Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 20 of 204
Found at i:7518045 original size:6 final size:6
Alignment explanation
Indices: 7518034--7518062 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7518024 TCTGAGGGGA
7518034 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
7518063 AACACTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:7545654 original size:19 final size:21
Alignment explanation
Indices: 7545630--7545671 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
7545620 TATATAATAT
*
7545630 ATATTTTTA-AAAGTT-TAAA
1 ATATTTTTATAAAATTCTAAA
7545649 ATATTTTTATAAAATTCTAAA
1 ATATTTTTATAAAATTCTAAA
7545670 AT
1 AT
7545672 TTATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATTTTTATAAAATTCTAAA
Found at i:7545661 original size:21 final size:21
Alignment explanation
Indices: 7545628--7545671 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7545618 CATATATAAT
7545628 ATATATTTTTAAAAGTT-TAAA
1 ATATATTTTTAAAA-TTCTAAA
7545649 ATAT-TTTTATAAAATTCTAAA
1 ATATATTTT-TAAAATTCTAAA
7545670 AT
1 AT
7545672 TTATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATATTTTTAAAATTCTAAA
Found at i:7545946 original size:22 final size:23
Alignment explanation
Indices: 7545920--7545978 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
7545910 TCTTTTGCAA
7545920 ATTTTATTTTTATAATT-TATAT
1 ATTTTATTTTTATAATTATATAT
* * * *
7545942 GTTTTCTTTCTA-GATTATATAT
1 ATTTTATTTTTATAATTATATAT
7545964 ATTTTGATTTTTATA
1 ATTTT-ATTTTTATA
7545979 TGATTTTTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
21 3 0.12
22 18 0.69
23 5 0.19
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (23 bp):
ATTTTATTTTTATAATTATATAT
Found at i:7548472 original size:1 final size:1
Alignment explanation
Indices: 7548440--7548464 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7548430 TCTAGTTTAG
7548440 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
7548465 ACCTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7554969 original size:36 final size:35
Alignment explanation
Indices: 7554929--7555009 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
7554919 AGCATGTTTA
*
7554929 ATAAATAATTTAAAGTTTGTTTATTGTTCCATTAGT
1 ATAAATAAATT-AAGTTTGTTTATTGTTCCATTAGT
**
7554965 ATAAATAAAATTATTTTTGTTTATTGTTCCATTAGT
1 ATAAAT-AAATTAAGTTTGTTTATTGTTCCATTAGT
7555001 ATAAATAAA
1 ATAAATAAA
7555010 ATTATTATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
35 3 0.07
36 34 0.83
37 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (35 bp):
ATAAATAAATTAAGTTTGTTTATTGTTCCATTAGT
Found at i:7555010 original size:36 final size:36
Alignment explanation
Indices: 7554944--7555015 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
7554934 TAATTTAAAG
7554944 TTTGTTTATTGTTCCATTAGTATAAATAAAATTATT
1 TTTGTTTATTGTTCCATTAGTATAAATAAAATTATT
7554980 TTTGTTTATTGTTCCATTAGTATAAATAAAATTATT
1 TTTGTTTATTGTTCCATTAGTATAAATAAAATTATT
7555016 ATGTTTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (36 bp):
TTTGTTTATTGTTCCATTAGTATAAATAAAATTATT
Found at i:7556041 original size:16 final size:16
Alignment explanation
Indices: 7556022--7556065 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7556012 ATGAGTATAT
7556022 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
7556038 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
7556054 ATAATGTATATA
1 AT-ATGTATATA
7556066 TATATATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:7556181 original size:18 final size:17
Alignment explanation
Indices: 7556141--7556187 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
7556131 CGTGTAAGTG
*
7556141 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
7556158 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
7556177 TATAATAATAA
1 TATAAAAATAA
7556188 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:7556183 original size:15 final size:15
Alignment explanation
Indices: 7556146--7556200 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7556136 AAGTGTATAA
7556146 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
7556162 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
7556175 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
7556192 ACAATAATA
1 A-AATAATA
7556201 GTATTAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 15 0.45
16 3 0.09
17 9 0.27
18 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:7559199 original size:50 final size:50
Alignment explanation
Indices: 7559084--7559243 Score: 212
Period size: 50 Copynumber: 3.2 Consensus size: 50
7559074 GATAATAACA
* ** * *
7559084 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CATCTCATCTCGG
* * * *
7559135 TGCCCATGCCATGTCCCAGACACGGTCTTATAGGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
* *
7559185 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
7559235 TGCCAATGC
1 TGCCAATGC
7559244 TCGTCTCGGT
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 62 0.66
51 32 0.34
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
Found at i:7559248 original size:18 final size:18
Alignment explanation
Indices: 7559225--7559259 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7559215 CATGGGACCT
7559225 CTCGTCTCGGTGCCAATG
1 CTCGTCTCGGTGCCAATG
7559243 CTCGTCTCGGTGCCAAT
1 CTCGTCTCGGTGCCAAT
7559260 ACCATGTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.34, G:0.26, T:0.29
Consensus pattern (18 bp):
CTCGTCTCGGTGCCAATG
Found at i:7559410 original size:13 final size:13
Alignment explanation
Indices: 7559389--7559419 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7559379 GCTTAGATCA
*
7559389 TCATCAAATAAAT
1 TCATAAAATAAAT
7559402 TCATAAAATAAAT
1 TCATAAAATAAAT
7559415 TCATA
1 TCATA
7559420 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7559667 original size:30 final size:30
Alignment explanation
Indices: 7559632--7559689 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7559622 CCTCGACTCT
*
7559632 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7559662 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7559690 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7561013 original size:44 final size:43
Alignment explanation
Indices: 7560962--7561107 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 43
7560952 CAGTATGGGG
7560962 AGACAAGATCTGTTGACTTTGATCTACTTCACGCC-GATACATGA
1 AGACAAGATCTGTT-ACTTTGATCTACTTCACGCCAG-TACATGA
* * * * * ***
7561006 AGACAAGATCTACTTTCTTTCGATCTGCTTCGCCACCAGTATGGGA
1 AGACAAGATCT-GTTACTTT-GATCTACTTC-ACGCCAGTACATGA
* *
7561052 AGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
1 AGACAAGATCTGTTA-CTTTGATCTACTTCACGCCAGTACATGA
7561096 AGACAAGATCTG
1 AGACAAGATCTG
7561108 CTTTTTCCTT
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
44 34 0.44
45 22 0.29
46 20 0.26
47 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
AGACAAGATCTGTTACTTTGATCTACTTCACGCCAGTACATGA
Found at i:7561016 original size:75 final size:74
Alignment explanation
Indices: 7560866--7561019 Score: 265
Period size: 75 Copynumber: 2.1 Consensus size: 74
7560856 TTTCTTCGAC
*
7560866 CTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGA
1 CTACTCCACCACCAGTATGGGGAGACAAGATCTGTTACTTTGATCTACTTCACGCCAGTACATGA
7560931 AAACAAGAT
66 AAACAAGAT
7560940 CTACTCCACCACCAGTATGGGGAGACAAGATCTGTTGACTTTGATCTACTTCACGCC-GATACAT
1 CTACTCCACCACCAGTATGGGGAGACAAGATCTGTT-ACTTTGATCTACTTCACGCCAG-TACAT
*
7561004 GAAGACAAGAT
64 GAAAACAAGAT
7561015 CTACT
1 CTACT
7561020 TTCTTTCGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
74 37 0.49
75 39 0.51
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (74 bp):
CTACTCCACCACCAGTATGGGGAGACAAGATCTGTTACTTTGATCTACTTCACGCCAGTACATGA
AAACAAGAT
Found at i:7561093 original size:90 final size:91
Alignment explanation
Indices: 7560948--7561156 Score: 316
Period size: 90 Copynumber: 2.3 Consensus size: 91
7560938 ATCTACTCCA
* * *
7560948 CCACCAGTATGGGGAGACAAGATCTGTTGACTTTGATCTACTTCACGCCGATACATGAAGACAAG
1 CCACCAGTATGGGAAGGCGAGATCTGTTGACTTTGATCTACTTCACGCCGATACATGAAGACAAG
*
