Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 163 of 198
Found at i:51313850 original size:41 final size:40
Alignment explanation
Indices: 51313725--51313857 Score: 114
Period size: 37 Copynumber: 3.4 Consensus size: 40
51313715 GCTAGTTTGG
* *
51313725 CACCCAATGCCTCATC-AGA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGA-ATTAA-TCGAAGTAGTAAATTGA
* * ** * *
51313765 CACCCAGTGTCTCATTGGTTTTATCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCGAAGTAGTAAATTGA
*
51313802 CATCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAAT-CGAAGTAGTAAATTGA
*
51313843 CACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
51313858 TGACTCAAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
37 26 0.37
38 2 0.03
39 2 0.03
40 16 0.23
41 24 0.34
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATTAATCGAAGTAGTAAATTGA
Found at i:51314807 original size:41 final size:41
Alignment explanation
Indices: 51314791--51314985 Score: 363
Period size: 41 Copynumber: 4.8 Consensus size: 41
51314781 CTTATAGCTT
* *
51314791 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
51314832 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
51314873 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
*
51314914 GATTCAAATCACCGGCACATAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
51314955 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
51314986 CGCTTAGCCT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:51315644 original size:2 final size:2
Alignment explanation
Indices: 51315637--51315701 Score: 80
Period size: 2 Copynumber: 33.0 Consensus size: 2
51315627 CAATAACTTT
* *
51315637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TC TA GCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
51315679 T- TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
51315702 CATGCTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.95
3 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:51317981 original size:5 final size:5
Alignment explanation
Indices: 51317971--51318144 Score: 222
Period size: 5 Copynumber: 34.8 Consensus size: 5
51317961 TTTGTTTTAT
51317971 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * * * * * *
51318021 CATAA CATAA CATCA CATCA CATAA TATAA TATAA CATAA CATAA CATCA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
51318071 CATCA CATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
51318121 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
51318145 CTTAAATGTT
Statistics
Matches: 161, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 161 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.34
Consensus pattern (5 bp):
TATAA
Found at i:51322195 original size:20 final size:19
Alignment explanation
Indices: 51322170--51322234 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
51322160 CTTGTTTACA
51322170 TTGATTTTATTCTCAATCTT
1 TTGATTTTATTCTCAATC-T
* *
51322190 TTGATTTCT-TTC-CATTACA
1 TTGATTT-TATTCTCAAT-CT
*
51322209 TTGATTTGATTCTCAATCCT
1 TTGATTTTATTCTCAAT-CT
51322229 TTGATT
1 TTGATT
51322235 CCTTTCCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 13 0.37
20 21 0.60
21 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.55
Consensus pattern (19 bp):
TTGATTTTATTCTCAATCT
Found at i:51322221 original size:39 final size:39
Alignment explanation
Indices: 51322165--51322245 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
51322155 AAAATCTTGT
* * *
51322165 TTACATTGATTTTATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
51322204 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
51322243 TTA
1 TTA
51322246 TTGTTTTGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
Found at i:51326766 original size:14 final size:15
Alignment explanation
Indices: 51326690--51326766 Score: 52
Period size: 15 Copynumber: 5.0 Consensus size: 15
51326680 CATTGACAGT
*
51326690 AAAATG-TTTTCCGG
1 AAAATGATTTTCTGG
51326704 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
* *
51326718 AAAATATTTTACTTTTCTGT
1 -AAA-A--TGA-TTTTCTGG
*
51326738 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
51326753 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
51326767 TGTTTGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 16 0.33
15 18 0.37
16 3 0.06
18 3 0.06
19 7 0.14
20 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:51330433 original size:224 final size:224
Alignment explanation
Indices: 51329960--51330421 Score: 780
Period size: 224 Copynumber: 2.1 Consensus size: 224
51329950 AAGCAGGGGA
* * *
51329960 CACACACCCGTGTGGCTGGCCGTGTGAGCACACCCGTGTCTTAGGTCATGTGGTATTTGAAGTAG
1 CACACACCCATGTGGCTGGCCGTGTGAGCACACCCATGTCTTAGGCCATGTGGTATTTGAAGTAG
* * * *
51330025 GGTACACGGTGGCGTCCCCAGCCCGTGTAACTCTCTGACTTGCAATACATTTAAGTGCAGGGGTT
66 GGTACACGGTCGCGTCCCCAGCCCATGTAACTCTCTAACTTGCAATACATTTAAGTGCAGGGGTC
* * *
51330090 ACACGGCCAAGCTATACGCCCGTGTGCTAGGCCGCATGTAAAAACCTGGGCATTCTGTTTGAAAT
131 ACACGGCCAAGCCACAAGCCCGTGTGCTAGGCCGCATGTAAAAACCTGGGCATTCTGTTTGAAAT
51330155 TTTAAGGTATAGGGGACACACGGCCAAAC
196 TTTAAGGTATAGGGGACACACGGCCAAAC
* *
51330184 CACACGCACATGTGGCTGGCCGTGTGAGCACACCCATGTCTTAGGCCATGTGGTATTTGAAGTAG
1 CACACACCCATGTGGCTGGCCGTGTGAGCACACCCATGTCTTAGGCCATGTGGTATTTGAAGTAG
*
51330249 GGTACACGGTCGTGTCCCCAGCCCATGTAACTCTCTAACTTGCAATACATTTAAGTGCAGGGGTC
66 GGTACACGGTCGCGTCCCCAGCCCATGTAACTCTCTAACTTGCAATACATTTAAGTGCAGGGGTC
**
51330314 ACACGGCCAAGCCACAAGCCCGTGTGCTAGGCCGTGTGTAAAAACCTGGGCATTCTGTTTGAAAT
131 ACACGGCCAAGCCACAAGCCCGTGTGCTAGGCCGCATGTAAAAACCTGGGCATTCTGTTTGAAAT
*
51330379 TTTAAGGTCTAGGGGACACACGGCCAAAC
196 TTTAAGGTATAGGGGACACACGGCCAAAC
51330408 CACACACCCATGTG
1 CACACACCCATGTG
51330422 TCAAGCCGTG
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
224 220 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (224 bp):
