Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 83 of 230
Found at i:23065954 original size:19 final size:19
Alignment explanation
Indices: 23065930--23065967 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23065920 AGATTGATGT
23065930 GATACCTGGAGTCTACGTG
1 GATACCTGGAGTCTACGTG
23065949 GATACCTGGAGTCTACGTG
1 GATACCTGGAGTCTACGTG
23065968 CATGTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (19 bp):
GATACCTGGAGTCTACGTG
Found at i:23069651 original size:17 final size:17
Alignment explanation
Indices: 23069588--23069651 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
23069578 AAATATTTAT
**
23069588 TTTTTA-ATTTATGATA
1 TTTTTATATTTAAAATA
*
23069604 TGTTTATATTTAAAAT-
1 TTTTTATATTTAAAATA
*
23069620 TTTAATT-TATATAAAATA
1 TTT--TTATATTTAAAATA
23069638 TTTTTATATTTAAA
1 TTTTTATATTTAAA
23069652 TTCAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 9 0.24
17 23 0.62
18 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTTATATTTAAAATA
Found at i:23072580 original size:16 final size:17
Alignment explanation
Indices: 23072561--23072604 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
23072551 AGCATCACTA
*
23072561 TAGAACAACTCT-TATT
1 TAGAACAACTCTACATT
23072577 TAGAACAACCTCTACATT
1 TAGAACAA-CTCTACATT
*
23072595 GAGAACAACT
1 TAGAACAACT
23072605 ATGCCAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (17 bp):
TAGAACAACTCTACATT
Found at i:23073189 original size:16 final size:16
Alignment explanation
Indices: 23073168--23073198 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23073158 TTCACTATTA
*
23073168 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
23073184 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
23073199 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:23074852 original size:42 final size:42
Alignment explanation
Indices: 23074794--23074874 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
23074784 TTCCAAAAAT
*
23074794 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTAAATTA
1 AATATTATCTTAATAGTATT-ATATTAAATTAATATTAAATTA
* *
23074835 AATACTTATCTTAATAGTATTTTATTAATTTAATATTAAA
1 AATA-TTATCTTAATAGTATTATATTAAATTAATATTAAA
23074875 GTGACTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 22 0.65
43 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (42 bp):
AATATTATCTTAATAGTATTATATTAAATTAATATTAAATTA
Found at i:23077682 original size:18 final size:17
Alignment explanation
Indices: 23077655--23077688 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23077645 AATAAATATT
23077655 ATTTATAAATTAATTTA
1 ATTTATAAATTAATTTA
23077672 ATTTGATAAATTAATTT
1 ATTT-ATAAATTAATTT
23077689 TCCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAATTAATTTA
Found at i:23082960 original size:25 final size:24
Alignment explanation
Indices: 23082932--23083020 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 24
23082922 ATAAATGGGT
*
23082932 AGCTCTTTCGAGCCATAG-AACAGGA
1 AGCTCTGT-GAGCCAT-GTAACAGGA
*
23082957 AGCTCATGTGAGCCATGTAACGGGA
1 AGCTC-TGTGAGCCATGTAACAGGA
* *
23082982 AGCTCTAGAGAGCCAT-TAACGGGA
1 AGCTCT-GTGAGCCATGTAACAGGA
*
23083006 AGCTCATATGAGCCA
1 AGCTC-TGTGAGCCA
23083021 ATATCGGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
24 21 0.38
25 32 0.58
26 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.19
Consensus pattern (24 bp):
AGCTCTGTGAGCCATGTAACAGGA
Found at i:23082986 original size:50 final size:50
Alignment explanation
Indices: 23082901--23083020 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
23082891 AATTCATATT
* * ***
23082901 CAGGAATGCTCATGTGAG-CATATAAATGGGTAGCTCTTTCGAGCCATAGAA
1 CAGGAA-GCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCAT-GAA
* *
23082952 CAGGAAGCTCATGTGAGCCATGT-AACGGGAAGCTCTAGAGAGCCATTAA
1 CAGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATGAA
* *
23083001 CGGGAAGCTCATATGAGCCA
1 CAGGAAGCTCATGTGAGCCA
23083021 ATATCGGGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 20 0.34
50 29 0.49
51 10 0.17
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (50 bp):
CAGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATGAA
Found at i:23083018 original size:24 final size:24
Alignment explanation
Indices: 23082954--23083031 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
23082944 CCATAGAACA
*
23082954 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATATGAGCCAT-TAACG
*
23082979 GGAAGCTC-TAGAGAGCCATTAACG
1 GGAAGCTCATA-TGAGCCATTAACG
* *
23083003 GGAAGCTCATATGAGCCAATATCG
1 GGAAGCTCATATGAGCCATTAACG
23083027 GGAAG
1 GGAAG
23083032 GTTCAAACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCATTAACG
Found at i:23083049 original size:25 final size:25
Alignment explanation
Indices: 23083018--23083081 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
23083008 CTCATATGAG
*
23083018 CCAATATCGGGAAGGTTCAAACGAA
1 CCAATATCGGGAAGATTCAAACGAA
* * *
23083043 CCAATATCGAGAATATTCAAACGAG
1 CCAATATCGGGAAGATTCAAACGAA
*
23083068 CCAATATCAGGAAG
1 CCAATATCGGGAAG
23083082 CTCCGGAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (25 bp):
CCAATATCGGGAAGATTCAAACGAA
Found at i:23089100 original size:15 final size:14
Alignment explanation
Indices: 23089064--23089118 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
23089054 TCTATTGATC
23089064 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
23089078 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
23089092 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
23089107 GAAAGAAAAGAA
1 GAGA-AAAAGAA
23089119 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:23099091 original size:25 final size:25
Alignment explanation
Indices: 23099063--23099110 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23099053 TAGCTCTTTC
23099063 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCATATAACAAGAAGCTCATGT
* **
23099088 GAGCCATGTAACGGGAAGCTCAT
1 GAGCCATATAACAAGAAGCTCAT
23099111 ACGAGATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAAGAAGCTCATGT
Found at i:23099146 original size:25 final size:25
Alignment explanation
Indices: 23099118--23099179 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
23099108 CATACGAGAT
*
23099118 AATATCGAGAAGGTTCAAGTGAACC
1 AATATCGAGAAGGTTCAAGCGAACC
* * * *
23099143 AATATCGGGAATGTTTAAGCGAGCC
1 AATATCGAGAAGGTTCAAGCGAACC
23099168 AATATCGAGAAG
1 AATATCGAGAAG
23099180 CTCCGAAGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (25 bp):
AATATCGAGAAGGTTCAAGCGAACC
Found at i:23099205 original size:26 final size:26
Alignment explanation
Indices: 23099163--23099241 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
23099153 ATGTTTAAGC
*
23099163 GAGCCAA-T-ATCGAGAAGCTCCGAA
1 GAGCCAATTAATCGGGAAGCTCCGAA
**
23099187 GAGCCAATTAATCGGGAAGCTTATGAAA
1 GAGCCAATTAATCGGGAAGC-TCCG-AA
*
23099215 GAGCC-TTTAATCGGGAAGCTCCGAA
1 GAGCCAATTAATCGGGAAGCTCCGAA
23099240 GA
1 GA
23099242 CCATATAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.16
25 5 0.11
26 11 0.24
27 15 0.33
28 7 0.16
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
GAGCCAATTAATCGGGAAGCTCCGAA
Found at i:23102122 original size:40 final size:41
Alignment explanation
Indices: 23102051--23102127 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
23102041 TTTATTACTT
* *
23102051 ATTTTATTATTATAATACAATATATATACTTAAACATTAAG
1 ATTTTATTATTATAATACAATAAATACACTTAAACATTAAG
* *
23102092 ATTTTA-TATTATAATA-TATAGAATACACTTACACAT
1 ATTTTATTATTATAATACAATA-AATACACTTAAACAT
23102128 ATTTTAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 3 0.10
40 22 0.71
41 6 0.19
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (41 bp):
ATTTTATTATTATAATACAATAAATACACTTAAACATTAAG
Found at i:23113747 original size:25 final size:25
Alignment explanation
Indices: 23113719--23113770 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
23113709 AAAATTGGTA
23113719 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
23113744 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
23113769 AG
1 AG
23113771 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:23118461 original size:32 final size:33
Alignment explanation
Indices: 23118420--23118504 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 33
23118410 AACTTTTCCG
* * *
23118420 GAAAATATTTT-CAGGAAATCTGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
23118452 GAAAATATTTTACA-CAGATTTACCAAACACCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
23118484 GAAAATATTTTCCAGTAAATC
1 GAAAATATTTTACAGCAAATC
23118505 ATTTTACAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
32 37 0.88
33 5 0.12
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCTACCAAACACCA
Found at i:23118522 original size:20 final size:20
Alignment explanation
Indices: 23118497--23118536 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23118487 AATATTTTCC
*
23118497 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
23118517 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
