Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 159 of 208
Found at i:48402048 original size:25 final size:24
Alignment explanation
Indices: 48401999--48402053 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
48401989 NNNTTAAATT
*
48401999 ATATATTTTAATTATAATATATTTA
1 ATATA-TTTAATAATAATATATTTA
*
48402024 ATATATTTAATAATAATTATGTTTA
1 ATATATTTAATAATAA-TATATTTA
48402049 A-ATAT
1 ATATAT
48402054 GATTAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATATATTTAATAATAATATATTTA
Found at i:48402279 original size:45 final size:44
Alignment explanation
Indices: 48402194--48402284 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
48402184 ACCTCTATTC
*
48402194 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
48402238 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTCTTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
48402283 CA
1 CA
48402285 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:48402284 original size:16 final size:16
Alignment explanation
Indices: 48402263--48402316 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
48402253 TTGATTTGCT
*
48402263 ATTACACCTCTCTTCC
1 ATTACACCTCTATTCC
48402279 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
48402295 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
48402311 AATACA
1 ATTACA
48402317 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48403030 original size:19 final size:17
Alignment explanation
Indices: 48402992--48403025 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48402982 GTTATTATAC
48402992 TTTATATATAAACATCA
1 TTTATATATAAACATCA
48403009 TTTATATATAAACATCA
1 TTTATATATAAACATCA
48403026 AATTTTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTATATATAAACATCA
Found at i:48403715 original size:25 final size:25
Alignment explanation
Indices: 48403683--48403738 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
48403673 AAATACTAAT
*
48403683 TTTTAACGGTATAGATTTACAAAAA
1 TTTTAACGGTATAAATTTACAAAAA
* *
48403708 TTTTAACGGTATAAATTTATAAAAT
1 TTTTAACGGTATAAATTTACAAAAA
48403733 TTTTAA
1 TTTTAA
48403739 TAGAAAGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (25 bp):
TTTTAACGGTATAAATTTACAAAAA
Found at i:48405475 original size:3 final size:3
Alignment explanation
Indices: 48405467--48405541 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
48405457 ATATGTAGAT
* *
48405467 ATA ATA ATA ATA TATA AT- ATA ACA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
48405512 AAA ATA ATA ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48405542 ACTAAAGAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 4 0.07
3 52 0.88
4 3 0.05
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:48405503 original size:30 final size:30
Alignment explanation
Indices: 48405467--48405542 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
48405457 ATATGTAGAT
*
48405467 ATAATAATAAT-ATATAATATAACAATAACA
1 ATAATAATAATAATA-AAAATAACAATAACA
*
48405497 ATAATAATAATAATAAAAATAATAATAACA
1 ATAATAATAATAATAAAAATAACAATAACA
*
48405527 ATATTAATAA-AATAAA
1 ATAATAATAATAATAAA
48405543 CTAAAGAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.14
30 33 0.79
31 3 0.07
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (30 bp):
ATAATAATAATAATAAAAATAACAATAACA
Found at i:48418749 original size:2 final size:2
Alignment explanation
Indices: 48418742--48418774 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48418732 CATTCTTTAA
48418742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48418775 CACATAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48419006 original size:3 final size:3
Alignment explanation
Indices: 48418998--48419063 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
48418988 ATATGTAGAT
* * *
48418998 ATA ATA ATA TATA AT- ATA AAA ATA ACA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
48419043 ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
48419064 ACTAAAGAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:48419040 original size:24 final size:24
Alignment explanation
Indices: 48418998--48419064 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 24
48418988 ATATGTAGAT
48418998 ATAATAATATATAATATAAAAATAACA
1 ATAATAATA-A-AA-ATAAAAATAACA
*
48419025 ATAATAATAAAAATAATAATAACA
1 ATAATAATAAAAATAAAAATAACA
*
48419049 ATATTAAT-AAAATAAA
1 ATAATAATAAAAATAAA
48419065 CTAAAGAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 7 0.19
24 18 0.49
25 2 0.05
26 1 0.03
27 9 0.24
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAATAATAAAAATAAAAATAACA
Found at i:48429150 original size:7 final size:7
Alignment explanation
Indices: 48429133--48429171 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 7
48429123 CCTACTCTAT
48429133 AAAGAAGA
1 AAAG-AGA
48429141 AAAGAGA
1 AAAGAGA
48429148 AAAGAGAA
1 AAAGAG-A
48429156 AAAGAGAA
1 AAAGAG-A
48429164 AAAGAGA
1 AAAGAGA
48429171 A
1 A
48429172 TCTGAGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:48429158 original size:8 final size:8
Alignment explanation
Indices: 48429140--48429171 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
48429130 TATAAAGAAG
48429140 AAAAGAG-
1 AAAAGAGA
48429147 AAAAGAGA
1 AAAAGAGA
48429155 AAAAGAGA
1 AAAAGAGA
48429163 AAAAGAGA
1 AAAAGAGA
48429171 A
1 A
48429172 TCTGAGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:48437296 original size:3 final size:3
Alignment explanation
Indices: 48437288--48437318 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48437278 GTTGGAGCCA
48437288 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
48437319 GCAAAGAAGC
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:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:48439825 original size:20 final size:21
Alignment explanation
Indices: 48439788--48439826 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
48439778 GGTTTATTCA
*
48439788 AGAAAAGAAAATAGATGACGT
1 AGAAAAGAAAATACATGACGT
*
48439809 AGAAAAG-AAATTCATGAC
1 AGAAAAGAAAATACATGAC
48439827 TGCTTCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (21 bp):
AGAAAAGAAAATACATGACGT
Found at i:48449367 original size:17 final size:17
Alignment explanation
Indices: 48449345--48449378 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48449335 ATTCTTTAAG
48449345 AATTGCCAC-AACATTTT
1 AATTGCC-CTAACATTTT
48449362 AATTGCCCTAACATTTT
1 AATTGCCCTAACATTTT
48449379 TCATTCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTGCCCTAACATTTT
Found at i:48454950 original size:15 final size:16
Alignment explanation
Indices: 48454921--48454950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48454911 CAAACATGCT
48454921 TTAACACATTATCAAA
1 TTAACACATTATCAAA
48454937 TTAACACA-TATCAA
1 TTAACACATTATCAA
48454951 CAAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:48456067 original size:25 final size:25
Alignment explanation
Indices: 48456030--48456098 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
48456020 TCTTGTACAT
* *
48456030 TGCTCACATGAGCTGTGAATCAGAA
1 TGCTCACACGAGCTATGAATCAGAA
*
48456055 TGCTCACACGAGCTATGAATTAGAA
1 TGCTCACACGAGCTATGAATCAGAA
48456080 TGCTCACACGAGCTATGAA
1 TGCTCACACGAGCTATGAA
48456099 AATGGGCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAATCAGAA
Found at i:48459347 original size:50 final size:50
Alignment explanation
Indices: 48459288--48459392 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
48459278 ATGAAAGTTT
* * * *
48459288 TCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTC
1 TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
* * *
48459338 TCATCTCGGTACCAACGCCATGTCACAGACATTGTCTTATGTGGGACCTC
1 TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
48459388 TCATA
1 TCATA
48459393 ACCTCAATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
Found at i:48476747 original size:29 final size:29
Alignment explanation
Indices: 48476664--48476757 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
48476654 TCATTAGGGT
* *
48476664 TTATC-AGACACTATGTGCCAGTGATTACAA
1 TTATCAAG-CACTTTGTGCCGGTG-TTACAA
* * * * *
48476694 TTATCATGTACTTTGTACTGATGTTACAA
1 TTATCAAGCACTTTGTGCCGGTGTTACAA
* *
48476723 TTATCAAGCACTTTGTGCCGGTGTTATAT
1 TTATCAAGCACTTTGTGCCGGTGTTACAA
48476752 TTATCA
1 TTATCA
48476758 GGTACCATTT
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
29 34 0.69
30 14 0.29
31 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (29 bp):
TTATCAAGCACTTTGTGCCGGTGTTACAA
Found at i:48482536 original size:21 final size:22
Alignment explanation
Indices: 48482479--48482537 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
48482469 GCTTGGAGCT
*
48482479 ATTCTAACTTGTTTGAAAAACA
1 ATTCTAACTTGATTGAAAAACA
*
48482501 GTT-TAAC-TGATTGAAAAA-A
1 ATTCTAACTTGATTGAAAAACA
*
48482520 ATTCTAACTTGACTGAAA
1 ATTCTAACTTGATTGAAA
