Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 159 of 352
Found at i:51934746 original size:15 final size:14
Alignment explanation
Indices: 51934708--51934755 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
51934698 AAAAATTTGA
*
51934708 AATTTAGTTTTTAT
1 AATTTAATTTTTAT
* *
51934722 ATTTTTATTTTTAGT
1 AATTTAATTTTTA-T
*
51934737 AATTTAATTTTTTT
1 AATTTAATTTTTAT
51934751 AATTT
1 AATTT
51934756 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:51935040 original size:15 final size:16
Alignment explanation
Indices: 51935020--51935051 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51935010 ATTTATAACA
51935020 ATTAGA-ATTAACTTT
1 ATTAGATATTAACTTT
51935035 ATTAGATATTAACTTT
1 ATTAGATATTAACTTT
51935051 A
1 A
51935052 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTAGATATTAACTTT
Found at i:51936252 original size:19 final size:19
Alignment explanation
Indices: 51936230--51936278 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
51936220 ATCACTGTCA
*
51936230 CCCAATGTAATTAAATTTG
1 CCCAATGTAATCAAATTTG
* * *
51936249 CCCACTATAATCGAATTTG
1 CCCAATGTAATCAAATTTG
51936268 CCCAATGTAAT
1 CCCAATGTAAT
51936279 AACTGTTACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (19 bp):
CCCAATGTAATCAAATTTG
Found at i:51936777 original size:127 final size:125
Alignment explanation
Indices: 51936620--51936870 Score: 303
Period size: 127 Copynumber: 2.0 Consensus size: 125
51936610 AGTGAGAAGT
* ** *
51936620 AAAAGTTTTGGGAGTTGAAGGAATAAAATTTTGGGGGGGGGATATT-AAAAAAAATTTGGC-AGG
1 AAAAGTTTTGGGAGTTGAAGGAATAAAATTTT-GAGGGGAAATATTCAAAAAAAAATT--CAAGG
** * *
51936683 TGGGATGGGTTTGGGGTAGAAGGGAGGTGGGATGGG-AGGGTAGTAAAAGTTTT-GGGGGAAAAT
63 -GAAATGGGTTTGGGGTAGAAGGG-GGTGGGATGGGAAGAG-AATAAAAGTTTTAGGGGGAAAAT
51936746 A
125 A
* * * *
51936747 AAAAGTTTTGGGGGTTTAGGGAGTAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
1 AAAAGTTTTGGGAGTTGAAGGAATAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
*
51936812 ATGGGTTTGGGGTAGAAGGGGTTGGGATGGGAAGAGAATAAAAGTTTTAGGGGGAAAAT
66 ATGGGTTTGGGGTAGAAGGGGGTGGGATGGGAAGAGAATAAAAGTTTTAGGGGGAAAAT
51936871 GGGAGGGGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
124 21 0.20
125 35 0.33
126 13 0.12
127 38 0.36
ACGTcount: A:0.35, C:0.01, G:0.39, T:0.25
Consensus pattern (125 bp):
AAAAGTTTTGGGAGTTGAAGGAATAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
ATGGGTTTGGGGTAGAAGGGGGTGGGATGGGAAGAGAATAAAAGTTTTAGGGGGAAAATA
Found at i:51943855 original size:15 final size:15
Alignment explanation
Indices: 51943835--51943864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51943825 AGAAATCACA
51943835 TGTCCCAGAAAAGTT
1 TGTCCCAGAAAAGTT
51943850 TGTCCCAGAAAAGTT
1 TGTCCCAGAAAAGTT
51943865 AACTCTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
TGTCCCAGAAAAGTT
Found at i:51952433 original size:48 final size:48
Alignment explanation
Indices: 51952370--51952559 Score: 238
Period size: 48 Copynumber: 4.0 Consensus size: 48
51952360 TACTCAGGAG
* * * * *
51952370 TCTTGCACACTAAGTGCTAATATCATGGCCTGAAGCTAACTCAATGTA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* *
51952418 TCTTGCACCCAAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* * ** *
51952466 GCTTGCACCTGAAGTGCCGATATCATGGCCTGAAGCCAAATCAATAAA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* *
51952514 GT-TGGCACCCGAAGTGCTGATATCATGGCCTGAAGCCAAATCAATG
1 -TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATG
51952560 TATCCCCAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
Found at i:51953149 original size:21 final size:21
Alignment explanation
Indices: 51953125--51953164 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51953115 ACTTGTATAA
*
51953125 CTATCATCAAACATTAAAAAT
1 CTATCATCAAACATCAAAAAT
*
51953146 CTATCATTAAACATCAAAA
1 CTATCATCAAACATCAAAA
51953165 TACTCATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (21 bp):
CTATCATCAAACATCAAAAAT
Found at i:51954048 original size:83 final size:83
Alignment explanation
Indices: 51953909--51954067 Score: 266
Period size: 83 Copynumber: 1.9 Consensus size: 83
51953899 CCTAGCACAT
* *
51953909 GGGCATGTGGTTTGGTCATGTGTTCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGTG
1 GGGCATGTGGTTTGGCCATGTGTTCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
51953974 TTCACATGGCCAACATAC
66 TTCACATGGCCAACATAC
* *
51953992 GGGCATGTGGTTTGGCCGTGTG-TCCCTTGCATCTATTAATTTGCAAAACGAAATACTCAGAAGA
1 GGGCATGTGGTTTGGCCATGTGTTCCC-TACATCTATTAATTTGCAAAACGAAATACTCAGAAGA
51954056 GTTCACATGGCC
65 GTTCACATGGCC
51954068 TAGCACACGG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
82 4 0.06
83 67 0.94
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (83 bp):
GGGCATGTGGTTTGGCCATGTGTTCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
TTCACATGGCCAACATAC
Found at i:51954120 original size:83 final size:82
Alignment explanation
Indices: 51953941--51954120 Score: 227
Period size: 83 Copynumber: 2.2 Consensus size: 82
51953931 TTCCCTACAT
* * ***
51953941 CTATTAATTTGCAAAACGAAATACTCAGAAGTGTTCACATGGCCAACATACGGGCATGTGGTTTG
1 CTATTAA-TTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCAACACACGGGCATGTAACTTG
* *
51954006 GCCGTGTGTCCCTTGCAT
65 GCCGTGTGACCCTTGCAC
* *
51954024 CTATTAATTTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCTAGCACACGGGCGTGTAACTT
1 CTATTAA-TTGCAAAACGAAATACTCAGAAGAGTTCACATGGCC-AACACACGGGCATGTAACTT
*
51954089 GGCTGTGTGACCCTTGCAC
64 GGCCGTGTGACCCTTGCAC
51954108 CTTATTAA-TGCAA
1 C-TATTAATTGCAA
51954121 GTTAGTATGC
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
83 48 0.56
84 31 0.36
85 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (82 bp):
CTATTAATTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCAACACACGGGCATGTAACTTGG
CCGTGTGACCCTTGCAC
Found at i:51969319 original size:15 final size:15
Alignment explanation
Indices: 51969275--51969313 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
51969265 GGAATTAAAT
51969275 TAAACTAAATG-AAAA
1 TAAAC-AAATGAAAAA
51969290 TAAACAAATGAAAAA
1 TAAACAAATGAAAAA
*
51969305 TAAATAAAT
1 TAAACAAAT
51969314 TTAAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (15 bp):
TAAACAAATGAAAAA
Found at i:51971526 original size:40 final size:40
Alignment explanation
Indices: 51971421--51971720 Score: 376
Period size: 40 Copynumber: 7.5 Consensus size: 40
51971411 CGAATGATAA
* *
51971421 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
51971461 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51971500 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51971540 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51971580 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGT----GCGAGTTACTATAT
* *
51971624 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
51971664 CCGGGCT-AGTCCCAAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51971703 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51971721 TACTTGGTTT
Statistics
Matches: 237, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
38 6 0.03
39 69 0.29
40 122 0.51
44 40 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51971641 original size:124 final size:119
Alignment explanation
Indices: 51971417--51971687 Score: 375
Period size: 124 Copynumber: 2.2 Consensus size: 119
51971407 TATTCGAATG
* * *
51971417 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGTTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
*
51971482 TTGTGCGAGTCACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
66 TTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
* * *
51971536 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
* * *
51971600 ATTTGTGCGAGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
64 ATTTGT----GCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
*
51971660 ATAACCGGGCT-AGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
51971688 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
118 2 0.01
119 45 0.34
120 15 0.11
123 16 0.12
124 56 0.42
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
Found at i:51978472 original size:27 final size:27
Alignment explanation
Indices: 51978013--51978465 Score: 508
Period size: 27 Copynumber: 16.9 Consensus size: 27
51978003 AGTACTCCCA
* *
51978013 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCG
51978040 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTATAGAATTACCGTTTTACCCTCG
* *
51978066 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCG
* * *
51978093 ATTTGTAAAATTATCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCG
*
51978120 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTATAGAATTACCGTTTTACCCTCG
* **
51978146 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTATAGAATTACCGTTTTACCCTCG
*
51978174 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTATAGAATTACCGTTTTACCCTCG
* **
51978200 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTATAGAATTACCGTTTTACCCTCG
51978228 ATTTATAGAA-TACCGTTTTACCCTC-
1 ATTTATAGAATTACCGTTTTACCCTCG
** *
51978253 AGTTTATAGAATTACTATTTTATCCTCG
1 A-TTTATAGAATTACCGTTTTACCCTCG
51978281 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTATAGAATTACCGTTTTACCCTCG
** *
51978307 AGTTTATAGAATTATTGTTTTACCATCG
1 A-TTTATAGAATTACCGTTTTACCCTCG
* *
51978335 ATTTAAAAAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCG
* * *
51978362 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTATAGAATTACCGTTTTACCCTCG
* ** *
51978389 ATTTACAGAATTATTAG-TTTACCTTC-
1 ATTTATAGAATTA-CCGTTTTACCCTCG
* *
51978415 AGTTTATAAAATTATCGTTTTACCCTCG
1 A-TTTATAGAATTACCGTTTTACCCTCG
51978443 ATTTATAGAATTACCGTTTTACC
1 ATTTATAGAATTACCGTTTTACC
51978466 TTTGATTGTG
Statistics
Matches: 360, Mismatches: 52, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 52 0.14
27 301 0.84
28 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
ATTTATAGAATTACCGTTTTACCCTCG
Found at i:51978513 original size:27 final size:27
Alignment explanation
Indices: 51978484--51978654 Score: 200
Period size: 27 Copynumber: 6.3 Consensus size: 27
51978474 TGAAATTACT
* * *
51978484 GAAATACCCCTGTAGGGCAGAATTTTT
1 GAAATACCCCTGTAGGGTAGAATTATC
*
51978511 GAAATACCCCTATAGGGTAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
51978537 TGAAATACCCTTATAGGATAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTATC
* *
51978565 AAAATACCCCTGTAGAGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
51978592 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