23118537 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:23118538 original size:34 final size:35
Alignment explanation
Indices: 23118485--23118551 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
23118475 CAAACACCAG
*
23118485 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
23118520 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
23118552 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:23118543 original size:14 final size:14
Alignment explanation
Indices: 23118520--23118559 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23118510 ACAGAAAAGT
*
23118520 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
23118534 AAATCATTTTACGG
1 AAAACATTTTACAG
23118548 AAAACATTTTAC
1 AAAACATTTTAC
23118560 TGCCAAACAA
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:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:23119622 original size:14 final size:14
Alignment explanation
Indices: 23119603--23119632 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23119593 AGTGAGAGAG
*
23119603 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
23119617 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
23119631 GA
1 GA
23119633 ACGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:23121700 original size:15 final size:13
Alignment explanation
Indices: 23121656--23121692 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
23121646 TCTGAGTAGG
*
23121656 GTCACATGCCCGT
1 GTCACACGCCCGT
*
23121669 GTCACACGGCCGT
1 GTCACACGCCCGT
23121682 GTCACACGCCC
1 GTCACACGCCC
23121693 ATGTGTCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.16
Consensus pattern (13 bp):
GTCACACGCCCGT
Found at i:23122660 original size:40 final size:41
Alignment explanation
Indices: 23122591--23122701 Score: 163
Period size: 40 Copynumber: 2.7 Consensus size: 41
23122581 GTGTATTCAG
*
23122591 GGGTACCGAAGTACAAACAAGGGCACGTATATTCAATTT-A
1 GGGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
* *
23122631 GAGGTATCGAAGTAC-AACAGGGGCACGTATGTTCAATTTAA
1 G-GGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
*
23122672 GGGTACCAAAGTACAAACAGGGGCACGTAT
1 GGGTACCGAAGTACAAACAGGGGCACGTAT
23122702 GTGTAATTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
40 34 0.54
41 29 0.46
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATATTCAATTTAA
Found at i:23122690 original size:81 final size:82
Alignment explanation
Indices: 23122591--23122744 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 82
23122581 GTGTATTCAG
* * *
23122591 GGGTACCGAAGTACAAACAAGGGCACGTATAT-TCAATTTAGAGG-TATCGAAGTAC-AACAGGG
1 GGGTACCAAAGTACAAACAAGGGCACGTATATGT-AATTCAG-GGTTATCGAAGTACAAACAGAG
23122653 GCACGTATGTTCAATTTAA
64 GCACGTATGTTCAATTTAA
* * * *
23122672 GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAGGGTTATTGAAGTACAAACAGAGGT
1 GGGTACCAAAGTACAAACAAGGGCACGTATATGTAATTCAGGGTTATCGAAGTACAAACAGAGGC
23122737 ACGTATGT
66 ACGTATGT
23122745 GCAAGTCAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 45 0.71
82 16 0.25
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (82 bp):
GGGTACCAAAGTACAAACAAGGGCACGTATATGTAATTCAGGGTTATCGAAGTACAAACAGAGGC
ACGTATGTTCAATTTAA
Found at i:23122703 original size:41 final size:40
Alignment explanation
Indices: 23122591--23122744 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 40
23122581 GTGTATTCAG
* *
23122591 GGGTACCGAAGTACAAACAAGGGCACGTATATTCAATTTA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTTA
*
23122631 GAGGTATCGAAGTAC-AACAGGGGCACGTATGTTCAATTTAA
1 G-GGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTT-A
* *
23122672 GGGTACCAAAGTACAAACAGGGGCACGTATGTGT-AATTCA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGT-TCAATTTA
** * *
23122712 GGGTTATTGAAGTACAAACAGAGGTACGTATGT
1 GGG-TACCGAAGTACAAACAGGGGCACGTATGT
23122745 GCAAGTCAAC
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 38 0.39
41 59 0.60
42 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTTCAATTTA
Found at i:23126446 original size:25 final size:23
Alignment explanation
Indices: 23126418--23126468 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
23126408 TAAAGTCTTT
*
23126418 AATAGATTAAACTAAAAGAAATTGA
1 AATACATTAAACTAAAAG--ATTGA
*
23126443 AATACATTAAACTAGAAGATTGA
1 AATACATTAAACTAAAAGATTGA
23126466 AAT
1 AAT
23126469 GCCATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (23 bp):
AATACATTAAACTAAAAGATTGA
Found at i:23131640 original size:100 final size:99
Alignment explanation
Indices: 23131468--23131662 Score: 257
Period size: 100 Copynumber: 2.0 Consensus size: 99
23131458 CGGCACGAAC
* * * * * * *
23131468 TTTTGGATGGGATCTAAGTAGTTATAGGTTGAGAGTTTGTATAGCGTTTGAAGAATTATTTTTTA
1 TTTTGGATGGGATCCAAGTAGTTATAGGTGGAGAGCTTGCATAGCATTTGAAGAATTATATCTTA
*
23131533 GCTTCGAAATGTACATTGAATCACTTGATTGAAT
66 GCTTCGAAATGTACATTGAATCACTCGATTGAAT
* *
23131567 TTTTGGATGTGATCCAAGTAGTTATGGGCTGGA-ATGCTTGCATAGCATTTGAAGAATTATATCT
1 TTTTGGATGGGATCCAAGTAGTTATAGG-TGGAGA-GCTTGCATAGCATTTGAAGAATTATATCT
* *
23131631 TAGTTTCGAAATGTACTTTGAATCACTCGATT
64 TAGCTTCGAAATGTACATTGAATCACTCGATT
23131663 TTGAGTTTGG
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 26 0.32
100 56 0.68
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (99 bp):
TTTTGGATGGGATCCAAGTAGTTATAGGTGGAGAGCTTGCATAGCATTTGAAGAATTATATCTTA
GCTTCGAAATGTACATTGAATCACTCGATTGAAT
Found at i:23132021 original size:82 final size:82
Alignment explanation
Indices: 23131926--23132092 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 82
23131916 CTATTCTTGT
23131926 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
1 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
23131991 TGTCTCTTCATTATTCA
66 TGTCTCTTCATTATTCA
*
23132008 TTAGATTAATTGAAGTTTCATTATATAAGAGTTTTATTTTAATATAATTAGCTAACCTATAAAAA
1 TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
23132073 TGTCTCTTCATTATTCA
66 TGTCTCTTCATTATTCA
23132090 TTA
1 TTA
23132093 TAGAGAGAGA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (82 bp):
TTAGATTAATTGAAGTTTCATTATATAAGAATTTTATTTTAATATAATTAGCTAACCTATAAAAA
TGTCTCTTCATTATTCA
Found at i:23142008 original size:26 final size:26
Alignment explanation
Indices: 23141974--23142032 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
23141964 CTCGAGTAAG
*
23141974 AAGAAGCTCCTAGGCAATGAAAAGGT
1 AAGATGCTCCTAGGCAATGAAAAGGT
*
23142000 AAGATGCTCCTGGGCAATGAAAAGGT
1 AAGATGCTCCTAGGCAATGAAAAGGT
23142026 AAG-TGCT
1 AAGATGCT
23142033 GGAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (26 bp):
AAGATGCTCCTAGGCAATGAAAAGGT
Found at i:23146037 original size:26 final size:27
Alignment explanation
Indices: 23145999--23146053 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
23145989 CCCAACACTC
23145999 AAACAAACACCAATTACACAAA-ACCCA
1 AAACAAACACCAATT-CACAAATACCCA
*
23146026 AAACAAAC-CCAATTCCCAAATACCCA
1 AAACAAACACCAATTCACAAATACCCA
23146052 AA
1 AA
23146054 CAAGCCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 13 0.50
27 8 0.31
ACGTcount: A:0.56, C:0.35, G:0.00, T:0.09
Consensus pattern (27 bp):
AAACAAACACCAATTCACAAATACCCA
Found at i:23146054 original size:25 final size:26
Alignment explanation
Indices: 23145998--23146056 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
23145988 ACCCAACACT
23145998 CAAACAAACACCAATTACACAAAACC
1 CAAACAAACACCAATTACACAAAACC
*
23146024 CAAAACAAAC-CCAATT-CCCAAATACC
1 C-AAACAAACACCAATTACACAAA-ACC
23146050 CAAACAA
1 CAAACAA
23146057 GCCAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.37
26 11 0.37
27 8 0.27
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (26 bp):
CAAACAAACACCAATTACACAAAACC
Found at i:23151971 original size:26 final size:26
Alignment explanation
Indices: 23151908--23151983 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
23151898 TATCATCGCT
***
23151908 ATTTTACCCCTAACAAAATTTTGATG
1 ATTTTACCCCTGGTAAAATTTTGATG
23151934 ATTTTACCCCTGGTAAAATTTTGATG
1 ATTTTACCCCTGGTAAAATTTTGATG
*
23151960 ATTTTGCCCCTGGTAAAATTTTGA
1 ATTTTACCCCTGGTAAAATTTTGA
23151984 GAAATATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGATG
Found at i:23152144 original size:6 final size:6
Alignment explanation
Indices: 23152128--23152162 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
23152118 GCAAATAAAT
* *
23152128 CATTTC TATTTC CATTTT CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
23152163 TTGGAAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (6 bp):
CATTTC
Found at i:23152150 original size:18 final size:18
Alignment explanation
Indices: 23152127--23152163 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23152117 TGCAAATAAA
*
23152127 TCATTTCTATTTCCATTT
1 TCATTTCCATTTCCATTT
23152145 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
23152163 T
1 T
23152164 TGGAAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:23165797 original size:32 final size:32
Alignment explanation
Indices: 23165742--23165880 Score: 147
Period size: 32 Copynumber: 4.4 Consensus size: 32
23165732 GAATGGCTAC
* *