48482538 TCATTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 12 0.39
22 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
ATTCTAACTTGATTGAAAAACA
Found at i:48493523 original size:20 final size:20
Alignment explanation
Indices: 48493496--48493549 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
48493486 AAAAATAGTT
48493496 TAAC-TGATTGAAAAAATTC
1 TAACTTGATTGAAAAAATTC
* *
48493515 TAACTTGATTGAAATAATTT
1 TAACTTGATTGAAAAAATTC
*
48493535 TAACTTGATTTAAAA
1 TAACTTGATTGAAAA
48493550 GTTTATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (20 bp):
TAACTTGATTGAAAAAATTC
Found at i:48495826 original size:12 final size:12
Alignment explanation
Indices: 48495809--48495846 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
48495799 GGTACAAGCA
48495809 ATCATGGAGGAT
1 ATCATGGAGGAT
48495821 ATCATGGAGGAT
1 ATCATGGAGGAT
*
48495833 ATCGTGGAGGAT
1 ATCATGGAGGAT
48495845 AT
1 AT
48495847 AGAGGCAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.34, T:0.26
Consensus pattern (12 bp):
ATCATGGAGGAT
Found at i:48510200 original size:3 final size:3
Alignment explanation
Indices: 48510194--48510242 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
48510184 ACTCCTATTC
* *
48510194 ATA ATA ATA TTG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48510242 A
1 A
48510243 CAGAAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:48530219 original size:15 final size:15
Alignment explanation
Indices: 48530199--48530229 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48530189 GCAAGAATGG
48530199 ATCTATTCATGCACT
1 ATCTATTCATGCACT
48530214 ATCTATTCATGCACT
1 ATCTATTCATGCACT
48530229 A
1 A
48530230 ACAGTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCTATTCATGCACT
Found at i:48533085 original size:13 final size:13
Alignment explanation
Indices: 48533067--48533097 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
48533057 CATTAACACC
48533067 CAATTACTTCAAG
1 CAATTACTTCAAG
48533080 CAATTACTTCAAG
1 CAATTACTTCAAG
48533093 CAATT
1 CAATT
48533098 CATCCTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (13 bp):
CAATTACTTCAAG
Found at i:48535341 original size:30 final size:31
Alignment explanation
Indices: 48535305--48535363 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
48535295 ACAGTACCGT
*
48535305 GTGGG-CCTAAGCCCAGTACAGTAA-CAGTGA
1 GTGGGCCCT-AGCCCAATACAGTAATCAGTGA
48535335 GTGGGCCCTAGCCCAATACAGTAATCAGT
1 GTGGGCCCTAGCCCAATACAGTAATCAGT
48535364 ACAATGTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (31 bp):
GTGGGCCCTAGCCCAATACAGTAATCAGTGA
Found at i:48535524 original size:26 final size:26
Alignment explanation
Indices: 48535495--48535545 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
48535485 GTAATAATGG
48535495 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * * *
48535521 CGCATCAAGGCTTCCAGTAATAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
48535546 TATGTGGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:48535893 original size:81 final size:81
Alignment explanation
Indices: 48535758--48535937 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
48535748 TAATTTTAGA
* * * ***
48535758 TATTTCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAA
1 TATTTCGATAATTTTACCTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTAA
*
48535823 ATTTATCCATCGAGGG
66 ATTTACCCATCGAGGG
* * *
48535839 TATTTTGGTAATTTTACTCTTT-GAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCATTA
1 TATTTCGATAATTTTAC-CTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTA
*
48535903 ATTTTACCCATCGAGGG
65 AATTTACCCATCGAGGG
48535920 TATTTCGATAATTTTACC
1 TATTTCGATAATTTTACC
48535938 CATCGAGTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 80 0.94
82 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (81 bp):
TATTTCGATAATTTTACCTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTAA
ATTTACCCATCGAGGG
Found at i:48535938 original size:27 final size:27
Alignment explanation
Indices: 48535758--48535944 Score: 191
Period size: 27 Copynumber: 6.9 Consensus size: 27
48535748 TAATTTTAGA
* **
48535758 TATTTCAATAATTTTACCTTTCGAGGG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
48535785 TATTTCGATAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
48535812 TATTTC-AGTAAATTTATCCATCGAGGG
1 TATTTCGA-TAATTTTACCCATCGAGGG
* * * * * *
48535839 TATTTTGGTAATTTTACTCTTTGAGAG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
48535866 TATTTCAATAATTTTACCC-TCCAAGGG
1 TATTTCGATAATTTTACCCAT-CGAGGG
48535893 TATTTC-ATTAATTTTACCCATCGAGGG
1 TATTTCGA-TAATTTTACCCATCGAGGG
48535920 TATTTCGATAATTTTACCCATCGAG
1 TATTTCGATAATTTTACCCATCGAG
48535945 TCGCAAGTTG
Statistics
Matches: 131, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 126 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCATCGAGGG
Found at i:48543571 original size:35 final size:35
Alignment explanation
Indices: 48543525--48543594 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
48543515 ATCAAAGTAA
48543525 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
1 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
48543560 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
1 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
48543595 CCAATAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (35 bp):
GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
Found at i:48549886 original size:3 final size:3
Alignment explanation
Indices: 48549878--48549910 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
48549868 ACGCCACCAA
48549878 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
48549911 CAACAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:48550326 original size:23 final size:24
Alignment explanation
Indices: 48550276--48550324 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
48550266 TACTTATCAA
*
48550276 TTTGTTTGGATTTAATTCATTACT
1 TTTGTTTGGATTGAATTCATTACT
*
48550300 TTTGTTT-GATTGAA-TCTTTACT
1 TTTGTTTGGATTGAATTCATTACT
48550322 TTT
1 TTT
48550325 TGAATGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTGTTTGGATTGAATTCATTACT
Found at i:48552377 original size:17 final size:17
Alignment explanation
Indices: 48552355--48552392 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
48552345 AATCTTCAAG
48552355 AATTCTAAAAAATTAAA
1 AATTCTAAAAAATTAAA
**
48552372 AATTCTTTAAAATTAAA
1 AATTCTAAAAAATTAAA
48552389 AATT
1 AATT
48552393 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTCTAAAAAATTAAA
Found at i:48555738 original size:2 final size:2
Alignment explanation
Indices: 48555731--48555795 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
48555721 TATCAAATCA
*
48555731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48555771 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
48555796 AATTCTTGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:48556653 original size:41 final size:41
Alignment explanation
Indices: 48556591--48556813 Score: 383
Period size: 41 Copynumber: 5.4 Consensus size: 41
48556581 AGCTTAGTGG
*
48556591 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
48556632 CTAGCAGGCTAAGTGCTGGTGAACTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
48556673 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGATTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
48556714 CTAGTAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
48556755 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
48556796 CTAGCAGGCTAAGTGCCG
1 CTAGCAGGCTAAGTGCCG
48556814 ATGAATCTAT
Statistics
Matches: 169, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 169 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
Found at i:48558933 original size:43 final size:43
Alignment explanation
Indices: 48558847--48558965 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
48558837 CCGAGATTAT
* *
48558847 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
* *
48558889 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
* * *
48558932 GTGTAAGACTATGGCT-GGACTATTAGCATCGATA
1 GTGTAAGACCATGTCTGGGAC-ATTGGCATCGATA
48558966 CAAGATTACA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 24 0.35
43 44 0.65
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
Found at i:48572479 original size:2 final size:2
Alignment explanation
Indices: 48572474--48572501 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48572464 AGGAGATGAA
48572474 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48572502 TAATGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48572866 original size:2 final size:2
Alignment explanation
Indices: 48572859--48572891 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48572849 CCAAATATTC
48572859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48572892 AACATTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48574224 original size:20 final size:20