7561013 ATCTAC-TTTCTTTCGATCTGCTTCG
66 ATCTACTTTTCCTTCGATCTGCTTCG
7561038 CCACCAGTATGGGAAGGCGAGATCTGTT-ATCTTTGATCTACTTCACGCC-AGTACATGAAGACA
1 CCACCAGTATGGGAAGGCGAGATCTGTTGA-CTTTGATCTACTTCACGCCGA-TACATGAAGACA
*
7561101 AGATCTGCTTTTTCCTTCGATCTGCTTCG
64 AGATCTAC-TTTTCCTTCGATCTGCTTCG
*
7561130 CCACCAGTATGGGAATGCGAGATCTGT
1 CCACCAGTATGGGAAGGCGAGATCTGT
7561157 ATATTCGATC
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
89 2 0.02
90 63 0.58
92 44 0.40
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (91 bp):
CCACCAGTATGGGAAGGCGAGATCTGTTGACTTTGATCTACTTCACGCCGATACATGAAGACAAG
ATCTACTTTTCCTTCGATCTGCTTCG
Found at i:7561190 original size:92 final size:90
Alignment explanation
Indices: 7560948--7561195 Score: 259
Period size: 90 Copynumber: 2.7 Consensus size: 90
7560938 ATCTACTCCA
* * * * * * *
7560948 CCACCAGTATGGGGAGACAAGATCTGTTGACT-TT-GATCTACTTCACGCCGATACATGAAGACA
1 CCACCAGTATGGGAAGGCGAGATCTGTT-A-TATTCGATCCACTTCACACCAATACAGGAAGACA
*
7561011 AGATCTACTTTCTTTCGATCTGCTTCG
64 AGATCTACTTTCCTTCGATCTGCTTCG
* * * * * *
7561038 CCACCAGTATGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
1 CCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCACACCAATACAGGAAGACAAG
*
7561103 ATCTGCTTTTTCCTTCGATCTGCTTCG
66 ATCTAC--TTTCCTTCGATCTGCTTCG
* * * *
7561130 CCACCAGTATGGGAATGCGAGATCTG-TATATTCGATCCACTTCGCTACCAATATAGGAAGATAA
1 CCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCAC-ACCAATACAGGAAGACAA
7561194 GA
65 GA
7561196 CCGCTGCTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
88 1 0.01
89 3 0.02
90 59 0.43
91 15 0.11
92 58 0.43
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (90 bp):
CCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCACACCAATACAGGAAGACAAG
ATCTACTTTCCTTCGATCTGCTTCG
Found at i:7562569 original size:51 final size:50
Alignment explanation
Indices: 7562467--7562569 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
7562457 TCCATTTTTA
* * * * **
7562467 TTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTCTT
1 TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACCTT
*
7562517 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACCTT
1 TTTTTTTT-ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACCTT
7562568 TT
1 TT
7562570 AAGAAAAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 8 0.18
51 37 0.82
ACGTcount: A:0.12, C:0.27, G:0.16, T:0.46
Consensus pattern (50 bp):
TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACCTT
Found at i:7565130 original size:19 final size:19
Alignment explanation
Indices: 7565106--7565151 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7565096 AGAGGTGTTT
* *
7565106 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
7565124 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
7565144 AATGCAAA
1 AATGCAAA
7565152 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:7567014 original size:23 final size:23
Alignment explanation
Indices: 7566982--7567048 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
7566972 TACATATACT
*
7566982 TATAAAATATAAATAAAAATAAG
1 TATAATATATAAATAAAAATAAG
* * *
7567005 TATAATATATTAATAAAGTATGAG
1 TATAATATATAAATAAA-AATAAG
* *
7567029 TATATATATGTATATAAAAA
1 TATA-ATATATAAATAAAAA
7567049 AATATGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 15 0.44
24 9 0.26
25 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
TATAATATATAAATAAAAATAAG
Found at i:7567053 original size:16 final size:16
Alignment explanation
Indices: 7567034--7567077 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7567024 ATGAGTATAT
7567034 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
7567050 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
7567066 ATAATGTATATA
1 AT-ATGTATATA
7567078 TATATATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:7567192 original size:18 final size:17
Alignment explanation
Indices: 7567152--7567198 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
7567142 CGTGTGAGTG
*
7567152 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
7567169 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
7567188 TATAATAATAA
1 TATAAAAATAA
7567199 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:7567194 original size:15 final size:15
Alignment explanation
Indices: 7567157--7567211 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7567147 GAGTGTATAA
7567157 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
7567173 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
7567186 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
7567203 ACAATAATA
1 A-AATAATA
7567212 GTATTAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 15 0.45
16 3 0.09
17 9 0.27
18 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:7568606 original size:5 final size:6
Alignment explanation
Indices: 7568591--7568615 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7568581 CCTTTTATTA
7568591 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
7568616 TGCATACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:7570826 original size:22 final size:21
Alignment explanation
Indices: 7570801--7570851 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
7570791 TTTTTTTACT
* *
7570801 TTTTAAAATTTATAATTATATA
1 TTTTAAAATTTATAA-AAAATA
7570823 TTTTATAAATTTATAAAAAATA
1 TTTTA-AAATTTATAAAAAATA
7570845 TTTTAAA
1 TTTTAAA
7570852 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 14 0.54
23 10 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAAATTTATAAAAAATA
Found at i:7570992 original size:37 final size:37
Alignment explanation
Indices: 7570943--7571066 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 37
7570933 ATTCTAATAG
*
7570943 TAAAA-ATGTAAAATTCTTAGATATAATTATAAATTT
1 TAAAATATTTAAAATTCTTAGATATAATTATAAATTT
* ** * **
7570979 TAAAATTTTTAAAA-AATTAGATA-ATATATAAAAATAA
1 TAAAATATTTAAAATTCTTAGATATA-AT-TATAAATTT
* * *
7571016 AAAAATATATAAAATTCTTATATATAATTATAAATTT
1 TAAAATATTTAAAATTCTTAGATATAATTATAAATTT
7571053 TAAAA-ATTTAAAAT
1 TAAAATATTTAAAAT
7571067 GACATATAGA
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
35 1 0.02
36 22 0.34
37 33 0.51
38 8 0.12
39 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (37 bp):
TAAAATATTTAAAATTCTTAGATATAATTATAAATTT
Found at i:7571348 original size:19 final size:18
Alignment explanation
Indices: 7571326--7571402 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 18
7571316 ATTTATCTAT
7571326 TTTTTATTGATTATATATA
1 TTTTTATTG-TTATATATA
7571345 TTTTCTAAATT-TATATATATA
1 TTTT-T--ATTGT-TATATATA
*
7571366 TTTATATT-TT-T-TATA
1 TTTTTATTGTTATATATA
*
7571381 TTTTTAATGTGTATATATA
1 TTTTTATTGT-TATATATA
7571400 TTT
1 TTT
7571403 AATAAAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 2 0.04
18 5 0.11
19 11 0.23
20 3 0.06
21 11 0.23
22 3 0.06
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTTATTGTTATATATA
Found at i:7574951 original size:19 final size:16
Alignment explanation
Indices: 7574926--7574976 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
7574916 GGGTGAGAAG
7574926 TAAAAGTTTAGGGGGAAA
1 TAAAAGTTT--GGGGAAA
*
7574944 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTGGGGAAA
*
7574961 TAAAAGTTTGAGGAAA
1 TAAAAGTTTGGGGAAA
7574977 AGTAAATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 13 0.45
17 7 0.24
18 1 0.03
19 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTGGGGAAA
Found at i:7579483 original size:35 final size:34
Alignment explanation
Indices: 7579444--7579523 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
7579434 AATTTAATTT
7579444 ATATTTTATTATTTGATTCA-AATATAATCTGT-AAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
7579479 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
7579514 ATATTTTATT
1 ATATTTTATT
7579524 GTATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.08
35 27 0.69
36 9 0.23
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:7579690 original size:19 final size:18
Alignment explanation
Indices: 7579648--7579693 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