CACACACCCATGTGGCTGGCCGTGTGAGCACACCCATGTCTTAGGCCATGTGGTATTTGAAGTAG
GGTACACGGTCGCGTCCCCAGCCCATGTAACTCTCTAACTTGCAATACATTTAAGTGCAGGGGTC
ACACGGCCAAGCCACAAGCCCGTGTGCTAGGCCGCATGTAAAAACCTGGGCATTCTGTTTGAAAT
TTTAAGGTATAGGGGACACACGGCCAAAC
Found at i:51331099 original size:33 final size:32
Alignment explanation
Indices: 51331062--51331138 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
51331052 TAGCCCTGCC
** * *
51331062 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATCAG-AATGCCATAACCCAGCT
*
51331095 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
51331128 ATGGTCTTACA
1 ATGGTCTTACA
51331139 CATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 32 0.84
34 4 0.11
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:51332933 original size:17 final size:17
Alignment explanation
Indices: 51332911--51332961 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
51332901 TTCCATTTTC
51332911 TCTTCTTTTTCTCCATT
1 TCTTCTTTTTCTCCATT
*
51332928 TCTTC----TCT-TA-T
1 TCTTCTTTTTCTCCATT
51332939 TCTTCTTTTTCTCCATT
1 TCTTCTTTTTCTCCATT
51332956 TCTTCT
1 TCTTCT
51332962 CTTATTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 6 0.23
12 1 0.04
13 3 0.12
15 3 0.12
16 1 0.04
17 12 0.46
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (17 bp):
TCTTCTTTTTCTCCATT
Found at i:51332989 original size:28 final size:28
Alignment explanation
Indices: 51332911--51332979 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
51332901 TTCCATTTTC
51332911 TCTTCTTTTTCTCCATTTCTTCTCTTAT
1 TCTTCTTTTTCTCCATTTCTTCTCTTAT
51332939 TCTTCTTTTTCTCCATTTCTTCTCTTAT
1 TCTTCTTTTTCTCCATTTCTTCTCTTAT
51332967 TCTTCTTTTTCTC
1 TCTTCTTTTTCTC
51332980 TTGCTTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (28 bp):
TCTTCTTTTTCTCCATTTCTTCTCTTAT
Found at i:51342145 original size:3 final size:3
Alignment explanation
Indices: 51342137--51342182 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
51342127 ATAAATTAAA
* *
51342137 TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
51342181 TA
1 TA
51342183 ACTAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:51342154 original size:13 final size:13
Alignment explanation
Indices: 51342136--51342182 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
51342126 TATAAATTAA
51342136 ATATTATTATATT
1 ATATTATTATATT
*
51342149 ATATTATTATAAT
1 ATATTATTATATT
* *
51342162 GTATTATTAT-TA
1 ATATTATTATATT
51342174 ATATTATTA
1 ATATTATTA
51342183 ACTAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:51342194 original size:2 final size:2
Alignment explanation
Indices: 51342187--51342217 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51342177 TTATTAACTA
51342187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51342218 AAGTAAAATA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51342690 original size:17 final size:18
Alignment explanation
Indices: 51342668--51342701 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51342658 TAAATGAGTT
51342668 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
51342685 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
51342702 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:51343183 original size:21 final size:21
Alignment explanation
Indices: 51343150--51343219 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
51343140 TTATCGGCTT
*
51343150 TGTCG-ATCAGGCACTATATG
1 TGTCGTATTAGGCACTATATG
* **
51343170 TGTCGTATTAGGCACCACGTG
1 TGTCGTATTAGGCACTATATG
*
51343191 TGTCGT-TTCAGGCACTTTATG
1 TGTCGTATT-AGGCACTATATG
*
51343212 TGTTGTAT
1 TGTCGTAT
51343220 ACTGCTTCTG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 7 0.18
21 30 0.79
22 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (21 bp):
TGTCGTATTAGGCACTATATG
Found at i:51347926 original size:44 final size:48
Alignment explanation
Indices: 51347862--51347978 Score: 161
Period size: 49 Copynumber: 2.5 Consensus size: 48
51347852 TGTAGCCTGT
*
51347862 TCCACTACAACTTCAAGGAGATAAG-CTT-T-G-TGACTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGACTTGTAGCTGACTTTAATCTGC
* * *
51347906 TCCACTACAAATTCAGGGAGATAAGATTTGTAGCTTGTCTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGACTTGTAGC-TGACTTTAATCTGC
51347955 TCCACTACAACTTCAGGGAGATAA
1 TCCACTACAACTTCAGGGAGATAA
51347979 ATTGGTCTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 23 0.37
45 2 0.03
46 1 0.02
47 1 0.02
49 36 0.57
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (48 bp):
TCCACTACAACTTCAGGGAGATAAGACTTGTAGCTGACTTTAATCTGC
Found at i:51348159 original size:96 final size:96
Alignment explanation
Indices: 51348036--51348341 Score: 278
Period size: 96 Copynumber: 3.3 Consensus size: 96
51348026 TTCGATATGA
* * * *
51348036 TCTGCTCTACTGCAACTTCAGAGAGATAAAAATTGCAATTTATAGCTTAAATCTGTTCCGCTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAAAATTGCAATTTATAGCTTCAATCTATTCCACTGCA
*
51348101 ACTTCAGGGAAATAAGATTCACTATCTTCAG
66 ACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * * * * *
51348132 TTTGCTCCACTGCAACTTTAGTGAGATAAGACTTG-----TA-A-CTTCAACCTACTCTACTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAAAATTGCAATTTATAGCTTCAATCTATTCCACTGCA
* * * *
51348190 ACTTCA-AGAAGATAAGGTTTGCTA---TGA-
66 ACTTCAGGGAA-ATAAGATTCGCTATCTTCAG
* * * * *
51348217 TCTACTCTACTGCAACTTCAGAGAGAT-AAGATCTACAATTTATAGCTTCAATCCATTCCACTGC
1 TCTGCTCCACTGCAACTTCAGAGAGATAAAAAT-TGCAATTTATAGCTTCAATCTATTCCACTGC
51348281 AACTTCAGGGAAATAAGATTCGCTATCTTCAG
65 AACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * *
51348313 CCTGCTCCACTGCAACTTTAGGGAGATAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAA
51348342 GACTTGTAAC
Statistics
Matches: 156, Mismatches: 39, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
84 2 0.01
85 23 0.15
86 2 0.01
88 3 0.02
89 30 0.19
90 3 0.02
91 3 0.02