Alignment explanation
Indices: 48574199--48574318 Score: 141
Period size: 20 Copynumber: 6.0 Consensus size: 20
48574189 AATGGGATGT
48574199 AATTGATGCACTTTGGTGCG
1 AATTGATGCACTTTGGTGCG
* *
48574219 AATTGATGCTCTTTAGTGCG
1 AATTGATGCACTTTGGTGCG
* **
48574239 AATTAATGCACTTTGGTTTG
1 AATTGATGCACTTTGGTGCG
* * *
48574259 TAATTGATGCACTTCGATGCA
1 -AATTGATGCACTTTGGTGCG
48574280 AATTGATGCACTTTGGTGCG
1 AATTGATGCACTTTGGTGCG
* *
48574300 AATCGATGCACTTTAGTGC
1 AATTGATGCACTTTGGTGC
48574319 ATAACTAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 67 0.83
21 14 0.17
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
AATTGATGCACTTTGGTGCG
Found at i:48574299 original size:61 final size:61
Alignment explanation
Indices: 48574196--48574313 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
48574186 ACTAATGGGA
* * * * *
48574196 TGTAATTGATGCACTTTGGTGCGAATTGATGCTCTTTAGTGCGAATTAATGCACTTTGGTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTTGGTT
* *
48574257 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCGAATCGATGCACTTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTT
48574314 AGTGCATAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (61 bp):
TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTTGGTT
Found at i:48574333 original size:41 final size:40
Alignment explanation
Indices: 48574199--48574339 Score: 149
Period size: 41 Copynumber: 3.5 Consensus size: 40
48574189 AATGGGATGT
* * *
48574199 AATTGATGCACTTTGGTGCGAATTGATGCTCTTTAGTGCG
1 AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
** *
48574239 AATTAATGCACTTTGGTTTGTAATTGATGCAC-TTCGATGCA
1 AATTAATGCACTTTGGTGCG-AATTGATGCACTTTAG-TGCA
* *
48574280 AATTGATGCACTTTGGTGCGAATCGATGCACTTTAGTGCA
1 AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
* * *
48574320 TAACTAATACACTTTAGTGC
1 -AATTAATGCACTTTGGTGC
48574340 ATAATGGAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 34 0.41
41 48 0.59
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (40 bp):
AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
Found at i:48576874 original size:42 final size:42
Alignment explanation
Indices: 48576827--48576912 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
48576817 CAAGAAACTA
48576827 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
48576869 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
48576911 GA
1 GA
48576913 CTAAATTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.05, G:0.34, T:0.14
Consensus pattern (42 bp):
GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
Found at i:48577827 original size:47 final size:47
Alignment explanation
Indices: 48577750--48577843 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
48577740 GTTAAGTGTT
*
48577750 AGTGAATTAATTACAAAGCGATGTTCAGGTGAAATTATAATAAATAA
1 AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
* * *
48577797 AGTGAATTAATTACAAAGTGATTTTAAGGTGAAATTATAGTAAATAA
1 AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
48577844 TGAATTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (47 bp):
AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
Found at i:48581463 original size:11 final size:11
Alignment explanation
Indices: 48581443--48581472 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
48581433 ATGAAAAGGT
*
48581443 TGATGAATAAA
1 TGATGTATAAA
48581454 TGATGTATAAA
1 TGATGTATAAA
48581465 TGATGTAT
1 TGATGTAT
48581473 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (11 bp):
TGATGTATAAA
Found at i:48582082 original size:2 final size:2
Alignment explanation
Indices: 48582075--48582112 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
48582065 TGATGTTTTG
48582075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48582113 GTGGTGCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48582789 original size:40 final size:40
Alignment explanation
Indices: 48582727--48582808 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
48582717 ACGGTAGTGC
48582727 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
1 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
* * * *
48582767 TTTGTAACCCTAATTTGGCGACGGAGACGGGTTAGGGGTT
1 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
48582807 TT
1 TT
48582809 ACATCTACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (40 bp):
TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
Found at i:48592116 original size:17 final size:17
Alignment explanation
Indices: 48592081--48592116 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48592071 TGATATTTGG
* *
48592081 ATGATTAAATTTTTTTT
1 ATGATTAAATTATTGTT
48592098 ATGATTAAATTATTGTT
1 ATGATTAAATTATTGTT
48592115 AT
1 AT
48592117 TAAGTATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (17 bp):
ATGATTAAATTATTGTT
Found at i:48592124 original size:24 final size:24
Alignment explanation
Indices: 48592097--48592142 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
48592087 AAATTTTTTT
48592097 TATGATT-AAATTATTGTTATTAAG
1 TATGATTGAAATTATTG-TATTAAG
*
48592121 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
48592143 TATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAG
Found at i:48603478 original size:19 final size:19
Alignment explanation
Indices: 48603454--48603564 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
48603444 AGTTTTTGAG
*
48603454 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
48603473 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48603492 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48603511 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
48603530 GATGTATAATCTTTGATAT
1 GATATGCAATCTTAGATAT
48603549 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48603565 AGATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48604748 original size:98 final size:98
Alignment explanation
Indices: 48604620--48604814 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
48604610 AAAAATCATG
* *
48604620 AAGGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
48604685 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
48604718 AAGGAAATATTCTGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
48604783 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
48604815 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:48609317 original size:15 final size:15
Alignment explanation
Indices: 48609297--48609341 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
48609287 AGCTCAGATT
*
48609297 CAAAAAAAAACAAAA
1 CAAAAAAAAATAAAA
48609312 CAAAAAAAAATAAAA
1 CAAAAAAAAATAAAA
48609327 -AAATAAAAAATAAAA
1 CAAA-AAAAAATAAAA
48609342 GTGAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
CAAAAAAAAATAAAA
Found at i:48609319 original size:8 final size:8
Alignment explanation
Indices: 48609300--48609341 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
48609290 TCAGATTCAA
*
48609300 AAAAAAAC
1 AAAAAAAT
*
48609308 AAAACAA-
1 AAAAAAAT
48609315 AAAAAAAT
1 AAAAAAAT
48609323 AAAAAAAT
1 AAAAAAAT
48609331 -AAAAAAT
1 AAAAAAAT
48609338 AAAA
1 AAAA
48609342 GTGAAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 13 0.43
8 17 0.57
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:48610756 original size:44 final size:44
Alignment explanation
Indices: 48610708--48610886 Score: 112
Period size: 44 Copynumber: 4.1 Consensus size: 44
48610698 GGAGAAGGTT
*
48610708 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
** * * *
48610752 GAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATT
1 GAAGATTGTAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATC
* ***** ** * * * * * * * *
48610796 TAAGCCACCAAGCCTTGTCTTCCTGAGCAGCAGTAGAGAAGGTT
1 GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
48610840 GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
48610884 GAA
1 GAA
48610887 CACGGCGAAT
Statistics
Matches: 95, Mismatches: 34, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
42 4 0.04
43 7 0.07
44 76 0.80
45 5 0.05
46 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:48610844 original size:132 final size:132
Alignment explanation
Indices: 48610607--48611025 Score: 678
Period size: 132 Copynumber: 3.2 Consensus size: 132
48610597 CTGCATTGAC
* **
48610607 AGTGGAGCAGATCGAAAACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
48610672 CAACCCTTGTCTCCCTGAGCAACAATGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
48610737 GT
131 GT
48610739 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
48610804 CAAGCCTTGTCTTCCTGAGCAGCAGTAGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
48610869 GT
131 GT
* * *
48610871 AGTGGAGCAGATCGAACACGGCGAATCTTATCTTTCCAAGATAGTGGGCAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