23165742 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * ** *
23165773 AAGCCATCAGTAGCAGTGATATGATCGATATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
23165805 CAA-CCATTAGTAACGGTAATATGATCGGTACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
23165837 AAGCCATCAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
23165869 AAGCCATCAGTA
1 AAGCCATCAGTA
23165881 TCATCACAGC
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
31 12 0.13
32 75 0.84
33 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:23165859 original size:64 final size:64
Alignment explanation
Indices: 23165739--23165860 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
23165729 ATAGAATGGC
* * *
23165739 TACAAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGATA
1 TACAAGCCATAAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGATA
* * * *
23165803 TACAA-CCATTAGTAACGGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATATGA
1 TACAAGCCATAAGT-ACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGA
23165861 CCGGCACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 7 0.14
64 43 0.86
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (64 bp):
TACAAGCCATAAGTACAGTAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGATA
Found at i:23166058 original size:24 final size:24
Alignment explanation
Indices: 23166026--23166107 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
23166016 CCATGCTCAG
23166026 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* **
23166050 AATCAGTCATACCAATCACAGGCA
1 AATCAGTCATACAAATCACAAACA
** *
23166074 AATCCA-TCATTTAAATCACAATCA
1 AAT-CAGTCATACAAATCACAAACA
23166098 AATCAGTCAT
1 AATCAGTCAT
23166108 TTACATCACG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:23166108 original size:24 final size:24
Alignment explanation
Indices: 23166026--23166134 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
23166016 CCATGCTCAG
** *
23166026 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTAAATCACAATCA
*** **
23166050 AATCAGTCATACCAATCACAGGCA
1 AATCAGTCATTTAAATCACAATCA
23166074 AATCCA-TCATTTAAATCACAATCA
1 AAT-CAGTCATTTAAATCACAATCA
* *
23166098 AATCAGTCATTTACATCACGGAT-A
1 AATCAGTCATTTAAATCAC-AATCA
*
23166122 AATCAATCATTTA
1 AATCAGTCATTTA
23166135 CACTCGAATG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.03
24 65 0.92
25 4 0.06
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAATCA
Found at i:23166116 original size:48 final size:48
Alignment explanation
Indices: 23166038--23166134 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
23166028 TCAGTCATAC
*
23166038 AAATCACAAACAAATCAGTCATACCAATCACAGG-CAAATCCATCATTT
1 AAATCACAAACAAATCAGTCATACCAATCAC-GGACAAATCAATCATTT
* *
23166086 AAATCACAATCAAATCAGTCATTTA-C-ATCACGGATAAATCAATCATTT
1 AAATCACAAACAAATCAGTCA--TACCAATCACGGACAAATCAATCATTT
23166134 A
1 A
23166135 CACTCGAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 2 0.05
48 38 0.88
49 1 0.02
50 2 0.05
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (48 bp):
AAATCACAAACAAATCAGTCATACCAATCACGGACAAATCAATCATTT
Found at i:23166210 original size:27 final size:26
Alignment explanation
Indices: 23166173--23166335 Score: 127
Period size: 27 Copynumber: 6.1 Consensus size: 26
23166163 CTTCAGGGGA
* *
23166173 ATTACGATTATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACC-TACAAGGGT
* * * * **
23166200 GTTTCGGTTATTTAACCCTATGAGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
*
23166227 ATTACGGTCATTTTATCCTACAAGGGC
1 ATTACGGTCATTTTA-CCTACAAGGGT
23166254 ATTACGGTCATTTTACCTTATC--GGGT
1 ATTACGGTCATTTTACC-TA-CAAGGGT
* *
23166280 -TTTCGGTCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
23166306 ATTACGGTCATTTTACCCTACGAA-GGT
1 ATTACGGTCATTTTA-CCTAC-AAGGGT
23166333 ATT
1 ATT
23166336 TTTGTTATTT
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.01
25 15 0.14
26 11 0.10
27 78 0.72
28 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTACGGTCATTTTACCTACAAGGGT
Found at i:23166345 original size:27 final size:27
Alignment explanation
Indices: 23166312--23166588 Score: 192
Period size: 27 Copynumber: 10.3 Consensus size: 27
23166302 GGGTATTACG
*
23166312 GTCATTTTACCC-TACGAAGGTATTTTT
1 GTCATTTTACCCAT-CGAAGGTATTTTA
* *
23166339 GTTATTTTACCCATCGAGGGTATTTTA
1 GTCATTTTACCCATCGAAGGTATTTTA
* **
23166366 GTCATTTTACCCATCGATGGTATTTCG
1 GTCATTTTACCCATCGAAGGTATTTTA
*
23166393 GT-AGTTTTACCCATC-AAGGGTATTTCA
1 GTCA-TTTTACCCATCGAA-GGTATTTTA
* * * *
23166420 ATCATTTTACCCATTGAGGGTATTTAA
1 GTCATTTTACCCATCGAAGGTATTTTA
* * * *
23166447 ATAATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTA
* *
23166474 GTCATTTTACCCATC-AGGGGTA-TTTC
1 GTCATTTTACCCATCGA-AGGTATTTTA
* * *
23166500 GATAATTTTACCCATCGAGGGTA-TTTC
1 G-TCATTTTACCCATCGAAGGTATTTTA
* * **
23166527 GATCGTTTTACCCATCGGCA-GTATTTCG
1 G-TCATTTTACCCATC-GAAGGTATTTTA
* *
23166555 GTAATTTTACCCATCGAGGGTA-TTTA
1 GTCATTTTACCCATCGAAGGTATTTTA
23166581 GGTCATTT
1 -GTCATTT
23166589 AACAAATATT
Statistics
Matches: 204, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
26 9 0.04
27 187 0.92
28 8 0.04
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCATCGAAGGTATTTTA
Found at i:23166349 original size:79 final size:80
Alignment explanation
Indices: 23166153--23166331 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
23166143 TGGCAAAATA
* * * * *
23166153 GTCA-TTTACCCTTCAGGGGAATTACGATTATTTTACCTTACAAGGGTGTTTCGGTTATTTAACC
1 GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTAC-AGGGTGTTTCGGTCATTTAACC
*
23166217 CTATGAGGGTATTACG
65 CTAAGAGGGTATTACG
* * * *
23166233 GTCATTTTATCCTACAAGGGCATTACGGTCATTTTACCTTATC-GGGT-TTTCGGTCATTTTATC
1 GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTA-CAGGGTGTTTCGGTCATTTAACC
23166296 CTACAG-GGGTATTACG
65 CTA-AGAGGGTATTACG
23166312 GTCATTTTACCCTACGAAGG
1 GTCATTTTACCCTAC-AAGG
23166332 TATTTTTGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
79 40 0.48
80 13 0.15
81 30 0.36
82 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (80 bp):
GTCATTTTACCCTACAAGGGCATTACGGTTATTTTACCTTACAGGGTGTTTCGGTCATTTAACCC
TAAGAGGGTATTACG
Found at i:23166370 original size:54 final size:54
Alignment explanation
Indices: 23166312--23166588 Score: 273
Period size: 54 Copynumber: 5.1 Consensus size: 54
23166302 GGGTATTACG
* *
23166312 GTCATTTTACCC-TACGAAGGTATTTTTGTTATTTTACCCATCGAGGGTATTTTA
1 GTCATTTTACCCAT-CGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
* * * *
23166366 GTCATTTTACCCATCGATGGTA-TTTCGGTAGTTTTACCCATCAAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTC-GTAATTTTACCCATCGAGGGTATTTTA
* * * *** *
23166420 ATCATTTTACCCATTGAGGGTATTTAAATAATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
* *
23166474 GTCATTTTACCCATC-AGGGGTA-TTTCGATAATTTTACCCATCGAGGGTA-TTTC
1 GTCATTTTACCCATCGA-AGGTATTTTCG-TAATTTTACCCATCGAGGGTATTTTA
* *
23166527 GATCGTTTTACCCATCGGCA-GTA-TTTCGGTAATTTTACCCATCGAGGGTA-TTTA
1 G-TCATTTTACCCATC-GAAGGTATTTTC-GTAATTTTACCCATCGAGGGTATTTTA
23166581 GGTCATTT
1 -GTCATTT
23166589 AACAAATATT
Statistics
Matches: 187, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
53 9 0.05
54 173 0.93
55 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCCATCGAAGGTATTTTCGTAATTTTACCCATCGAGGGTATTTTA
Found at i:23166401 original size:81 final size:80
Alignment explanation
Indices: 23166303--23166579 Score: 265
Period size: 81 Copynumber: 3.4 Consensus size: 80
23166293 ATCCTACAGG
* * *
23166303 GGTATTACGGTCATTTTACCC-TACGAAGGTATTTTTGTTATTTTACCCATCGAGGGTATTTTAG
1 GGTATTTCGGTCATTTTACCCAT-C-AAGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG
*
23166367 TCATTTTACCCATCGAT
64 TCATTTTACCCATCGAC
* * * * * *
23166384 GGTATTTCGGT-AGTTTTACCCATCAAGGGTATTTCAATCATTTTACCCATTGAGGGTATTTAAA
1 GGTATTTCGGTCA-TTTTACCCATCAA-GGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG
* *
23166448 TAATTTTACCCATCGAG
64 TCATTTTACCCATCGAC
* * * *
23166465 GGTATTTCAGTCATTTTACCCATCAGGGGTA-TTTCGATAATTTTACCCATCGAGGGTA-TTTCG
1 GGTATTTCGGTCATTTTACCCATCA-AGGTATTTTAG-TAATTTTACCCATCGAGGGTATTTTAG
* *
23166528 ATCGTTTTACCCATCGGC
64 -TCATTTTACCCATCGAC
* * *
23166546 AGTATTTCGGTAATTTTACCCATCGAGGGTATTT
1 GGTATTTCGGTCATTTTACCCATC-AAGGTATTT
23166580 AGGTCATTTA
Statistics
Matches: 160, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
80 7 0.04
81 148 0.93
82 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (80 bp):
GGTATTTCGGTCATTTTACCCATCAAGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTC
ATTTTACCCATCGAC
Found at i:23169302 original size:4 final size:4
Alignment explanation
Indices: 23169293--23169327 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
23169283 CAATAAGGAC
* *
23169293 AAAT AAAT AAAT AAAT AAGT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
23169328 ATGGGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:23169471 original size:15 final size:15
Alignment explanation
Indices: 23169442--23169485 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
23169432 ACTAAAAATG