92 33 0.21
93 3 0.02
95 2 0.01
96 51 0.33
97 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (96 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAAAATTGCAATTTATAGCTTCAATCTATTCCACTGCA
ACTTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:51348190 original size:44 final size:44
Alignment explanation
Indices: 51348136--51348386 Score: 190
Period size: 44 Copynumber: 5.6 Consensus size: 44
51348126 CTTCAGTTTG
* *
51348136 CTCCACTGCAACTTTAGTGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* * * * * * *
51348180 CTCTACTGCAACTTCAAGAAGATAAG-GTT-T-GCTAT-GATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACT-TCAACCTA
* * *
51348221 CTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCC-A
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT----TGTA-A-CTTCAA-CCTA
* * * * *
51348272 TTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTA
*
51348317 CTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
*
51348361 CTCCACTACAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
51348387 GTTTGATATG
Statistics
Matches: 158, Mismatches: 32, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
41 29 0.18
42 2 0.01
43 3 0.02
44 57 0.36
45 31 0.20
46 2 0.01
47 3 0.02
48 1 0.01
49 1 0.01
50 1 0.01
51 27 0.17
52 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
Found at i:51348205 original size:181 final size:181
Alignment explanation
Indices: 51348000--51348400 Score: 624
Period size: 181 Copynumber: 2.2 Consensus size: 181
51347990 TTTAACCTGT
* * *
51348000 TCCACTGCAACTTTAAGGAGATAAGGTTCGATATGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAAGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTCAGAGAGAT-A
* ** *
51348065 AAAT-TGCAATTTATAGCTTAAATCTGTTCCGCTGCAACTTCAGGGAAATAAGATTCACTATCTT
65 AAATCTACAATTTATAGCTTAAATCCATTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTT
** *
51348129 CAGTTTGCTCCACTGCAACTTTAGTGAGATAAGACTTGTAACTTCAACCTAC
130 CAGCCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
* * *
51348181 TCTACTGCAACTTCAAGAAGATAAGGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAAGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTCAGAGAGATAA
* * *
51348246 GATCTACAATTTATAGCTTCAATCCATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
66 AATCTACAATTTATAGCTTAAATCCATTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTC
51348311 AGCCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
131 AGCCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
* *
51348362 TCCACTACAACTTCAGGGAGATAAGGTTTGATATGATCT
1 TCCACTGCAACTTCAAGGAGATAAGGTTTGATATGATCT
51348401 TCAATCCATC
Statistics
Matches: 198, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
180 4 0.02
181 194 0.98
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (181 bp):
TCCACTGCAACTTCAAGGAGATAAGGTTTGATATGATCTACTCTACTGCAACTTCAGAGAGATAA
AATCTACAATTTATAGCTTAAATCCATTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTC
AGCCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTAC
Found at i:51348378 original size:89 final size:88
Alignment explanation
Indices: 51348096--51348386 Score: 297
Period size: 89 Copynumber: 3.2 Consensus size: 88
51348086 ATCTGTTCCG
* * *
51348096 CTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTTTGCTCCACTGCAACTTTAGTGAGATAA
1 CTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAG-CTGCTCCACTGCAACTTTAGAGAGATAA
*
51348161 GACTTGTAACTTCAACCTACTCTA
65 GACTTGTAACTTCAACCTACTCCA
* * * ** *
51348185 CTGCAACTTCA-AGAAGATAAGGTTTGCTATGATCTA-CT-CT--ACTGCAACTTCAGAGAGATA
1 CTGCAACTTCAGGGAA-ATAAGATTCGCTATCTTC-AGCTGCTCCACTGCAACTTTAGAGAGATA
* *
51348245 AGATCTACAATTTATAGCTTCAATCC-ATTCCA
64 AGA-CT----TGTA-A-CTTCAA-CCTACTCCA
*
51348277 CTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTTAGGGAGATAA
1 CTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAG-CTGCTCCACTGCAACTTTAGAGAGATAA
51348342 GACTTGTAACTTCAACCTACTCCA
65 GACTTGTAACTTCAACCTACTCCA
* *
51348366 CTACAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAAATAAG
51348387 GTTTGATATG
Statistics
Matches: 162, Mismatches: 23, Indels: 34
0.74 0.11 0.16
Matches are distributed among these distances:
85 21 0.13
86 2 0.01
87 2 0.01
88 6 0.04
89 54 0.33
90 5 0.03
91 5 0.03
92 35 0.22
93 7 0.04
94 2 0.01
95 2 0.01
96 21 0.13
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (88 bp):
CTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCTGCTCCACTGCAACTTTAGAGAGATAAG
ACTTGTAACTTCAACCTACTCCA
Found at i:51358958 original size:26 final size:26
Alignment explanation
Indices: 51358916--51358985 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
51358906 ATATTTTCTT
* * **
51358916 AAAATTTTACCACGGGTATAATTGTC
1 AAAATTTTACCAGGGGTACAATCATC
*
51358942 AAAATTTTATCAGGGGTACAATCATC
1 AAAATTTTACCAGGGGTACAATCATC
51358968 AAAATTTTACCAGGGGTA
1 AAAATTTTACCAGGGGTA
51358986 AAGTATGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTACAATCATC
Found at i:51366599 original size:29 final size:26
Alignment explanation
Indices: 51366502--51366610 Score: 121
Period size: 26 Copynumber: 4.1 Consensus size: 26
51366492 TGGAGGAAGT
* * *
51366502 ATACTGTTACTGGCAGC-TTACTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
*
51366527 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
* *
51366553 ATACTATTACTAGCAGCTTTGTTACG
1 ATACTATTACTGGCAGCTTTGCTACG
*
51366579 ATACTTTTATTACTGGTAGCTTTGCTACG
1 ATAC---TATTACTGGCAGCTTTGCTACG
51366608 ATA
1 ATA
51366611 TTGGTGTGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
25 16 0.22
26 34 0.47
29 22 0.31
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:51369429 original size:51 final size:51
Alignment explanation
Indices: 51369312--51369496 Score: 169
Period size: 51 Copynumber: 3.6 Consensus size: 51
51369302 AAAGTGATGG
* * * * * * * *