48610936 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATT-TCAGATCTTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
48611000 AGT
130 AGT
*
48611003 AGTGGAGCAGATCGAAGATGGCA
1 AGTGGAGCAGATCGAAGACGGCA
48611026 GATTTTACCT
Statistics
Matches: 265, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 264 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:48611108 original size:264 final size:262
Alignment explanation
Indices: 48610607--48611598 Score: 915
Period size: 264 Copynumber: 3.8 Consensus size: 262
48610597 CTGCATTGAC
*
48610607 AGTGGAGCAGATCGAAAACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAAACGGCGAATCTTATCTTTCCAAGATAGTGGG-AGCAGATTTAAGCCAC
*
48610672 CAACCCTTGTCTCCCTGAGCAACAATGGAGAAGGTTGAAGATTGT-AGATCTTATCTCCCTAAGC
65 CAACCCTTGTCTCCCT-AGCAACAGTGGAGAAGGTTGAAGATT-TCAGATCTTATCTCCCTAAGC
* * * * ** * * *
48610736 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCC--AAG--ATAGTGGGAAGCAGATTT
128 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTA-CTTCCCTGTGGTTATAGT-GG-AGTACATTG
** * * * *
48610797 AAGCCACCAAGCCTTGT-CTT-CCT-GAGCAGCAGTAGAGA-AGGTTGAAGATTGT-AAATCTTA
190 AAGCCAGTAA---TTCTACTTCCCTGGA-CAACAGTGGA-ATAGATTGAAGATT-TCAAATCTTA
48610857 TCTCCCTAAGCAGT
249 TCTCCCTAAGCAGT
*
48610871 AGTGGAGCAGATCGAACACGGCGAATCTTATCTTTCCAAGATAGTGGGCAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAAACGGCGAATCTTATCTTTCCAAGATAGTGGG-AGCAGATTTAAGCCAC
* * * *
48610936 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTTCAGATCTTATCTCCCTAAGCA
65 CAACCCTTGTCTCCCT-AGCAACAGTGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
48611001 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
129 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACTTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
48611066 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
194 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAG
48611131 CAGT
259 CAGT
* * * * * * ** * * *
48611135 AGTGGAGTAGATCGAAGATGGC-AGATTTTA-CCTCCCTGTGGTTATAGT-GGAGTACATTGAAG
1 AGTGGAGCAGATCGAAAACGGCGA-ATCTTATCTTTCC--AAG--ATAGTGGGAGCAGATTTAAG
** ** ** * * *
48611197 CCAGTAATTCTACT-TCCCTGGACAACAGTTGA-ATAGATTGAAGATTTCAGATCTTATCTCCCT
61 CCACCAACCCTTGTCTCCCTAG-CAACAGTGGAGA-AGGTTGAAGATTTCAGATCTTATCTCCCT
*
48611260 AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACTTCCCTGTGGTTATAGTGGAGTACATT
124 AAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACTTCCCTGTGGTTATAGTGGAGTACATT
* *
48611325 GAAGCCAGTAATTCTACTTCCCTGGATAACAGTGGAATAGATTGGAGATTTCAAATCTTATCTCC
189 GAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCC
48611390 CTAAGCAGT
254 CTAAGCAGT
* * * * * * ** * * * * * * *
48611399 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCTCTGTAGGTACAAT-GGAGTAAATTGATGCC
1 AGTGGAGCAGATCGAAAACGGCGAATCTTA--TCTTTCCAAG-ATAGTGGGAGCAGATTTAAGCC
** ** ** * * *
48611463 AGTAATTCTACT-TCCCTAGGAAACAGTGGA-ATAGATTGAAGATTTCAGGTCTTATCT-CCTAA
63 ACCAACCCTTGTCTCCCTA-GCAACAGTGGAGA-AGGTTGAAGATTTCAGATCTTATCTCCCT-A
* * ** * *
48611525 AGCAGTAGCGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTG
125 AGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACTTCCCTGTGGTTATAGTGGAGTACATTG
48611590 AAGCCAGTA
190 AAGCCAGTA
48611599 GTCTTATCTC
Statistics
Matches: 631, Mismatches: 74, Indels: 46
0.84 0.10 0.06
Matches are distributed among these distances:
262 3 0.00
263 20 0.03
264 555 0.88
265 38 0.06
266 4 0.01
267 11 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (262 bp):
AGTGGAGCAGATCGAAAACGGCGAATCTTATCTTTCCAAGATAGTGGGAGCAGATTTAAGCCACC
AACCCTTGTCTCCCTAGCAACAGTGGAGAAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGCAGATTTTACTTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCA
GT
Found at i:48611139 original size:44 final size:45
Alignment explanation
Indices: 48611091--48611272 Score: 103
Period size: 44 Copynumber: 4.1 Consensus size: 45
48611081 CCTGGACAAC
48611091 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGT
* * ** * * ** **
48611135 AGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGACAGT
* * * * **
48611180 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCT-GGACAAC
1 AGTGGAATAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGACAGT
*
48611223 AGTTGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG-CAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGT
48611267 AGTGGA
1 AGTGGA
48611273 GCAGATCGAA
Statistics
Matches: 102, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
42 6 0.06
43 16 0.16
44 56 0.55
45 20 0.20
46 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGACAGT
Found at i:48611611 original size:132 final size:132
Alignment explanation
Indices: 48610973--48611598 Score: 1042
Period size: 132 Copynumber: 4.7 Consensus size: 132
48610963 GAGAAGGTTA
* *
48610973 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
48611038 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
66 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
48611103 TG
131 TG
*
48611105 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
*
48611170 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTTGAATAGAT
66 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
48611235 TG
131 TG
* *
48611237 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACTTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
*
48611302 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGATAACAGTGGAATAGAT
66 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
48611367 TG
131 TG
* * *
48611369 GAGATTTCAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCT
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
* * * *
48611434 CTGTAGG-TACAATGGAGTAAATTGATGCCAGTAATTCTACTTCCCTAGGA-AACAGTGGAATAG
66 CTGT-GGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGACAACAGTGGAATAG
48611497 ATTG
129 ATTG
* * *
48611501 AAGATTTCAGGTCTTATCT-CCTAAAGCAGTAGCGGAGTAGATCGAAGATGGTGGATTTTACCTC
1 AAGATTTCAGATCTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTC
*
48611565 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
65 CCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
48611599 GTCTTATCTC
Statistics
Matches: 465, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
131 5 0.01
132 455 0.98
133 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
TG
Found at i:48611646 original size:44 final size:43
Alignment explanation
Indices: 48611598--48611898 Score: 242
Period size: 44 Copynumber: 6.9 Consensus size: 43
48611588 TGAAGCCAGT
*
48611598 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
48611642 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
*
48611687 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * *
48611730 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
48611774 TGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-TGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * *
48611815 AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAACAAGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
48611859 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA
48611899 TGGCACTAAT
Statistics
Matches: 204, Mismatches: 37, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
40 20 0.10
41 8 0.04
42 6 0.03
43 11 0.05
44 118 0.58
45 40 0.20
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:48611781 original size:133 final size:127
Alignment explanation
Indices: 48611603--48611852 Score: 288
Period size: 133 Copynumber: 1.9 Consensus size: 127
48611593 CCAGTAGTCT
*
48611603 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAG-AACCAAGTCTTATCTCT-CTGAAGTTGCAG-
* * * * * *
48611667 GGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA
63 AGAGCAGACTG--CAT--CAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCGATA
48611732 ATCC
124 ATCC
** * *
48611736 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTATGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGAACC-AAG-TCTTATCTCTCTGAAGTTGCAGA
* *
48611800 GAGCAGATTGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAA
64 GAGCAGACTGCATCAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAA
48611853 CAAGTAAGTC
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
128 36 0.36
130 2 0.02
131 3 0.03
132 10 0.10
133 48 0.48
134 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGAACCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGACTGCATCAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCGATAATCC
Found at i:48611865 original size:84 final size:84
Alignment explanation
Indices: 48611598--48611891 Score: 218
Period size: 89 Copynumber: 3.4 Consensus size: 84
48611588 TGAAGCCAGT
* * * * *
48611598 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA-AGTCTTATC-CTCCTGAAGT