51978619 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
51978646 GAGATACCC
1 GAAATACCC
51978655 TTGTGGGGCA
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 121 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:51978541 original size:54 final size:54
Alignment explanation
Indices: 51978477--51978670 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
51978467 TTGATTGTGA
* * * *
51978477 AATTACTGAAATACCCCTGTAGGGCAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGCAGAATTATCGAAATACCCCTGTAGGGTAG
* ** * * *
51978531 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCTTGTAGGGCAGAATTATCGAAATACCCCTGTAGGGTAG
* *
51978585 AATTA-TCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGCAGAATTATCGAAATACCCCTGTAGGGTAG
* * * *
51978639 AATTACCGAGATACCCTTGTGGGGCAAAATTA
1 AATTACTGAAATACCCTTGTAGGGCAGAATTA
51978671 CCATTTTGCC
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 115 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGCAGAATTATCGAAATACCCCTGTAGGGTAG
Found at i:51978573 original size:81 final size:81
Alignment explanation
Indices: 51978485--51978670 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
51978475 GAAATTACTG
* * * *
51978485 AAATACCCCTGTAGGGCAGAATTTTTGAAATACCCCTATAGGGTAGAATTA-CTGAAATACCCTT
1 AAATACCCCTGTAGGGCAGAATTATCGAAATACCCCTATAGGGTAGAAATATC-GAAATACCCCT
51978549 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* * * * *
51978566 AAATACCCCTGTAGAGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTG
1 AAATACCCCTGTAGGGCAGAATTATCGAAATACCCCTATAGGGTAGAAATATCGAAATACCCCTA
* *
51978631 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
51978647 AGATACCCTTGTGGGGCAAAATTA
1 AAATACCCCTGTAGGGCAGAATTA
51978671 CCATTTTGCC
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 86 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGCAGAATTATCGAAATACCCCTATAGGGTAGAAATATCGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:51978669 original size:27 final size:27
Alignment explanation
Indices: 51978476--51978672 Score: 153
Period size: 27 Copynumber: 7.3 Consensus size: 27
51978466 TTTGATTGTG
* * *
51978476 AAATTACTGAAATACCCCTGTAGGGCA
1 AAATTACCGAAATACCCTTGTAGGGTA
* *** * *
51978503 GAATTTTTGAAATACCCCTATAGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
* * * *
51978530 GAATTACTGAAATACCCTTATAGGATA
1 AAATTACCGAAATACCCTTGTAGGGTA
* * * *
51978557 GAATTACCAAAATACCCCTGTAGAGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
* *
51978584 GAATTATCGAAATACCCTTGTAGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
* *
51978611 GAAA-TATCGAAATACCCCTGTAGGGTA
1 -AAATTACCGAAATACCCTTGTAGGGTA
* * * *
51978638 GAATTACCGAGATACCCTTGTGGGGCA
1 AAATTACCGAAATACCCTTGTAGGGTA
51978665 AAATTACC
1 AAATTACC
51978673 ATTTTGCCTC
Statistics
Matches: 140, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 136 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGTAGGGTA
Found at i:51979003 original size:20 final size:20
Alignment explanation
Indices: 51978963--51979003 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51978953 TGTGTGCCAT
* *
51978963 TATTGTGGGCTTCTTATCGA
1 TATTGTGGGCTTCGTACCGA
*
51978983 TATTGTGGGCTTCGTGCCGA
1 TATTGTGGGCTTCGTACCGA
51979003 T
1 T
51979004 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.41
Consensus pattern (20 bp):
TATTGTGGGCTTCGTACCGA
Found at i:51979052 original size:22 final size:22
Alignment explanation
Indices: 51979020--51979078 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51979010 CCCGTTATCA
*
51979020 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
51979042 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
51979064 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
51979079 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:51979266 original size:27 final size:26
Alignment explanation
Indices: 51979236--51979337 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
51979226 ATTCTATTAA
* *
51979236 GTGGCTTTTCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
* *
51979263 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTG
51979290 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* * *
51979317 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
51979338 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.78
28 6 0.09
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:51979512 original size:6 final size:6
Alignment explanation
Indices: 51979474--51979556 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
51979464 TTGCATTCAC
* *
51979474 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
51979524 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
51979557 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
5 4 0.06
6 44 0.71
7 12 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:51979554 original size:31 final size:31
Alignment explanation
Indices: 51979474--51979547 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
51979464 TTGCATTCAC
* *
51979474 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
51979506 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
51979537 ATTCTGATTCT
1 ATTCTGATTCT
51979548 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:51982972 original size:46 final size:45
Alignment explanation
Indices: 51982913--51983026 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
51982903 TTTAAGGCAA
* *
51982913 TGTAAGACATGTCTGGGACATGTATCTG-CATTGAG-ACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATC-GACATCGAGAAC-A-AGCTAG
* *
51982959 TGTAAGACATGTCTAGGACATGCATCGACCTCGAGATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACATCGAGA-ACAAGCTAG
*
51983005 TGTAAGACCTGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
51983027 GAGTTAGCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
45 1 0.02
46 55 0.93
47 1 0.02
48 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGACATCGAGAACAAGCTAG
Found at i:51982995 original size:94 final size:92
Alignment explanation
Indices: 51982856--51983026 Score: 213
Period size: 94 Copynumber: 1.8 Consensus size: 92
51982846 GCCACAGTAT
* * * *
51982856 GAGAGCCAGTGTAAGACATGTTTGGGACATGCATTAGCCATGAGATATTTAAGGC-AATGTAAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATA--CAA-GCTAATGTAAGA
51982920 CATGTCTGGGACATGTATCTGCATTGAGAC
63 CATGTCTGGGACATGTATCTGCATTGAGAC
* *
51982950 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGA-CC-TCGAGATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCAT-GAGCCAT-GAGATACAAGCTAATGTAAGAC
*
51983013 CTGTCTGGGACATG
64 ATGTCTGGGACATG
51983027 GAGTTAGCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
91 2 0.03
92 24 0.36
93 1 0.01
94 39 0.58
95 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (92 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATACAAGCTAATGTAAGACAT
GTCTGGGACATGTATCTGCATTGAGAC
Found at i:51984333 original size:20 final size:21
Alignment explanation
Indices: 51984295--51984333 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51984285 TTATAATGAT
*
51984295 CACACGGGCGTGTTGCCCTTC
1 CACACGAGCGTGTTGCCCTTC
51984316 CACACGAGCGTG-TGCCCT
1 CACACGAGCGTGTTGCCCT
51984334 ATTTCAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTC
Found at i:51990770 original size:46 final size:46
Alignment explanation
Indices: 51990575--51990786 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 46
51990565 TGATATGTGT
* *
51990575 GCTAGTGTAAGACATGTATGGGACATGCATCAGCCAC-AG-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAT-A-A
* * * *
51990621 GCCAGTGTAAGATAAGTCTGGGACATGTATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAA
* * * * * * *
51990669 GCCAGTGTAAGACATGTCTGAGACAT-CATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAA
* **
51990714 GCTAGTGTAAGAAATGTCTGGGACATGCATTGGCCTCGAGATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
* *
51990760 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
51990787 GCGTCAACTT
Statistics
Matches: 133, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 25 0.19
46 67 0.50
47 12 0.09
48 27 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
Found at i:51993221 original size:50 final size:50
Alignment explanation
Indices: 51993108--51993287 Score: 245
Period size: 50 Copynumber: 3.6 Consensus size: 50
51993098 CTCGTATGCA
* * * * ** * *
51993108 TAGTAGCTTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
51993157 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *
51993207 TAGTAGCCTACACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
51993257 TAGTAGCCTGCACTTAGTACTACACATGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
51993288 TCACAGTTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
49 29 0.25
50 87 0.75
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:51993289 original size:50 final size:50
Alignment explanation
Indices: 51993108--51993335 Score: 244
Period size: 50 Copynumber: 4.6 Consensus size: 50
51993098 CTCGTATGCA
* * * * ** * *
51993108 TAGTAGCTTGCACATAGTACTACACATGCGA-CCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCTAACCATCTGATACACG
* *
51993157 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCTAACCATCTGATACACG
* **
51993207 TAGTAGCCTACACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCTAACCATCTGATACACG
*** * * * *
51993257 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCTA-A-CCATCTGATACACG
51993308 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
51993336 CGACCTCACA
Statistics
Matches: 154, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 28 0.18
50 91 0.59
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCTAACCATCTGATACACG
Found at i:51995471 original size:15 final size:15
Alignment explanation
Indices: 51995419--51995472 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
51995409 TAAAGATAAC
*
51995419 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
51995433 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
51995448 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
51995463 AAGAAACCCA
1 AAGAAACCCA
51995473 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:51998595 original size:51 final size:49
Alignment explanation
Indices: 51998476--51998716 Score: 288
Period size: 51 Copynumber: 4.8 Consensus size: 49
51998466 AAAGCTATCT
* *
51998476 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
* * * * *
51998525 GCTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATTC
* *
51998575 GGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
* * * *
51998625 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATTC
*
51998675 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
51998717 TCACAATAGA
Statistics
Matches: 161, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
49 72 0.45
50 13 0.08
51 76 0.47
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
Found at i:51998611 original size:100 final size:100
Alignment explanation
Indices: 51998476--51998716 Score: 464
Period size: 100 Copynumber: 2.4 Consensus size: 100
51998466 AAAGCTATCT
51998476 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGCTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGCTACACGTAGTAGCC
51998541 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
51998576 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGCTACACGTAGTAGCC
51998641 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
51998676 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC
51998717 TCACAATAGA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 139 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGCTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:52002494 original size:46 final size:48
Alignment explanation
Indices: 52002379--52002549 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 48
52002369 AGAGCTAGGG
* * * * * *
52002379 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCAAAATGTAGA-TCAGTA
* *
52002425 TAAGA-CACGTTTGGGACAT-GCATCGAC-TACAAAATGT-G-TCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGACAT-CAAAATGTAGATCAGTA
** * *
52002469 TAAGACCATGTCTGGGACATGGCATCGACATGGATATGTGAGATTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATCAAAATGT-AGA-TCAGTA
*
52002519 TAAGACCATGTCTGGGACATGGCATCAACAT
1 TAAGACCATGTCTGGGACATGGCATCGACAT
52002550 TATACCCCGT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.09
45 13 0.13
46 43 0.42
47 1 0.01
48 1 0.01
50 35 0.34
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGACATCAAAATGTAGATCAGTA
Found at i:52005361 original size:28 final size:28
Alignment explanation
Indices: 52005302--52005362 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
52005292 TTGAAATTTG
** * *
52005302 AAATTTAATTTTATATTTTTATCTTTTG
1 AAATTTAATTTTATATTTTTAAATTCTA
52005330 AAATTTAATTTT-TAATTTTTAAATTCTA
1 AAATTTAATTTTAT-ATTTTTAAATTCTA
52005358 AAATT
1 AAATT
52005363 CAGGTTCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (28 bp):
AAATTTAATTTTATATTTTTAAATTCTA
Found at i:52006748 original size:16 final size:15
Alignment explanation
Indices: 52006724--52006776 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
52006714 AAAATTGAAA
*
52006724 TATAAATTATTCTATT
1 TATATATTATT-TATT
*
52006740 TATATATTATTATATA
1 TATATATTATT-TATT
*
52006756 TAAATACTTATTTATT
1 TATATA-TTATTTATT
52006772 TATAT
1 TATAT
52006777 TCATCTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 25 0.83
17 5 0.17
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATATTATTTATT
Found at i:52007468 original size:28 final size:28
Alignment explanation
Indices: 52007410--52007474 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
52007400 AATCTTGAAT
* *
52007410 TTTTTTATTAAAAATATCTATTTATATA
1 TTTTTTATTAAAAAAATCTATTTATAGA
* *
52007438 TTTTATATTATAAAAAATCTATTT-TGGA
1 TTTTTTATTA-AAAAAATCTATTTATAGA
52007466 TTTTTTATT
1 TTTTTTATT
52007475 TTTATATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTTATTAAAAAAATCTATTTATAGA
Found at i:52007470 original size:29 final size:26
Alignment explanation
Indices: 52007410--52007474 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
52007400 AATCTTGAAT
*
52007410 TTTTTTATTAAAAATATCTATTTATA
1 TTTTTTATTAAAAAAATCTATTTATA
52007436 TATTTTATATTATAAAAAATCTATTT-TGGA
1 T-TTTT-TATTA-AAAAAATCTATTTAT--A
52007466 TTTTTTATT
1 TTTTTTATT
52007475 TTTATATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 4 0.12
28 10 0.30
29 16 0.48
30 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTTTATTAAAAAAATCTATTTATA
Found at i:52009318 original size:21 final size:21
Alignment explanation
Indices: 52009292--52009336 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
52009282 TAAACAAGTT
* *
52009292 TAACACACCATTCCATATGCA
1 TAACACACCAGTCCATATGAA
*
52009313 TAACACACTAGTCCATATGAA
1 TAACACACCAGTCCATATGAA
52009334 TAA
1 TAA
52009337 ATCTACAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (21 bp):
TAACACACCAGTCCATATGAA
Found at i:52009928 original size:19 final size:21
Alignment explanation
Indices: 52009904--52009989 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
52009894 CATTGTTAAT
52009904 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
52009923 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
52009944 AGAAACTCGTATGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
52009965 AGAAGCTCATAA-AGTCTAAAC
1 AGAAGCTCGTAAGAG-CTGAAC
52009986 AGAA
1 AGAA
52009990 TGTAAAACAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
21 41 0.76
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:52012894 original size:31 final size:31
Alignment explanation
Indices: 52012856--52012996 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
52012846 TTTAACGATT
52012856 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
52012887 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
52012918 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
52012949 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
52012980 ACTAGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
52012997 ACTGTAAACG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:52013067 original size:42 final size:42
Alignment explanation
Indices: 52013020--52013111 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
52013010 TGGCACTTAG
52013020 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
52013062 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
52013104 GCCCATTT
1 GCCCATTT
52013112 GGGGAGACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:52013284 original size:24 final size:26
Alignment explanation
Indices: 52013248--52013304 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
52013238 GGAGGCCTAG
52013248 CCTTTTATAAT-AACTGGGGCAAAGC
1 CCTTTTATAATAAACTGGGGCAAAGC
* *
52013273 CCTTTT-TGATAAACTGGGGCAGAGC
1 CCTTTTATAATAAACTGGGGCAAAGC
52013298 CCTTTTA
1 CCTTTTA
52013305 GCACTTCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
CCTTTTATAATAAACTGGGGCAAAGC
Found at i:52013572 original size:27 final size:27
Alignment explanation
Indices: 52013535--52013675 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
52013525 ACGGTACTCG
52013535 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
52013562 GTAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
52013589 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
52013616 ATAATTCTACCCTACAGGGGCGTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52013643 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52013670 ATAATT
1 GTAATT
52013676 TTGTAAATCG
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:52013601 original size:54 final size:54
Alignment explanation
Indices: 52013510--52013677 Score: 239
Period size: 54 Copynumber: 3.1 Consensus size: 54
52013500 GGCAAAATGT
* * * * *
52013510 TAATTTTACCCCACAACGGTA-CTCGGTAATTCTACCCTACAGGGGTATTTCAG
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAA
*
52013563 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAA
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAA
* * **
52013617 TAATTCTACCCTACAGGGGCGTTTCGGTAATTCTACCCTATAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAA
52013671 TAATTTT
1 TAATTTT
52013678 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 19 0.19
54 83 0.81
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAA
Found at i:52013690 original size:27 final size:27
Alignment explanation
Indices: 52013660--52014109 Score: 184
Period size: 27 Copynumber: 16.6 Consensus size: 27
52013650 TACCCTATAG
* *
52013660 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * *
52013687 GGGTGA-AACGGTAATTCTATAAATCG-
1 GGGT-ATTTCAGTAATTTTATAAATCGA
*
52013713 GGAGTACTTT-GGTAATTTT-TACAAGTCGA
1 GG-GTA-TTTCAGTAATTTTATA-AA-TCGA
* *
52013742 GGGTATTTCAGTAATTTTACAAATCGG
1 GGGTATTTCAGTAATTTTATAAATCGA
* ** *
52013769 GGGTATTTCAATAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTATAAATC-GA
** *
52013796 GGGTATTTTGGTAATTTTACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
** * *
52013822 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52013849 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* ** *
52013877 AGGTATTTTGGTAATTTTATAAGTCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
* * * *
52013904 GGGTATTTCAGAAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * *
52013930 GGGGTATTTTGGTAATTTTACAAGTCGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* *
52013958 GGGTATTTCAGTAATTTTAAAAAT-TA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52013984 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52014011 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* ** * *
52014039 GAGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTATAAATCGA
* * *
52014065 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* *
52014093 GGGCATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
52014110 GGTAAACTAA
Statistics
Matches: 342, Mismatches: 60, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
26 12 0.04
27 303 0.89
28 24 0.07
29 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:52013841 original size:81 final size:82
Alignment explanation
Indices: 52013720--52014089 Score: 419
Period size: 81 Copynumber: 4.5 Consensus size: 82
52013710 TCGGGAGTAC
* * * ***
52013720 TTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATC-GGGGGTATTTCAATAA
1 TTTGGTAA-TTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATCTAGGGGTATTTTGGTAA
* *
52013783 TTTTGCAAACTAAGGGTAT
64 TTTTACAAACCAAGGGTAT
*
52013802 TTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCTAGGGGTATTTTGGTAATT
** *
52013866 TTGTAAACCAAAGGTAT
66 TTACAAACCAAGGGTAT
* * * * *
52013883 TTTGGTAATTTTATAAGTC-GAGGGTATTTCAGAAATTTCACAAAT-TAGGGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATCTAGGGGTATTTTGGTAAT
** *
52013946 TTTACAAGTCGAGGGTAT
65 TTTACAAACCAAGGGTAT