51369312 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTATCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAAT-GA
* * * *
51369362 TCGCATGTGTAGTACTATATGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAAT-GA
* * * * * *
51369413 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGA
51369464 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
51369497 TGAACCGAAC
Statistics
Matches: 110, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 35 0.32
51 73 0.66
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGA
Found at i:51369439 original size:101 final size:102
Alignment explanation
Indices: 51369312--51369496 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
51369302 AAAGTGATGG
* *
51369312 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTATCAG-ATGATAATGGTCACATGTGTAGT
51369375 ACTATATGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATATGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
51369413 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTATCAGATGATAATGGTCACATGTGTAGTA
*
51369478 CTATGTGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
51369497 TGAACCGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTATCAGATGATAATGGTCACATGTGTAGTA
CTATATGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:51369498 original size:26 final size:26
Alignment explanation
Indices: 51369418--51369498 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
51369408 TTCGATCACG
51369418 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
51369444 CGTGTA-T-CAGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
51369469 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
51369495 TGTG
1 TGTG
51369499 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:51377071 original size:2 final size:2
Alignment explanation
Indices: 51377064--51377103 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
51377054 NNNNNNNNNN
51377064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51377104 AATAAACCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51377644 original size:49 final size:47
Alignment explanation
Indices: 51377514--51377715 Score: 140
Period size: 49 Copynumber: 4.2 Consensus size: 47
51377504 TTACTTTTCA
* * * * *
51377514 TAAGTCTCACCCATGTGTCTAGGAG-TAGAGCCAC-TTATTACCTTTCT
1 TAAGCCTC-CCCATGCGTCTAGGAGCAAG-GCCACTTTATTACCTTCCG
* * *
51377561 TAAGCCTCCCCATGTGTCTAGGAGCAATGTCACTTTATTACCTTCCG
1 TAAGCCTCCCCATGCGTCTAGGAGCAAGGCCACTTTATTACCTTCCG
* ** *
51377608 TAAGCCTCCTCCCATGCGT-TTGGAAGCAAGGCCACTTTATTATTTTTCG
1 TAAGCCT-C-CCCATGCGTCTAGG-AGCAAGGCCACTTTATTACCTTCCG
** * * * * **
51377657 TAAGTTTCCCTCAATGCATCTAGGAGCAAAGTCACTTTACTACCTTCAA
1 TAAGCCTCCC-C-ATGCGTCTAGGAGCAAGGCCACTTTATTACCTTCCG
51377706 TAAGCCTCCC
1 TAAGCCTCCC
51377716 TTCTGCATTT
Statistics
Matches: 120, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
46 20 0.17
47 28 0.23
48 6 0.05
49 63 0.52
50 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (47 bp):
TAAGCCTCCCCATGCGTCTAGGAGCAAGGCCACTTTATTACCTTCCG
Found at i:51377758 original size:48 final size:49
Alignment explanation
Indices: 51377706--51377799 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
51377696 CTACCTTCAA
* * *
51377706 TAAGCCTCCCTT-CTGCATTTGAGAGTAGGGTCATTTTATTA-CTTTTCG
1 TAAGCCT-CCTTCCTGCATCTCAGAGTAGGGTCACTTTATTATCTTTTCG
* *
51377754 TAAGCCTCTTTCCTGCGTCTCAGAGTAGGGTCACTTTATTATCTTT
1 TAAGCCTCCTTCCTGCATCTCAGAGTAGGGTCACTTTATTATCTTT
51377800 CATAAACCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (49 bp):
TAAGCCTCCTTCCTGCATCTCAGAGTAGGGTCACTTTATTATCTTTTCG
Found at i:51379237 original size:21 final size:21
Alignment explanation
Indices: 51379213--51379265 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
51379203 CATTGTTTCT
*
51379213 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
* *
51379234 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
51379255 AATCTCACCGC
1 AATCTCACCGC
51379266 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:51383418 original size:5 final size:5
Alignment explanation
Indices: 51383404--51383480 Score: 56
Period size: 5 Copynumber: 15.4 Consensus size: 5
51383394 TGATATTTTT
* *
51383404 TTAAA ATAAA TTAAA -T-AA TTAAA TTAAA TTAATG TTAAA TTAAAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAA-A TTAAA TT--AAA
51383450 TTAAA -TAAA TTTATAA -TAAA TTAAA -TAAA TT
1 TTAAA TTAAA -TTA-AA TTAAA TTAAA TTAAA TT
51383481 TTAAAATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
3 2 0.03
4 12 0.21
5 31 0.53
6 6 0.10
7 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (5 bp):
TTAAA
Found at i:51383443 original size:16 final size:13
Alignment explanation
Indices: 51383410--51383459 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 13
51383400 TTTTTTAAAA
51383410 TAAATTAAATAAT
1 TAAATTAAATAAT
51383423 TAAATTAAATTAATGT
1 TAAATTAAA-TAA--T
51383439 TAAATTAAA-AAT
1 TAAATTAAATAAT
51383451 TAAA-TAAAT
1 TAAATTAAAT
51383460 TTATAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 4 0.12
12 5 0.15
13 9 0.27
14 5 0.15
16 10 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
TAAATTAAATAAT
Found at i:51383484 original size:11 final size:10
Alignment explanation
Indices: 51383423--51383499 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 10
51383413 ATTAAATAAT
51383423 TAAA-TTAAA
1 TAAATTTAAA
*
51383432 TTAATGTTAAA
1 TAAAT-TTAAA
*
51383443 TTAAAAATTAAA
1 -T-AAATTTAAA
51383455 TAAATTTATAA
1 TAAATTTA-AA
51383466 TAAA-TTAAA
1 TAAATTTAAA
*
51383475 TAAATTT-TA
1 TAAATTTAAA
51383484 -AAATATTAAA
1 TAAAT-TTAAA
51383494 TAAATT
1 TAAATT
51383500 ATTAATAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
8 4 0.08
9 12 0.23
10 13 0.25
11 16 0.30
12 6 0.11
13 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:51383493 original size:19 final size:18