*
23169442 TAAA-AATATTAAAA
1 TAAATAATAATAAAA
23169456 TAAAATAA-AATAAAA
1 T-AAATAATAATAAAA
23169471 TAAATAATAATAAAA
1 TAAATAATAATAAAA
23169486 ACTAAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.27
15 17 0.65
16 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAATAATAATAAAA
Found at i:23169477 original size:4 final size:5
Alignment explanation
Indices: 23169451--23169485 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
23169441 GTAAAAATAT
23169451 TAAAA TAAAA TAAAA TAAAA T-AAA TAATAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA
23169486 ACTAAATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:23179180 original size:28 final size:28
Alignment explanation
Indices: 23179149--23179238 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 28
23179139 TCCCTCCGTT
23179149 TCTTTTCTTTTCTTTTTCTCTCTGTCAC
1 TCTTTTCTTTTCTTTTTCTCTCTGTCAC
* * * * *
23179177 TC-TTTCGATTGCCTTTTCAAC-CAGTCGAC
1 TCTTTTC-TTTTCTTTTTC-TCTCTGTC-AC
*
23179206 -CTTTTTCTTTTCTTGTTCTCTCTGTCAC
1 TC-TTTTCTTTTCTTTTTCTCTCTGTCAC
23179234 TCTTT
1 TCTTT
23179239 CGATTGCTCT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
27 4 0.09
28 21 0.48
29 15 0.34
30 4 0.09
ACGTcount: A:0.08, C:0.29, G:0.08, T:0.56
Consensus pattern (28 bp):
TCTTTTCTTTTCTTTTTCTCTCTGTCAC
Found at i:23179592 original size:17 final size:17
Alignment explanation
Indices: 23179570--23179607 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
23179560 CGGTTGCATG
23179570 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
23179587 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
23179604 TTTC
1 TTTC
23179608 CTTTGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.66
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:23180368 original size:22 final size:22
Alignment explanation
Indices: 23180327--23180402 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
23180317 GAAGATGAAA
23180327 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
23180348 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
23180370 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
23180392 GCTGGAAATTG
1 -CTGGAAATTG
23180403 AATTTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 12 0.27
23 22 0.49
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:23181633 original size:25 final size:25
Alignment explanation
Indices: 23181599--23181726 Score: 160
Period size: 25 Copynumber: 5.3 Consensus size: 25
23181589 TACATCAATA
23181599 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
23181624 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
23181647 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
23181672 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
23181695 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
23181720 ATTAAAA
1 ATTAAAA
23181727 ATCAATAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
23 38 0.44
24 4 0.05
25 45 0.52
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:23181648 original size:48 final size:48
Alignment explanation
Indices: 23181592--23181726 Score: 270
Period size: 48 Copynumber: 2.8 Consensus size: 48
23181582 AAAAAATTAC
23181592 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
23181640 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
23181688 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
23181727 ATCAATAAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:23181650 original size:23 final size:23
Alignment explanation
Indices: 23181592--23181709 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 23
23181582 AAAAAATTAC
23181592 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
23181617 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
23181640 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
23181665 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
23181688 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
23181710 TTAATATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
23 39 0.49
24 4 0.05
25 36 0.46
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:23185427 original size:47 final size:45
Alignment explanation
Indices: 23185376--23185542 Score: 112
Period size: 45 Copynumber: 3.6 Consensus size: 45
23185366 TATTTAATAT
23185376 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTAT-AA
* * * ** *
23185423 TAATT-TTATGAAA-TTATATATT-ATTATTA-AATTATATATAATAA
1 TAATTATT-TTAAATTTATAAATTCA-TATAAGAAAAAT-TATTATAA
* * * *
23185467 TAATTA-TTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAAATTATTA-TAA
*
23185513 TAACTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
23185543 TTTTAATTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
43 4 0.04
44 14 0.16
45 30 0.33
46 13 0.14
47 24 0.27
48 5 0.06
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAAATTATTATAA
Found at i:23185449 original size:91 final size:90
Alignment explanation
Indices: 23185302--23185508 Score: 306
Period size: 91 Copynumber: 2.3 Consensus size: 90
23185292 TTGATTTTAG
* *
23185302 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
23185367 ATTTAATATTAATTATTTTAAATTGTA
65 ATATAATAATAATTA-TTTAAATTATA
* * *
23185394 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
23185459 TATAATAATAATTATTTAAATTATA
66 TATAATAATAATTATTTAAATTATA
* *
23185484 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
23185509 GTTATAACTA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 32 0.31
91 56 0.54
92 16 0.15
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TATAATAATAATTATTTAAATTATA
Found at i:23185470 original size:44 final size:44
Alignment explanation
Indices: 23185340--23185483 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 44
23185330 AAGAATTTTA
* * *
23185340 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
* * * * *
23185384 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATA-TATAAT-AATAATTATT
*
23185430 ATGAAATTATATATTATTATTAAATTATATATAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
23185475 T-AAATTATA
1 TGAAATTATA
23185484 CAAATTCATA
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
43 11 0.14
44 20 0.26
45 13 0.17
46 12 0.16
47 18 0.23
48 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (44 bp):
TGAAATTATATATAATTATTAAATTATATATAATAATAATTATT
Found at i:23185690 original size:25 final size:26
Alignment explanation
Indices: 23185658--23185712 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
23185648 TTATTAAATT
*
23185658 ATATATTTTAATTA-TAATATATTTA
1 ATATATTTTAATCATTAATATATTTA
*
23185683 ATATA-TTTAATCATTATTATATTTA
1 ATATATTTTAATCATTAATATATTTA
23185708 A-ATAT
1 ATATAT
23185713 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATATTTTAATCATTAATATATTTA
Found at i:23190275 original size:94 final size:94
Alignment explanation
Indices: 23190172--23190359 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
23190162 AAAATCGAAA
23190172 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
1 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
23190237 GCATTATGATAGAAATATCGTATGAAAAT
66 GCATTATGATAGAAATATCGTATGAAAAT
*
23190266 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAGAAAATTATTTTAATTTTATTTCATGGTCT
1 CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
23190331 GCATTATGATAGAAATATCGTATGAAAAT
66 GCATTATGATAGAAATATCGTATGAAAAT
23190360 TTCGTTAGGA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (94 bp):
CAGTGGTTTAGGGATCACAAATCCGAGTCCGAAAAAAAAATTATTTTAATTTTATTTCATGGTCT
GCATTATGATAGAAATATCGTATGAAAAT
Found at i:23191004 original size:15 final size:15
Alignment explanation
Indices: 23190984--23191015 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23190974 TATGAATTAC
*
23190984 ATGTTATATGTAAAA
1 ATGTTATAAGTAAAA
23190999 ATGTTATAAGTAAAA
1 ATGTTATAAGTAAAA
23191014 AT
1 AT
23191016 TGACTAGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (15 bp):
ATGTTATAAGTAAAA
Found at i:23191660 original size:26 final size:26
Alignment explanation
Indices: 23191631--23191701 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
23191621 TATATATGGT
*
23191631 TCTTCGTGAGCTTCCCGATTAAAGGC
1 TCTTCGTGAGCTTCTCGATTAAAGGC
* *
23191657 TCTTTGTGAGCTTCTCG-TTAATGGC
1 TCTTCGTGAGCTTCTCGATTAAAGGC
23191682 TC-TC-TGGAGCTTCTCGATTA
1 TCTTCGT-GAGCTTCTCGATTA
23191702 TGGCTCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 12 0.31
26 15 0.38
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
TCTTCGTGAGCTTCTCGATTAAAGGC
Found at i:23191696 original size:24 final size:24
Alignment explanation
Indices: 23191638--23191755 Score: 103
Period size: 24 Copynumber: 4.8 Consensus size: 24
23191628 GGTTCTTCGT
* *
23191638 GAGCTTCCCGATTAAAGGCTCTTTG
1 GAGCTTCCCG-TTAATGGCTCTCTG
*
23191663 TGAGCTTCTCGTTAATGGCTCTCTG
1 -GAGCTTCCCGTTAATGGCTCTCTG
* * *
23191688 GAGCTTCTCGATT-ATGGCTCACTT
1 GAGCTTCCCG-TTAATGGCTCTCTG
* * *
23191712 GAACTTCCCGATATATGGCTATCTG
1 GAGCTTCCCGTTA-ATGGCTCTCTG
*
23191737 GAGCTTCCTGTTAATGGCT