7579638 ATATAATTGT
*
7579648 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
7579666 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
7579685 AATAATTTT
1 AATAATTTT
7579694 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:7579842 original size:21 final size:21
Alignment explanation
Indices: 7579806--7579860 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
7579796 ACCGCTGTTT
*
7579806 CTAATCTTACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
*
7579828 C-AATCTCACCTCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
7579848 CTAATCTCACCGC
1 CTAATCTCACCGC
7579861 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:7581690 original size:7 final size:7
Alignment explanation
Indices: 7581678--7581706 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7581668 AAGCACACCG
7581678 ATAAAAA
1 ATAAAAA
7581685 ATAAAAA
1 ATAAAAA
7581692 AT-AAAA
1 ATAAAAA
7581698 ATAAAAA
1 ATAAAAA
7581705 AT
1 AT
7581707 CACATCGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:7581699 original size:13 final size:13
Alignment explanation
Indices: 7581681--7581706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7581671 CACACCGATA
7581681 AAAAATAAAAAAT
1 AAAAATAAAAAAT
7581694 AAAAATAAAAAAT
1 AAAAATAAAAAAT
7581707 CACATCGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:7590641 original size:7 final size:7
Alignment explanation
Indices: 7590629--7590653 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7590619 CACTATATAT
7590629 AAAAATA
1 AAAAATA
7590636 AAAAATA
1 AAAAATA
7590643 AAAAATA
1 AAAAATA
7590650 AAAA
1 AAAA
7590654 TATGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:7592059 original size:15 final size:15
Alignment explanation
Indices: 7592036--7592087 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
7592026 AAGTTTGCTT
7592036 GATAGAGAATTAAAG
1 GATAGAGAATTAAAG
*
7592051 GATACAGAATTAAAG
1 GATAGAGAATTAAAG
* *
7592066 GGTAGAAAATTAAAAG
1 GATAGAGAATT-AAAG
7592082 GATAGA
1 GATAGA
7592088 AAATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.54, C:0.02, G:0.25, T:0.19
Consensus pattern (15 bp):
GATAGAGAATTAAAG
Found at i:7595703 original size:9 final size:9
Alignment explanation
Indices: 7595689--7595719 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7595679 GTTAAACGAA
7595689 TCGAGTTAT
1 TCGAGTTAT
*
7595698 TCGAGTTAA
1 TCGAGTTAT
7595707 TCGAGTTAT
1 TCGAGTTAT
7595716 TCGA
1 TCGA
7595720 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7595788 original size:9 final size:9
Alignment explanation
Indices: 7595771--7595807 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7595761 TGAGTTTTCG
7595771 AATTCGAAT
1 AATTCGAAT
*
7595780 AACTCGAAT
1 AATTCGAAT
7595789 AATTCGAAT
1 AATTCGAAT
7595798 AATTCGAAT
1 AATTCGAAT
7595807 A
1 A
7595808 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7596075 original size:30 final size:31
Alignment explanation
Indices: 7596021--7596080 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
7596011 AAACCTTTTA
*
7596021 TTTTCCCCCAAAATTTTTTCTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTATCTCCCTTCCCAC
*
7596051 TTTTCCCCTAAAACTTTTAT-TCCCTTCCCA
1 TTTTCCCCCAAAA-TTTTATCTCCCTTCCCA
7596081 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTATCTCCCTTCCCAC
Found at i:7604689 original size:42 final size:42
Alignment explanation
Indices: 7604632--7604744 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
7604622 TCAACTCATA
* * * *
7604632 TGAGTTTCAGATTAACCCTTCTGGGTTTTAGTTTAGCTCTTT-
1 TGAGCTTCAGATTAACCCTTATGGGTTTCAATTTAGCT-TTTC
* **
7604674 TGAGCTTCAGTTTAACCCGAATGGGTTTCAATTTAGCTTTTC
1 TGAGCTTCAGATTAACCCTTATGGGTTTCAATTTAGCTTTTC
* *
7604716 TGAGCTTTAGATTAACCCTTATGAGTTTC
1 TGAGCTTCAGATTAACCCTTATGGGTTTC
7604745 CGTTCAGCTC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
41 3 0.05
42 55 0.95
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTTATGGGTTTCAATTTAGCTTTTC
Found at i:7604759 original size:21 final size:21
Alignment explanation
Indices: 7604735--7604792 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
7604725 GATTAACCCT
7604735 TATGAGTTTCCGTTCAGCTCC
1 TATGAGTTTCCGTTCAGCTCC
* *
7604756 TATGGGTTTCTGTTCAGCTCC
1 TATGAGTTTCCGTTCAGCTCC
7604777 TATGAGCTTT-CGTTCA
1 TATGAG-TTTCCGTTCA
7604793 ACATTTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (21 bp):
TATGAGTTTCCGTTCAGCTCC
Found at i:7607143 original size:46 final size:45
Alignment explanation
Indices: 7607037--7607344 Score: 270
Period size: 37 Copynumber: 7.6 Consensus size: 45
7607027 CATATGACCT
*
7607037 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7607080 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
7607126 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7607163 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7607200 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7607237 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* *
7607274 CTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
7607320 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
7607345 AGTACTCAAA
Statistics
Matches: 241, Mismatches: 10, Indels: 25
0.87 0.04 0.09
Matches are distributed among these distances:
37 135 0.56
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.04
44 6 0.02
45 21 0.09
46 62 0.26
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:7607164 original size:37 final size:37
Alignment explanation
Indices: 7607123--7607308 Score: 300
Period size: 37 Copynumber: 5.0 Consensus size: 37
7607113 GCTGAAGCTA
* *
7607123 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
7607160 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
7607197 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
7607234 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
7607271 CCACTTATCACTTTGTCACTTGATCAGATAAATGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
7607308 C
1 C
7607309 TAAAACTACC
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 141 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:7622417 original size:18 final size:18
Alignment explanation
Indices: 7622394--7622428 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7622384 CCATAGCCAC
7622394 CTTCAC-CAATCACATTCT
1 CTTCACACAATC-CATTCT
7622412 CTTCACACAATCCATTC
1 CTTCACACAATCCATTC
7622429 GTAGCTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (18 bp):
CTTCACACAATCCATTCT
Found at i:7625105 original size:5 final size:5
Alignment explanation
Indices: 7625097--7625133 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
7625087 TGAGATGGTA
7625097 AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AG
1 AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AG
7625134 AGAGGTGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.59, T:0.19
Consensus pattern (5 bp):
AGGTG
Found at i:7632826 original size:14 final size:11
Alignment explanation
Indices: 7632788--7632824 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
7632778 GTATTTTACA
7632788 AAAATAATA-C
1 AAAATAATATC
7632798 AAAATAATATC
1 AAAATAATATC
7632809 AAAATAATATAC
1 AAAATAATAT-C
7632821 AAAA
1 AAAA
7632825 AAGTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.36
11 11 0.44
12 5 0.20
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAATAATATC
Found at i:7633536 original size:41 final size:41
Alignment explanation
Indices: 7633474--7633625 Score: 193
Period size: 41 Copynumber: 3.7 Consensus size: 41
7633464 CCTTTCAGGG
*
7633474 CTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCCGGT
1 CTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGCTCCGGT
*
7633515 CTTTAGCGGTGTTTTTTGAGAAGCGCCGCTAATGCTCCGAG-
1 CTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGCTCCG-GT
* * *
7633556 CTTTAGCGGCGTTTTTGGAGAAGCGCAGCTAATGCT-CAGT
1 CTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGCTCCGGT
* *
7633596 GCTTTAGCGGAG-TTTTTGAAAAAGCGCCGC
1 -CTTTAGCGGCGTTTTTTG-AGAAGCGCCGC
7633626 AAAAACAGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 6 0.06