Alignment explanation
Indices: 51383443--51383504 Score: 88
Period size: 20 Copynumber: 3.2 Consensus size: 18
51383433 TAATGTTAAA
51383443 TTAAAAATTAAATAAATT
1 TTAAAAATTAAATAAATT
51383461 TATAATAAATTAAATAAATT
1 T-TAA-AAATTAAATAAATT
51383481 TTAAAATATTAAATAAATT
1 TTAAAA-ATTAAATAAATT
51383500 ATTAA
1 -TTAA
51383505 TAAAAGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.08
19 18 0.45
20 19 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAATTAAATAAATT
Found at i:51384218 original size:28 final size:29
Alignment explanation
Indices: 51384165--51384219 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
51384155 AGAATTGGAT
51384165 CAAATAAAAATTTCATATATAAAATTGTA
1 CAAATAAAAATTTCATATATAAAATTGTA
* * *
51384194 CAAATCAAAA-TTCATGTATACAATTG
1 CAAATAAAAATTTCATATATAAAATTG
51384220 CACATTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
CAAATAAAAATTTCATATATAAAATTGTA
Found at i:51385094 original size:22 final size:22
Alignment explanation
Indices: 51385039--51385113 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
51385029 ACTAATCCTA
51385039 TCTCAAATTTCCTCTCAATTTC
1 TCTCAAATTTCCTCTCAATTTC
51385061 T-TCTAAATTTCCTCTCAATTTGC
1 TCTC-AAATTTCCTCTCAATTT-C
51385084 TCTCAAA-TTCCT-TCAAAATTTC
1 TCTCAAATTTCCTCTC--AATTTC
*
51385106 TTTCAAAT
1 TCTCAAAT
51385114 CCATATTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 4 0.09
22 30 0.65
23 10 0.22
24 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.45
Consensus pattern (22 bp):
TCTCAAATTTCCTCTCAATTTC
Found at i:51385103 original size:34 final size:34
Alignment explanation
Indices: 51385039--51385113 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
51385029 ACTAATCCTA
* *
51385039 TCTCAAATTTCCTCTCAATTTCTTCTAAATTTCC
1 TCTCAAATTTCCTCTCAATTCCTTCAAAATTTCC
*
51385073 TCTC-AATTTGCTCTCAAATTCCTTCAAAATTT-C
1 TCTCAAATTTCCTCTC-AATTCCTTCAAAATTTCC
*
51385106 TTTCAAAT
1 TCTCAAAT
51385114 CCATATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 14 0.40
34 21 0.60
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.45
Consensus pattern (34 bp):
TCTCAAATTTCCTCTCAATTCCTTCAAAATTTCC
Found at i:51385113 original size:11 final size:12
Alignment explanation
Indices: 51385039--51385105 Score: 72
Period size: 11 Copynumber: 5.9 Consensus size: 12
51385029 ACTAATCCTA
51385039 TCTCAAATTTCC
1 TCTCAAATTTCC
*
51385051 TCTC-AATTTCT
1 TCTCAAATTTCC
51385062 TCT-AAATTTCC
1 TCTCAAATTTCC
*
51385073 TCTC-AATTTGC
1 TCTCAAATTTCC
51385084 TCTCAAA-TTCC
1 TCTCAAATTTCC
51385095 T-TCAAAATTTC
1 TCTC-AAATTTC
51385106 TTTCAAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 2 0.04
11 35 0.76
12 9 0.20
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:51385132 original size:51 final size:51
Alignment explanation
Indices: 51385075--51385172 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
51385065 AAATTTCCTC
51385075 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCT-TTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCTT-AAATCCATATTTATTT
* * *
51385126 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTTAAATCCATATTT
51385173 TTAAATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 39 0.93
52 3 0.07
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTTAAATCCATATTTATTT
Found at i:51385424 original size:22 final size:22
Alignment explanation
Indices: 51385388--51385497 Score: 152
Period size: 22 Copynumber: 5.1 Consensus size: 22
51385378 NNNNTAACCT
*
51385388 AAAACCCT-AACCCTTAACCTA
1 AAAACCCTAAACCCTTAACTTA
*
51385409 AAAACCCTAAACCCTTAACTTT
1 AAAACCCTAAACCCTTAACTTA
* * *
51385431 AAAACCCTAGACCTTTAACTTT
1 AAAACCCTAAACCCTTAACTTA
*
51385453 AAAACCCTAAACTCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
51385475 AAAACCCT-AACCCTTAACTTA
1 AAAACCCTAAACCCTTAACTTA
51385496 AA
1 AA
51385498 TATAATTTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.28
22 57 0.72
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (22 bp):
AAAACCCTAAACCCTTAACTTA
Found at i:51385457 original size:44 final size:43
Alignment explanation
Indices: 51385387--51385497 Score: 168
Period size: 44 Copynumber: 2.6 Consensus size: 43
51385377 NNNNNTAACC
*
51385387 TAAAACCCTAACCCTTAACCTAAAAACCCTAAACCCTTAACTT
1 TAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
* * *
51385430 TAAAACCCTAGACCTTTAACTTTAAAACCCTAAACTCTTAACTT
1 TAAAACCCTA-ACCCTTAACTTAAAAACCCTAAACCCTTAACTT
*
51385474 AAAAACCCTAACCCTTAACTTAAA
1 TAAAACCCTAACCCTTAACTTAAA
51385498 TATAATTTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 22 0.37
44 38 0.63
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (43 bp):
TAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
Found at i:51388896 original size:126 final size:124
Alignment explanation
Indices: 51388641--51389183 Score: 660
Period size: 126 Copynumber: 4.3 Consensus size: 124
51388631 CCAAACATGT
* *
51388641 TACTGTAGCAAAAGCGCGTCCAC-ATGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCT-A
1 TACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
** * * * ** *
51388704 TTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTTTCTAGGACC
65 TT-GAAGCTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
* *
51388765 AACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATTCTGC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGC
* * *
51388829 TTGCAGCTTTATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTTCAGGACC
65 TTGAAGC-TT-TTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * * *
51388891 TACTGTAGCAAAAACGCGTCCACGTGGGCGTGACTTCACAAATTCTTCTTATAAAGCATCATGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * *
51388956 TGGAGCGTTTTTTAAACTATTTGCTCAAAAATGTCAACTCAAAATTATTTCTTCCAAGACC
66 TGAAGC-TTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACC
* * * * *