** * * * *
52013964 TTCAGTAATTTTAAAAATTAGGGGTATTTTGGTAATTTCACAAA-CTAGGGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCTAGGGGTATTTTGGTAATT
*
52014028 TTACAAACCAAGAGTAT
66 TTACAAACCAAGGGTAT
*
52014045 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAAT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAAT
52014090 TGAGGGCATT
Statistics
Matches: 240, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.01
81 228 0.95
82 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (82 bp):
TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCTAGGGGTATTTTGGTAATT
TTACAAACCAAGGGTAT
Found at i:52014101 original size:54 final size:53
Alignment explanation
Indices: 52013720--52014109 Score: 318
Period size: 54 Copynumber: 7.2 Consensus size: 53
52013710 TCGGGAGTAC
** * **
52013720 TTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATCGGGGGTAT
1 TTTGGTAA-TTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAAT-TAGGGTAT
*** * * * * *
52013775 TTCAATAATTTTGCAAACTAAGGGTATTTTGGTAATTTTACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTA-GGGTAT
* * ** ** *
52013829 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-TTAGGGTAT
* ** * * *
52013883 TTTGGTAATTTTATAAGTC-GAGGGTATTTCAGAAATTTCACAAATTAGGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAATTA-GGGTAT
** * *
52013937 TTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTAAAAATTAGGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAATTA-GGGTAT
* * * ** *
52013991 TTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGAGTAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-TTAGGGTAT
*
52014045 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGCAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT-AGGGTAT
*
52014099 TTTAGTAATTT
1 TTTGGTAATTT
52014110 GGTAAACTAA
Statistics
Matches: 270, Mismatches: 57, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
53 2 0.01
54 260 0.96
55 8 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTAGGGTAT
Found at i:52015849 original size:31 final size:31
Alignment explanation
Indices: 52015804--52016006 Score: 334
Period size: 31 Copynumber: 6.5 Consensus size: 31
52015794 TTTAACGGTT
52015804 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
52015835 ACTAGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
52015866 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
52015897 ATTGGGCCGAAGCCTTTTCATAAATCATACC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
52015928 ACTGGGCCGAAGCCTTTTCATGAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
52015959 ACAGGGCCGAAGACTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
52015990 ACTGGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
52016007 ACTGTAAACG
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:52016255 original size:25 final size:25
Alignment explanation
Indices: 52016227--52016321 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
52016217 CTCTTTTAAT
* *
52016227 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
52016252 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
52016277 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
52016302 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52016322 AGCACTTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:52016257 original size:50 final size:50
Alignment explanation
Indices: 52016214--52016321 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
52016204 CTGGAGGCCT
*
52016214 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
** * *
52016263 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
52016313 AGCCCTTTT
1 AGCCCTTTT
52016322 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 42 0.81
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
Found at i:52016585 original size:54 final size:53
Alignment explanation
Indices: 52016527--52016696 Score: 223
Period size: 54 Copynumber: 3.2 Consensus size: 53
52016517 GGGAAAAATG
* * *
52016527 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTTTACCCTACAAGGGTAT-TCGGTAATTCTACCCTATAGGGGTATTTCA
* *
52016581 GTAATTTTACCTTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTA-TTCGGTAATTCTACCCTATAGGGGTATTTCA
* * * *
52016635 GTAATTCTACCCTACAGGGGTGTTCCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATT-CGGTAATTCTACCCTATAGGGGTATTTCA
*
52016689 ATAATTTT
1 GTAATTTT
52016697 GTAAATCGAG
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.02
54 98 0.97
55 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (53 bp):
GTAATTTTACCCTACAAGGGTATTCGGTAATTCTACCCTATAGGGGTATTTCA
Found at i:52016692 original size:27 final size:27
Alignment explanation
Indices: 52016527--52016694 Score: 176
Period size: 27 Copynumber: 6.2 Consensus size: 27
52016517 GGGAAAAATG
* * * * *
52016527 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52016554 GTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
52016581 GTAATTTTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
52016608 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
52016635 GTAATTCTACCCTACAGGGGT-GTTCC
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52016661 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
52016689 ATAATT
1 GTAATT
52016695 TTGTAAATCG
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.03
27 109 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:52016694 original size:81 final size:81
Alignment explanation
Indices: 52016544--52016694 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
52016534 TACCCCACAA
* * * **
52016544 GGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCAGTAATTTTACCTTACAAGGGTATTTCGG
1 GGGTATCTCAGTAATTCTACCCTACAGGGGTACTTCAGTAATTCTACCCTACAAGGGTATTTCAA
52016609 TAATTCTACCTTATAG
66 TAATTCTACCTTATAG
* * * * *
52016625 GGGTATTTCAGTAATTCTACCCTACAGGGGT-GTTCCGATAATTCTACCCTATAGGGGTATTTCA
1 GGGTATCTCAGTAATTCTACCCTACAGGGGTACTTCAG-TAATTCTACCCTACAAGGGTATTTCA
52016689 ATAATT
65 ATAATT
52016695 TTGTAAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.07
81 55 0.93
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGTATCTCAGTAATTCTACCCTACAGGGGTACTTCAGTAATTCTACCCTACAAGGGTATTTCAA
TAATTCTACCTTATAG
Found at i:52016709 original size:27 final size:27
Alignment explanation
Indices: 52016679--52017074 Score: 225
Period size: 27 Copynumber: 14.6 Consensus size: 27
52016669 TACCCTATAG
* *
52016679 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52016706 GGGTGAAAT-GGTAATTCTATAAATCGG
1 GGGT-ATTTCAGTAATTTTATAAATCGA
*
52016733 GGGTACTTT-GGTAATTTT-TACAAGTCGA
1 GGGTA-TTTCAGTAATTTTATA-AA-TCGA
*
52016761 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
**
52016788 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTATAAATC-GA
* *
52016815 GGGTATTTCGGTAATTTTACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
** *
52016841 GGGGTATTTTGGTAATTTTATAAGTCGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* * * *
52016869 GGGTATTTCAGAAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * *
52016895 GGGGTATTTTGGTAATTTTACAAGTCGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* * *
52016923 GGGTAGTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52016949 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTATTTCAGTAATTTTATAAATCGA
** * * *
52016976 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTCAGTAATTTTATAAATCGA
** * *
52017004 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTATAAATCGA
* * *
52017030 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* *
52017058 GGGCATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
52017075 GGTAAACTAA
Statistics
Matches: 305, Mismatches: 47, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.03
27 268 0.88
28 26 0.09
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:52016736 original size:54 final size:54
Alignment explanation
Indices: 52016678--52017080 Score: 251
Period size: 54 Copynumber: 7.4 Consensus size: 54
52016668 CTACCCTATA
* ** * *
52016678 GGGGTATTTCAATAATTTTGTAAATCGAGGGTGAAAT-GGTAATTCTATAAATCG
1 GGGGTATTTCAGTAATTTTGTAAATCGAGGGT-ATTTCGGTAATTTTACAAATCG
* *
52016732 GGGGTACTTT-GGTAATTTT-TACAAGTCGAGGGTATTTCAGTAATTTTACAAATCG
1 GGGGTA-TTTCAGTAATTTTGTA-AA-TCGAGGGTATTTCGGTAATTTTACAAATCG
* * *
52016787 AGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTTACAAATCA
1 GGGGTATTTCAGTAATTTTGTAAATC-GAGGGTATTTCGGTAATTTTACAAATCG
** * * * * * **
52016841 GGGGTATTTTGGTAATTTTATAAGTCGAGGGTATTTCAGAAATTTCACAAATTA
1 GGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTCGGTAATTTTACAAATCG
** ** * * * * *
52016895 GGGGTATTTTGGTAATTTTACAAGTCGAGGGTAGTTCAGTAATTTCACAAATCA
1 GGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTCGGTAATTTTACAAATCG
** *** * * * *
52016949 GGGGTATTTTGGTAATTTCACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTCAGTAATTTTGTAAATCGA-GGGTATTTCGGTAATTTTACAAATCG
* ** ** * ** *
52017003 AGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTACAAATTG
1 GGGGTATTTCAGTAATTTTGTAAATCGA-GGGTATTTCGGTAATTTTACAAATCG
* * * *
52017057 AGGGCATTTTAGTAATTTGGTAAA
1 GGGGTATTTCAGTAATTTTGTAAA
52017081 CTAAAGTATT
Statistics
Matches: 294, Mismatches: 46, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.02
54 247 0.84
55 41 0.14
56 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (54 bp):
GGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTCGGTAATTTTACAAATCG
Found at i:52016817 original size:109 final size:108
Alignment explanation
Indices: 52016679--52016971 Score: 315
Period size: 108 Copynumber: 2.7 Consensus size: 108
52016669 TACCCTATAG
* * *
52016679 GGGTATTTCAATAATTTTGTAAATCGAGGGTGAAAT-GGTAATTCTATAAATCGGGGGTACTTTG
1 GGGTATTTCAATAATTTTGCAAATCGAGGGT-AAATCGGTAATTCTACAAATCAGGGGTACTTTG
* *
52016743 GTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGA
65 GTAA-TTTTACAAGTCGAGGGTATTTCAGAAATTTCACAAATCGA
* ** * *
52016788 GGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTG
1 GGGTATTTCAATAATTTTGCAAATC-GAGGGTAAATCGGTAATTCTACAAATCAGGGGTACTTTG
* *
52016852 GTAATTTTATAAGTCGAGGGTATTTCAGAAATTTCACAAAT-TA
65 GTAATTTTACAAGTCGAGGGTATTTCAGAAATTTCACAAATCGA
*** * * ** * *
52016895 GGGGTATTTTGGTAATTTTACAAGTCGAGGGTAGTTCAGTAATT-TCACAAATCAGGGGTATTTT
1 -GGGTATTTCAATAATTTTGCAAATCGAGGGTAAATCGGTAATTCT-ACAAATCAGGGGTACTTT
*
52016959 GGTAATTTCACAA
64 GGTAATTTTACAA
52016972 ACTAGGGGTA
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
107 2 0.01
108 101 0.64
109 56 0.35
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (108 bp):
