTAAA
48639608 T
1 T
48639609 ATATTAAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:48641729 original size:27 final size:27
Alignment explanation
Indices: 48641699--48641876 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48641689 ATATTGAGTC
* * * *
48641699 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48641726 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48641753 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48641781 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48641808 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48641835 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48641862 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48641877 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48641838 original size:82 final size:81
Alignment explanation
Indices: 48641720--48641875 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48641710 TGCTATATAA
* *
48641720 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48641785 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48641802 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48641866 CACTTAGTGC
65 CACTTAGTGC
48641876 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48658966 original size:16 final size:15
Alignment explanation
Indices: 48658947--48658976 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48658937 TTTACTTCAT
48658947 TTGTATTTAGATTAAC
1 TTGTATTTAG-TTAAC
48658963 TTGTATTTAGTTAA
1 TTGTATTTAGTTAA
48658977 TGAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (15 bp):
TTGTATTTAGTTAAC
Found at i:48663063 original size:17 final size:17
Alignment explanation
Indices: 48663041--48663077 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
48663031 TACGTATCCA
*
48663041 TTCATTTTTTTCATTCT
1 TTCATTTTATTCATTCT
*
48663058 TTCATTTTATTCCTTCT
1 TTCATTTTATTCATTCT
48663075 TTC
1 TTC
48663078 CACGCTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCATTTTATTCATTCT
Found at i:48666269 original size:26 final size:26
Alignment explanation
Indices: 48666240--48666290 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
48666230 ATTTTTTAAA
48666240 TTTAAATAAAGATTTAAACATAATTC
1 TTTAAATAAAGATTTAAACATAATTC
* *
48666266 TTTAAATAAATATTTTAACATAATT
1 TTTAAATAAAGATTTAAACATAATT
48666291 TTCTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTAAATAAAGATTTAAACATAATTC
Found at i:48669232 original size:20 final size:20
Alignment explanation
Indices: 48669154--48669225 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
48669144 AAAAATATAA
* *
48669154 ATTTTGAAAATTTTATAAA-T
1 ATTTTGAATATTTGA-AAATT
*
48669174 ATTTTGAAT-TTTAAAAATT
1 ATTTTGAATATTTGAAAATT
48669193 ATTTTGAATATTTGAAAATT
1 ATTTTGAATATTTGAAAATT
*
48669213 ATTTTGATTATTT
1 ATTTTGAATATTT
48669226 TGTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.07
19 14 0.30
20 29 0.63
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTTGAATATTTGAAAATT
Found at i:48671920 original size:18 final size:18
Alignment explanation
Indices: 48671888--48671934 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
48671878 AATTATATCA
*
48671888 TATAATTTA-TATTATTT
1 TATAATTCATTATTATTT
48671905 T-TAATATCATTATTATTT
1 TATAAT-TCATTATTATTT
48671923 TATAATTCATTA
1 TATAATTCATTA
48671935 AATTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 15 0.58
19 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TATAATTCATTATTATTT
Found at i:48671939 original size:17 final size:19
Alignment explanation
Indices: 48671901--48671946 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
48671891 AATTTATATT
*
48671901 ATTTT-TAATATCATTATT
1 ATTTTATAATATCATTATA
48671919 ATTTTATAAT-TCATTA-A
1 ATTTTATAATATCATTATA
48671936 ATTTTAATAAT
1 ATTTT-ATAAT
48671947 CTAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATAATATCATTATA
Found at i:48678608 original size:87 final size:87
Alignment explanation
Indices: 48678454--48678998 Score: 851
Period size: 87 Copynumber: 6.3 Consensus size: 87
48678444 AACAGATTAG
* *
48678454 TAAAGA-ATCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
*