51389017 AACTGCAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCACAAAACATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
51389082 TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * *
51389141 TACTATAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAAT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAAT
51389184 CCGTCTGATA
Statistics
Matches: 359, Mismatches: 53, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 102 0.28
125 80 0.22
126 173 0.48
127 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (124 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
Found at i:51389106 original size:250 final size:250
Alignment explanation
Indices: 51388641--51389183 Score: 734
Period size: 250 Copynumber: 2.2 Consensus size: 250
51388631 CCAAACATGT
* * * *
51388641 TACTGTAGCAAAAGCGCGTCCACATGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTATT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCATATT
* * * ** * * *
51388706 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTTTCTAGGACCAACTGT
66 AGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAAGACCAACTGC
* * *
51388771 AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATTCTGCTTGCAGC
131 AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAAGC
* * *
51388836 TTTATTTTATACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTTCAGGACC
196 TGTATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * *
51388891 TACTGTAGCAAAAACGCGTCCACGTGGGCGTGACTTCACAAATTCTTCTTATAAAGCATCATGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCAT-AT
* * *
51388956 T-GGAGCGTTTTTTAAACTATTTGCTCAAAAATGTCAACTCAAAATTATTTCTTCCAAGACCAAC
65 TAGAAGCG-ATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAAGACCAAC
*
51389020 TGCAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCACAA-AACATCCTGCTTG
128 TGCAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATCCTGCTTG
* * *
51389084 AAGC-GT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
192 AAGCTGTATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * *
51389141 TACTATAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAAT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAT
51389184 CCGTCTGATA
Statistics
Matches: 255, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
250 144 0.56
251 38 0.15
252 71 0.28
253 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCATATT
AGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAAGACCAACTGC
AGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAAGC
TGTATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACC
Found at i:51394345 original size:19 final size:20
Alignment explanation
Indices: 51394321--51394360 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
51394311 TTCTATCCAT
51394321 AAAATA-CTAAACCATAATC
1 AAAATACCTAAACCATAATC
51394340 AAAATATGCCTAAACCATAAT
1 AAAATA--CCTAAACCATAAT
51394361 TCACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.20, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATACCTAAACCATAATC
Found at i:51395102 original size:43 final size:43
Alignment explanation
Indices: 51395017--51395180 Score: 217
Period size: 43 Copynumber: 3.8 Consensus size: 43
51395007 TTCGTACAAC
* * * *
51395017 GCCAACGTTCCAGACGTGGTCTTACATGTAATCAC-AGATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-TCGAT
* *
51395060 GCC-ACTGTCTCGGACAG-GGTCTTACACGAAAACACAAGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCGAT
51395103 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCGAT
*
51395146 GCCAACGTCCCAGACGTGGTTTTACACGAAAACAC
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
51395181 TTATCAGAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
42 3 0.03
43 99 0.93
44 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCGAT
Found at i:51396601 original size:43 final size:43
Alignment explanation
Indices: 51396551--51396676 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
51396541 TGGTGGCTTC
* * *
51396551 ATCCACAACCTATATGACAGCTTGTCTACAAAATTGGTGATTT
1 ATCCACAACCTACATGACAACTTGTTTACAAAATTGGTGATTT
* *
51396594 ATCCACAACCTACAT-AGCAACTTGTTTA-AGAATTTGGTGGTTT
1 ATCCACAACCTACATGA-CAACTTGTTTACA-AAATTGGTGATTT
*
51396637 ATCCACAACCTACATGACAACTTGTTTGCAAATATTGGTG
1 ATCCACAACCTACATGACAACTTGTTTACAAA-ATTGGTG
51396677 GCTTCGACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 61 0.86
44 8 0.11
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (43 bp):
ATCCACAACCTACATGACAACTTGTTTACAAAATTGGTGATTT
Found at i:51396868 original size:15 final size:15
Alignment explanation
Indices: 51396848--51396880 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51396838 TAATTATGTG
*
51396848 CTTATTGTTCTTTAA
1 CTTATTGTTATTTAA
51396863 CTTATTGTTATTTAA
1 CTTATTGTTATTTAA
51396878 CTT
1 CTT
51396881 GTTATAAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (15 bp):
CTTATTGTTATTTAA
Found at i:51403470 original size:6 final size:7
Alignment explanation
Indices: 51403443--51403468 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51403433 ATAAATATAT
51403443 ATTTTTA
1 ATTTTTA
51403450 ATTTTTA
1 ATTTTTA
51403457 ATTTTTA
1 ATTTTTA
51403464 ATTTT
1 ATTTT
51403469 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:51403882 original size:20 final size:19
Alignment explanation
Indices: 51403860--51403909 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 19
51403850 ATATTTTAAT
51403860 AAAAAATACTTATATTAAATA
1 AAAAAATA-TT-TATTAAATA
51403881 AATAAAATATTTATTAAATCA
1 AA-AAAATATTTATTAAAT-A
*
51403902 TAAAAATA
1 AAAAAATA
51403910 GATAAATGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATATTTATTAAATA
Found at i:51410564 original size:14 final size:14
Alignment explanation
Indices: 51410542--51410572 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51410532 AAGCTTCAAC
*
51410542 TTCAGCTTATACAT