1 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TTAG-CAG-ATAGTCTTATCTC-CCTGAAGT
* ** *
48611661 TGCAGTGGGGCAGACTGAAGATGGCA
61 TGCAGTGGAGCAGACT-AA-AAAGTA
* * * * *
48611687 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT--AGCAGATAGTCTTATCTCCCTGAAGTTG
* * **
48611752 CAGTGGAGCGGATTAAAACCTA
63 CAGTGGAGCAGACTAAAAAGTA
* ** *
48611774 TGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATT-GCATCTAGTCTTATCTCCCTAAAGTTGCA
1 AG-TCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAGCAGATAGTCTTATCTCCCTGAAGTTGCA
*
48611838 GTGAAGCAGACTAAACAAGTA
65 GTGGAGCAGACTAAA-AAGTA
*
48611859 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGA
1 AGTCTTATCTCT-CTGAAGTTGCAGAGA-GCAGA
48611892 CTGAAGATGG
Statistics
Matches: 168, Mismatches: 29, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
83 2 0.01
84 56 0.33
85 9 0.05
87 12 0.07
88 25 0.15
89 61 0.36
90 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (84 bp):
AGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAGCAGATAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTAAAAAGTA
Found at i:48612093 original size:19 final size:19
Alignment explanation
Indices: 48612069--48612179 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
48612059 AGTTTTTGAG
*
48612069 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
48612088 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48612107 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48612126 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** * *
48612145 GATGTATAATCTTTGAGAT
1 GATATGCAATCTTAGATAT
48612164 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48612180 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48613363 original size:98 final size:98
Alignment explanation
Indices: 48613241--48613432 Score: 330
Period size: 98 Copynumber: 2.0 Consensus size: 98
48613231 AATCATGAAG
* *
48613241 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTTAAA
48613306 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAA
66 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAA
* * *
48613339 GAAATATTCTGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTAATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTTAAA
*
48613404 TCTTGGATGAGTGGATGTTCTTTTAAAGT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGT
48613433 TTTATTGTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTAATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAA
Found at i:48617391 original size:30 final size:30
Alignment explanation
Indices: 48617357--48617418 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48617347 CTTAACAAGT
*
48617357 AAATGCCTCTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
48617387 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
48617417 AA
1 AA
48617419 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:48622312 original size:63 final size:63
Alignment explanation
Indices: 48622208--48622379 Score: 209
Period size: 63 Copynumber: 2.7 Consensus size: 63
48622198 ATTTTTTTGT
* * * * * ****
48622208 CACAAGCATCACAACACGCACACTTATTCCCTGCATTAACACATTCAGCTTTGGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
48622271 CACAAGTACCACAACATACACAATCATTCCCTGCATCAACACACTCAGCACCAGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
48622334 CACAAGCACCACAGCACGCGCAATCATTCCCTGCATCAACACATTC
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTC
48622380 TTTAGTGATA
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.33, C:0.34, G:0.09, T:0.24
Consensus pattern (63 bp):
CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
Found at i:48625721 original size:6 final size:6
Alignment explanation
Indices: 48625712--48625736 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48625702 TTAATATAAA
48625712 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
48625737 ATTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:48626076 original size:26 final size:26
Alignment explanation
Indices: 48626026--48626077 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
48626016 GATGTTTAAT
*
48626026 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
*
48626052 TATTATTTGAT-TTTAATAATATTTAC
1 TATTATTTGATATTCAATAAT-TTTAC
48626078 ATAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:48626436 original size:2 final size:2
Alignment explanation
Indices: 48626429--48626463 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48626419 TGAGAACTAC
48626429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48626464 AGCATGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48632397 original size:41 final size:39
Alignment explanation
Indices: 48632311--48632398 Score: 142
Period size: 39 Copynumber: 2.2 Consensus size: 39
48632301 ATTAAAATAT
48632311 ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
1 ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
48632350 ATATTTAATATATTCATTAAAAATATGTTTTTCA-AAAAAA
1 ATATTTAATATATTCATTAAAAATA--TTTTTCAGAAAAAA
48632390 ATGATTTAA
1 AT-ATTTAA
48632399 AAATGATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
39 25 0.54
40 8 0.17
41 13 0.28
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (39 bp):
ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
Found at i:48632410 original size:40 final size:40
Alignment explanation
Indices: 48632311--48632415 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 40
48632301 ATTAAAATAT
*
48632311 ATATTTAATATATTCATTAAAAATA-TTTTTCAGAAAAAA
1 ATATTTAATATAATCATTAAAAATATTTTTTCAGAAAAAA
*
48632350 ATATTTAATATATTCATTAAAAATATGTTTTTCA-AAAAAA
1 ATATTTAATATAATCATTAAAAATAT-TTTTTCAGAAAAAA
*
48632390 ATGATTTAA-A-AATGATTTAAAAATAT
1 AT-ATTTAATATAATCA-TTAAAAATAT
48632416 ATTTGATATA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
39 28 0.47
40 19 0.32
41 13 0.22
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (40 bp):
ATATTTAATATAATCATTAAAAATATTTTTTCAGAAAAAA
Found at i:48632411 original size:10 final size:11
Alignment explanation
Indices: 48632386--48632413 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
48632376 GTTTTTCAAA
48632386 AAAAATGATTT
1 AAAAATGATTT
48632397 AAAAATGATTT
1 AAAAATGATTT
48632408 AAAAAT
1 AAAAAT
48632414 ATATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (11 bp):
AAAAATGATTT
Found at i:48632412 original size:64 final size:63
Alignment explanation
Indices: 48632344--48632490 Score: 217
Period size: 64 Copynumber: 2.3 Consensus size: 63
48632334 TATTTTTCAG
48632344 AAAAAAATATTTAATATATTCATTAAAAATATGTTTTTCAAAAAAAATGATTT-AAAAATGATTT
1 AAAAAAATATTTAATATATTCATTAAAAATATGTTTTTCAAAAAAAAT-ATTTAAAAAAT-ATTT
* *
48632408 AAAAATATATTTGATATATTCATTAAAAATATGTTTTTCAAAAAAAATATTTAAAAAAATATTT
1 AAAAAAATATTTAATATATTCATTAAAAATATGTTTTTCAAAAAAAATATTT-AAAAAATATTT
*
48632472 -AAAAATTATTTAAATATAT
1 AAAAAAATATTT-AATATAT
48632491 ATTTCTTTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
63 13 0.17
64 56 0.75
65 6 0.08
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (63 bp):
AAAAAAATATTTAATATATTCATTAAAAATATGTTTTTCAAAAAAAATATTTAAAAAATATTT
Found at i:48632419 original size:12 final size:12
Alignment explanation
Indices: 48632393--48632494 Score: 59
Period size: 12 Copynumber: 8.3 Consensus size: 12
48632383 AAAAAAAATG
*
48632393 ATTTAAAAAT-G
1 ATTTAAAAATAT
48632404 ATTTAAAAATAT
1 ATTTAAAAATAT
* *
48632416 ATTT-GATATAT
1 ATTTAAAAATAT
48632427 -TCATTAAAAATATGT
1 AT--TTAAAAATA--T
* *
48632442 TTTTCAAAAAAAAT
1 ATTT-A-AAAATAT
*
48632456 ATTTAAAAAAAT
1 ATTTAAAAATAT
48632468 ATTTAAAAAT-T
1 ATTTAAAAATAT
*
48632479 ATTTAAATATAT
1 ATTTAAAAATAT
48632491 ATTT
1 ATTT
48632495 CTTTCCCAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.01
11 25 0.35
12 27 0.38
13 5 0.07
14 6 0.08
15 2 0.03
16 6 0.08
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (12 bp):
ATTTAAAAATAT
Found at i:48632465 original size:11 final size:11
Alignment explanation
Indices: 48632449--48632485 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
48632439 TGTTTTTCAA
48632449 AAAAAATATTT
1 AAAAAATATTT
48632460 AAAAAAATATTT
1 -AAAAAATATTT
*
48632472 AAAAATTATTT
1 AAAAAATATTT
48632483 AAA
1 AAA
48632486 TATATATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAAATATTT
Found at i:48632481 original size:23 final size:23
Alignment explanation
Indices: 48632449--48632494 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48632439 TGTTTTTCAA
48632449 AAAAAATATTTAAAAAAATATTT
1 AAAAAATATTTAAAAAAATATTT
* * *
48632472 AAAAATTATTTAAATATATATTT
1 AAAAAATATTTAAAAAAATATTT
48632495 CTTTCCCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAAATATTTAAAAAAATATTT
Found at i:48632895 original size:16 final size:16
Alignment explanation
Indices: 48632874--48632923 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
48632864 ATACTTAGTC
48632874 ATATAATAAATTATT-