48678518 CATCAGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* *
48678540 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTTCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
*
48678605 CATCGGTTGCAGTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
48678627 TAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
48678691 CATCGGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* * * * *
48678713 TAAAGATAGCAGATCTTGCCTTCCTGAATTAACAACGAAGTAGATCAAAAACGAAGCCTTGCATC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
48678778 CATCGGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* *
48678800 TAAATATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
* *
48678865 CATCGGTTACAGTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* * * *
48678887 TAAAGATAGCAGATCTTGCCTTTCTGTATTAACAGCAAAGTAGATCGAAAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
* * * ***
48678952 CATCGGTTGTAATAGAGCTAAC
66 CATCGGTTGCATTGGAGCTGGT
48678974 TAAAGATAGCAGATCTTGCCTTCCT
1 TAAAGATAGCAGATCTTGCCTTCCT
48678999 AAGAACTAGT
Statistics
Matches: 422, Mismatches: 35, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
86 89 0.21
87 333 0.79
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (87 bp):
TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
CATCGGTTGCATTGGAGCTGGT
Found at i:48689465 original size:20 final size:20
Alignment explanation
Indices: 48689430--48689479 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
48689420 CTTTGCTACA
48689430 TGATTT-GTTGTTGTTTGAT
1 TGATTTAGTTGTTGTTTGAT
* *
48689449 TGATTTAGTTTTTGTTTGCT
1 TGATTTAGTTGTTGTTTGAT
48689469 TGATTTAGTTG
1 TGATTTAGTTG
48689480 CTGCAGCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.12, C:0.02, G:0.24, T:0.62
Consensus pattern (20 bp):
TGATTTAGTTGTTGTTTGAT
Found at i:48690184 original size:23 final size:22
Alignment explanation
Indices: 48690113--48690181 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 22
48690103 TATTAAATAT
48690113 TTATTTTCTTTTTT-C-TTTT-
1 TTATTTTCTTTTTTCCTTTTTC
*
48690132 TTATTTACTTTTTTCCTATTTTCC
1 TTATTTTCTTTTTTCCT-TTTT-C
* *
48690156 CT-TCTTCTTTTTTCCTTTTTC
1 TTATTTTCTTTTTTCCTTTTTC
48690177 TTATT
1 TTATT
48690182 CTTTCCCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 13 0.34
20 1 0.03
21 2 0.05
22 9 0.24
23 12 0.32
24 1 0.03
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATTTTCTTTTTTCCTTTTTC
Found at i:48690185 original size:20 final size:19
Alignment explanation
Indices: 48690116--48690185 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 19
48690106 TAAATATTTA
* *
48690116 TTTTCTTTTTTCTTTTTTA
1 TTTTCTTTTTTCCTTTTTC
*
48690135 TTTACTTTTTTCCTATTTTCCC
1 TTTTCTTTTTTCCT-TTTT--C
48690157 TTCTTCTTTTTTCCTTTTTC
1 TT-TTCTTTTTTCCTTTTTC
48690177 TTATTCTTT
1 TT-TTCTTT
48690186 CCCTTCCCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.29
20 13 0.31
22 6 0.14
23 11 0.26
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTTTTTTCCTTTTTC
Found at i:48691468 original size:19 final size:20
Alignment explanation
Indices: 48691440--48691478 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
48691430 TATTAGTGAT
*
48691440 TACATGTGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
48691459 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
48691479 AAACATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:48692576 original size:41 final size:41
Alignment explanation
Indices: 48692476--48692611 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
48692466 CGACTTCGAG
* * *
48692476 TCGATGAGGCACTAGGTGTCAA-TT--TACTTCG-GTTTAA
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* *
48692513 TCGATGAGACACTGGGTGTCAATTTACTACTTTGAATTTAT
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* *
48692554 TCGATGAGACACTAGGTATCAATCTACTACTTCGAA-TTAT
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* * *
48692594 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTAGGTG
48692612 CTAAACTGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
37 20 0.24
38 2 0.02
40 24 0.29
41 36 0.44
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (41 bp):
TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
Found at i:48694002 original size:36 final size:36
Alignment explanation
Indices: 48693961--48694031 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
48693951 ACATGTATGA
48693961 GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
1 GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
48693997 GTTTAATTGACTTCTGACCTGAATATTATATGAGA
1 GTTTAATTGACTTCTGACCTGAATATTATATGAGA
48694032 CAAAATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
Found at i:48694876 original size:20 final size:20
Alignment explanation
Indices: 48694832--48694911 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 20
48694822 ACACCACATG
* *
48694832 AGAGGCATCAAAGATGCGTAAC
1 AGAGGCACCAAAG-TGC-AAAC
48694854 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
*
48694874 AGAGGCA-CAAATGTGCAATC
1 AGAGGCACCAAA-GTGCAAAC
*
48694894 ATAGGCACCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
48694912 TCCCGTACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.08
20 29 0.56
21 7 0.13
22 12 0.23
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.11
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:48709415 original size:492 final size:490
Alignment explanation
Indices: 48708488--48709476 Score: 1714
Period size: 492 Copynumber: 2.0 Consensus size: 490
48708478 TTACATAAAC
*
48708488 AACCTTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
* *
48708553 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCCATTTAACC
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
*
48708618 AAAAACATAAGGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
131 AAAAACATAAAGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
48708683 CAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
196 CAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
* *
48708748 TAGTAAGTTCACATAACTGAATATATAACTTACCAATCAACCACAATTTAGGAGAGTAAATTAAA
261 TAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAA
* * *
48708813 TCATAATGCAACTCAATTTGGCCTCATTAGCTAAACACATAATCATCAGCAAAGTTAACTATGAA
326 TCATAATGCAACTCAATTTCGCCTCAATAGCTAAACACATAATCACCAGCAAAGTTAACTATGAA
*
48708878 ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATTGA
391 ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCGA
* * *
48708943 GCTTATGCTCTCTCGTAACCACACTGT-ACTCGTTG
456 ACTTATACTCTCTCGTAACAACACTGTGA-TCGTTG
* *
48708978 AACCGTTATTATAAACTTTAAAATTTACCCAATTTATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
48709043 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAAC-
48709108 AAAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
130 AAAAAACATAAAGTCCAAAAGTACC-AAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
*
48709173 TCCAAACCGTGTGAGCTTCCGAATCACTATAGAACACAG-AAAATTAAACGAAGTAAGCAATTAA
194 TCCAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATT-AACAAAGTAAGCAATTAA
** *
48709237 GCTTAGTAAGTTCGTATAACTGAAAATATAACTTACCAATCAACCATAATTTAGGAAAGTAAATT
258 GCTTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATT
*
48709302 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCT-AACACATAATCACCAGCGAAGTTAACTA
323 AAATCATAATGCAACTCAATTTCGCCTCAATAG-CTAAACACATAATCACCAGCAAAGTTAACTA
*
48709366 TGAAATCACATGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATA
387 TGAAATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATA
48709431 TCGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
452 TCGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
*
48709470 ATCCGTT
1 AACCGTT
48709477 TGGAATACTA
Statistics
Matches: 472, Mismatches: 22, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
490 125 0.26
491 29 0.06
492 315 0.67
493 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (490 bp):
AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
AAAAACATAAAGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
CAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
TAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAA
TCATAATGCAACTCAATTTCGCCTCAATAGCTAAACACATAATCACCAGCAAAGTTAACTATGAA
ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCGA
ACTTATACTCTCTCGTAACAACACTGTGATCGTTG
Found at i:48711510 original size:492 final size:490
Alignment explanation
Indices: 48710583--48711571 Score: 1703
Period size: 492 Copynumber: 2.0 Consensus size: 490
48710573 TTACATAAAC
*
48710583 AACCTTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
* *
48710648 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCCATTTAACC
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
*
48710713 AAAAACATAAGGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
131 AAAAACATAAAGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
*
48710778 CAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
196 CAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
* * *
48710843 TAGTAAGTTCACGTAACTGAATATATAACTTACCAATCAACCACAATTTAGGAGAGTAAATTAAA
261 TAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAA
* * *
48710908 TCATAATGCAACTCAATTTGGCCTCATTAGCCAAACACATAATCATCAGCAAAGTTAACTATGAA
326 TCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGAA
*
48710973 ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATTGA
391 ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCGA
* * *
48711038 GCTTATGCTCTCTCGTAACCACACTGT-ACTCGTTG
456 ACTTATACTCTCTCGTAACAACACTGTGA-TCGTTG
* *
48711073 AACCGTTATTATAAACTTTAAAATTTACCCAATTTATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
48711138 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAAC-
48711203 AAAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
130 AAAAAACATAAAGTCCAAAAGTACC-AAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
*
48711268 TCCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAG-AAAATTAAACGAAGTAAGCAATTAA
194 TCCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATT-AACAAAGTAAGCAATTAA
** *
48711332 GCTTAGTAAGTTCGTATAACTGAAAATATAACTTACCAATCAACCATAATTTAGGAAAGTAAATT
258 GCTTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATT
* *
48711397 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCTAACACATAATCACCAGCGAAGTTAACTAT
323 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTAT
*
48711462 GAAATCACATGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATAT
388 GAAATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATAT
48711527 CGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
453 CGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
*
48711565 ATCCGTT
1 AACCGTT
48711572 TGGAATACTA
Statistics
Matches: 470, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
490 125 0.27
491 29 0.06
492 315 0.67
493 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (490 bp):
AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
AAAAACATAAAGTCCAAAAGTACCAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTTC
CAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGCT
TAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAA
TCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGAA
ATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCGA
ACTTATACTCTCTCGTAACAACACTGTGATCGTTG
Found at i:48713606 original size:491 final size:491
Alignment explanation
Indices: 48712679--48713667 Score: 1705
Period size: 491 Copynumber: 2.0 Consensus size: 491
48712669 TTACATAAAC
*
48712679 AACCTTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
* *
48712744 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCCATTTAACC
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
* *
48712809 AAAAACATAAGGTCCAAAAGTACCAAAGTGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
131 AAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
*
48712874 CCAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
196 CCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
* * *
48712939 TTAGTAAGTTCACGTAACTGAATATATAACTTACCAATCAACCACAATTTAGGAGAGTAAATTAA
261 TTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAA
* * *
48713004 ATCATAATGCAACTCAATTTGGCCTCATTAGCCAAACACATAATCATCAGCAAAGTTAACTATGA
326 ATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGA
*
48713069 AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATTG
391 AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCG
* * *
48713134 AGCTTATGCTCTCTCGTAACCACACTGT-ACTCGTTG
456 AACTTATACTCTCTCGTAACAACACTGTGA-TCGTTG
*
48713170 AACCGTTATTATAAACTTTAAAATTTACCCAATT-ATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
48713234 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAAC-
48713299 AAAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
130 AAAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
*
48713364 TCCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAG-AAAATTAAACGAAGTAAGCAATTAA
195 TCCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATT-AACAAAGTAAGCAATTAA
** *
48713428 GCTTAGTAAGTTCGTATAACTGAAAATATAACTTACCAATCAACCATAATTTAGGAAAGTAAATT
259 GCTTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATT
* *
48713493 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCTAACACATAATCACCAGCGAAGTTAACTAT
324 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTAT
*
48713558 GAAATCACATGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATAT
389 GAAATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATAT
48713623 CGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
454 CGAACTTATACTCTCTCGTAACAACACTGTGATCGTTG
*
48713661 ATCCGTT
1 AACCGTT
48713668 TGGAATACTA
Statistics
Matches: 470, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
490 99 0.21
491 370 0.79
492 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (491 bp):
AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
AAAAACATAAAGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
CCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
TTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAA
ATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGA
AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATATCG
AACTTATACTCTCTCGTAACAACACTGTGATCGTTG
Found at i:48717969 original size:18 final size:19
Alignment explanation
Indices: 48717927--48717969 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
48717917 AATAAAGAAG
*
48717927 AAATTTTTACTTTATTTACT
1 AAATTTTTA-TTTATTTAAT
*
48717947 TAATTTTT-TTTATTTAAT
1 AAATTTTTATTTATTTAAT
48717965 AAATT
1 AAATT
48717970 ACATAAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.65
20 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
AAATTTTTATTTATTTAAT
Found at i:48719239 original size:547 final size:547
Alignment explanation
Indices: 48718201--48719294 Score: 1823
Period size: 547 Copynumber: 2.0 Consensus size: 547
48718191 CGAATCACTA
*
48718201 TAAAACACAGAAAAATTAACAAAGTAAGCAATTAAGCTTAGTAAGTTTGCATAACTGGAAATATA
1 TAAAACACAGAAAAATTAACAAAGTAAGCAATTAAGCTTAGTAAGTTCGCATAACTGGAAATATA
* * *
48718266 ACTTACCAATCAACCACAATTTAGGAGAGTAAATTAAATCATAATGCACCTCAATTTGGCCTCAT
66 ACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAATCATAATGCAACTCAATTTAGCCTCAT
*
48718331 TAGCCTAACACATAATCACTAGCAAAGTTAACTATGAAATCACAAGTCTCATAGATTCAATTACC
131 TAGCCTAACACATAATCACCAGCAAAGTTAACTATGAAATCACAAGTCTCATAGATTCAATTACC
* * * *
48718396 ACATGATTCACATACATATATGTACTAGTTCATATCGAGCTTATGCTCTCTCGTAAGCACACTGT
196 ACATGATTCACATACATACATATACTAGTTCATATCGAACTTATACTCTCTCGTAAGCACACTGT
* * *
48718461 ACTCGTTGAACCGTTAGGAATATTATCGGATACTTGGGTGTCTGGTATACTAAGTGCCAATACAT
261 ACTCGTTGAACCGTTAGGAATACTATCGGATACTTGGGTGTCTGGCACACTAAGTGCCAATACAT
* *
48718526 GGTCGAAACCACCTCAATCTCATATCTCATATAGATGCTCACTCTCGAGCCATCACTGGGTCTGA
326 CGTCCAAACCACCTCAATCTCATATCTCATATAGATGCTCACTCTCGAGCCATCACTGGGTCTGA
* * *
48718591 TCACACAAGCTGACGGTCAAAACGTAGCTACACGGTGCTGCTCGCACAAGCTGTCGATTAACCTC
391 TCACAAAAGCTGACGGTCAAAACGTAGCTACACGGTGCTGCTCGCAAAAGCTGTCGAGTAACCTC
* * * * *
48718656 AAGAAATGCCAAAAAGTCAGCCATCGATAGGACATACAAGACAAGCACCCAAACCAGAATAACCC
456 AACAAATGCCAAAAAGTCAGCCACCGATAAGACATACAAGACAAGCACCCAAAACACAATAACCC
48718721 TTAATGACATGTCATTTGTGTCCTATC
521 TTAATGACATGTCATTTGTGTCCTATC
*
48718748 TAAAACACAGAAAAATTAACAAAGTAAGCAATTAAGTTTAGTAAGTTCGCATAACTGGAAATATA
1 TAAAACACAGAAAAATTAACAAAGTAAGCAATTAAGCTTAGTAAGTTCGCATAACTGGAAATATA
*
48718813 ACTTACCAATCAACCATAATTTAGGAAAGTAAATTAAATCATAATGCAACTCAATTTAGCCTCAT