1 TTCACCTTATACAT
51410556 TTCACCTTATACAT
1 TTCACCTTATACAT
51410570 TTC
1 TTC
51410573 CTCCACTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (14 bp):
TTCACCTTATACAT
Found at i:51414097 original size:6 final size:6
Alignment explanation
Indices: 51414088--51414113 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51414078 GATTTTTGTT
51414088 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
51414114 ATAATAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:51414736 original size:62 final size:62
Alignment explanation
Indices: 51414670--51414840 Score: 163
Period size: 62 Copynumber: 2.8 Consensus size: 62
51414660 TTTGTGAGAT
*
51414670 TAATAAAAATTTTCAAAAATTTTAAGAGAGCTTAATT-AAATTCTTTAAAAAATTAAAAGGTA
1 TAATAAAAATTTTCAAAAATTTTAAG-GAGCCTAATTAAAATTCTTTAAAAAATTAAAAGGTA
* * * * * * *
51414732 TAATAAGAATTTTTAAAAATTTTGAGGGGCCTAATTAAAATTTTTTAAAAAGTT--AAGGAA
1 TAATAAAAATTTTCAAAAATTTTAAGGAGCCTAATTAAAATTCTTTAAAAAATTAAAAGGTA
* * * * * * *
51414792 AAATGAAATTTTTTAAAAAATTTAGGGA-CCTAATTAAAGTT-TTTAAAAA
1 TAATAAAAATTTTCAAAAATTTTAAGGAGCCTAATTAAAATTCTTTAAAAA
51414841 TTTTAAGAGA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
58 8 0.09
59 12 0.13
60 25 0.27
61 8 0.09
62 38 0.42
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (62 bp):
TAATAAAAATTTTCAAAAATTTTAAGGAGCCTAATTAAAATTCTTTAAAAAATTAAAAGGTA
Found at i:51414835 original size:59 final size:61
Alignment explanation
Indices: 51414741--51414855 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
51414731 ATAATAAGAA
* *
51414741 TTTTTAAAAATTTTGAGGGGCCTAATTAAAATTTTTTAAAAA-GTTAAG-GAAAAATGAAAT
1 TTTTTAAAAAATTTGAGGGACCTAATTAAAA-TTTTTAAAAATGTTAAGAGAAAAATGAAAT
* *
51414801 TTTTTAAAAAATTT-AGGGACCTAATTAAAGTTTTTAAAAATTTTAAGAGAAAAAT
1 TTTTTAAAAAATTTGAGGGACCTAATTAAAATTTTTAAAAATGTTAAGAGAAAAAT
51414856 AAAAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 10 0.20
59 19 0.39
60 20 0.41
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.37
Consensus pattern (61 bp):
TTTTTAAAAAATTTGAGGGACCTAATTAAAATTTTTAAAAATGTTAAGAGAAAAATGAAAT
Found at i:51414858 original size:29 final size:27
Alignment explanation
Indices: 51414773--51414858 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 27
51414763 TAATTAAAAT
* *
51414773 TTTTTAAAAAGTTAAGGAAAAATGAAAT
1 TTTTTAAAAATTTAAGGAAAAAT-AAAG
* * *
51414801 TTTTTAAAAAATTTAGGGACCTAATTAAAG
1 TTTTT-AAAAATTTAAGGA--AAAATAAAG
51414831 TTTTTAAAAATTTTAAGAGAAAAATAAA
1 TTTTTAAAAA-TTTAAG-GAAAAATAAA
51414859 AAAAAATCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
28 5 0.11
29 22 0.49
30 13 0.29
31 5 0.11
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (27 bp):
TTTTTAAAAATTTAAGGAAAAATAAAG
Found at i:51416219 original size:12 final size:12
Alignment explanation
Indices: 51416181--51416220 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
51416171 GAATTCAAAA
51416181 GATGAAAG-CTT
1 GATGAAAGACTT
51416192 GATTGAAA-ACTT
1 GA-TGAAAGACTT
51416204 GATGAAAGACTT
1 GATGAAAGACTT
51416216 GATGA
1 GATGA
51416221 TTAAATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (12 bp):
GATGAAAGACTT
Found at i:51417445 original size:11 final size:10
Alignment explanation
Indices: 51417425--51417450 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
51417415 TAGAAGGAAG
51417425 AAAAATAAAA
1 AAAAATAAAA
51417435 AAAAATAAAA
1 AAAAATAAAA
51417445 AAAAAT
1 AAAAAT
51417451 GTGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:51423335 original size:23 final size:23
Alignment explanation
Indices: 51423309--51423400 Score: 107
Period size: 23 Copynumber: 3.9 Consensus size: 23
51423299 GGACTCACCA
*
51423309 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTCGTATGAGCTTACCGTTT
*
51423332 CAGCTC-TACGGAGCTTACCGTTT
1 CAGCTCGTA-TGAGCTTACCGTTT
51423355 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTCGTAT-GAGCTTACCG-TT-T
51423380 CAGCTCGTAATGAGCTTACCG
1 CAGCTCGT-ATGAGCTTACCG
51423401 ATCATGGCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.03
23 35 0.59
24 2 0.03
25 8 0.14
26 10 0.17
27 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:51426728 original size:12 final size:12
Alignment explanation
Indices: 51426690--51426729 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
51426680 GAATTCAAAA
51426690 GATGAAAG-CTT
1 GATGAAAGACTT
51426701 GATTGAAA-ACTT
1 GA-TGAAAGACTT
51426713 GATGAAAGACTT
1 GATGAAAGACTT
51426725 GATGA
1 GATGA
51426730 TTAAATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (12 bp):
GATGAAAGACTT
Found at i:51428214 original size:3 final size:3
Alignment explanation
Indices: 51428208--51428237 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
51428198 CATCATCATC
51428208 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51428238 GTTGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:51429734 original size:23 final size:21
Alignment explanation
Indices: 51429701--51429742 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
51429691 CATTTGACTA
*
51429701 TTTTAATTTTTAGAATTTAAC
1 TTTTAATTTTTACAATTTAAC
51429722 TTTTATATCTTTTACAATTTA
1 TTTTA-AT-TTTTACAATTTA
51429743 GTCCTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 2 0.11
23 11 0.61
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAATTTTTACAATTTAAC
Found at i:51431224 original size:29 final size:29
Alignment explanation
Indices: 51431209--51431271 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
51431199 TTTAAAAATT
51431209 ATAAAAATATTCCAAAAAATTTTCAAAAA
1 ATAAAAATATTCCAAAAAATTTTCAAAAA
* *
51431238 ATAAAAATATT-C-ATAAGTTTTCAAAAA
1 ATAAAAATATTCCAAAAAATTTTCAAAAA
51431265 A-AAAAAT
1 ATAAAAAT
51431272 CTCATGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 14 0.44
28 1 0.03
29 11 0.34
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (29 bp):
ATAAAAATATTCCAAAAAATTTTCAAAAA