GGGTATTTCAATAATTTTGCAAATCGAGGGTAAATCGGTAATTCTACAAATCAGGGGTACTTTGG
TAATTTTACAAGTCGAGGGTATTTCAGAAATTTCACAAATCGA
Found at i:52016870 original size:81 final size:83
Alignment explanation
Indices: 52016732--52017074 Score: 371
Period size: 81 Copynumber: 4.2 Consensus size: 83
52016722 CTATAAATCG
* *
52016732 GGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTT
1 GGGGTATTTTGGTAA-TTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGGTATTT
**
52016796 CAGTAATTTTGCAAACTGA
65 CAGTAATTTCACAAACTGA
* ** * *
52016815 -GGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTATAAGTCGA-GGGTATTT
1 GGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTTACAAATCGAGGGGTATTT
* *
52016877 CAGAAATTTCACAAA-TTA
65 CAGTAATTTCACAAACTGA
* * * *
52016895 GGGGTATTTTGGTAATTTTACAAGTCGAGGGTAGTTCAGTAATTTCACAAATC-AGGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGGTATTTC
*
52016959 GGTAATTTCACAAACT-A
66 AGTAATTTCACAAACTGA
* * ** * *
52016976 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGGTATTTC
* *
52017040 AGTAATTTTACAAATTGA
66 AGTAATTTCACAAACTGA
* *
52017058 -GGGCATTTTAGTAATTT
1 GGGGTATTTTGGTAATTT
52017075 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.02
81 199 0.91
82 15 0.07
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (83 bp):
GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGGTATTTC
AGTAATTTCACAAACTGA
Found at i:52019033 original size:18 final size:18
Alignment explanation
Indices: 52019010--52019045 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52019000 TTTTGTTTGA
52019010 AGTTGGATGTGAGTTCTT
1 AGTTGGATGTGAGTTCTT
52019028 AGTTGGATGTGAGTTCTT
1 AGTTGGATGTGAGTTCTT
52019046 CCTTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (18 bp):
AGTTGGATGTGAGTTCTT
Found at i:52022788 original size:43 final size:42
Alignment explanation
Indices: 52022656--52022819 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
52022646 ATAGAGTTAC
* * *
52022656 TGAGACTACGAGTAAGACCATATCTAGGATATGGCATCAATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
* * *
52022698 TGAAACTACGTGTAAGACCGTATCTAGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
** * *
52022740 TGAGATTTTGTGTAAGACCATAACTAGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* * * *
52022783 CGAGATTACATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
52022820 TGGTGCAATA
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:52032118 original size:43 final size:42
Alignment explanation
Indices: 52032065--52032146 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
52032055 ATATGGCATC
* * *
52032065 ATTACGTGTAAGACCACATCTGGGGTATTGGCATCGATACGAG
1 ATTACATGTAAGACCACATCTAGGATA-TGGCATCGATACGAG
* *
52032108 ATTACATGTAAGACCATATCTAGGATATGGCATTGATAC
1 ATTACATGTAAGACCACATCTAGGATATGGCATCGATAC
52032147 AATACCGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 11 0.32
43 23 0.68
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
ATTACATGTAAGACCACATCTAGGATATGGCATCGATACGAG
Found at i:52036082 original size:32 final size:32
Alignment explanation
Indices: 52036046--52036110 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
52036036 TTTGGTTGCC
52036046 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
52036078 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
52036110 T
1 T
52036111 GTATGTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (32 bp):
TAAGTATACCATTGTTTATGCCATTGAATTTG
Found at i:52037668 original size:40 final size:41
Alignment explanation
Indices: 52037613--52037710 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
52037603 TTTCCAGCTT
* * *
52037613 AATAATTCACCTATTTTACCT-ACTGGCAGCCTAACATGTG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
* * *
52037653 AATAATTCACCTATTTTAGATAACTGACGGCCTAACTTGCG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
52037694 AATAATTCACCTATTTT
1 AATAATTCACCTATTTT
52037711 GAGTGTTAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (41 bp):
AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
Found at i:52048150 original size:18 final size:18
Alignment explanation
Indices: 52048120--52048174 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
52048110 TTTTGGTTAC
*
52048120 TTAT-TTTTGGGTTTTAA
1 TTATATTTTAGGTTTTAA
52048137 TTATATTTTAGGTTTTAA
1 TTATATTTTAGGTTTTAA
52048155 TTATATTTTA-GTTTCTAA
1 TTATATTTTAGGTTT-TAA
52048173 TT
1 TT
52048175 TGAACATCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 8 0.23
18 27 0.77
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.64
Consensus pattern (18 bp):
TTATATTTTAGGTTTTAA
Found at i:52061985 original size:30 final size:30
Alignment explanation
Indices: 52061949--52062008 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
52061939 ATTTAATACG
*
52061949 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
52061979 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
52062009 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:52070129 original size:26 final size:26
Alignment explanation
Indices: 52070090--52070142 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
52070080 GTTGTTCGTA
*
52070090 AAGAAAAAATATGGTTCGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
*
52070116 AAGAAAAAAGATGGTTTGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
52070142 A
1 A
52070143 TGTATCGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.26
Consensus pattern (26 bp):
AAGAAAAAAGATGGTTCGATAAGGTT
Found at i:52076891 original size:65 final size:65
Alignment explanation
Indices: 52076802--52076951 Score: 174
Period size: 65 Copynumber: 2.3 Consensus size: 65
52076792 GCCGTATCAA
* * * * * * *
52076802 GACACTCACAAAGTGCTTCTTTTGTGTCTACAACATATGCAAGATCACAATCTATCATAAAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
* * * * *
52076867 GACACTCACAAAGAGCTGCGTTTGTGTCCGCAATATATGTAGGACCACAACCGATCATATAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
* *
52076932 GACGCTCACAAAGAGTTGCG
1 GACACTCACAAAGAGCTGCG
52076952 GTAGTCTACA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (65 bp):
GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
Found at i:52079622 original size:29 final size:29
Alignment explanation
Indices: 52079589--52079649 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
52079579 TTTCTATACA
*
52079589 AATCCTTCGGTACACAGGCTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
52079618 AATCCTTCGGTACACAGACTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
52079647 AAT
1 AAT
52079650 AACAGACAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
AATCCTTCGGTACACAGACTATACCTCTG
Found at i:52082457 original size:13 final size:13
Alignment explanation
Indices: 52082439--52082463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52082429 TAATGGTATA
52082439 TTGAATCCATGAT
1 TTGAATCCATGAT
52082452 TTGAATCCATGA
1 TTGAATCCATGA
52082464 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:52084430 original size:47 final size:47
Alignment explanation
Indices: 52084376--52085247 Score: 1476
Period size: 47 Copynumber: 18.6 Consensus size: 47
52084366 TATTTGAATA
52084376 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084423 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52084470 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084517 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52084564 AATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52084657 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52084704 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
**
52084751 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084798 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* **
52084845 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084892 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* **
52084939 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52084986 AATGTGAAAGTGTAAATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52085033 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52085080 AATATGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52085127 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
52085174 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52085221 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52085248 TCCCGAAGGG
Statistics
Matches: 792, Mismatches: 32, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 0.06
47 747 0.94
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:52089744 original size:39 final size:40
Alignment explanation
Indices: 52089689--52089769 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
52089679 GCTAAGCCGT
52089689 GTGTCACACACGGCTGAGGCACACGCTCGTGTCTCTACCC
1 GTGTCACACACGGCTGAGGCACACGCTCGTGTCTCTACCC
52089729 GTGT-ACACACGGCTGAGGCACACGCTCGTGTCTCTACCC
1 GTGTCACACACGGCTGAGGCACACGCTCGTGTCTCTACCC
52089768 GT
1 GT
52089770 ATGGACGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.17, C:0.36, G:0.26, T:0.21
Consensus pattern (40 bp):
GTGTCACACACGGCTGAGGCACACGCTCGTGTCTCTACCC
Found at i:52091616 original size:22 final size:22
Alignment explanation
Indices: 52091591--52091633 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52091581 GGCTATGCGA
52091591 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTTATGTGG
52091613 TCTGAGCTCATGAGTTATGTG
1 TCTGAGCTCATGAGTTATGTG
52091634 ACACATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:52093073 original size:37 final size:37
Alignment explanation
Indices: 52093023--52093101 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
52093013 TTATTACGAA
* *
52093023 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
52093060 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
52093097 GTCTT
1 GTCTT
52093102 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:52093297 original size:47 final size:47
Alignment explanation
Indices: 52093219--52093530 Score: 491
Period size: 47 Copynumber: 6.6 Consensus size: 47
52093209 GCCCTTCGGA
* * * * * *
52093219 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52093266 CCTGTCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52093312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52093359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52093406 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52093453 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52093504 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52093531 TATTCAAATA