41 89 0.92
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGCTCCGGT
Found at i:7633611 original size:82 final size:82
Alignment explanation
Indices: 7633473--7633625 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 82
7633463 ACCTTTCAGG
* * * *
7633473 GCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCCGGTCTTTAGCGGTGTTTTTTG-AGAA
1 GCTTTAGCGGCGTTTTTAGAGAAGCGCAGCTAATGCTCAGGTCTTTAGCGGAG-TTTTTGAAAAA
7633537 GCGCCGCTAATGCTCCGA
65 GCGCCGCTAATGCTCCGA
*
7633555 GCTTTAGCGGCGTTTTTGGAGAAGCGCAGCTAATGCTCA-GTGCTTTAGCGGAGTTTTTGAAAAA
1 GCTTTAGCGGCGTTTTTAGAGAAGCGCAGCTAATGCTCAGGT-CTTTAGCGGAGTTTTTGAAAAA
7633619 GCGCCGC
65 GCGCCGC
7633626 AAAAACAGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 8 0.12
82 56 0.88
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (82 bp):
GCTTTAGCGGCGTTTTTAGAGAAGCGCAGCTAATGCTCAGGTCTTTAGCGGAGTTTTTGAAAAAG
CGCCGCTAATGCTCCGA
Found at i:7634069 original size:119 final size:119
Alignment explanation
Indices: 7633923--7634160 Score: 458
Period size: 119 Copynumber: 2.0 Consensus size: 119
7633913 TTAAAATATT
* *
7633923 TAATTAATTATCATTATAGTTTAGGGTTTAATATATATGGTTTAGGGTATATGGTTAATTTAGAA
1 TAATTAATTATCATTATAGTTTAGGGTTTAATATATATGGTTTAGGGTATATGATTAATTTAAAA
7633988 TTTAAGGCCGGTTTAGGAGTTACAATTTTAAGGTTTATATATTATGGATTTGGG
66 TTTAAGGCCGGTTTAGGAGTTACAATTTTAAGGTTTATATATTATGGATTTGGG
7634042 TAATTAATTATCATTATAGTTTAGGGTTTAATATATATGGTTTAGGGTATATGATTAATTTAAAA
1 TAATTAATTATCATTATAGTTTAGGGTTTAATATATATGGTTTAGGGTATATGATTAATTTAAAA
7634107 TTTAAGGCCGGTTTAGGAGTTACAATTTTAAGGTTTATATATTATGGATTTGGG
66 TTTAAGGCCGGTTTAGGAGTTACAATTTTAAGGTTTATATATTATGGATTTGGG
7634161 GATTATGAAT
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (119 bp):
TAATTAATTATCATTATAGTTTAGGGTTTAATATATATGGTTTAGGGTATATGATTAATTTAAAA
TTTAAGGCCGGTTTAGGAGTTACAATTTTAAGGTTTATATATTATGGATTTGGG
Found at i:7634212 original size:14 final size:13
Alignment explanation
Indices: 7634198--7634240 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
7634188 AGGTTGTGGT
*
7634198 TTAGGGATTAGGG
1 TTAGAGATTAGGG
*
7634211 TTAGAGATTAAGAG
1 TTAGAGATT-AGGG
7634225 TTAGAGATTTAGGG
1 TTAGAGA-TTAGGG
7634239 TT
1 TT
7634241 TATGAATTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (13 bp):
TTAGAGATTAGGG
Found at i:7634426 original size:14 final size:14
Alignment explanation
Indices: 7634407--7634435 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7634397 GGGTTAGTAG
7634407 TTGTGGTTAGGGGT
1 TTGTGGTTAGGGGT
7634421 TTGTGGTTAGGGGT
1 TTGTGGTTAGGGGT
7634435 T
1 T
7634436 AGGGCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.48, T:0.45
Consensus pattern (14 bp):
TTGTGGTTAGGGGT
Found at i:7635747 original size:16 final size:17
Alignment explanation
Indices: 7635720--7635757 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
7635710 TAGGTTTTTA
7635720 TTTCTATTTGGGGTTCT
1 TTTCTATTTGGGGTTCT
7635737 TTTCT-TTTGGGGTTCT
1 TTTCTATTTGGGGTTCT
7635753 TTTCT
1 TTTCT
7635758 GGGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.03, C:0.13, G:0.21, T:0.63
Consensus pattern (17 bp):
TTTCTATTTGGGGTTCT
Found at i:7636630 original size:2 final size:2
Alignment explanation
Indices: 7636623--7636668 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7636613 TCTTGAACTA
7636623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7636665 AT AT
1 AT AT
7636669 CCTTGCAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7639443 original size:27 final size:26
Alignment explanation
Indices: 7639413--7639469 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
7639403 AATTTCGAGG
*
7639413 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
7639439 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
7639466 TTTA
1 TTTA
7639470 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:7639754 original size:44 final size:42
Alignment explanation
Indices: 7639676--7639840 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
7639666 TTTTTACGAG
* * *
7639676 AAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCGTTTATGATAAA
1 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTATG-T-AA
* *
7639719 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTAT-GTAA
* * ** * * *
7639762 AAGCGCCGCTAAAGATCGTATTCTATA-AGGCGTTTGTGTGA
1 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTATGTAA
* * *
7639803 AAGCGCTGCTAAAGGTCAT-GACTTTTAGCGGCGTTTAT
1 AAGCGCCGCTAAAGGTCATGGTC-TATAGCGGCGTTTAT
7639841 TTCTAAAAAC
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
40 1 0.01
41 21 0.21
42 17 0.17
43 40 0.41
44 18 0.18
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTATGTAA
Found at i:7640975 original size:16 final size:17
Alignment explanation
Indices: 7640945--7640977 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7640935 TATTTAGGCT
*
7640945 ATTTAAATTTTATAAAA
1 ATTTAAATTTAATAAAA
7640962 ATTTAAA-TTAATAAAA
1 ATTTAAATTTAATAAAA
7640978 GTAAAATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAATAAAA
Found at i:7663141 original size:25 final size:25
Alignment explanation
Indices: 7663094--7663141 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7663084 ACATTGTCAT
*** *
7663094 CTAAAATATAACATTTTATAAATGA
1 CTAAAATATAACATGAGACAAATGA
7663119 CTAAAATATAACATGAGACAAAT
1 CTAAAATATAACATGAGACAAAT
7663142 AAAAATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.29
Consensus pattern (25 bp):
CTAAAATATAACATGAGACAAATGA
Found at i:7672765 original size:6 final size:6
Alignment explanation
Indices: 7672756--7672789 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
7672746 ATGATTGAGA
7672756 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
7672790 CGATTGAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (6 bp):
TTTTGG
Found at i:7675481 original size:15 final size:14
Alignment explanation
Indices: 7675459--7675493 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
7675449 ATTATTTCAA
7675459 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
*
7675473 AATAATTAAAAATAT
1 AA-AATTAAAAAAAT
7675488 AAAATT
1 AAAATT
7675494 TGACCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTAAAAAAAT
Found at i:7677987 original size:47 final size:50
Alignment explanation
Indices: 7677889--7677997 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 50
7677879 CATGACAATA
* *
7677889 TGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCATC-A-G
1 TGTGATATGTGACTTCCGTATAAGAACATAGTTGGGCTATGGCATCGATG
* * * * *
7677937 TGTGATATGTG-CTTCCGTGTAAGAACATGGTTGGGCTATGGCTTTGGTG
1 TGTGATATGTGACTTCCGTATAAGAACATAGTTGGGCTATGGCATCGATG
7677986 TGTGATATGTGA
1 TGTGATATGTGA
7677998 TTATATGCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 28 0.55
48 11 0.22
49 12 0.24
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (50 bp):
TGTGATATGTGACTTCCGTATAAGAACATAGTTGGGCTATGGCATCGATG
Found at i:7678586 original size:25 final size:25
Alignment explanation
Indices: 7678534--7678595 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
7678524 ACCTTAGCGC
* * *
7678534 GCTCTCTTATTATTAGCACATCAGT
1 GCTCTCTGATTATTAACACATCAAT
* *
7678559 GCTCTCTGATTATTAACACGTTAAT
1 GCTCTCTGATTATTAACACATCAAT
*
7678584 GCTCTCCGATTA
1 GCTCTCTGATTA
7678596 GCAAATCTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAACACATCAAT
Found at i:7681793 original size:28 final size:28
Alignment explanation
Indices: 7681762--7681825 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
7681752 TAAAAAATAA
**
7681762 CAAAATATTATAACTTTTTTTTATTTAC
1 CAAAATATTATAAAATTTTTTTATTTAC
7681790 CAAAATATTATAAAATTTTTTTATTTAC
1 CAAAATATTATAAAATTTTTTTATTTAC
7681818 CAAAATAT
1 CAAAATAT
7681826 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (28 bp):
CAAAATATTATAAAATTTTTTTATTTAC
Found at i:7681831 original size:29 final size:28
Alignment explanation
Indices: 7681762--7681833 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
7681752 TAAAAAATAA
* **
7681762 CAAAATATTATAACTTTTTTTTATTTAC
1 CAAAATATAATAAAATTTTTTTATTTAC
*
7681790 CAAAATATTATAAAATTTTTTTATTTAC
1 CAAAATATAATAAAATTTTTTTATTTAC