1 GAGCTTCCCGTTAATGGCT
23191756 TTTCAAAGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
23 1 0.01
24 33 0.44
25 32 0.43
26 9 0.12
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTCTG
Found at i:23191743 original size:25 final size:24
Alignment explanation
Indices: 23191638--23191744 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 24
23191628 GGTTCTTCGT
* * *
23191638 GAGCTTCCCGATTAAAGGCTCTTTG
1 GAGCTTCCCGATT-ATGGCTATCTG
* *
23191663 TGAGCTTCTCG-TTAATGGCTCTCTG
1 -GAGCTTCCCGATT-ATGGCTATCTG
* *
23191688 GAGCTTCTCGATTATGGCTCA-CTT
1 GAGCTTCCCGATTATGGCT-ATCTG
*
23191712 GAACTTCCCGATATATGGCTATCTG
1 GAGCTTCCCGAT-TATGGCTATCTG
23191737 GAGCTTCC
1 GAGCTTCC
23191745 TGTTAATGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 29 0.43
25 30 0.44
26 9 0.13
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTATCTG
Found at i:23191804 original size:24 final size:23
Alignment explanation
Indices: 23191777--23191873 Score: 70
Period size: 25 Copynumber: 4.0 Consensus size: 23
23191767 CTCATTATTG
23191777 GCTCGCATGAGCTTCCCGATTATA
1 GCTCGCATGAGCTTCCCG-TTATA
**
23191801 GCTCTTATGAGCTTCCCGTTATACA
1 GCTCGCATGAGCTTCCCGTTAT--A
* * * *
23191826 GC-CTGGATAAGCTTCCCATTACATG
1 GCTC-GCATGAGCTTCCCGTT--ATA
*
23191851 GCTCACATGAGCTTCCCGTTATA
1 GCTCGCATGAGCTTCCCGTTATA
23191874 TGGCTCGAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
23 6 0.11
24 17 0.31
25 29 0.53
26 1 0.02
27 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
GCTCGCATGAGCTTCCCGTTATA
Found at i:23196497 original size:51 final size:51
Alignment explanation
Indices: 23196421--23196523 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
23196411 TTTGAAACAT
23196421 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
1 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
23196472 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
1 CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
23196523 C
1 C
23196524 GATGCAACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (51 bp):
CAACTCATTGAACTCCCGAACATGCTCTTGAAAATGCCTTATTGTATAAGC
Found at i:23203755 original size:13 final size:13
Alignment explanation
Indices: 23203737--23203765 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23203727 ACAGACTGTC
23203737 ATATCTTTCATAT
1 ATATCTTTCATAT
23203750 ATATCTTTCATAT
1 ATATCTTTCATAT
23203763 ATA
1 ATA
23203766 AAAAGATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATCTTTCATAT
Found at i:23208753 original size:50 final size:49
Alignment explanation
Indices: 23208636--23208870 Score: 170
Period size: 50 Copynumber: 4.6 Consensus size: 49
23208626 ACATGTCAAA
* *
23208636 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC-TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAAT
* * *
23208685 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAAT
* ** * *
23208735 GCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGAGTTCTCATATC-GTGCCAAT
* * * * *** *
23208785 ACCATGTCCAAGACATGGTCTAACATGAGACCGCTCATAACCTCAATGATGCGAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAAT
*
23208841 GCCATGTCACAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
23208871 TCTCTTTACC
Statistics
Matches: 146, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 33 0.23
50 75 0.51
51 1 0.01
53 2 0.01
55 1 0.01
56 30 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAAT
Found at i:23210531 original size:19 final size:19
Alignment explanation
Indices: 23210507--23210544 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23210497 TTCCACAGGG
23210507 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
23210526 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
23210545 GTCACCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
ATACTTTCAAAAACACTTT
Found at i:23216334 original size:56 final size:51
Alignment explanation
Indices: 23216216--23216359 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 51
23216206 TGATAATAAC
* *
23216216 ATGCCAAAGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTAAG
*
23216267 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT-AA-G
* *
23216322 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
23216360 TCTTTTTACC
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
50 40 0.49
51 2 0.02
53 2 0.02
54 1 0.01
55 1 0.01
56 35 0.43
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (51 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAAG
Found at i:23225790 original size:36 final size:36
Alignment explanation
Indices: 23225743--23225814 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
23225733 TTTAAGAAAG
23225743 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
* *
23225779 ATCGAGAAATCCCCATTCTATTTGGTAGGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
23225815 TGGTCACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (36 bp):
ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
Found at i:23242419 original size:40 final size:40
Alignment explanation
Indices: 23242358--23242495 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
23242348 CTCGAGAATA
* ** *
23242358 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
23242398 CAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
23242438 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
*
23242478 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
23242496 ACCTGAAAAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:23242551 original size:78 final size:78
Alignment explanation
Indices: 23242460--23242689 Score: 406
Period size: 78 Copynumber: 2.9 Consensus size: 78
23242450 GATTTATTCC
* *
23242460 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCTTGATTCGCTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
23242525 GTTACATGATATA
66 GTTACATGATATA
* *
23242538 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTAACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
23242603 GTTACATGATATA
66 GTTACATGATATA
* *
23242616 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
23242681 GTTACATGA
66 GTTACATGA
23242690 GATGTGACTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 144 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:23244077 original size:22 final size:22
Alignment explanation
Indices: 23244052--23244096 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23244042 TGTTTGACAC
23244052 ATCAAAATTTAAAAATAACATA
1 ATCAAAATTTAAAAATAACATA
23244074 ATCAAAATTTAAAAATAACATA
1 ATCAAAATTTAAAAATAACATA
23244096 A
1 A
23244097 CTTAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (22 bp):
ATCAAAATTTAAAAATAACATA
Found at i:23245633 original size:12 final size:12
Alignment explanation
Indices: 23245618--23245657 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
23245608 AAATAATTTA
23245618 ATAAATAAAAAT
1 ATAAATAAAAAT
*
23245630 ATAAATATAAAT
1 ATAAATAAAAAT
23245642 ATAAA-AAAACAT
1 ATAAATAAAA-AT
23245654 ATAA
1 ATAA
23245658 TTTTATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 22 0.88
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAAATAAAAAT
Found at i:23245690 original size:18 final size:18
Alignment explanation
Indices: 23245669--23245732 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
23245659 TTTATACAAA
* *
23245669 TAATTCAGTTTATTCGGT
1 TAATTCGGTTAATTCGGT
* *
23245687 TAATTTGGGTAATTCGAG-
1 TAATTCGGTTAATTCG-GT
*
23245705 TAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTCGGT
23245723 TAATTCGGTT
1 TAATTCGGTT
23245733 TATTTTATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGT
Found at i:23251833 original size:87 final size:87
Alignment explanation
Indices: 23251681--23251840 Score: 209
Period size: 87 Copynumber: 1.8 Consensus size: 87
23251671 TTGTGATACT
* *
23251681 TGAACTATCAATTTATGTAGTATTTGGACTTGTACCTTCATAAAATATTCAATGTGGTATATATA
1 TGAACTATCAATTTATGTAGTATTTGGAATTGTACCTTCATAAAATAGTCAATGTGGTATATATA
23251746 CTTTGAAATTTCCAGTGGTACA
66 CTTTGAAATTTCCAGTGGTACA
* * ** *
23251768 TGAACTATCAATTTGTGTATTATTTGGTAAATT-TATTTTCATAAAAT-GTCCATGTGGTACT-T
1 TGAACTATCAATTTATGTAGTATTTGG--AATTGTACCTTCATAAAATAGTCAATGTGGTA-TAT
23251830 ATACTTTGAAA
63 ATACTTTGAAA
23251841 GTATTTAATG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
87 47 0.75
88 13 0.21
89 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (87 bp):
TGAACTATCAATTTATGTAGTATTTGGAATTGTACCTTCATAAAATAGTCAATGTGGTATATATA
CTTTGAAATTTCCAGTGGTACA
Found at i:23252407 original size:29 final size:31
Alignment explanation
Indices: 23252373--23252440 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
23252363 TTGATAGTTC
23252373 AAGTACCAC-ATTGAACA-TTT-TCAAAGTAT
1 AAGTACCACAATTG-ACATTTTATCAAAGTAT
* *
23252402 AAGTACAACAATTGACATTTTATGAAAGTAT
1 AAGTACCACAATTGACATTTTATCAAAGTAT
*
23252433 ATGTACCA
1 AAGTACCA
23252441 AATAATGCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 11 0.34
30 7 0.22
31 14 0.44
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (31 bp):