Statistics
Matches: 246, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 42 0.17
47 159 0.65
51 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52093518 original size:98 final size:94
Alignment explanation
Indices: 52093219--52093530 Score: 500
Period size: 93 Copynumber: 3.3 Consensus size: 94
52093209 GCCCTTCGGA
* * * * * * *
52093219 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
52093284 TTTCACATTCATCACATCGG-CATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
52093312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
52093377 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
52093406 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC----ATATAT
52093471 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
52093504 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52093531 TATTCAAATA
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
93 77 0.38
94 61 0.30
98 65 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52093523 original size:145 final size:140
Alignment explanation
Indices: 52093219--52093530 Score: 489
Period size: 140 Copynumber: 2.2 Consensus size: 140
52093209 GCCCTTCGGA
* * * * * *
52093219 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
52093284 TTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TCTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
52093349 GCCATTAGGC
131 GCCATTAGGC
* *
52093359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
52093424 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TCTCACATTCATCACATCGG-CATTAGGCCTTATCAC----ATATATACACTTTCACATTCATCA
52093489 CATCGGCCATTAGGC
126 CATCGGCCATTAGGC
52093504 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52093531 TATTCAAATA
Statistics
Matches: 157, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
140 75 0.48
141 16 0.10
145 66 0.42
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TCTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:52099465 original size:46 final size:46
Alignment explanation
Indices: 52099324--52099539 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
52099314 GTAAGGTGCT
* * * * * *
52099324 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCACCTCGTAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCATAGCC
* * *
52099372 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGA-GGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-ATAGCC
52099418 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA-ATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATA-GCC
* * * ** * *
52099464 GATCTCATGT-CCAGGACATGGTCTTGCACTGGCTCTCATATTGTGGTC
1 GAT-GCATGTCCCA-GACAT-GTCTTACACTGGCTCTCATCTCATAGCC
*
52099512 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
52099540 AGCCAACAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 72 0.52
47 34 0.25
48 30 0.22
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATAGCC
Found at i:52104109 original size:23 final size:22
Alignment explanation
Indices: 52104070--52104117 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
52104060 TACTCTACAA
52104070 AAATATATAAAGAATTTATTCTC
1 AAATATATAAAGAATTT-TTCTC
* *
52104093 AAATAT-TAAATATATTTTTTTC
1 AAATATATAAAGA-ATTTTTCTC
52104115 AAA
1 AAA
52104118 ATAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATATAAAGAATTTTTCTC
Found at i:52106020 original size:16 final size:16
Alignment explanation
Indices: 52105999--52106032 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52105989 TAATTAATAC
52105999 GTGATGAATGACTTAA
1 GTGATGAATGACTTAA
*
52106015 GTGATGAATGGCTTAA
1 GTGATGAATGACTTAA
52106031 GT
1 GT
52106033 AATAATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (16 bp):
GTGATGAATGACTTAA
Found at i:52107159 original size:36 final size:36
Alignment explanation
Indices: 52107083--52107200 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 36
52107073 CTCTCTGTTT
*
52107083 TGGTGTGTTTCGGTTGGATTAGCTCTT-TAGAGCCA-C
1 TGGTGTGTTTCGGATGGATTAGCTCTTAT-GAG-CATC
*
52107119 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCATT
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCATC
* * * *
52107155 TGGTGTGTTTCAGACGGACTAGCTTTTATGAGCATC
1 TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCATC
*
52107191 TAGTGTGTTT
1 TGGTGTGTTT
52107201 TGGTGGGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
35 2 0.03
36 69 0.96
37 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.41
Consensus pattern (36 bp):
TGGTGTGTTTCGGATGGATTAGCTCTTATGAGCATC
Found at i:52107893 original size:101 final size:101
Alignment explanation
Indices: 52107718--52107919 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
52107708 TTGTGTGAAA
52107718 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
52107783 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
52107819 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
52107884 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
52107920 CTATAGAACT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (101 bp):
ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
Found at i:52108862 original size:19 final size:17
Alignment explanation
Indices: 52108835--52108881 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
52108825 AAAAAGCTCG
*
52108835 ATAAGTGATAATGCCTAAA
1 ATAAATGATAATG-C-AAA
*
52108854 ATAAATGATAATGCACA
1 ATAAATGATAATGCAAA
52108871 ATAAATGATAA
1 ATAAATGATAA
52108882 ATGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 13 0.50
18 1 0.04
19 12 0.46
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.26
Consensus pattern (17 bp):
ATAAATGATAATGCAAA
Found at i:52119241 original size:14 final size:14
Alignment explanation
Indices: 52119222--52119253 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52119212 TCTGTATGTA
*
52119222 TGTGGGTGTGTGTG
1 TGTGGGTGTGTATG
52119236 TGTGGGTGTGTATG
1 TGTGGGTGTGTATG
52119250 TGTG
1 TGTG
52119254 TATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.53, T:0.44
Consensus pattern (14 bp):
TGTGGGTGTGTATG
Found at i:52124231 original size:15 final size:15
Alignment explanation
Indices: 52124211--52124239 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52124201 TTCTTTCATT
52124211 TCTGGTCAATAAACC
1 TCTGGTCAATAAACC
52124226 TCTGGTCAATAAAC
1 TCTGGTCAATAAAC
52124240 TGCGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
TCTGGTCAATAAACC
Found at i:52126686 original size:42 final size:42
Alignment explanation
Indices: 52126603--52126726 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 42
52126593 GTAAGAATGC
* * * * *
52126603 CAATGTCATATCCCAGATATGGTCTTACATG-GGATCACATAT
1 CAATGCCATAGCCCAGATATGGTCTTACACGAAG-TCTCATAT
** * *
52126645 -TGTGCCAATAGCCCAGCTATGGTCTTACACGATGTCTCATAT
1 CAATGCC-ATAGCCCAGATATGGTCTTACACGAAGTCTCATAT
* *
52126687 CAATGCCATATCCCAGATATGGTCTTATACGAAGTCTCAT
1 CAATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCAT
52126727 TTTCGAAGCC
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
41 3 0.05
42 57 0.88
43 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
CAATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:52126754 original size:43 final size:42
Alignment explanation
Indices: 52126662--52126758 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
52126652 ATAGCCCAGC
* *
52126662 TATGGTCTTACACGATGTCTCATATCAATGCCATATCCCAGA
1 TATGGTCTTACACGAAGTCTCATATCAATGCCATATCCAAGA
* * *
52126704 TATGGTCTTATACGAAGTCTCATTTTCGAA-GCCATGTCCAAGA
1 TATGGTCTTACACGAAGTCTCA-TATC-AATGCCATATCCAAGA
*
52126747 TGTGGTCTTACA
1 TATGGTCTTACA
52126759 TGAAATCCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 20 0.43
43 24 0.52
44 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (42 bp):
TATGGTCTTACACGAAGTCTCATATCAATGCCATATCCAAGA
Found at i:52130607 original size:29 final size:29
Alignment explanation
Indices: 52130575--52130637 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
52130565 CATATTCATG
52130575 TGGCCCATTAGGCCCAAATCA-ACTGTATA
1 TGGCCCATTAGGCCCAAATCACA-TGTATA
* *
52130604 TGGCCCATTAGGCTCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
52130633 TGGCC
1 TGGCC
52130638 TGTTGGGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGTATA
Found at i:52130897 original size:16 final size:16
Alignment explanation
Indices: 52130872--52130914 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
52130862 GTAGCCAAAC
*
52130872 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
* *
52130888 TTTTGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
52130904 TTTCGGCTTTT
1 TTTCGGCTTTT
52130915 GCCAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.16, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:52133185 original size:41 final size:41
Alignment explanation
Indices: 52133128--52133277 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
52133118 TCGGGGTTTA
52133128 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
52133169 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
52133210 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
52133250 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
52133278 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:52138555 original size:27 final size:26
Alignment explanation
Indices: 52138538--52138607 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
52138528 ATATTAAGTC
52138538 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
52138565 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
52138593 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52138608 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:52138601 original size:28 final size:28
Alignment explanation
Indices: 52138538--52138635 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
52138528 ATATTAAGTC
*
52138538 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52138565 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52138593 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52138622 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52138636 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52148839 original size:40 final size:39
Alignment explanation
Indices: 52148782--52149025 Score: 260
Period size: 40 Copynumber: 6.1 Consensus size: 39
52148772 TTGAATGATG
* * * *
52148782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
52148822 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