7681818 CAAAATATAAATAAAA
1 CAAAATAT-AATAAAA
7681834 AATAAAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 34 0.85
29 6 0.15
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (28 bp):
CAAAATATAATAAAATTTTTTTATTTAC
Found at i:7682403 original size:12 final size:12
Alignment explanation
Indices: 7682386--7682410 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7682376 TAACATGGTA
7682386 AATTTGCATGTC
1 AATTTGCATGTC
7682398 AATTTGCATGTC
1 AATTTGCATGTC
7682410 A
1 A
7682411 GGTCCTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AATTTGCATGTC
Found at i:7682532 original size:27 final size:27
Alignment explanation
Indices: 7682448--7682533 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
7682438 TTTTAGTCCT
* *
7682448 TTGGCACCATTGGTGCCGCCAGTCACA
1 TTGGCACCATTGGTGCCGCCAATCTCA
*
7682475 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
7682502 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
7682529 TTGGC
1 TTGGC
7682534 CTCATCAGGC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.28
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:7682600 original size:27 final size:27
Alignment explanation
Indices: 7682566--7682629 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
7682556 TTTTTTTGGT
7682566 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
7682593 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
7682620 ATATTTTGGT
1 ATATTTTGGT
7682630 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:7690277 original size:25 final size:24
Alignment explanation
Indices: 7690237--7690305 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
7690227 CCCATACGAG
* * *
7690237 CATATAATTGGGAAGCTCTTTTGATC
1 CATATAA-AGGGAAGCTCTGTT-AGC
7690263 CATATAAAGGGAAGCTCATGTTAGC
1 CATATAAAGGGAAGCTC-TGTTAGC
* *
7690288 CATGTAACGGGAAGCTCT
1 CATATAAAGGGAAGCTCT
7690306 AGAGAGCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 26 0.70
26 10 0.27
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (24 bp):
CATATAAAGGGAAGCTCTGTTAGC
Found at i:7690336 original size:24 final size:25
Alignment explanation
Indices: 7690262--7690401 Score: 69
Period size: 24 Copynumber: 5.7 Consensus size: 25
7690252 CTCTTTTGAT
* * * **
7690262 CCATATAAAGGGAAGCTCATGTTAG
1 CCATGTAACGGGAAGCTCAAGAGAG
*
7690287 CCATGTAACGGGAAGCTCTAGAGAG
1 CCATGTAACGGGAAGCTCAAGAGAG
* * *
7690312 CCAT-TAACGGGAGGTTCAAGCGAG
1 CCATGTAACGGGAAGCTCAAGAGAG
* * *
7690336 CCA-ATATCGAGAAGCTCCGAA-A-AG
1 CCATGTAACGGGAAGCT-C-AAGAGAG
*
7690360 CCAT-TAACGGGAAACTCATA-AGAG
1 CCATGTAACGGGAAGCTCA-AGAGAG
*
7690384 CCAT-TGATCGGGAAGCTC
1 CCATGT-AACGGGAAGCTC
7690402 TGAAGACCCA
Statistics
Matches: 88, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 48 0.55
25 34 0.39
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
CCATGTAACGGGAAGCTCAAGAGAG
Found at i:7690407 original size:25 final size:24
Alignment explanation
Indices: 7690379--7690450 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
7690369 GGAAACTCAT
* * *
7690379 AAGAGCCATTGATCGGGAAGCTCTG
1 AAGAGCCAAT-ATCGAGAAGCTCCG
*
7690404 AAGACCCAAATATCGAGAAGCTCCG
1 AAGAGCC-AATATCGAGAAGCTCCG
*
7690429 AAGAG-CAATAAACGAGAAGCTC
1 AAGAGCCAAT-ATCGAGAAGCTC
7690451 AAAAGAAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 3 0.08
24 12 0.31
25 22 0.56
26 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (24 bp):
AAGAGCCAATATCGAGAAGCTCCG
Found at i:7690429 original size:74 final size:75
Alignment explanation
Indices: 7690338--7690477 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 75
7690328 CAAGCGAGCC
* * * * * *
7690338 AATATCGAGAAGCTCCGAAAAGCCATTAACGGGAAACTCATAAG-AGCCATTGATCGGGAAGCTC
1 AATATCGAGAAGCTCCGAAAAGCAATAAACGAGAAACTCAAAAGAAGCCATTAATCAGGAAGCTC
7690402 TGAAGACCCA
66 TGAAGACCCA
* *
7690412 AATATCGAGAAGCTCCGAAGAGCAATAAACGAGAAGCTCAAAAGAAAGCCATTAATCAGGAAGCT
1 AATATCGAGAAGCTCCGAAAAGCAATAAACGAGAAACTCAAAAG-AAGCCATTAATCAGGAAGCT
7690477 C
65 C
7690478 GCAAGAATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 38 0.68
76 18 0.32
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.15
Consensus pattern (75 bp):
AATATCGAGAAGCTCCGAAAAGCAATAAACGAGAAACTCAAAAGAAGCCATTAATCAGGAAGCTC
TGAAGACCCA
Found at i:7698770 original size:25 final size:25
Alignment explanation
Indices: 7698734--7698830 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 25
7698724 GCTCTCTCTC
*
7698734 GAGCCATATAACAGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAA
* * * **
7698759 GAGCCATGTAACGGGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATAA
* ** *
7698784 GGGCTGTATAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
*
7698809 GAGCCATA-ATCAGGAAGCTCAT
1 GAGCCATATAACAGGAAGCTCAT
7698831 GCTAGCCAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 1
0.75 0.23 0.01
Matches are distributed among these distances:
24 12 0.22
25 43 0.78
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:7698772 original size:52 final size:49
Alignment explanation
Indices: 7698692--7698827 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 49
7698682 AATTCATATT
* *
7698692 CAGGAATGCTCATGTGAGCACATAAACGGGAAGCTCTCTCTCGAGCCATATAA
1 CAGGAA-GCTCATATGAGC-CATAAACGGGAAGCT-TATC-CGAGCCATATAA
* * **
7698745 CAGGAAGCTCATATGAGCCATGTAACGGGAAGCTTATCCGGGCTGTATAA
1 CAGGAAGCTCATATGAGCCAT-AAACGGGAAGCTTATCCGAGCCATATAA
* * * *
7698795 CGGGAAGCTCATAAGAGCCATAATCAGGAAGCT
1 CAGGAAGCTCATATGAGCCATAAACGGGAAGCT
7698828 CATGCTAGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 9 0.13
50 28 0.39
51 6 0.08
52 22 0.31
53 6 0.08
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (49 bp):
CAGGAAGCTCATATGAGCCATAAACGGGAAGCTTATCCGAGCCATATAA
Found at i:7698828 original size:24 final size:24
Alignment explanation
Indices: 7698797--7698987 Score: 79
Period size: 25 Copynumber: 7.7 Consensus size: 24
7698787 CTGTATAACG
7698797 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
***
7698821 GGAAGCTCATGCTAGCCAATAAT-A
1 GGAAGCTCATAAGAGCC-ATAATCA
* *
7698845 GGTAGCTTC-GAAGAGCCATTAATC-
1 GGAAGC-TCATAAGAGCCA-TAATCA
* *
7698869 GAGAAACTC-TGAATAGCCATATATC-
1 G-GAAGCTCAT-AAGAGCCATA-ATCA
* **
7698894 GAGAAGTTCATGCGAGCCAATAATCA
1 G-GAAGCTCATAAGAGCC-ATAATCA
* * *
7698920 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCA-TAAGAGCC-ATAATCA
* *
7698946 GGAAACTCACGAAGAGCCATATATCA
1 GGAAGCTCA-TAAGAGCCATA-ATCA
*
7698972 AGACA-CTCATAAGAGC
1 GGA-AGCTCATAAGAGC
7698988 TGCGGTGTGT
Statistics
Matches: 124, Mismatches: 30, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
23 1 0.01
24 33 0.27
25 49 0.40
26 40 0.32
27 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:7698937 original size:26 final size:26
Alignment explanation
Indices: 7698907--7698964 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7698897 AAGTTCATGC
*
7698907 GAGCCAATAATCAGGAAGCTCACAAA
1 GAGCCAATAATCAGGAAACTCACAAA
** * *
7698933 GAGCCTTTAATCGGGAAACTCACGAA
1 GAGCCAATAATCAGGAAACTCACAAA
7698959 GAGCCA
1 GAGCCA
7698965 TATATCAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (26 bp):
GAGCCAATAATCAGGAAACTCACAAA
Found at i:7702868 original size:18 final size:18
Alignment explanation
Indices: 7702845--7702879 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7702835 CAATTCAATT
*
7702845 TCTTATTTTTAACAATAA
1 TCTTATTTTCAACAATAA
7702863 TCTTATTTTCAACAATA
1 TCTTATTTTCAACAATA
7702880 GATATGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTATTTTCAACAATAA
Found at i:7714199 original size:24 final size:24
Alignment explanation
Indices: 7714172--7714223 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7714162 TTAGTAAGTC
*
7714172 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7714196 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7714220 AAAT
1 AAAT
7714224 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7716167 original size:24 final size:24
Alignment explanation
Indices: 7716139--7716190 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7716129 TTAGTAAGTC
* *