AAGTACCACAATTGACATTTTATCAAAGTAT
Found at i:23255889 original size:39 final size:39
Alignment explanation
Indices: 23255831--23256055 Score: 396
Period size: 39 Copynumber: 5.8 Consensus size: 39
23255821 GGCTTATGCT
23255831 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
*
23255870 CTAAACGGAAGCCCAAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
*
23255909 CCAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
* * *
23255948 CCAAACGAAAGCCCGAAGGCTAACTGAAGTACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
*
23255987 CTGAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
23256026 CTAAACGGAAGCCCGAAGGCTAACTGAAGC
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGC
23256056 TGATCAGAGC
Statistics
Matches: 176, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.39, C:0.26, G:0.25, T:0.10
Consensus pattern (39 bp):
CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
Found at i:23258240 original size:28 final size:28
Alignment explanation
Indices: 23258191--23258247 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23258181 ATTAAAGTGA
*
23258191 TTATCTTAATATTAATTTAATTTAATAT
1 TTATCTTAATATTAATTAAATTTAATAT
*
23258219 TTATCTT-GTATTAGATTAAATTTAATAT
1 TTATCTTAATATTA-ATTAAATTTAATAT
23258247 T
1 T
23258248 AAAGTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TTATCTTAATATTAATTAAATTTAATAT
Found at i:23260983 original size:16 final size:16
Alignment explanation
Indices: 23260962--23260993 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23260952 TCCATGACAA
23260962 GTGATATATGTAATAT
1 GTGATATATGTAATAT
*
23260978 GTGATATATGTTATAT
1 GTGATATATGTAATAT
23260994 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
GTGATATATGTAATAT
Found at i:23266461 original size:86 final size:86
Alignment explanation
Indices: 23266312--23266479 Score: 275
Period size: 86 Copynumber: 2.0 Consensus size: 86
23266302 CGAAATAAAA
* *
23266312 ACATAGTAACACAAAGAAAAGGGAGAGATTATCAATTCTTTTTTACTTTCTCTTCCCTGTTAAAA
1 ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAAA
*
23266377 CATGTTATCCATATGAATCCT
66 CATGTTATCCAAATGAATCCT
*
23266398 ACATAGTAACACAAAG-AAAGGGAGAGACTATTAATTCTTTTTTTACTTTCTCTTCCCTATTAAA
1 ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTC-TTTTTTACTTTCTCTTCCCTATTAAA
*
23266462 ACGTGTTATCCAAATGAA
65 ACATGTTATCCAAATGAA
23266480 CCATTCTCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 19 0.25
86 57 0.75
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (86 bp):
ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTCTTTTTTACTTTCTCTTCCCTATTAAAA
CATGTTATCCAAATGAATCCT
Found at i:23266980 original size:23 final size:19
Alignment explanation
Indices: 23266932--23266981 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
23266922 GATATATGTA
23266932 TATGTATATATATATAAAT
1 TATGTATATATATATAAAT
*
23266951 TACGTATATATATATAAAT
1 TATGTATATATATATAAAT
*
23266970 TATGTATGTATA
1 TATGTATATATA
23266982 AGGATTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (19 bp):
TATGTATATATATATAAAT
Found at i:23271594 original size:24 final size:26
Alignment explanation
Indices: 23271560--23271620 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
23271550 TTTACTATTT
* * *
23271560 TTAATATAAAATAT-TTATTTTTATA
1 TTAATAAAAAATATATTAATTATATA
23271585 -TAATAAAAAATATATTAATTATATA
1 TTAATAAAAAATATATTAATTATATA
23271610 TTAAATAAAAA
1 TT-AATAAAAA
23271621 TAAAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 12 0.40
25 9 0.30
26 1 0.03
27 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAATAAAAAATATATTAATTATATA
Found at i:23271600 original size:22 final size:22
Alignment explanation
Indices: 23271555--23271614 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
23271545 TTATTTTTAC
* *
23271555 TATTTTTA-AT-ATAAAATATT
1 TATTTTTATATAATAAAAAATA
23271575 TATTTTTATATAATAAAAAATA
1 TATTTTTATATAATAAAAAATA
* *
23271597 TATTAATTATATATTAAA
1 TATT-TTTATATAATAAA
23271615 TAAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.24
21 2 0.06
22 12 0.36
23 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTATATAATAAAAAATA
Found at i:23272206 original size:26 final size:29
Alignment explanation
Indices: 23272167--23272220 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
23272157 TTAATATAAC
*
23272167 TTTTAGTCTCACTTTGATA-TTTATATTT
1 TTTTAGTCTCACTTTGATACTTAATATTT
23272195 TTTTA-TCT-ACTTTGATACTTAATATT
1 TTTTAGTCTCACTTTGATACTTAATATT
23272221 GGTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 10 0.42
28 5 0.21
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTTAGTCTCACTTTGATACTTAATATTT
Found at i:23279380 original size:12 final size:12
Alignment explanation
Indices: 23279363--23279398 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
23279353 GGACTGAAAC
23279363 ACCAAAGTTAGG
1 ACCAAAGTTAGG
**
23279375 ACCAAAGTTAAC
1 ACCAAAGTTAGG
23279387 ACCAAAGTTAGG
1 ACCAAAGTTAGG
23279399 TCGTGTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (12 bp):
ACCAAAGTTAGG
Found at i:23288096 original size:7 final size:7
Alignment explanation
Indices: 23288072--23288111 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
23288062 CCTCCCCTTT
23288072 GCTATTG
1 GCTATTG
*
23288079 GC-CTTG
1 GCTATTG
*
23288085 GCTATGG
1 GCTATTG
23288092 GCTATTG
1 GCTATTG
23288099 GCTATTG
1 GCTATTG
23288106 GCTATT
1 GCTATT
23288112 CTCTACCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.12, C:0.17, G:0.30, T:0.40
Consensus pattern (7 bp):
GCTATTG
Found at i:23291815 original size:39 final size:38
Alignment explanation
Indices: 23291699--23291826 Score: 106
Period size: 39 Copynumber: 3.4 Consensus size: 38
23291689 GATCCGATTG
* *
23291699 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
23291739 AGACA-TA-A-TATTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
23291772 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
*
23291811 AAACACCGAAATTTTT
1 AAACA-CGAGATTTTT
23291827 GAAAACAAGA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
32 6 0.09
33 6 0.09
34 6 0.09
35 7 0.10
36 9 0.13
37 6 0.09
38 2 0.03
39 13 0.19
40 13 0.19
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Found at i:23291820 original size:18 final size:17
Alignment explanation
Indices: 23291788--23291953 Score: 126
Period size: 17 Copynumber: 9.5 Consensus size: 17
23291778 GAGATTTTTT
23291788 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
23291805 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * *
23291823 TTTTGAAAACAAGAGGAT
1 TTTTGAAAACACGA-AAA
*
23291841 TTTTG-AAATACGAAAAA
1 TTTTGAAAACACG-AAAA
23291858 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
23291875 TTTTTG-AAACACGGAAAT
1 -TTTTGAAAACAC-GAAAA
23291893 TTTTG-AAA-ACGAAAA
1 TTTTGAAAACACGAAAA
*
23291908 TTTTTG-AAACACAAAAA
1 -TTTTGAAAACACGAAAA
* *
23291925 TTTTAGAAGACACTAAAAA
1 TTTT-GAAAACAC-GAAAA
23291944 TTTTGGAAAA
1 TTTT-GAAAA
23291954 TGGATTTTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.03
16 14 0.11
17 48 0.39
18 43 0.35
19 13 0.11
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:23291833 original size:35 final size:35
Alignment explanation
Indices: 23291787--23291948 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 35
23291777 CGAGATTTTT
**
23291787 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
23291822 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
23291857 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
23291892 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * * *
23291925 TTTTAGAAGACACTAAAAATTTTG
1 TTTTTGAAAACACGAAAATTTTTG
23291949 GAAAATGGAT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
33 27 0.26
34 7 0.07
35 69 0.66
36 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:23292164 original size:20 final size:19
Alignment explanation
Indices: 23292126--23292172 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
23292116 GAATATATTT
23292126 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
23292146 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
23292165 -TTTTGAAA
1 TTTTTGAAA
23292173 AATATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:23292549 original size:16 final size:16
Alignment explanation
Indices: 23292530--23292605 Score: 82
Period size: 16 Copynumber: 4.8 Consensus size: 16
23292520 ATTGAAACTC
23292530 TTTTTTTT-TTTTTTT
1 TTTTTTTTCTTTTTTT
* * *
23292545 CTTTTTTCCTTTTTTCC
1 TTTTTTTTCTTTTTT-T
*
23292562 TTTTTTTTCTTTTCTT
1 TTTTTTTTCTTTTTTT
*
23292578 TTTTTCTTCTTTTTTT
1 TTTTTTTTCTTTTTTT
*
23292594 TTCTTTTTCTTT
1 TTTTTTTTCTTT
23292606 CTCTCTTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
15 6 0.12
16 30 0.62
17 12 0.25
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTT
Found at i:23292559 original size:22 final size:20
Alignment explanation
Indices: 23292530--23292618 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 20
23292520 ATTGAAACTC
23292530 TTTTTT-TTTTTTTTTC--T
1 TTTTTTCTTTTTTTTTCTTT
*