66 ACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAATCATAATGCAACTCAATTTAGCCTCAT
*
48718878 TAGCCTAACACATAATCACCAGCGAAGTTAACTATGAAATCACAAGTCTCATAGATTCAATTACC
131 TAGCCTAACACATAATCACCAGCAAAGTTAACTATGAAATCACAAGTCTCATAGATTCAATTACC
* *
48718943 ACATGATTCACATACATACCTATACTAGTTCATATCGAACTTATACTTTCTCGTAA-CAACACTG
196 ACATGATTCACATACATACATATACTAGTTCATATCGAACTTATACTCTCTCGTAAGC-ACACTG
* * *
48719007 TGCTCGTTGAACCGTTTGGAATACTATCGGATACTTGGGTGTCTTGCACACTAAGTGCCAATACA
260 TACTCGTTGAACCGTTAGGAATACTATCGGATACTTGGGTGTCTGGCACACTAAGTGCCAATACA
* *
48719072 TCGTCCAAACCACCTCAATCTCGTATCTCATATAGATGCTCACTTTCGAGCCATCACTGGGTCTG
325 TCGTCCAAACCACCTCAATCTCATATCTCATATAGATGCTCACTCTCGAGCCATCACTGGGTCTG
* *
48719137 CTCACAAAAGCTGACGGTCAAAATGTAGCTACACGGTGCTGCT-GACAAAAGCTGTCGAGTAACC
390 ATCACAAAAGCTGACGGTCAAAACGTAGCTACACGGTGCTGCTCG-CAAAAGCTGTCGAGTAACC
* * *
48719201 TCAACACATGCCAAAAAGTCAGCCACCGATAAGACATACAAGACCAGCACCCAAAACTCAATAAC
454 TCAACAAATGCCAAAAAGTCAGCCACCGATAAGACATACAAGACAAGCACCCAAAACACAATAAC
48719266 CCTTAATGACATGTCATTTGTGTCCTATC
519 CCTTAATGACATGTCATTTGTGTCCTATC
48719295 AATTCCTAAG
Statistics
Matches: 508, Mismatches: 37, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
546 2 0.00
547 506 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (547 bp):
TAAAACACAGAAAAATTAACAAAGTAAGCAATTAAGCTTAGTAAGTTCGCATAACTGGAAATATA
ACTTACCAATCAACCACAATTTAGGAAAGTAAATTAAATCATAATGCAACTCAATTTAGCCTCAT
TAGCCTAACACATAATCACCAGCAAAGTTAACTATGAAATCACAAGTCTCATAGATTCAATTACC
ACATGATTCACATACATACATATACTAGTTCATATCGAACTTATACTCTCTCGTAAGCACACTGT
ACTCGTTGAACCGTTAGGAATACTATCGGATACTTGGGTGTCTGGCACACTAAGTGCCAATACAT
CGTCCAAACCACCTCAATCTCATATCTCATATAGATGCTCACTCTCGAGCCATCACTGGGTCTGA
TCACAAAAGCTGACGGTCAAAACGTAGCTACACGGTGCTGCTCGCAAAAGCTGTCGAGTAACCTC
AACAAATGCCAAAAAGTCAGCCACCGATAAGACATACAAGACAAGCACCCAAAACACAATAACCC
TTAATGACATGTCATTTGTGTCCTATC
Found at i:48720108 original size:15 final size:15
Alignment explanation
Indices: 48720088--48720117 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48720078 AAATTTTTCC
48720088 TTTCTTTTACTTAAT
1 TTTCTTTTACTTAAT
*
48720103 TTTCTTTTATTTAAT
1 TTTCTTTTACTTAAT
48720118 AAATTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTTACTTAAT
Found at i:48735198 original size:13 final size:13
Alignment explanation
Indices: 48735180--48735204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48735170 TTCTTGCTAG
48735180 ATCTATCAATTAA
1 ATCTATCAATTAA
48735193 ATCTATCAATTA
1 ATCTATCAATTA
48735205 TTATTCTTTT
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATCTATCAATTAA
Found at i:48737138 original size:40 final size:40
Alignment explanation
Indices: 48737049--48737312 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
48737039 TTGAATGCTG
* *
48737049 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
48737088 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48737128 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48737167 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48737207 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48737247 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48737288 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48737313 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 52 0.26
40 140 0.69
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48737330 original size:120 final size:118
Alignment explanation
Indices: 48737101--48737345 Score: 314
Period size: 120 Copynumber: 2.1 Consensus size: 118
48737091 GGACTAAGAT
* *
48737101 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* ** * *
48737166 ATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* * *
48737220 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * * *
48737285 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 -AATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
48737339 CCGAAGG
1 CCGAAGG
48737346 TACGTGGTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
119 49 0.45
120 58 0.53
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:48745222 original size:40 final size:40
Alignment explanation