7716139 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7716163 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7716187 AAAT
1 AAAT
7716191 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7721798 original size:100 final size:100
Alignment explanation
Indices: 7721622--7721807 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 100
7721612 AATCACCCAG
* * *
7721622 CACTTATTACATGCTCAACTGTAACAACTGTGCATCAATGACGAGCAGTATTAAAGTTCCAAAAT
1 CACTTAATACATGCTCAACTGTAACAACTGAGCATCAATGACGAGCAGTATTAAACTTCCAAAAT
*
7721687 GTATTGCTAAATCCTAGTAAGCAAGTTAGCCAAGC
66 GTATTGATAAATCCTAGTAAGCAAGTTAGCCAAGC
* *
7721722 CACTTAATACATGCTCAACTGTAATAACTGAGCATCAGTGACGAGCAGTATTAAACTTCCAAAAT
1 CACTTAATACATGCTCAACTGTAACAACTGAGCATCAATGACGAGCAGTATTAAACTTCCAAAAT
*
7721787 GTATTGATAAATCTTAGTAAG
66 GTATTGATAAATCCTAGTAAG
7721808 TTAGCCAAGC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (100 bp):
CACTTAATACATGCTCAACTGTAACAACTGAGCATCAATGACGAGCAGTATTAAACTTCCAAAAT
GTATTGATAAATCCTAGTAAGCAAGTTAGCCAAGC
Found at i:7725981 original size:39 final size:37
Alignment explanation
Indices: 7725956--7726050 Score: 136
Period size: 39 Copynumber: 2.5 Consensus size: 37
7725946 TCATACATTA
7725956 ATCCATCAACATATTTAATTTCATAACAAAATATAAATT
1 ATCCATCAACATATTTAATTTCAT-A-AAAATATAAATT
*
7725995 GTCCATCAACATATTTAATTTCATAACAAAATATAAATT
1 ATCCATCAACATATTTAATTTCAT-A-AAAATATAAATT
*
7726034 GTCCATCAACATATTTA
1 ATCCATCAACATATTTA
7726051 GAAGGAAAGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (37 bp):
ATCCATCAACATATTTAATTTCATAAAAATATAAATT
Found at i:7726005 original size:22 final size:22
Alignment explanation
Indices: 7725980--7726044 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
7725970 TTAATTTCAT
7725980 AACAAAATATAAATTGTCCATC
1 AACAAAATATAAATTGTCCATC
* *
7726002 AAC-ATAT-TTAATT-T-CAT-
1 AACAAAATATAAATTGTCCATC
7726019 AACAAAATATAAATTGTCCATC
1 AACAAAATATAAATTGTCCATC
7726041 AACA
1 AACA
7726045 TATTTAGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 6 0.18
20 6 0.18
21 6 0.18
22 7 0.21
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (22 bp):
AACAAAATATAAATTGTCCATC
Found at i:7726008 original size:19 final size:19
Alignment explanation
Indices: 7725986--7726047 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
7725976 TCATAACAAA
7725986 ATATAAATTGTCCATCAAC
1 ATATAAATTGTCCATCAAC
* *
7726005 ATATTTAATT-T-CATAACAAA
1 ATA-TAAATTGTCCAT--CAAC
7726025 ATATAAATTGTCCATCAAC
1 ATATAAATTGTCCATCAAC
7726044 ATAT
1 ATAT
7726048 TTAGAAGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 16 0.47
20 12 0.35
21 3 0.09
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAAATTGTCCATCAAC
Found at i:7726028 original size:20 final size:20
Alignment explanation
Indices: 7725966--7726028 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
7725956 ATCCATCAAC
7725966 ATATTTAATTTCATAACAAA
1 ATATTTAATTTCATAACAAA
* *
7725986 ATA-TAAATTGTCCAT--CAAC
1 ATATTTAATT-T-CATAACAAA
7726005 ATATTTAATTTCATAACAAA
1 ATATTTAATTTCATAACAAA
7726025 ATAT
1 ATAT
7726029 AAATTGTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 16 0.47
21 3 0.09
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATTTAATTTCATAACAAA
Found at i:7726098 original size:9 final size:9
Alignment explanation
Indices: 7726086--7726140 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
7726076 CAAAGAAACA
*
7726086 TCATCATCC
1 TCATCGTCC
7726095 TCATCGTCC
1 TCATCGTCC
*
7726104 TCATCGTCG
1 TCATCGTCC
*
7726113 TCATCGTCG
1 TCATCGTCC
7726122 TCATCGTCC
1 TCATCGTCC
*
7726131 TCATTGTCC
1 TCATCGTCC
7726140 T
1 T
7726141 TTTTGCAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.13, C:0.38, G:0.13, T:0.36
Consensus pattern (9 bp):
TCATCGTCC
Found at i:7728710 original size:42 final size:42
Alignment explanation
Indices: 7728664--7728783 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
7728654 GTTATTAAAT
*
7728664 ATTTTAAATTAACAACTCTTTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
*** *
7728706 ATTTTAAATTAATTTGT-TATTAAATTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCT-TTAATTTGTTATAAATATATAGA
7728748 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATA
7728784 ATAAAAATTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (42 bp):
ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
Found at i:7734708 original size:14 final size:15
Alignment explanation
Indices: 7734675--7734706 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7734665 TATGCATGTA
*
7734675 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
7734690 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
7734705 AA
1 AA
7734707 TAGTGAAATG
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:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:7735237 original size:32 final size:32
Alignment explanation
Indices: 7735196--7735275 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
7735186 TTTTAACATT
*
7735196 ATATATCATCCACAATAGA-CTAATCATCAATC
1 ATATCTCATCCACAATAGATC-AATCATCAATC
* *
7735228 ATATCTCATCCACAAAAGATCAATCATCAATT
1 ATATCTCATCCACAATAGATCAATCATCAATC
* *
7735260 ATATCCCGTCCACAAT
1 ATATCTCATCCACAAT
7735276 GGGCTAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.28
Consensus pattern (32 bp):
ATATCTCATCCACAATAGATCAATCATCAATC
Found at i:7737984 original size:46 final size:46
Alignment explanation
Indices: 7737921--7738099 Score: 225
Period size: 46 Copynumber: 3.9 Consensus size: 46
7737911 AGTGTGGAAT
* * *
7737921 GTAGGTACGGTAATTCAGTAAAGAAAACCATACTGAGTTATGGAAC
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAC
* * * *
7737967 GTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAGTTGTGAAAC
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAC
** * *
7738013 GTAGGTATGGTATTTCAGTAACA-AAAGTCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAA-AGAAAACCATACTGAGTTATGAAAC
* *
7738059 GTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTAT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTAT
7738100 AGCATTGCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 1 0.01
46 111 0.98
47 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAC
Found at i:7738078 original size:92 final size:92
Alignment explanation
Indices: 7737921--7738097 Score: 248
Period size: 92 Copynumber: 1.9 Consensus size: 92
7737911 AGTGTGGAAT
* * * *
7737921 GTAGGTACGGTAATTCAGTAAAGAAAACCATACTGAGTTATGGAACGTAGGTATGGTGTTTCAGT
1 GTAGGTACGGTAATTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGATATTTCAGT
*
7737986 GAAGAAAACCATATTGAGTTGTGAAAC
66 GAAGAAAACCATACTGAGTTGTGAAAC
* * ** *
7738013 GTAGGTATGGTATTTCAGTAACA-AAAGTCATACTGAGTTGTGAAAAGTAGGTATGATATTTCAG
1 GTAGGTACGGTAATTCAGTAA-AGAAAACCATACTGAGTTATGAAAAGTAGGTATGATATTTCAG
7738077 TGAAGAAAACCATACTGAGTT
65 TGAAGAAAACCATACTGAGTT
7738098 ATAGCATTGC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 73 0.99
93 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (92 bp):
GTAGGTACGGTAATTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGATATTTCAGT
GAAGAAAACCATACTGAGTTGTGAAAC
Found at i:7742774 original size:5 final size:5
Alignment explanation
Indices: 7742764--7742792 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7742754 TATCTTGTAA
7742764 AGATT AGATT AGATT AGATT AGATT AGAT
1 AGATT AGATT AGATT AGATT AGATT AGAT
7742793 ATGGCAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
AGATT
Found at i:7749550 original size:21 final size:21
Alignment explanation
Indices: 7749526--7749565 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7749516 TGCTTGATTT
7749526 ATCATCCAATTGATACTTTAA
1 ATCATCCAATTGATACTTTAA
7749547 ATCATCCAATTGATACTTT
1 ATCATCCAATTGATACTTT
7749566 GAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (21 bp):
ATCATCCAATTGATACTTTAA
Found at i:7750513 original size:34 final size:34
Alignment explanation
Indices: 7750475--7750545 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
7750465 ATTTTTTATA
7750475 ATATATAGCATGTATACATAAATTAGTTATGTTC
1 ATATATAGCATGTATACATAAATTAGTTATGTTC
7750509 ATATATAGCATGTATACATAAATTAGTTATGTTC
1 ATATATAGCATGTATACATAAATTAGTTATGTTC