23292547 TTTTTCCTTTTTTCCTTT-TTT
1 TTTTTTCTTTTTT--TTTCTTT
23292568 TTCTTTTCTTTTTTTCTTCTTT
1 TT-TTTTCTTTTTTT-TTCTTT
*
23292590 TTTTTTCTTTTTCTTTCTCTCT
1 TTTTTTCTTTTT-TTT-TCTTT
23292612 TTTTTTC
1 TTTTTTC
23292619 CTGGCCTGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.08
18 6 0.10
20 4 0.07
21 16 0.27
22 28 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTCTTT
Found at i:23292616 original size:16 final size:15
Alignment explanation
Indices: 23292531--23292618 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 15
23292521 TTGAAACTCT
* *
23292531 TTTTTTTTTTTTTTC
1 TTTTTTTCTTTTCTC
* *
23292546 TTTTTTCCTTTTTTCC
1 TTTTTTTCTTTTCT-C
*
23292562 TTTTTTTTCTTTTCTT
1 -TTTTTTTCTTTTCTC
* *
23292578 TTTTTCTTCTTTTTTT
1 TTTTT-TTCTTTTCTC
23292594 TTCTTTTTCTTTCTCTC
1 TT-TTTTTCTTT-TCTC
23292611 TTTTTTTC
1 TTTTTTTC
23292619 CTGGCCTGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
15 17 0.28
16 24 0.40
17 19 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTTTCTC
Found at i:23292617 original size:1 final size:1
Alignment explanation
Indices: 23292530--23292601 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
23292520 ATTGAAACTC
* ** ** * * * *
23292530 TTTTTTTTTTTTTTTCTTTTTTCCTTTTTTCCTTTTTTTTCTTTTCTTTTTTTCTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
23292595 TCTTTTT
1 TTTTTTT
23292602 CTTTCTCTCT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:23292754 original size:22 final size:22
Alignment explanation
Indices: 23292711--23292755 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23292701 GGCCTGCTTC
*
23292711 TTTTTTCTGGGCTGTTTTTTTT
1 TTTTTTCTGGGCTGTTTCTTTT
*
23292733 TTTTTTTTGGGCCT-TTTCTTTT
1 TTTTTTCTGGG-CTGTTTCTTTT
23292755 T
1 T
23292756 GGGTTGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.00, C:0.11, G:0.16, T:0.73
Consensus pattern (22 bp):
TTTTTTCTGGGCTGTTTCTTTT
Found at i:23292816 original size:15 final size:15
Alignment explanation
Indices: 23292732--23292818 Score: 59
Period size: 15 Copynumber: 5.5 Consensus size: 15
23292722 CTGTTTTTTT
*
23292732 TTTTTTTTTGGGCCT-
1 TTTTTTTTTGGG-TTG
*
23292747 TTTCTTTTTGGGTTG
1 TTTTTTTTTGGGTTG
* **
23292762 CTTTTTTTTGCTTTGG
1 TTTTTTTTTGGGTT-G
*
23292778 TTTTTTTTTGGGCTG
1 TTTTTTTTTGGGTTG
*
23292793 ATTTGTTTTTTTGTGTTG
1 --TT-TTTTTTTGGGTTG
23292811 TTTTTTTT
1 TTTTTTTT
23292819 AATTAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
14 1 0.02
15 28 0.51
16 13 0.24
17 2 0.04
18 11 0.20
ACGTcount: A:0.01, C:0.07, G:0.21, T:0.71
Consensus pattern (15 bp):
TTTTTTTTTGGGTTG
Found at i:23292933 original size:3 final size:3
Alignment explanation
Indices: 23292927--23292958 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
23292917 TTTTTTTTCT
23292927 TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
23292959 CCTCCTCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23292938 original size:10 final size:10
Alignment explanation
Indices: 23292923--23292956 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
23292913 TAAATTTTTT
23292923 TTCTTTCTTC
1 TTCTTTCTTC
23292933 TTCTTTCTTC
1 TTCTTTCTTC
23292943 TTC-TTCTTC
1 TTCTTTCTTC
23292952 TTCTT
1 TTCTT
23292957 CTCCTCCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:23293062 original size:10 final size:10
Alignment explanation
Indices: 23293027--23293076 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
23293017 ATGCCGGTAC
23293027 TCTT-TCTTT
1 TCTTCTCTTT
* *
23293036 TCTTCTCCTC
1 TCTTCTCTTT
23293046 T-TTCTCTTT
1 TCTTCTCTTT
23293055 TCTTCTCTTT
1 TCTTCTCTTT
*
23293065 TCTTCTTTTT
1 TCTTCTCTTT
23293075 TC
1 TC
23293077 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:23293074 original size:19 final size:19
Alignment explanation
Indices: 23293031--23293073 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
23293021 CGGTACTCTT
23293031 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
23293050 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
23293067 TTCTTTT
1 -TCTTTT
23293074 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:23293354 original size:29 final size:29
Alignment explanation
Indices: 23293321--23293437 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
23293311 TGTAATTTTT
*
23293321 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
23293350 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
23293380 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
23293409 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
23293438 TTATTTTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:23293376 original size:30 final size:30
Alignment explanation
Indices: 23293336--23293437 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
23293326 ATTTAGGATT
*
23293336 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
23293366 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
23293396 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
23293426 AAAATGCAATTT
1 AAAATGAAATTT
23293438 TTATTTTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:23293466 original size:13 final size:14
Alignment explanation
Indices: 23293433--23293466 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23293423 GTCAAAATGC
23293433 AATTTTTATTTTAA
1 AATTTTTATTTTAA
* *
23293447 AATTTTTTTTTTGA
1 AATTTTTATTTTAA
23293461 AATTTT
1 AATTTT
23293467 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
AATTTTTATTTTAA
Found at i:23293879 original size:53 final size:54
Alignment explanation
Indices: 23293707--23293921 Score: 284
Period size: 53 Copynumber: 4.1 Consensus size: 54
23293697 CACGTGAGCC
* *
23293707 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AA
*
23293762 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAA
* * *
23293812 AAGGCTCAACTCACCTCTTGCAATATGAGTTG-GTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAA
23293865 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAA
23293919 AAG
1 AAG
23293922 TAAAAATTGA
Statistics
Matches: 145, Mismatches: 7, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
48 5 0.03
49 7 0.05
50 33 0.23
51 1 0.01
53 50 0.34
54 5 0.03
55 32 0.22
56 12 0.08
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
Found at i:23293889 original size:103 final size:104
Alignment explanation
Indices: 23293707--23293901 Score: 313
Period size: 105 Copynumber: 1.9 Consensus size: 104
23293697 CACGTGAGCC
* * *
23293707 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
23293772 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAGAAA
* *
23293812 AAGGCTCAACTCACCTCTTGCAATATGAGTTG-GTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
23293875 TCACCTCTCGCAATATGAGTTGATTTT
65 TCACCTCTCGCAATATGAGTTGATTTT
23293902 GAAAAACAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
103 39 0.46
104 5 0.06
105 40 0.48
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAAAATAGAAA
Found at i:23294186 original size:87 final size:89
Alignment explanation
Indices: 23294023--23294277 Score: 317
Period size: 91 Copynumber: 2.9 Consensus size: 89
23294013 AACAGAAATT
* * *
23294023 AAAAACAGAATTTGAAAAGACCTCAGCGTGTAGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
23294088 TTGA--TTTGAAAAG-TAGAATT-AG
65 TTGATTTTTGAAAAGATAG-ATTGAA
* * * * *
23294110 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCGACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTAGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
23294173 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGATTTTTGAAAAG-ATAGATTGAA
*
23294199 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGT-AGCCTGAGGCTCAACTCACCTCTTGCAATATGA
23294263 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
23294278 ACAAAAATTA
Statistics
Matches: 143, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.02
85 32 0.22
87 32 0.22
88 3 0.02
89 28 0.20
91 42 0.29
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTAGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGATAGATTGAA
Found at i:23294216 original size:15 final size:16
Alignment explanation
Indices: 23294183--23294216 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23294173 TTGATTTTTG
* *
23294183 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
23294199 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
23294215 AA
1 AA
23294217 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:23294563 original size:192 final size:192
Alignment explanation
Indices: 23294235--23294778 Score: 1025
Period size: 192 Copynumber: 2.8 Consensus size: 192
23294225 CATGTGAGCC
** *
23294235 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
23294300 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
23294365 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
23294428 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
23294493 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
23294558 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