52148861 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
52148901 TCCGGATTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
*
52148941 ACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
52148981 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATA
52149021 TCCGG
1 TCCGG
52149026 TTAAATTCCG
Statistics
Matches: 177, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 37 0.21
40 131 0.74
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:52149037 original size:119 final size:119
Alignment explanation
Indices: 52148793--52149039 Score: 322
Period size: 119 Copynumber: 2.1 Consensus size: 119
52148783 CCGGGCTAAG
*
52148793 TCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
* ** *
52148858 TAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGATTAAG
66 TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGATTAAA
* * *
52148912 TCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA
1 TCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA
* * *
52148976 CT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGG-TTAAA
65 CTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGGATTAAA
*
52149031 TTCCGAAGG
1 TCCCGAAGG
52149040 TACGTGATTC
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 77 0.69
120 33 0.29
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
TAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGATTAAA
Found at i:52152106 original size:15 final size:15
Alignment explanation
Indices: 52152086--52152117 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
52152076 ACTTTCAAGC
52152086 TTCATAGTAAGTGAT
1 TTCATAGTAAGTGAT
52152101 TTCATAGTAAGTGAT
1 TTCATAGTAAGTGAT
52152116 TT
1 TT
52152118 TTATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (15 bp):
TTCATAGTAAGTGAT
Found at i:52152461 original size:16 final size:16
Alignment explanation
Indices: 52152440--52152493 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
52152430 GAGCCTAGGG
52152440 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
* * *
52152456 GCAAAAGT-TTA-GAG
1 GCAAAAGTGTAATTAT
52152470 GCAAAAGTGTAATTAT
1 GCAAAAGTGTAATTAT
*
52152486 GCCAAAGT
1 GCAAAAGT
52152494 TCATATTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 16 0.55
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (16 bp):
GCAAAAGTGTAATTAT
Found at i:52153313 original size:331 final size:331
Alignment explanation
Indices: 52152710--52153372 Score: 1227
Period size: 331 Copynumber: 2.0 Consensus size: 331
52152700 ATATGATATG
52152710 ATGCTTAATATTATCATGAAATGTTATGTTTTGTGGTTATTGTTAAATAATATGTAATTATGTGA
1 ATGCTTAATATTATCATGAAATGTTATGTTTTGTGGTTATTGTTAAATAATATGTAATTATGTGA
* * *
52152775 ATTACTTGATGAGTATGAACTATCACCGAGTATCGGTTCTGATATTCCGTGGAAGACAGCAAAGA
66 ATTACTTGATGAGTATAAACTATCACCGAGTATCAGTTCCGATATTCCGTGGAAGACAGCAAAGA
* *
52152840 TGTGAGGTCGAGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGAATACAAGTGACATGTCAC
131 TGTGAGATCGAGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGAATACAAGTGACATGTCAC
52152905 TAGGATATTTGAGTTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCG
196 TAGGATATTTGAGTTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCG
* *
52152970 AACTCATTGAGTTGAGTCTGAGTTCACTTATGGACGTGAACGCCCGAGCTCGTTGAGTTGAGTCC
261 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGTGAACGCCCGAGCTCATTGAGTTGAGTCC
52153035 GAGTTC
326 GAGTTC
52153041 ATGCTTAATATTATCATGAAATGTTATGTTTTGTGGTTATTGTTAAATAATATGTAATTATGTGA
1 ATGCTTAATATTATCATGAAATGTTATGTTTTGTGGTTATTGTTAAATAATATGTAATTATGTGA
*
52153106 ATTACTTGATGAGTATAAACTATCACCGAGTATCAGTTCCGATATTCCGTGGAAGACGGCAAAGA
66 ATTACTTGATGAGTATAAACTATCACCGAGTATCAGTTCCGATATTCCGTGGAAGACAGCAAAGA
52153171 TGTGAGATCGAGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGAATACAAGTGACATGTCAC
131 TGTGAGATCGAGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGAATACAAGTGACATGTCAC
52153236 TAGGATATTTGAGTTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCG
196 TAGGATATTTGAGTTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCG
* * *
52153301 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAGCTCATTGAGTTGAGTCC
261 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGTGAACGCCCGAGCTCATTGAGTTGAGTCC
52153366 GAGTTC
326 GAGTTC
52153372 A
1 A
52153373 CTTATGGGCG
Statistics
Matches: 321, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
331 321 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (331 bp):
ATGCTTAATATTATCATGAAATGTTATGTTTTGTGGTTATTGTTAAATAATATGTAATTATGTGA
ATTACTTGATGAGTATAAACTATCACCGAGTATCAGTTCCGATATTCCGTGGAAGACAGCAAAGA
TGTGAGATCGAGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGAATACAAGTGACATGTCAC
TAGGATATTTGAGTTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCG
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGTGAACGCCCGAGCTCATTGAGTTGAGTCC
GAGTTC
Found at i:52155319 original size:12 final size:13
Alignment explanation
Indices: 52155302--52155333 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52155292 ATAGCACATT
52155302 TCAAAAC-ATGCA
1 TCAAAACTATGCA
52155314 TCAAAACTATGCA
1 TCAAAACTATGCA
52155327 -CAAAACT
1 TCAAAACT
52155334 TAACATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:52156285 original size:29 final size:29
Alignment explanation
Indices: 52156243--52156340 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
52156233 CTTACATTTT
* *
52156243 TCACACTTATATGGCTCGTTAGGCCCAAA
1 TCACATTTATATGGCCCGTTAGGCCCAAA
*
52156272 TCACATTTATATGGCCCATTAGGCCCAAA
1 TCACATTTATATGGCCCGTTAGGCCCAAA
*
52156301 TCACATTTATATGGCCCGTTAGGCCC-AG
1 TCACATTTATATGGCCCGTTAGGCCCAAA
*
52156329 TCACATTCATAT
1 TCACATTTATAT
52156341 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 12 0.19
29 51 0.81
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
TCACATTTATATGGCCCGTTAGGCCCAAA
Found at i:52156421 original size:17 final size:18
Alignment explanation
Indices: 52156399--52156432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52156389 TGCCTATTAT
52156399 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
52156416 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
52156433 TCTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:52171921 original size:27 final size:27
Alignment explanation
Indices: 52171874--52172001 Score: 100
Period size: 27 Copynumber: 4.7 Consensus size: 27
52171864 CTTTAGAGTA
*
52171874 CGCCACAAAAGGATTCC-TTTCAAAGAT
1 CGCCAC-AAAGGTTTCCTTTTCAAAGAT
* **
52171901 TGCCACAAAGGTTTCCTTTTCTTAGAT
1 CGCCACAAAGGTTTCCTTTTCAAAGAT
* *
52171928 CGCTACAAA-GTCTTCATTTTCATAA-AT
1 CGCCACAAAGGT-TTCCTTTTCA-AAGAT
* * * * *
52171955 CACCGCAAAGGATTCATTTTCATAGAT
1 CGCCACAAAGGTTTCCTTTTCAAAGAT
*
52171982 CACCACAAAGGTTTCCTTTT
1 CGCCACAAAGGTTTCCTTTT
52172002 TTGGGCGTGT
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
26 12 0.15
27 65 0.82
28 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (27 bp):
CGCCACAAAGGTTTCCTTTTCAAAGAT
Found at i:52176397 original size:40 final size:40
Alignment explanation
Indices: 52176296--52176516 Score: 196
Period size: 40 Copynumber: 5.5 Consensus size: 40
52176286 TATTCGAATG
* ** * * *
52176296 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCT-AGCGACT
* * * * **
52176337 ATATCCAGACTAAGATCCGAAGGCATTTGTG-TGAGTTACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCT-AGCGACT
*
52176377 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
** * *
52176417 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
* * * **
52176457 ATATCCGGGCTAAAACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
*
52176496 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAAACCCGAAG
52176517 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
38 14 0.09
39 14 0.09
40 94 0.64
41 26 0.18
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
Found at i:52176443 original size:80 final size:78
Alignment explanation
Indices: 52176311--52176516 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 78
52176301 CGGGCTAAGT
* * **
52176311 CCCGAAGGCTTTTGTGCTAAGTGATTATATCCAGACTAAGAT-CCGAAGGCATTTGTG-TGAGTT
1 CCCGAAGGC-TTTGTGCT-AGTGATTATATCC-GGCTAAG-TCCCGAAGGCATTTATGCT-AGCG
*
52176374 ACTATATCCGGGCCAAAA
61 ACCATATCCGGGCCAAAA
* *
52176392 CCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
1 CCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
*
52176457 ATATCCGGGCTAAAA
64 ATATCCGGGCCAAAA
* * * *
52176472 CCCGAAGGCCTTGTGCGAGTGGTTATATCCGGCTAAATCCCGAAG
1 CCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGTCCCGAAG
52176517 ATACTTGGGT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 14 0.13
79 17 0.16
80 58 0.54
81 18 0.17
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (78 bp):
CCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGTCCCGAAGGCATTTATGCTAGCGACCAT
ATCCGGGCCAAAA
Found at i:52180446 original size:18 final size:18
Alignment explanation
Indices: 52180425--52180463 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
52180415 GATTGAGAGT
* *
52180425 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
52180443 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
52180461 GAA
1 GAA
52180464 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:52181869 original size:4 final size:4
Alignment explanation
Indices: 52181860--52181887 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
52181850 TATTTTTATT
52181860 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
52181888 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:52189311 original size:40 final size:40
Alignment explanation
Indices: 52189210--52189394 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
52189200 TATTCGAATG
* * * *
52189210 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * **
52189251 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
52189291 ATATCCGAGCCAAAACCCGAAGGCTTTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * *
52189331 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
52189371 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
52189395 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 93 0.76
41 29 0.24
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:52195126 original size:53 final size:53
Alignment explanation
Indices: 52195046--52195152 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
52195036 GCTGAGATTG
52195046 GGGCTTGATTTATTTAAGATACTGTTTGTATTATCAGTTTAGGGAGTAATGAT
1 GGGCTTGATTTATTTAAGATACTGTTTGTATTATCAGTTTAGGGAGTAATGAT