7750543 ATA
1 ATA
7750546 CTTCTTGGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (34 bp):
ATATATAGCATGTATACATAAATTAGTTATGTTC
Found at i:7750545 original size:17 final size:17
Alignment explanation
Indices: 7750491--7750545 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
7750481 AGCATGTATA
7750491 CATAAATTAGTTATGTT
1 CATAAATTAGTTATGTT
* *
7750508 CATATA-TAG-CATGTAT
1 CATAAATTAGTTATGT-T
7750524 ACATAAATTAGTTATGTT
1 -CATAAATTAGTTATGTT
7750542 CATA
1 CATA
7750546 CTTCTTGGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 14 0.47
18 4 0.13
19 4 0.13
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (17 bp):
CATAAATTAGTTATGTT
Found at i:7751764 original size:31 final size:31
Alignment explanation
Indices: 7751680--7751774 Score: 100
Period size: 31 Copynumber: 2.9 Consensus size: 31
7751670 TTTAGGGTTT
** *
7751680 TTTAAAAAAATTAATTAAATTAGATTTTTAAGGT
1 TTTAAAAAAA-TAATTAAATTAG-GGTTT-AGGA
*
7751714 TTTAAATAAATTAATTAAATTAGGGTTTAGGA
1 TTTAAA-AAAATAATTAAATTAGGGTTTAGGA
* *
7751746 TTTAAAAAAACAATTAAATTATGGTTTAG
1 TTTAAAAAAATAATTAAATTAGGGTTTAG
7751775 TTTTTTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
31 20 0.38
32 9 0.17
33 3 0.06
34 18 0.34
35 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.41
Consensus pattern (31 bp):
TTTAAAAAAATAATTAAATTAGGGTTTAGGA
Found at i:7752218 original size:126 final size:126
Alignment explanation
Indices: 7751837--7752233 Score: 571
Period size: 126 Copynumber: 3.2 Consensus size: 126
7751827 ACTTTTGTTT
* * * * * * ** *
7751837 TTTTTCTACAGTAGTTTTTGAAAAAGTAATTTTAAGAATACGGTTTTGAAAGGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
*
7751902 ACGCTTCAAGCAGGATGCACTG-CAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* * *
7751962 TTTTTCTACAGTAGTTCCTGAAAAAATGATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
* * * * * *
7752027 ATGCTTCAAGCAGGATGCGCTGTTAGCAAAATTACTGAAAAAAGCTCCTACGTGGATGTTG
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* *
7752088 TTTTTTTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
* *
7752153 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACACAC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
*
7752214 TTTTTCTACAATAGTTCTTG
1 TTTTTCTACAGTAGTTCTTG
7752234 TTTGGCCTTA
Statistics
Matches: 237, Mismatches: 34, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
125 73 0.31
126 164 0.69
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
Found at i:7755276 original size:9 final size:9
Alignment explanation
Indices: 7755253--7755283 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7755243 ATTTCTATTT
7755253 TATTAAAAA
1 TATTAAAAA
7755262 TA-TAAAAA
1 TATTAAAAA
7755270 TATTAAAAA
1 TATTAAAAA
7755279 TATTA
1 TATTA
7755284 CCTTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:7755360 original size:24 final size:24
Alignment explanation
Indices: 7755304--7755360 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
7755294 AAGAACTTCT
*
7755304 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAACAA
*
7755328 ATTAGTATT-AAAATATTAAAAACAA
1 ATT-TTATTAAAAATA-TAAAAACAA
7755353 ATTTTATT
1 ATTTTATT
7755361 TTTTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAACAA
Found at i:7757391 original size:22 final size:25
Alignment explanation
Indices: 7757357--7757406 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 25
7757347 AAAAAATTAT
* *
7757357 AAAATAAGAATTACATAA-A-TGAA
1 AAAAAAAGAATTAAATAATATTGAA
7757380 AAAAAAAG-ATTAAATAATATTGAA
1 AAAAAAAGAATTAAATAATATTGAA
7757404 AAA
1 AAA
7757407 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 7 0.30
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAAAAAGAATTAAATAATATTGAA
Found at i:7757567 original size:21 final size:20
Alignment explanation
Indices: 7757539--7757580 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7757529 TTCAGAAAAA
**
7757539 AAATTAAAGAGAGCTTTGAG
1 AAATTAAAGAGAAATTTGAG
7757559 AAATATAAAGAGAAATTTGAG
1 AAAT-TAAAGAGAAATTTGAG
7757580 A
1 A
7757581 GAAATTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.24
Consensus pattern (20 bp):
AAATTAAAGAGAAATTTGAG
Found at i:7757595 original size:10 final size:11
Alignment explanation
Indices: 7757567--7757595 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7757557 AGAAATATAA
7757567 AGAGAAATTTG
1 AGAGAAATTTG
7757578 AGAGAAATTTG
1 AGAGAAATTTG
7757589 A-AGAAAT
1 AGAGAAAT
7757596 ACTGTGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:7757819 original size:18 final size:18
Alignment explanation
Indices: 7757786--7757831 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
7757776 AATCGCTCAT
* *
7757786 CTAGGAAACTTATAAGGG
1 CTAGGATACATATAAGGG
* *
7757804 TTATGATACATATAAGGG
1 CTAGGATACATATAAGGG
7757822 CTAGGATACA
1 CTAGGATACA
7757832 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (18 bp):
CTAGGATACATATAAGGG
Found at i:7759591 original size:11 final size:11
Alignment explanation
Indices: 7759565--7759604 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
7759555 AGAGAGCTTT
7759565 GAGAAATTTAGA
1 GAGAAATTT-GA
7759577 GAGAAATTTGA
1 GAGAAATTTGA
7759588 GAGAAATTTGA
1 GAGAAATTTGA
7759599 -AGAAAT
1 GAGAAAT
7759605 ACTGTGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 6 0.21
11 13 0.46
12 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:7760630 original size:131 final size:127
Alignment explanation
Indices: 7760478--7760736 Score: 267
Period size: 129 Copynumber: 2.0 Consensus size: 127
7760468 AGTTTTTGAA
** * * *
7760478 TTATTCAAAAGTTCTTATTTAAATAATTGAATTGTTAAAATTGATACTATATATGGCTTT-CTTT
1 TTATTCAAAAGTTCTTATTTAAATAACCGAAGTGTTAAAATCGAT-CT-TATATGCCTTTCCTTT
*
7760542 GTTTGCACTATCTACACTAA-TCAAAAGCTTTAT-GTCCCTTTCTCTTCTACA-TTTCAACTTTT
64 -TTTGCACTATCTACACCAATTCAAAA-CTTT-TCGTCCCTTTCTCTTCTACATTTTC-A-TTTT
7760604 TTTT
124 TTTT
* * * * *
7760608 TTATGTCAAAAGTT-TTCTTTTAAGTCACCGAAGTGTTAAAATCGATGTTGTATGCCTTTCCTTT
1 TTAT-TCAAAAGTTCTT-ATTTAAATAACCGAAGTGTTAAAATCGATCTTATATGCCTTTCCTTT
* * * *
7760672 TTTGCACTGTCTGCACCAATTGAAAACTTTTCTTCCCTTTCTCTTCTACATTTTCATTTTTTTT
64 TTTGCACTATCTACACCAATTCAAAACTTTTCGTCCCTTTCTCTTCTACATTTTCATTTTTTTT
7760736 T
1 T
7760737 CATGAAACAA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
128 10 0.09
129 47 0.44
130 20 0.19
131 31 0.29
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (127 bp):
TTATTCAAAAGTTCTTATTTAAATAACCGAAGTGTTAAAATCGATCTTATATGCCTTTCCTTTTT
TGCACTATCTACACCAATTCAAAACTTTTCGTCCCTTTCTCTTCTACATTTTCATTTTTTTT
Found at i:7773691 original size:17 final size:18
Alignment explanation
Indices: 7773654--7773690 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
7773644 GTATATATTC
7773654 TTTAGATTTTTTTAGAAT
1 TTTAGATTTTTTTAGAAT
7773672 TTTA-ATTTTTTTA-AAT
1 TTTAGATTTTTTTAGAAT
7773688 TTT
1 TTT
7773691 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTAGATTTTTTTAGAAT
Found at i:7774089 original size:31 final size:29
Alignment explanation
Indices: 7774019--7774090 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
7774009 TTTTAGAGGT
*
7774019 TGCTCATATAAGGGCTAAACATTTCAAAA
1 TGCTCAAATAAGGGCTAAACATTTCAAAA
* *
7774048 TGATCAAATAAGGGCCT-AACATTTGCAGAAG
1 TGCTCAAATAAGGG-CTAAACATTT-CA-AAA
7774079 TGCTCAAATAAG
1 TGCTCAAATAAG
7774091 AGTTTTTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.53
30 4 0.11
31 13 0.36
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (29 bp):
TGCTCAAATAAGGGCTAAACATTTCAAAA
Found at i:7780864 original size:24 final size:24
Alignment explanation
Indices: 7780848--7780901 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7780838 AATCAAAATC
7780848 AAATATATTATGTTAATAAATAAT
1 AAATATATTATGTTAATAAATAAT
** * *
7780872 AAATATATTATACTCATAAATACT
1 AAATATATTATGTTAATAAATAAT
7780896 AAATAT
1 AAATAT
7780902 TCTAGAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATATATTATGTTAATAAATAAT
Found at i:7784119 original size:19 final size:19
Alignment explanation
Indices: 7784095--7784131 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7784085 TAATAAACAT
*
7784095 TAAAAAATTATTTTAAAAA