1 ATATAATAAATTATTA
48632889 A-AT-ATAAATTATTA
1 ATATAATAAATTATTA
* *
48632903 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
48632920 ATAT
1 ATAT
48632924 TTCAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
15 2 0.07
16 8 0.30
17 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:48632909 original size:29 final size:30
Alignment explanation
Indices: 48632877--48632942 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
48632867 CTTAGTCATA
48632877 TAATAAATTA-TTAATA-TAAATTATTATTT
1 TAATAAATTATTTAATATTAAATT-TTATTT
*
48632906 TAATAAATTATTTAATATTTCAATTTTATTT
1 TAATAAATTATTTAATA-TTAAATTTTATTT
48632937 TAATAA
1 TAATAA
48632943 TAAATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 10 0.30
30 6 0.18
31 12 0.36
32 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATAAATTATTTAATATTAAATTTTATTT
Found at i:48633348 original size:31 final size:31
Alignment explanation
Indices: 48633310--48633374 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
48633300 TAATATATGC
48633310 AAAAAATGTAAAATATAAATTTATAAATATA
1 AAAAAATGTAAAATATAAATTTATAAATATA
*
48633341 AAAAAATGTAAAATATAAATTTATAGATATA
1 AAAAAATGTAAAATATAAATTTATAAATATA
48633372 AAA
1 AAA
48633375 TAAACTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (31 bp):
AAAAAATGTAAAATATAAATTTATAAATATA
Found at i:48638298 original size:16 final size:17
Alignment explanation
Indices: 48638277--48638313 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
48638267 ATTTAAACAA
48638277 AAAAAAAAGAAAA-AAG
1 AAAAAAAAGAAAAGAAG
48638293 AAAAAAAAGAAAAGAAG
1 AAAAAAAAGAAAAGAAG
48638310 AAAA
1 AAAA
48638314 GGCTGCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAG
Found at i:48639461 original size:16 final size:16
Alignment explanation
Indices: 48639442--48639484 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48639432 ATCTTTCTAG
48639442 TTTTCTATCCATTCAA
1 TTTTCTATCCATTCAA
* *
48639458 TTTTCCATCCTTTCAA
1 TTTTCTATCCATTCAA
*
48639474 TTTTCTTTCCA
1 TTTTCTATCCA
48639485 CCCTACCAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCTATCCATTCAA
Found at i:48642856 original size:20 final size:20
Alignment explanation
Indices: 48642828--48642865 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48642818 GGCTGTTACA
*
48642828 TCCAGTTCTACCAATACAAG
1 TCCACTTCTACCAATACAAG
*
48642848 TCCACTTCTACCCATACA
1 TCCACTTCTACCAATACA
48642866 TCTTGTGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (20 bp):
TCCACTTCTACCAATACAAG
Found at i:48644799 original size:14 final size:15
Alignment explanation
Indices: 48644780--48644818 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
48644770 TTCTTTCACT
48644780 GAAAATGACTTTC-G
1 GAAAATGACTTTCTG
*
48644794 GAAAATGA-TTTCTT
1 GAAAATGACTTTCTG
48644808 GAAAATGACTT
1 GAAAATGACTT
48644819 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (15 bp):
GAAAATGACTTTCTG
Found at i:48645388 original size:16 final size:18
Alignment explanation
Indices: 48645362--48645418 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
48645352 ATGTGAATAC
48645362 TATTATTTAAAA-TTAAT
1 TATTATTTAAAATTTAAT
48645379 TATT-TTTAAAATTTAAT
1 TATTATTTAAAATTTAAT
** *
48645396 T-TTAAAATAAAATTTAAA
1 TATT-ATTTAAAATTTAAT
48645414 TATTA
1 TATTA
48645419 AATATTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 9 0.27
17 10 0.30
18 12 0.36
19 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTAAAATTTAAT
Found at i:48645394 original size:17 final size:17
Alignment explanation
Indices: 48645362--48645396 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48645352 ATGTGAATAC
48645362 TATTATTTAAAATTAAT
1 TATTATTTAAAATTAAT
48645379 TATT-TTTAAAATTTAAT
1 TATTATTTAAAA-TTAAT
48645396 T
1 T
48645397 TTAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATTTAAAATTAAT
Found at i:48647790 original size:15 final size:15
Alignment explanation
Indices: 48647770--48647822 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
48647760 CCAAAAACCA
48647770 CTGGTTCTGCTACCG
1 CTGGTTCTGCTACCG
* *
48647785 CTGGTTTTGCTATCG
1 CTGGTTCTGCTACCG
48647800 CTGGTT-TAGCTACCG
1 CTGGTTCT-GCTACCG
48647815 CTGGTTCT
1 CTGGTTCT
48647823 TCTAATGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.08, C:0.26, G:0.26, T:0.40
Consensus pattern (15 bp):
CTGGTTCTGCTACCG
Found at i:48650326 original size:15 final size:15
Alignment explanation
Indices: 48650306--48650353 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
48650296 GGACACGGGC
48650306 TGTCACATGGCCGTG
1 TGTCACATGGCCGTG
48650321 TGTCACATGGCC-TG
1 TGTCACATGGCCGTG
* * *
48650335 -GTGACACGGTCGTG
1 TGTCACATGGCCGTG
48650349 TGTCA
1 TGTCA
48650354 TTTGTGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.15, C:0.25, G:0.33, T:0.27
Consensus pattern (15 bp):
TGTCACATGGCCGTG
Found at i:48662236 original size:69 final size:69
Alignment explanation
Indices: 48662102--48662522 Score: 355
Period size: 69 Copynumber: 6.1 Consensus size: 69
48662092 CATTCGTGTC
* * * * * * * * *
48662102 ATATTAAGGTTTGCAGGTGAAGTGC-GACAACCTCTAAAACAGTTAGCGAGATCAATGCTCTCAA
1 ATATTAAGGTTCGCAGGCGAAGAGCTGA-AACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAA
48662166 CTGTA
65 CTGTA
* * * *
48662171 ATATTAAGGTTCGTAGGCGAAGAGCTGAAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGGCGAAGAGCTGAAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
*
48662236 TATA
66 TGTA
* * * * * * *
48662240 ATATTGAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGAAAATCTCCTAGC
1 ATATTAAGGTTCGCAGGCGAAGAGCTGAAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
**
48662305 TGCC
66 TGTA
* * * * * * * * *
48662309 ATATGAAGGTTCGCAGGCAAAGAGCCGCAATCTCCAAAACAATTAGCAAGAGTAAAGGTGCCAGC
1 ATATTAAGGTTCGCAGGCGAAGAGCTGAAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
* *
48662374 TTTC
66 TGTA
* *
48662378 ATATTAAGGTTCGCAGGCGAAGAG-TCGCAACCTCCAAAATAATTAGCGAA-AGCAAAGCTCCCA
1 ATATTAAGGTTCGCAGGCGAAGAGCT-GAAACCTCCAAAACAATTAGC-AAGAGCAAAGCTCCCA
* *
48662441 GCTGTC
64 ACTGTA
* * * * * * * *
48662447 ATATTAAGATTCACAGGTGAAGAGC-CACAACCTCCAAAATAGTTAGCTAGAGCAAAGCTCTCAA
1 ATATTAAGGTTCGCAGGCGAAGAGCTGA-AACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAA
*
48662511 TTGTA
65 CTGTA
48662516 ATATTAA
1 ATATTAA
48662523 CATTTGTAGA
Statistics
Matches: 289, Mismatches: 57, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
68 1 0.00
69 284 0.98
70 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (69 bp):
ATATTAAGGTTCGCAGGCGAAGAGCTGAAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
TGTA
Found at i:48662356 original size:138 final size:138
Alignment explanation
Indices: 48662171--48662522 Score: 402
Period size: 138 Copynumber: 2.6 Consensus size: 138
48662161 CTCAACTGTA
* * * *
48662171 ATATTAAGGTTCGTAGGCGAAGAGCTGAAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
* *
48662236 TATAATATTGAGGTTCGCAGGCAAAGAG-CTGCAACCTCCAAAACAATTAGC-AAGAGAAAATCT
66 TATAATATTAAGGTTCGCAGGCAAAGAGTC-GCAACCTCCAAAACAATTAGCGAA-AGAAAAGCT
*
48662299 CCTAGCTGCC
129 CCCAGCTGCC
* * * * * * * * *
48662309 ATATGAAGGTTCGCAGGCAAAGAGCCGCAATCTCCAAAACAATTAGCAAGAGTAAAGGTGCCAGC
1 ATATTAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
* * * * *
48662374 TTTCATATTAAGGTTCGCAGGCGAAGAGTCGCAACCTCCAAAATAATTAGCGAAAGCAAAGCTCC
66 TATAATATTAAGGTTCGCAGGCAAAGAGTCGCAACCTCCAAAACAATTAGCGAAAGAAAAGCTCC
*
48662439 CAGCTGTC
131 CAGCTGCC
* * * * * * *
48662447 ATATTAAGATTCACAGGTGAAGAGCCACAACCTCCAAAATAGTTAGCTAGAGCAAAGCTCTCAAT
1 ATATTAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
*
48662512 TGTAATATTAA
66 TATAATATTAA
48662523 CATTTGTAGA
Statistics
Matches: 172, Mismatches: 40, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
138 169 0.98
139 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (138 bp):
ATATTAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
TATAATATTAAGGTTCGCAGGCAAAGAGTCGCAACCTCCAAAACAATTAGCGAAAGAAAAGCTCC
CAGCTGCC
Found at i:48662537 original size:69 final size:69
Alignment explanation
Indices: 48662396--48662551 Score: 170
Period size: 69 Copynumber: 2.3 Consensus size: 69
48662386 GTTCGCAGGC
* * * * *
48662396 GAAGAGTCGCAACCTCCAAAATAATTAGCGAAAGCAAAGCTCCCAGCTGTCATATTAAGATTCAC
1 GAAGAGCCACAACCTCCAAAATAATTAGCGAAAGCAAAGCTCCCAACTGTAATATTAACATTCAC
*
48662461 AGGT
66 AGAT
* * * * * ***
48662465 GAAGAGCCACAACCTCCAAAATAGTTAGCTAGAGCAAAGCTCTCAATTGTAATATTAACATTTGT
1 GAAGAGCCACAACCTCCAAAATAATTAGCGAAAGCAAAGCTCCCAACTGTAATATTAACATTCAC
48662530 AGAT
66 AGAT
*
48662534 GAAGAGCCAGAA-CTCCAA
1 GAAGAGCCACAACCTCCAA
48662552 GACAATTAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
68 6 0.08
69 66 0.92
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (69 bp):
GAAGAGCCACAACCTCCAAAATAATTAGCGAAAGCAAAGCTCCCAACTGTAATATTAACATTCAC
AGAT
Found at i:48675300 original size:20 final size:19