Indices: 48745077--48745340 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
48745067 TTGAATGCTG
* *
48745077 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
48745116 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48745156 TCCGGGGTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48745195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48745235 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48745275 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48745316 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48745341 AACAAGGAGC
Statistics
Matches: 205, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
39 53 0.26
40 142 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48745358 original size:120 final size:118
Alignment explanation
Indices: 48745077--48745373 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
48745067 TTGAATGCTG
*
48745077 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-AAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
48745137 ATTTGTGCGAGATACTAATTCCGGGGTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGGTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * * *
48745195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
48745260 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGGTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
48745316 -CCGGGCTATGTCCCGAAGGCATTTGAACAAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGA-CTAAATCCGGTTAAATCCCGAAGG
48745374 TACGTGATTT
Statistics
Matches: 152, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 63 0.41
121 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGGTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:48748981 original size:110 final size:110
Alignment explanation
Indices: 48748740--48749283 Score: 766
Period size: 110 Copynumber: 5.0 Consensus size: 110
48748730 TATACATAAT
* * *
48748740 TTCATGTATCGTGATATGTCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
48748805 C-AACATATCATGCCATGGGTCTTAACCACATGGTCTTACATACG
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
** * * * *
48748849 TTCATGTATTGTGACCTACCATTTCGATCCATACACTATTGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
48748914 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * * *
48748959 TACATGTATCATGGTCTGCCATTTCGATTCATGCATTATCGAAGGCTACTCCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * **
48749024 CAGACATATCATGTCATGGGTCTTAACCACATGGTCTTACATGCA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* ** * * *
48749069 TTTATGTATTGTGATCTGCTATTTCAATTCATACACTATCGAAGGCTACTCCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
48749134 CAGACATATCATGTCATGGGTCTTAACCACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * **
48749179 TTTATGTATCATGATCTGCTATTTAAATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
48749244 CAAGCATTTCATGCCATGGGTCTTAACCACATGGTTTTAC
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTAC
48749284 GCTTTTTTTC
Statistics
Matches: 390, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
109 59 0.15
110 331 0.85
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (110 bp):
TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:48750997 original size:21 final size:21
Alignment explanation
Indices: 48750947--48751002 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
48750937 AAAGAACATG
48750947 AAAAAGAAAA-AGAAGGAAAAA
1 AAAAAGAAAATA-AAGGAAAAA
* *
48750968 GAAAGGAAAATAAA-GAAATAA
1 AAAAAGAAAATAAAGGAAA-AA
48750989 AAAAAGAAAATAAA
1 AAAAAGAAAATAAA
48751003 TATTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAAGAAAATAAAGGAAAAA
Found at i:48751384 original size:11 final size:12
Alignment explanation
Indices: 48751351--48751384 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
48751341 TCATTGTAAA
48751351 TATTTTGTTTTCT
1 TATTTT-TTTTCT
48751364 TATTTTTTTT-T
1 TATTTTTTTTCT
48751375 TATTTTTTTT
1 TATTTTTTTT
48751385 ATAACATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 4 0.19
13 6 0.29
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (12 bp):
TATTTTTTTTCT
Found at i:48754467 original size:22 final size:20