1 TAAAAAAATATTTTAAAAA
7784114 TAAAAAAATATTTTAAAA
1 TAAAAAAATATTTTAAAA
7784132 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAAATATTTTAAAAA
Found at i:7784148 original size:6 final size:6
Alignment explanation
Indices: 7784139--7784180 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
7784129 AAAGTATTTT
*
7784139 AAAATT AAAATA AAAATA AAAATAAA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAAT--A AAAATA AAAATA AAAA
7784181 ATATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:7784152 original size:11 final size:11
Alignment explanation
Indices: 7784138--7784179 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
7784128 AAAAGTATTT
*
7784138 TAAAATTAAAA
1 TAAAAATAAAA
7784149 TAAAAATAAAA
1 TAAAAATAAAA
*
7784160 -ATAAA-AAAA
1 TAAAAATAAAA
7784169 TAAAAATAAAA
1 TAAAAATAAAA
7784180 AATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.15
10 8 0.31
11 14 0.54
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:7784169 original size:14 final size:14
Alignment explanation
Indices: 7784150--7784181 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7784140 AAATTAAAAT
7784150 AAAAATAAAAATAA
1 AAAAATAAAAATAA
7784164 AAAAATAAAAATAA
1 AAAAATAAAAATAA
7784178 AAAA
1 AAAA
7784182 TATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:7787903 original size:12 final size:12
Alignment explanation
Indices: 7787886--7787910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7787876 TCTAGCCCGG
7787886 ACGGGTGATCCT
1 ACGGGTGATCCT
7787898 ACGGGTGATCCT
1 ACGGGTGATCCT
7787910 A
1 A
7787911 TCCTGATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (12 bp):
ACGGGTGATCCT
Found at i:7792513 original size:32 final size:32
Alignment explanation
Indices: 7792477--7792541 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
7792467 CACCATAAAC
* *
7792477 TTATAAATTGATTACTTGAATTT-AGTAACTCA
1 TTATAAATTAATTAATTGAATTTGA-TAACTCA
*
7792509 TTATAAATTAATTAATTTAATTTGATAACTCA
1 TTATAAATTAATTAATTGAATTTGATAACTCA
7792541 T
1 T
7792542 ATTGATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (32 bp):
TTATAAATTAATTAATTGAATTTGATAACTCA
Found at i:7794276 original size:21 final size:21
Alignment explanation
Indices: 7794234--7794283 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
7794224 TAAATAAGTG
*
7794234 TAATAATAGCACCAATAATAA
1 TAATAATAGCAACAATAATAA
* * *
7794255 TAATAATAGTAACAGTACTAA
1 TAATAATAGCAACAATAATAA
*
7794276 TAACAATA
1 TAATAATA
7794284 ATAATGATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (21 bp):
TAATAATAGCAACAATAATAA
Found at i:7796296 original size:29 final size:29
Alignment explanation
Indices: 7796254--7796319 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
7796244 TCAATTATGT
7796254 TTAAATTTTAAAAAATAAAAATAAAAGGA
1 TTAAATTTTAAAAAATAAAAATAAAAGGA
*
7796283 TTAAATTCTT-AAAAATAAAAATAAAATGA
1 TTAAATT-TTAAAAAATAAAAATAAAAGGA
*
7796312 CTAAATTT
1 TTAAATTT
7796320 CAAATGTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 31 0.91
30 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (29 bp):
TTAAATTTTAAAAAATAAAAATAAAAGGA
Found at i:7796324 original size:132 final size:133
Alignment explanation
Indices: 7795973--7796333 Score: 485
Period size: 133 Copynumber: 2.7 Consensus size: 133
7795963 AGTAGAAAAA
* * * *
7795973 AGTTACCAATTATATTTAAAATTTGAAATTTGAAAAATAAAAATATTAAATTCCTAAAAATCAAA
1 AGTTACCAATTATATTTAAATTTTAAAATTTGAAAAATAAAAAGATTAAATTCCTAAAAATAAAA
* * * * *
7796038 ATAGAATGACTAAATTTCAAACGTGTGAAGATGTCGAACCAATAAATTTAGCAGAGAAATTTAGC
66 ATAAAATGACTAAATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAGAAATTTAGC
7796103 TAG
131 TAG
* * * *
7796106 ATTTACCAATTATATTTAAATTCTAAATTTTGAAAAATAAAAAGATTAAATTCCTAAAAGTAAAA
1 AGTTACCAATTATATTTAAATTTTAAAATTTGAAAAATAAAAAGATTAAATTCCTAAAAATAAAA
* * *
7796171 ATAAAATAACTAAATTCCAAATGTGTGAATATGTCAAACAAACAAATTTAGCAGA-AAATTTTAG
66 ATAAAATGACTAAATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAGAAA-TTTAG
7796235 -TCAG
130 CT-AG
* * ** * *
7796239 AGTTATCAATTATGTTTAAATTTTAAAAAAT-AAAAATAAAAGGATTAAATTCTTAAAAATAAAA
1 AGTTACCAATTATATTTAAATTTTAAAATTTGAAAAATAAAAAGATTAAATTCCTAAAAATAAAA
7796303 ATAAAATGACTAAATTTCAAATGTGTGAAGA
66 ATAAAATGACTAAATTTCAAATGTGTGAAGA
7796334 GTAGTAGATT
Statistics
Matches: 197, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
132 62 0.31
133 135 0.69
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (133 bp):
AGTTACCAATTATATTTAAATTTTAAAATTTGAAAAATAAAAAGATTAAATTCCTAAAAATAAAA
ATAAAATGACTAAATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAGAAATTTAGC
TAG
Found at i:7796563 original size:90 final size:89
Alignment explanation
Indices: 7796412--7796765 Score: 358
Period size: 90 Copynumber: 4.0 Consensus size: 89
7796402 CATAAAAAGT
* * * * * *
7796412 CCTC-AATTTTTTCAAAAAAAAGTAATTAAGCCA-AAATTTTTTTTACACTCAATTGGATACTTA
1 CCTCAAATTTTTTC-AAAAAAAGCAATTAAGCCATGATTTTTTTTTACATTCAATTGGGTACTTG
* * *
7796475 AATTTTTAAAATGTATCAAGATGGC
65 AACTTTTAAAATGTATCAAAAAGGC
* * * *
7796500 CCTCAAGA-TTTTTCAAAAAAAGTAATTAAGCTCATGTTTTTTTTTTCCATTTAATTGGGTACTT
1 CCTCAA-ATTTTTTCAAAAAAAGCAATTAAGC-CATGATTTTTTTTTACATTCAATTGGGTACTT
* *
7796564 GAACTTTCAAAATATATCAAAAAGGC
64 GAACTTTTAAAATGTATCAAAAAGGC
* *
7796590 CCTCAAATTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTTACATTCAATTGGGTACTTG
1 CCTCAAATTTTTTCAAAAAAAGCAATTAAG-CCATGATTTTTTTTTACATTCAATTGGGTACTTG
* * * *
7796655 CAGTTTTAAAATGCATCAAAAAGAC
65 AACTTTTAAAATGTATCAAAAAGGC
* * * ** *
7796680 CCTCAAATTTTTTCAAAAAAAGCAATTAAGCCTCTCA-TTTTTTTAACGCTCAATTGGATACTTG
1 CCTCAAATTTTTTCAAAAAAAGCAATTAAGCC-ATGATTTTTTTTTACATTCAATTGGGTACTTG
* *
7796744 AA-TTGTCAAAATGCATCAAAAA
65 AACTT-TTAAAATGTATCAAAAA
7796766 ACCCTTTGAC
Statistics
Matches: 226, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
88 23 0.10
89 52 0.23
90 150 0.66
91 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (89 bp):
CCTCAAATTTTTTCAAAAAAAGCAATTAAGCCATGATTTTTTTTTACATTCAATTGGGTACTTGA
ACTTTTAAAATGTATCAAAAAGGC
Found at i:7796885 original size:15 final size:16
Alignment explanation
Indices: 7796865--7796901 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7796855 TGACACGTGG
7796865 TAAAAAT-ATAAATA-A
1 TAAAAATAATAAA-AGA
7796880 TAAAAATAATAAAAGA
1 TAAAAATAATAAAAGA
7796896 TAAAAA
1 TAAAAA
7796902 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAAATAATAAAAGA
Found at i:7810656 original size:29 final size:28
Alignment explanation
Indices: 7810573--7810656 Score: 64
Period size: 29 Copynumber: 2.9 Consensus size: 28
7810563 ATTAACCGTT
7810573 AGACTCAAATTTTGAAATTTGA-AAAGTAAA
1 AGACT-AAATTTT-AAATTT-ACAAAGTAAA
* ** *
7810603 ATGACTAAATTTTTAA-GAACAAAAGTATAG
1 A-GACTAAATTTTAAATTTAC-AAAGTA-AA
7810633 AGACTAAATTTTAAATTTACAAAG
1 AGACTAAATTTTAAATTTACAAAG
7810657 AATGCAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
27 1 0.02
29 25 0.60
30 12 0.29
31 4 0.10
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (28 bp):
AGACTAAATTTTAAATTTACAAAGTAAA
Found at i:7822781 original size:2 final size:2
Alignment explanation
Indices: 7822774--7822804 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7822764 TGAATATCAC
7822774 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7822805 AGGCTCGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7827084 original size:35 final size:35
Alignment explanation
Indices: 7827038--7827109 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
7827028 AAACCCTAAA
7827038 ACAAAATTCAAGAGGGCAAGAACTACGAAGTACTT
1 ACAAAATTCAAGAGGGCAAGAACTACGAAGTACTT
7827073 ACAAAATTCAAGAGGGCAAGAACTACGAAGTACTT
1 ACAAAATTCAAGAGGGCAAGAACTACGAAGTACTT
7827108 AC
1 AC
7827110 TTTGTTCTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (35 bp):
ACAAAATTCAAGAGGGCAAGAACTACGAAGTACTT
Found at i:7836740 original size:3 final size:3
Alignment explanation
Indices: 7836732--7836769 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7836722 CAATGAGTCT
7836732 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7836770 TTGGTGAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.