Alignment explanation
Indices: 48675272--48675314 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
48675262 AAAATTTTGA
* *
48675272 ATTGTTGCTAAACTATTTC
1 ATTGTTGCTAAACCATCTC
48675291 ATTGTATGCTAAACCATCTC
1 ATTGT-TGCTAAACCATCTC
48675311 ATTG
1 ATTG
48675315 CATTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (19 bp):
ATTGTTGCTAAACCATCTC
Found at i:48688487 original size:285 final size:285
Alignment explanation
Indices: 48687977--48688512 Score: 973
Period size: 285 Copynumber: 1.9 Consensus size: 285
48687967 TCCCATTCAC
* *
48687977 CACATTAACTCTCCTTCTCTCACCTTCCTTGTTTCTCCATATGGGAAGTCACAGTGTAATAATAG
1 CACATTAACTCTCCTTCTCTCACCTTCCTTGTTTCTCCATATGAGAAGTCACACTGTAATAATAG
48688042 CAATTATGGTCAACTTATGAGTTTTTGAGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
66 CAATTATGGTCAACTTATGAGTTTTTGAGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
*
48688107 TTTTTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCAATTGATTTTGTAC
131 TTATTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCAATTGATTTTGTAC
*
48688172 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCGCATATTTGTAGCTTTAGCTATAA
196 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTTTAGCTATAA
48688237 TTAATATATCACACTTTTTTATTCG
261 TTAATATATCACACTTTTTTATTCG
* *
48688262 CACATTAACTCTTCTTCTCTCACCTTTCTTGTTTCTCCATATGAGAAGTCACACTGTAATAATAG
1 CACATTAACTCTCCTTCTCTCACCTTCCTTGTTTCTCCATATGAGAAGTCACACTGTAATAATAG
*
48688327 CAATTATGGTCAACTTATGAGTTTTTGTGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
66 CAATTATGGTCAACTTATGAGTTTTTGAGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
* * *
48688392 TTATTGGATCACTTTGATTTTTTCAACCTTTTCTCACTCATAATGCTTTTCTATTGATTTTGTAC
131 TTATTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCAATTGATTTTGTAC
*
48688457 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTTTAGCTT
196 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTT
48688513 AACCATTATC
Statistics
Matches: 240, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
285 240 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (285 bp):
CACATTAACTCTCCTTCTCTCACCTTCCTTGTTTCTCCATATGAGAAGTCACACTGTAATAATAG
CAATTATGGTCAACTTATGAGTTTTTGAGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
TTATTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCAATTGATTTTGTAC
TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTTTAGCTATAA
TTAATATATCACACTTTTTTATTCG
Found at i:48716697 original size:30 final size:30
Alignment explanation
Indices: 48716640--48716701 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
48716630 GCTTTTTGAA
* *
48716640 AATATTTACAAAAAGACGCATCTAATTTTT
1 AATATTTACAAAAAGACGCACCAAATTTTT
*
48716670 AATATTTATAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGACGC-ACCAAATTTTT
48716700 AA
1 AA
48716702 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGACGCACCAAATTTTT
Found at i:48727780 original size:22 final size:22
Alignment explanation
Indices: 48727736--48727786 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
48727726 AATAGAAAAC
*
48727736 TGAAAGAAAAACTAAATACAAA
1 TGAAAGCAAAACTAAATACAAA
*
48727758 TGAAAGCAAAATTAAA-ACTAAA
1 TGAAAGCAAAACTAAATAC-AAA
*
48727780 TAAAAGC
1 TGAAAGC
48727787 TAAGTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (22 bp):
TGAAAGCAAAACTAAATACAAA
Found at i:48730714 original size:35 final size:35
Alignment explanation
Indices: 48730628--48730723 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
48730618 CTTTTTGAGG
* ** *
48730628 TGTCACCCCGAATGACTTATATA-CCATTACACGG
1 TGTCACCCCAAATGACTTATATATCGTTTACACGA
** * * *
48730662 TGTTGCCTCAGAGGACTTATATATCGTTTACACGA
1 TGTCACCCCAAATGACTTATATATCGTTTACACGA
48730697 TGTCACCCCAAATGACTTATATATCGT
1 TGTCACCCCAAATGACTTATATATCGT
48730724 CATCACAGTG
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
34 17 0.36
35 30 0.64
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (35 bp):
TGTCACCCCAAATGACTTATATATCGTTTACACGA
Found at i:48736856 original size:2 final size:2
Alignment explanation
Indices: 48736810--48736840 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48736800 TTGCATAAAT
48736810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48736841 TTAGCTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48740811 original size:12 final size:11
Alignment explanation
Indices: 48740792--48740895 Score: 63
Period size: 12 Copynumber: 10.3 Consensus size: 11
48740782 AAATTAAAAC
48740792 AAAA-ATTTTA
1 AAAATATTTTA
48740802 AAAAGTATTTTA
1 AAAA-TATTTTA
48740814 AAAATATTTT-
1 AAAATATTTTA
48740824 -AAA-A--TTA
1 AAAATATTTTA
* *
48740831 AAAA-AATTAA
1 AAAATATTTTA
48740841 AAAAGTATTTTA
1 AAAA-TATTTTA
48740853 AAAA-ATTTT-
1 AAAATATTTTA
48740862 -AAA-A-TTTA
1 AAAATATTTTA
48740870 AAAA-ATTTTAA
1 AAAATATTTT-A
48740881 AAAAGTATTTTA
1 AAAA-TATTTTA
48740893 AAA
1 AAA
48740896 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 26
0.73 0.03 0.25
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 9 0.12
9 7 0.09
10 18 0.23
11 11 0.14
12 22 0.29
13 5 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:48740842 original size:8 final size:9
Alignment explanation
Indices: 48740824--48740920 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 9
48740814 AAAATATTTT
48740824 AAAATTAAA
1 AAAATTAAA
48740833 AAAATTAAA
1 AAAATTAAA
*
48740842 AAAGTATTTTAA
1 AAA--A-TTAAA
**
48740854 AAAATTTTA
1 AAAATTAAA
*
48740863 AAATTTAAA
1 AAAATTAAA
*
48740872 AAATTTTAAA
1 AAA-ATTAAA
**
48740882 AAAGTATT-TT
1 AAA--ATTAAA
48740892 AAAATTAAA
1 AAAATTAAA
*
48740901 AAAATAAAA
1 AAAATTAAA
*
48740910 AAAAATAAA
1 AAAATTAAA
48740919 AA
1 AA
48740921 TATTTATTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 3 0.04
9 42 0.61
10 13 0.19
11 4 0.06
12 7 0.10
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATTAAA
Found at i:48740857 original size:40 final size:39
Alignment explanation
Indices: 48740792--48740895 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 39
48740782 AAATTAAAAC
*
48740792 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAA-TTA
1 AAAAATTTAAAAAAGTATTTTAAAAA-ATTTTAAAATTTA
*
48740831 AAAAAATTAAAAAAGTATTTTAAAAAATTTTAAAATTTA
1 AAAAATTTAAAAAAGTATTTTAAAAAATTTTAAAATTTA
48740870 AAAAATTTTAAAAAAGTATTTTAAAA
1 AAAAA-TTTAAAAAAGTATTTTAAAA
48740896 TTAAAAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 9 0.15
39 32 0.53
40 19 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (39 bp):
AAAAATTTAAAAAAGTATTTTAAAAAATTTTAAAATTTA
Found at i:48740911 original size:29 final size:30
Alignment explanation
Indices: 48740857--48740913 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
48740847 ATTTTAAAAA
* **
48740857 ATTTTAAAATTTAAAAAATTTTAAAAAAGT
1 ATTTTAAAATTTAAAAAAATAAAAAAAAGT
48740887 ATTTTAAAA-TTAAAAAAATAAAAAAAA
1 ATTTTAAAATTTAAAAAAATAAAAAAAA
48740914 ATAAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
ATTTTAAAATTTAAAAAAATAAAAAAAAGT
Found at i:48740913 original size:30 final size:30
Alignment explanation
Indices: 48740857--48740914 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48740847 ATTTTAAAAA
* ***
48740857 ATTTTAAAATTTAAAAAATTTTAAAAAAGT
1 ATTTTAAAATTAAAAAAATAAAAAAAAAGT
48740887 ATTTTAAAATTAAAAAAATAAAAAAAAA
1 ATTTTAAAATTAAAAAAATAAAAAAAAA
48740915 TAAAAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
ATTTTAAAATTAAAAAAATAAAAAAAAAGT
Found at i:48740913 original size:39 final size:39
Alignment explanation
Indices: 48740792--48740912 Score: 151
Period size: 38 Copynumber: 3.1 Consensus size: 39
48740782 AAATTAAAAC
48740792 AAAAATTTT-AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTTAAAAAAGTATTTT-AAAA-ATTTTAAAATTAA
*
48740832 AAAAA--TTAAAAAAGTATTTTAAAAAATTTTAAAATTTA
1 AAAAATTTTAAAAAAGTATTTT-AAAAATTTTAAAATTAA
** *
48740870 AAAAATTTTAAAAAAGTATTTT-AAAATTAAAAAAATAA
1 AAAAATTTTAAAAAAGTATTTTAAAAATTTTAAAATTAA
48740908 AAAAA
1 AAAAA
48740913 AATAAAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
38 36 0.49
39 17 0.23
40 20 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAAATTTTAAAAAAGTATTTTAAAAATTTTAAAATTAA
Found at i:48742466 original size:2 final size:2
Alignment explanation
Indices: 48742459--48742490 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48742449 CACTCGCTTT
48742459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48742491 CTTATACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48772642 original size:43 final size:44
Alignment explanation
Indices: 48772570--48772657 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
48772560 ATGTAAAAGT
48772570 TATTGTTGATTGATTATTTGTCTAAAAAATGTGAAATAAAATTA
1 TATTGTTGATTGATTATTTGTCTAAAAAATGTGAAATAAAATTA
48772614 TATTGTTGATTGATTATTTGTCT-AAAAATGTGAAATAAAATTA
1 TATTGTTGATTGATTATTTGTCTAAAAAATGTGAAATAAAATTA
48772657 T
1 T