*
52195099 GGGCTTGATTTATTTAAGATATTGTTTGTATTATCAGTTTAGGGAGTAATGAT
1 GGGCTTGATTTATTTAAGATACTGTTTGTATTATCAGTTTAGGGAGTAATGAT
52195152 G
1 G
52195153 CAAAGATGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (53 bp):
GGGCTTGATTTATTTAAGATACTGTTTGTATTATCAGTTTAGGGAGTAATGAT
Found at i:52195272 original size:31 final size:31
Alignment explanation
Indices: 52195174--52195282 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
52195164 GACTAAAATG
* *
52195174 CAAACTTGTAAACTTACTAATAGTTCAATGGG
1 CAAA-TTGTAAACTTACTAATAGTTGAATGGC
* * * *
52195206 CAATTTGT-AACTTGCTAA-AATTGAATGAC
1 CAAATTGTAAACTTACTAATAGTTGAATGGC
* *
52195235 AAAATTGTAAACTTACTAATAGTTGAGTGGC
1 CAAATTGTAAACTTACTAATAGTTGAATGGC
*
52195266 CAAATTGTAAATTTACT
1 CAAATTGTAAACTTACT
52195283 CATCCCTAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
29 13 0.21
30 18 0.30
31 27 0.44
32 3 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (31 bp):
CAAATTGTAAACTTACTAATAGTTGAATGGC
Found at i:52195430 original size:28 final size:28
Alignment explanation
Indices: 52195398--52195455 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
52195388 ATCTTACTAA
*
52195398 TAATGTAGTTTACCCCTTAATCATTCCT
1 TAATGTAGTTTAACCCTTAATCATTCCT
*
52195426 TAATGTAGTTTAACCCTTAATCGTTCCT
1 TAATGTAGTTTAACCCTTAATCATTCCT
52195454 TA
1 TA
52195456 GTCGTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (28 bp):
TAATGTAGTTTAACCCTTAATCATTCCT
Found at i:52196811 original size:14 final size:13
Alignment explanation
Indices: 52196786--52196822 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
52196776 TTATATCATA
52196786 AAATTCTAAATCCTT
1 AAATT-TAAATCC-T
52196801 AAATTTAAATCCT
1 AAATTTAAATCCT
52196814 AAATTTAAA
1 AAATTTAAA
52196823 AAAAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.45
14 7 0.32
15 5 0.23
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAATCCT
Found at i:52197035 original size:21 final size:21
Alignment explanation
Indices: 52197019--52197060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
52197009 GGATTTATAT
52197019 TTTAAAATTTAATATTTAAAG
1 TTTAAAATTTAATATTTAAAG
*
52197040 TTTAACATTTAGA-ATTTAAAG
1 TTTAAAATTTA-ATATTTAAAG
52197061 GTTATAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (21 bp):
TTTAAAATTTAATATTTAAAG
Found at i:52197036 original size:14 final size:14
Alignment explanation
Indices: 52197019--52197058 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52197009 GGATTTATAT
*
52197019 TTTAAAATTTAATA
1 TTTAAAATTTAACA
*
52197033 TTTAAAGTTTAACA
1 TTTAAAATTTAACA
*
52197047 TTTAGAATTTAA
1 TTTAAAATTTAA
52197059 AGGTTATAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTAAAATTTAACA
Found at i:52217232 original size:39 final size:39
Alignment explanation
Indices: 52217189--52217318 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 39
52217179 TCAAAGTAGA
*
52217189 ATATAAATAAAATTAAAGCCATAATTTGTAATAAAACAT
1 ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
* *** *
52217228 ATATAAATAAATAATAATAG--ATAAAAAATAATCAAAGTAGA-
1 ATATAAATAAA-ATTAA-AGCCATAAATTGTAAT-AAA--ACAT
* *
52217269 ATATAAATAAAATTAAAACCAAAAATTGTAATAAAACAT
1 ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
52217308 ATATAAATAAA
1 ATATAAATAAA
52217319 TAATAATAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
38 2 0.03
39 31 0.44
40 14 0.20
41 21 0.30
42 2 0.03
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (39 bp):
ATATAAATAAAATTAAAGCCATAAATTGTAATAAAACAT
Found at i:52217265 original size:80 final size:80
Alignment explanation
Indices: 52217177--52217338 Score: 288
Period size: 80 Copynumber: 2.0 Consensus size: 80
52217167 TAAAATAAAG
* * *
52217177 AATCAAAGTAGAATATAAATAAAATTAAAGCCATAATTTGTAATAAAACATATATAAATAAATAA
1 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
52217242 TAATAGATAAAAAAT
66 TAATAGATAAAAAAT
52217257 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
1 AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
*
52217322 TAATAGATAAAAGAT
66 TAATAGATAAAAAAT
52217337 AA
1 AA
52217339 AAATGAAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.63, C:0.05, G:0.06, T:0.26
Consensus pattern (80 bp):
AATCAAAGTAGAATATAAATAAAATTAAAACCAAAAATTGTAATAAAACATATATAAATAAATAA
TAATAGATAAAAAAT
Found at i:52217338 original size:14 final size:13
Alignment explanation
Indices: 52217218--52217342 Score: 53
Period size: 14 Copynumber: 9.2 Consensus size: 13
52217208 CATAATTTGT
52217218 AATAAAACATATATA
1 AATAAAA-ATA-ATA
52217233 AATAAATAATAATA
1 AATAAA-AATAATA
*
52217247 GATAAAAAATAATCA
1 AAT-AAAAATAAT-A
*
52217262 AAGT-AGAAT-ATA
1 AA-TAAAAATAATA
*
52217274 AATAAAATTAA-A
1 AATAAAAATAATA
** **
52217286 ACCAAAAATTGT-
1 AATAAAAATAATA
52217298 AATAAAACATATATA
1 AATAAAA-ATA-ATA
52217313 AATAAATAATAATA
1 AATAAA-AATAATA
*
52217327 GATAAAAGATAA-A
1 AATAAAA-ATAATA
52217340 AAT
1 AAT
52217343 GAAATAATTC
Statistics
Matches: 82, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
11 1 0.01
12 18 0.22
13 9 0.11
14 28 0.34
15 23 0.28
16 3 0.04
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.25
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:52219755 original size:40 final size:40
Alignment explanation
Indices: 52219657--52219919 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
52219647 TCCTCGTTCA
* * * * *
52219657 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52219696 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52219736 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52219776 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52219816 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52219856 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52219896 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52219920 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52227703 original size:40 final size:40
Alignment explanation
Indices: 52227605--52227867 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
52227595 TCCTCGTTCA
* * * * *
52227605 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52227644 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52227684 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52227724 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52227764 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52227804 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52227844 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52227868 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52233978 original size:17 final size:17
Alignment explanation
Indices: 52233940--52233980 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
52233930 CTCCCCTCGT
* *
52233940 AAATGAAAATGCTTGAA
1 AAATGAAAATGATAGAA
*
52233957 GAATGAAAATGATAGAA
1 AAATGAAAATGATAGAA
52233974 AAATGAA
1 AAATGAA
52233981 GTCACAGGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.20
Consensus pattern (17 bp):
AAATGAAAATGATAGAA
Found at i:52238266 original size:214 final size:214
Alignment explanation
Indices: 52237892--52238321 Score: 842
Period size: 214 Copynumber: 2.0 Consensus size: 214
52237882 AATGTCATAT
52237892 ATATATATACAATTCAAAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
1 ATATATATACAATTCAAAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
52237957 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
66 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
52238022 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
131 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
52238087 TCATATTCAAGGGGACTCA
196 TCATATTCAAGGGGACTCA
* *
52238106 ATATTTATACAATTCACAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
1 ATATATATACAATTCAAAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
52238171 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
66 AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
52238236 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
131 GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
52238301 TCATATTCAAGGGGACTCA
196 TCATATTCAAGGGGACTCA
52238320 AT
1 AT
52238322 TTTCATCCTA
Statistics
Matches: 214, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (214 bp):
ATATATATACAATTCAAAACACAACATTTAATTCAAGCATATAGACATACGCAATTTAGTTACAC
AAACTTACATTGACAAATGTTCGTGTACGTAAAATCTACTAATCTGACATTTTCCTCTTTTCCTC
GTTCTAGTTCCGAATTTGGTCTATCCAGATCTATATGAGTAAATTTAACATCAATTTATCATATT
TCATATTCAAGGGGACTCA
Found at i:52249165 original size:36 final size:37
Alignment explanation
Indices: 52249099--52249177 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
52249089 TTATAGATTT
* *
52249099 ATTATATTCATATTATTTTTTATGCATTTTATTTCAA
1 ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
* ***
52249136 TTTATATT-ATATTACTTTTTATTTTTTTTACTTCAA
1 ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
52249172 ATTATA
1 ATTATA
52249178 AAAATATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
36 28 0.80
37 7 0.20
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (37 bp):
ATTATATTCATATTACTTTTTATGCATTTTACTTCAA
Found at i:52253072 original size:22 final size:22
Alignment explanation
Indices: 52253044--52253090 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
52253034 AGCAAGTAAT
52253044 TAATTTTTAAA-ATTAAAAAATA
1 TAATTTTTAAATA-TAAAAAATA
* *
52253066 TAATTTTTTAATATAAAAATTA
1 TAATTTTTAAATATAAAAAATA
52253088 TAA
1 TAA
52253091 AACATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTTTTAAATATAAAAAATA
Found at i:52253085 original size:29 final size:27
Alignment explanation
Indices: 52253052--52253106 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
52253042 ATTAATTTTT
*
52253052 AAAATTAAAAAATATAATTTTTTAATATA
1 AAAATTAAAAAACAT-A-TTTTTAATATA
*
52253081 AAAATTATAAAACATATTTTTAATAT
1 AAAATTAAAAAACATATTTTTAATAT
52253107 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 1 0.04
29 13 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTAAAAAACATATTTTTAATATA
Found at i:52258130 original size:25 final size:23
Alignment explanation
Indices: 52258098--52258147 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
52258088 TCAAAATAAC
*
52258098 TTTTTTTAT-TTTAGTTATATAATT
1 TTTTTTTATGTTT-GTT-TAAAATT
52258122 TTTTGTTTATGTTTGTTTAAAATT
1 TTTT-TTTATGTTTGTTTAAAATT
52258146 TT
1 TT
52258148 GATGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.52
25 8 0.35
26 3 0.13
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTTTTATGTTTGTTTAAAATT
Done.