Alignment explanation
Indices: 48754435--48754474 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
48754425 TGAAAATGAT
*
48754435 TATATAATAAATTTGTAAAA
1 TATATAATAAATATGTAAAA
48754455 TATATAAGTTAAATATGTAA
1 TATATAA--TAAATATGTAA
48754475 GTTGGGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
TATATAATAAATATGTAAAA
Found at i:48756265 original size:41 final size:41
Alignment explanation
Indices: 48756220--48756323 Score: 190
Period size: 41 Copynumber: 2.5 Consensus size: 41
48756210 ACGTCAACAA
* *
48756220 ATCGCGCTGACGTGGACGTGATGTCTGACACGTACCCTGAC
1 ATCGCGCTGACGTGGACGCGATGTCTGACACGTACCCTAAC
48756261 ATCGCGCTGACGTGGACGCGATGTCTGACACGTACCCTAAC
1 ATCGCGCTGACGTGGACGCGATGTCTGACACGTACCCTAAC
48756302 ATCGCGCTGACGTGGACGCGAT
1 ATCGCGCTGACGTGGACGCGAT
48756324 TTCGCGGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (41 bp):
ATCGCGCTGACGTGGACGCGATGTCTGACACGTACCCTAAC
Found at i:48756857 original size:14 final size:16
Alignment explanation
Indices: 48756841--48756870 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48756831 TATCGAGTTT
48756841 AAATA-ATAATTTTTA
1 AAATATATAATTTTTA
48756856 AAATATATAATTTTT
1 AAATATATAATTTTT
48756871 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATAATTTTTA
Found at i:48757847 original size:12 final size:12
Alignment explanation
Indices: 48757832--48757863 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
48757822 TATTGAAAAT
48757832 ATAAATAAAGAA
1 ATAAATAAAGAA
48757844 ATAAATAAAGAA
1 ATAAATAAAGAA
*
48757856 ATGAATAA
1 ATAAATAA
48757864 GGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:48758531 original size:3 final size:3
Alignment explanation
Indices: 48758517--48758569 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
48758507 CAAATAAAAC
* *
48758517 TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA -AA CTAA T-T TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
48758562 TAA TAA TA
1 TAA TAA TA
48758570 GAAATAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 34 0.81
4 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48758538 original size:16 final size:16
Alignment explanation
Indices: 48758517--48758547 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48758507 CAAATAAAAC
*
48758517 TAATAATGATAATAAA
1 TAATAATAATAATAAA
48758533 TAATAATAATAATAA
1 TAATAATAATAATAA
48758548 TAAAACTAAT
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:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:48760031 original size:43 final size:45
Alignment explanation
Indices: 48759969--48760084 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 45
48759959 ATTTTAATCC
* * * *
48759969 GCTCCACTGTAA-CTTAGGGAGATAGGAT-T--ATATCTTTGATCT
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTCAAT-TCTTCGATCT
*
48760011 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCT-CAATTCTTCGATCT
*
48760057 ACTCCGCTGTAACCTCAGGGAGATAAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGA
48760085 CCTGATGCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.17
43 14 0.22
44 1 0.02
46 35 0.56
47 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (45 bp):
GCTCCGCTGTAACCTCAGGGAGATAAGATCTCAATTCTTCGATCT
Found at i:48760559 original size:44 final size:44
Alignment explanation
Indices: 48760509--48760731 Score: 131
Period size: 43 Copynumber: 5.2 Consensus size: 44
48760499 CAACCGAAAG
48760509 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
* ** * * ** ** * * *
48760553 AGGCAAGATCTT-T-TCTTTAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGA
48760595 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
* ** * * ** ** * *
48760639 AGGCAAGATCTT-T-TCTTTAACCAGC-TCTATCACAACCG-A-CA
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGA
48760680 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
48760725 AGGCAAG
1 AGGCAAG
48760732 ATCTTTTGTC
Statistics
Matches: 119, Mismatches: 46, Indels: 28
0.62 0.24 0.15
Matches are distributed among these distances:
41 5 0.04
42 31 0.26
43 40 0.34
44 38 0.32
45 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
Done.