48772658 GTATAGGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 21 0.48
44 23 0.52
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (44 bp):
TATTGTTGATTGATTATTTGTCTAAAAAATGTGAAATAAAATTA
Found at i:48809459 original size:20 final size:20
Alignment explanation
Indices: 48809434--48809474 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48809424 GGGACGTGTT
48809434 AGGTTTGAAACAATTTAATC
1 AGGTTTGAAACAATTTAATC
48809454 AGGTTTGAAACAATTTAATC
1 AGGTTTGAAACAATTTAATC
48809474 A
1 A
48809475 CACAAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
AGGTTTGAAACAATTTAATC
Found at i:48811871 original size:23 final size:23
Alignment explanation
Indices: 48811833--48811877 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48811823 TAGTGCATGA
* *
48811833 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
48811856 TGTAATACCCCAAAAATTACTA
1 TGTAATACCCCAAAAATTACTA
48811878 AAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:48811883 original size:23 final size:23
Alignment explanation
Indices: 48811834--48811883 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
48811824 AGTGCATGAT
* * **
48811834 GTAATATCCCGAAAATTACTACT
1 GTAATACCCCAAAAATTACTAAA
48811857 GTAATACCCCAAAAATTACTAAA
1 GTAATACCCCAAAAATTACTAAA
48811880 GTAA
1 GTAA
48811884 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (23 bp):
GTAATACCCCAAAAATTACTAAA
Found at i:48817292 original size:4 final size:4
Alignment explanation
Indices: 48817283--48817309 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48817273 ATTAACTTAG
48817283 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
48817310 GTTTCTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:48835003 original size:9 final size:9
Alignment explanation
Indices: 48834989--48835062 Score: 67
Period size: 9 Copynumber: 8.2 Consensus size: 9
48834979 TTCAATTCGG
*
48834989 TTCGGGTGA
1 TTCGGGTAA
48834998 TTCGGGTAA
1 TTCGGGTAA
* *
48835007 TTCGGTTAC
1 TTCGGGTAA
*
48835016 TTCAGGTAA
1 TTCGGGTAA
* *
48835025 TTCAGTTAA
1 TTCGGGTAA
*
48835034 TTCGGATAA
1 TTCGGGTAA
*
48835043 TTCGGTTAA
1 TTCGGGTAA
*
48835052 TTCGGTTAA
1 TTCGGGTAA
48835061 TT
1 TT
48835063 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:48835023 original size:18 final size:17
Alignment explanation
Indices: 48834997--48835062 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 17
48834987 GGTTCGGGTG
48834997 ATTCGGGTAATTCGGTTA
1 ATTC-GGTAATTCGGTTA
* *
48835015 CTTCAGGTAATTCAGTTA
1 ATTC-GGTAATTCGGTTA
48835033 ATTCGGATAATTCGGTTA
1 ATTCGG-TAATTCGGTTA
48835051 ATTCGGTTAATT
1 ATTCGG-TAATT
48835063 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 2 0.05
18 39 0.95
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (17 bp):
ATTCGGTAATTCGGTTA
Found at i:48835027 original size:27 final size:27
Alignment explanation
Indices: 48834997--48835062 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
48834987 GGTTCGGGTG
* * *
48834997 ATTCGGGTAATTCGGTTACTTCAGG-TA
1 ATTCGGTTAATTCGGATAATTC-GGTTA
*
48835024 ATTCAGTTAATTCGGATAATTCGGTTA
1 ATTCGGTTAATTCGGATAATTCGGTTA
48835051 ATTCGGTTAATT
1 ATTCGGTTAATT
48835063 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTCGGTTAATTCGGATAATTCGGTTA
Found at i:48848985 original size:24 final size:24
Alignment explanation
Indices: 48848942--48849015 Score: 96
Period size: 23 Copynumber: 3.0 Consensus size: 24
48848932 AAAAAACTAC
48848942 AAAAATATTTAAAAATCCTAAACCCT
1 AAAAATA-TTAAAAA-CCTAAACCCT
* *
48848968 AATAATATTAAAACCCTAAA-CCT
1 AAAAATATTAAAAACCTAAACCCT
*
48848991 AAAAATATTAAAAACCTTAACCCT
1 AAAAATATTAAAAACCTAAACCCT
48849015 A
1 A
48849016 GGAGAGAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 20 0.48
24 10 0.24
25 6 0.14
26 6 0.14
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAATATTAAAAACCTAAACCCT
Found at i:48857135 original size:9 final size:9
Alignment explanation
Indices: 48857121--48857168 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
48857111 ATTCAATACT
*
48857121 TTAATTTGG
1 TTAATTCGG
*
48857130 TTAATTCAG
1 TTAATTCGG
*
48857139 TTAATTAGG
1 TTAATTCGG
**
48857148 TTAATTTAG
1 TTAATTCGG
48857157 TTAATTCGG
1 TTAATTCGG
48857166 TTA
1 TTA
48857169 TTTTTTTATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (9 bp):
TTAATTCGG
Found at i:48857144 original size:18 final size:18
Alignment explanation
Indices: 48857121--48857168 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
48857111 ATTCAATACT
*
48857121 TTAATTTGGTTAATTCAG
1 TTAATTAGGTTAATTCAG
*
48857139 TTAATTAGGTTAATTTAG
1 TTAATTAGGTTAATTCAG
*
48857157 TTAATTCGGTTA
1 TTAATTAGGTTA
48857169 TTTTTTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (18 bp):
TTAATTAGGTTAATTCAG
Found at i:48858502 original size:12 final size:12
Alignment explanation
Indices: 48858485--48858515 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48858475 AAATAGATGT
48858485 TGAATTTAGTTA
1 TGAATTTAGTTA
*
48858497 TGAATTTATTTA
1 TGAATTTAGTTA
48858509 TGAATTT
1 TGAATTT
48858516 TTTCACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (12 bp):
TGAATTTAGTTA
Found at i:48864163 original size:16 final size:16
Alignment explanation
Indices: 48864142--48864180 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
48864132 TATACAAGAT
48864142 TAATTCAATGATCTCA
1 TAATTCAATGATCTCA
48864158 TAATTCAATGATCTCA
1 TAATTCAATGATCTCA
48864174 T-ATTCAA
1 TAATTCAA
48864181 CTAATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (16 bp):
TAATTCAATGATCTCA
Found at i:48865314 original size:8 final size:9
Alignment explanation
Indices: 48865302--48865337 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
48865292 AATTATCAAA
48865302 ATCATAT-T
1 ATCATATAT
48865310 ATCATATAT
1 ATCATATAT
48865319 AT-ATATAT
1 ATCATATAT
48865327 AT-ATATAT
1 ATCATATAT
48865335 ATC
1 ATC
48865338 TGAATATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 23 0.88
9 3 0.12
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (9 bp):
ATCATATAT
Found at i:48872117 original size:25 final size:25
Alignment explanation
Indices: 48872083--48872134 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
48872073 GATACTTGTC
*
48872083 CACCTAAGTATCAATGGAAGTTATT
1 CACCTAAGTATCAATAGAAGTTATT
*
48872108 CACCTAAGTATCGATAGAAGTTATT
1 CACCTAAGTATCAATAGAAGTTATT
48872133 CA
1 CA
48872135 GACTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (25 bp):
CACCTAAGTATCAATAGAAGTTATT
Found at i:48876823 original size:18 final size:18
Alignment explanation
Indices: 48876789--48876827 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48876779 TACAAGCCAA
48876789 TATTTTTTAATGATTTTT
1 TATTTTTTAATGATTTTT
*
48876807 TATTTGTTT-ATGTTTTTT
1 TATTT-TTTAATGATTTTT
48876825 TAT
1 TAT
48876828 CGTAATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TATTTTTTAATGATTTTT
Found at i:48878903 original size:69 final size:71
Alignment explanation
Indices: 48878777--48878907 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 71
48878767 GTTCTGGACA
* * *
48878777 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAGTTTGTTAGTGAGTAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
48878842 TGGCAG
66 TGGCAG
* ** *
48878848 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTG
48878908 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
69 25 0.47
70 3 0.06
71 25 0.47
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.43
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
TGGCAG
Found at i:48880067 original size:37 final size:37
Alignment explanation
Indices: 48880024--48880112 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
48880014 ATCATAAATA
48880024 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAACTTTGAACATGCTTT
* * *
48880061 ATTAAACTAATCAATGTGAGGACTTTGAACATGCTTT
1 AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
*
48880098 AATGAACTAATCAAT
1 AATAAACTAATCAAT
48880113 ATATTTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 44 0.96
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
Found at i:48880198 original size:33 final size:33
Alignment explanation
Indices: 48880161--48880296 Score: 159
Period size: 33 Copynumber: 4.1 Consensus size: 33
48880151 CTTGAAGTAC
*
48880161 ACATATACCAACAATTAATTTTAGGTCAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAATTAT
** *** **
48880194 ACATACACCAACAATT-ATACATAAACCAACAATT
1 ACATACACCAACAATTAAT-TTTAGGTCAATTA-T
*
48880228 A-ATAAACCAACAATTAATTTTAGGTCAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAATTAT
48880260 ACATACACCAACAATTAATTTTAGGTCAATTAT
1 ACATACACCAACAATTAATTTTAGGTCAATTAT
48880293 ACAT
1 ACAT
48880297 GCTTTATAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
32 4 0.05
33 74 0.90
34 4 0.05
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.31
Consensus pattern (33 bp):
ACATACACCAACAATTAATTTTAGGTCAATTAT
Done.