23294620 GATGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
23294685 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *
23294750 ACTCATTTCTCGCAATATGAGTTGCTTTT
131 ACTCACTTCTCGCAATATGAGTTGATTTT
23294779 GAAAAACAAA
Statistics
Matches: 345, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
192 315 0.91
193 30 0.09
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:23294769 original size:122 final size:121
Alignment explanation
Indices: 23294623--23294899 Score: 518
Period size: 122 Copynumber: 2.3 Consensus size: 121
23294613 GTGTCTTGAT
23294623 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
23294688 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACCTCGGCGTGCCCCGAG
*
23294745 GCTCAACTCATTTCTCGCAATATGAGTTGCTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*
23294810 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACTTCGGCGTGCCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAG
*
23294866 GCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
23294900 TTTAAAAAAT
Statistics
Matches: 151, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
121 54 0.36
122 97 0.64
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (121 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAATACCTCGGCGTGCCCCGAG
Found at i:23294946 original size:191 final size:192
Alignment explanation
Indices: 23294742--23295161 Score: 815
Period size: 192 Copynumber: 2.2 Consensus size: 192
23294732 GGCGTGCCCC
*
23294742 GAGGCTCAACTCATTTCTCGCAATATGAGTTGCTTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
23294807 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACTTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
23294871 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
23294933 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
23294998 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
23295063 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
23295125 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
23295162 CCTTGGAAAG
Statistics
Matches: 226, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
191 100 0.44
192 126 0.56
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:23294975 original size:313 final size:314
Alignment explanation
Indices: 23294428--23295091 Score: 1285
Period size: 313 Copynumber: 2.1 Consensus size: 314
23294418 AACGTGTCTT
23294428 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
23294493 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
23294558 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
23294623 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
23294688 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
261 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
*
23294742 GAGGCTCAACTCATTTCTCGCAATATGAGTTGCTTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
23294807 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATACTTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
23294871 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
23294936 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
23295001 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
261 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
*
23295055 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
23295092 TTTAAAAAAT
Statistics
Matches: 345, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
313 245 0.71
314 100 0.29
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (314 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCC
Found at i:23308031 original size:36 final size:36
Alignment explanation
Indices: 23307984--23308055 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
23307974 TTTAAGAAAG
23307984 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
* *
23308020 ATCGAGAAATCCCCATTCTATTTGGTAGGTCATTTC
1 ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
23308056 TGGTCACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (36 bp):
ATCGAGAAATCCCCATTCTATTGGGTAAGTCATTTC
Found at i:23315307 original size:8 final size:8
Alignment explanation
Indices: 23315294--23315319 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23315284 ATTTATCAGC
23315294 TTTTATTA
1 TTTTATTA
23315302 TTTTATTA
1 TTTTATTA
23315310 TTTTATTA
1 TTTTATTA
23315318 TT
1 TT
23315320 CCAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:23315544 original size:20 final size:20
Alignment explanation
Indices: 23315519--23315571 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
23315509 ATTCAACAAC
23315519 TTCTCTTTTGAGTTAATAAA
1 TTCTCTTTTGAGTTAATAAA
*
23315539 TTCTCTTTTGAGTTAATAAG
1 TTCTCTTTTGAGTTAATAAA
*
23315559 TTC-CCTTTGAGTT
1 TTCTCTTTTGAGTT
23315572 TTATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TTCTCTTTTGAGTTAATAAA
Found at i:23319742 original size:15 final size:15
Alignment explanation
Indices: 23319722--23319757 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
23319712 CCTCATCATG
23319722 ACGTCGGTGTCCTCC
1 ACGTCGGTGTCCTCC
23319737 ACGTCGGTGTCCTCC
1 ACGTCGGTGTCCTCC
23319752 ACGTCG
1 ACGTCG
23319758 TGACGTCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.39, G:0.28, T:0.25
Consensus pattern (15 bp):
ACGTCGGTGTCCTCC
Found at i:23323525 original size:25 final size:26
Alignment explanation
Indices: 23323488--23323555 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 26
23323478 ATTTGACCCT
*
23323488 ATTAATTTAAATTTAAA-TTCGATGCA
1 ATTAATTTAAATTTAAATTTC-ATCCA
*
23323514 ATT-ATTTAAATTTAAATTTCATCCC
1 ATTAATTTAAATTTAAATTTCATCCA
23323539 ATTAATTTAAATTTAAA
1 ATTAATTTAAATTTAAA
23323556 CTAAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTAATTTAAATTTAAATTTCATCCA
Found at i:23324012 original size:19 final size:19
Alignment explanation
Indices: 23323988--23324079 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
23323978 AATTTTTGAG
23323988 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
23324007 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
23324026 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
23324045 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23324064 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
23324080 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23325265 original size:98 final size:98
Alignment explanation
Indices: 23325142--23325336 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
23325132 AAAAATCATG
*
23325142 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
23325207 AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
23325240 AAGGAAATATTTCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
23325305 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATATTGGATAAGTGGATGTTCTTTTAAAGT
23325337 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATATTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:23327942 original size:45 final size:45
Alignment explanation
Indices: 23327885--23328033 Score: 165
Period size: 45 Copynumber: 3.3 Consensus size: 45
23327875 TGCAGCACTT
23327885 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
1 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
* ** * ** * * * * *
23327930 AAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGC-ACTT
1 AAACATATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TA
23327976 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
1 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
*
23328021 AAACATCTCAATT
1 AAACATATCAATT
23328034 TCCAGCAACT
Statistics
Matches: 78, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
45 45 0.58
46 33 0.42
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (45 bp):
AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
Found at i:23328010 original size:114 final size:114
Alignment explanation
Indices: 23327791--23328088 Score: 338
Period size: 114 Copynumber: 2.6 Consensus size: 114
23327781 AAAGTAGCAC
* *
23327791 TTTAACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCA
1 TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
** * *
23327856 GCACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACA
66 GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAACAACA
*
23327905 TTTATACACCTCAA-TTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGC
1 TTTA-ACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGC
* * * *
23327969 AGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAATT-ACAGCGA
65 AGCACTTAAACACT-TCAATTAACAACACTTAAACACATCAATTAACAAC-A
** * * * *
23328019 TAAAACATCTCAATTTCCAGCAACTAAATAC-T-TCAATTTGCAGC-ACTTAAACACTTCAATTT
1 TTTAACACCTCAATTTACAGCGA-TAAA-ACATCTCAATTTCCAGCAAC-TAAACACTTCAATTT
*
23328081 GCAACACT
63 GCAGCACT
23328089 ATCAAATTTC
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
113 15 0.09
114 128 0.81
115 13 0.08
116 2 0.01
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (114 bp):
TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAACAACA
Done.