Found at i:51431281 original size:26 final size:27
Alignment explanation
Indices: 51431228--51431281 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
51431218 TTCCAAAAAA
*
51431228 TTTTCAAAAAATAAAAATATTCATAAG
1 TTTTCAAAAAATAAAAATACTCATAAG
51431255 TTTTCAAAAAA-AAAAAT-CTCATGAAG
1 TTTTCAAAAAATAAAAATACTCAT-AAG
51431281 T
1 T
51431282 ACATATGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTTCAAAAAATAAAAATACTCATAAG
Found at i:51438040 original size:17 final size:17
Alignment explanation
Indices: 51438018--51438051 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51438008 AAAAACTATT
* *
51438018 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
51438035 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
51438052 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:51438044 original size:33 final size:33
Alignment explanation
Indices: 51437974--51438043 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
51437964 AATAAATACC
*
51437974 AAAAAATTATTTTAAAAATTAAAATTAAAATTA
1 AAAAAACTATTTTAAAAATTAAAATTAAAATTA
**
51438007 AAAAAACTATTTTAAAAA-T-ATTTTAAAATTA
1 AAAAAACTATTTTAAAAATTAAAATTAAAATTA
51438038 AAAAAA
1 AAAAAA
51438044 ATTTAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 16 0.47
32 1 0.03
33 17 0.50
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (33 bp):
AAAAAACTATTTTAAAAATTAAAATTAAAATTA
Found at i:51438052 original size:29 final size:30
Alignment explanation
Indices: 51437998--51438063 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
51437988 AAAATTAAAA
*
51437998 TTAAAATTAAAAAAACTATTTTAAAAATATT
1 TTAAAATTAAAAAAAC-ATTTAAAAAATATT
*
51438029 TTAAAATTAAAAAAA-ATTTAAAAAGTATT
1 TTAAAATTAAAAAAACATTTAAAAAATATT
51438058 TTAAAA
1 TTAAAA
51438064 AAATTTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.55
31 15 0.45
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (30 bp):
TTAAAATTAAAAAAACATTTAAAAAATATT
Found at i:51438124 original size:41 final size:40
Alignment explanation
Indices: 51437975--51438123 Score: 156
Period size: 41 Copynumber: 3.6 Consensus size: 40
51437965 ATAAATACCA
* *
51437975 AAAAATTATTTTAAAAATTAAAATTAAAATTAAAAAAACTATTTT
1 AAAAA-TATTTT-AAAATT-AAA--AAAATTTAAAAAAGTATTTT
51438020 AAAAATATTTTAAAATTAAAAAAAATTT-AAAAAGTATTTT
1 AAAAATATTTTAAAATT-AAAAAAATTTAAAAAAGTATTTT
* * ** *
51438060 AAAAAAATTTCAAAATTTCAAAATTTTAATAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTAA-AAAAGTATTTT
*
51438101 AAAAGTATTTTAAAATTAAAAAA
1 AAAAATATTTTAAAATTAAAAAA
51438124 TAAAATAAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.08
40 27 0.30
41 35 0.39
43 10 0.11
44 6 0.07
45 5 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
Found at i:51447785 original size:7 final size:7
Alignment explanation
Indices: 51447762--51447813 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
51447752 GTTTCTATTA
51447762 TTATTTAT
1 TTATTT-T
*
51447770 TTA-TAT
1 TTATTTT
51447776 TTATTTT
1 TTATTTT
51447783 TTATAATTT
1 TTAT--TTT
51447792 TTACTTTT
1 TTA-TTTT
51447800 TTATTTT
1 TTATTTT
51447807 TTATTTT
1 TTATTTT
51447814 AAATATTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 4 0.11
7 18 0.47
8 9 0.24
9 6 0.16
10 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATTTT
Found at i:51447785 original size:17 final size:17
Alignment explanation
Indices: 51447759--51447805 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
51447749 TATGTTTCTA
*
51447759 TTATTATTTATTTATAT
1 TTATTTTTTATTTATAT
* *
51447776 TTATTTTTTA-TAATTT
1 TTATTTTTTATTTATAT
51447792 TTACTTTTTTATTT
1 TTA-TTTTTTATTT
51447806 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.29
17 16 0.67
18 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTTTATTTATAT
Found at i:51449086 original size:42 final size:42
Alignment explanation
Indices: 51449040--51449195 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
51449030 CACTGAACAG
* *
51449040 AAGCTCATGAGAGTTAAACAGAAACCCATAAGGGTTGAACGA
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACGA
* *
51449082 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAACAA
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACGA
* ** * ** * *
51449124 AATCTTGTAAGAGCTTAACAGAAACAAATAAAGGTTAAAC-A
1 AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACGA
* * * *
51449165 GAAGCTCAAAAGAGCTGAACGGAAACTCATA
1 -AAGCTCATAAGAGCTAAACAGAAACCCATA
51449196 TGAGTTAAAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 92 0.99
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.17
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACGA
Found at i:51449090 original size:21 final size:21
Alignment explanation
Indices: 51449033--51449209 Score: 92
Period size: 21 Copynumber: 8.4 Consensus size: 21
51449023 GCACGAACAC
* * *
51449033 TGAACAGAAGCTCATGAGAGT
1 TGAACAGAAACCCATAAGAGT
* *
51449054 TAAACAGAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGAGT
* *
51449075 TGAAC-GAAAGCTCATAAGAGC
1 TGAACAGAAA-CCCATAAGAGT
*
51449096 TGAACAGAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGAGT
***
51449117 TGAACA-AAATCTTGTAAGAGCT
1 TGAACAGAAA-CCCATAAGAG-T
**
51449139 T-AACAGAAACAAATAA-AGGT
1 TGAACAGAAACCCATAAGA-GT
* * * * *
51449159 TAAACAGAAGCTCAAAAGAGC
1 TGAACAGAAACCCATAAGAGT
* * *
51449180 TGAACGGAAACTCATATGAGT
1 TGAACAGAAACCCATAAGAGT
*
51449201 TAAACAGAA
1 TGAACAGAA
51449210 GCTTGTGAGA
Statistics
Matches: 116, Mismatches: 32, Indels: 16
0.71 0.20 0.10
Matches are distributed among these distances:
20 10 0.09
21 96 0.83
22 10 0.09
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
TGAACAGAAACCCATAAGAGT
Found at i:51449170 original size:84 final size:84
Alignment explanation
Indices: 51449049--51449231 Score: 206
Period size: 84 Copynumber: 2.2 Consensus size: 84
51449039 GAAGCTCATG
* ** * * *
51449049 AGAGTTAAACAGAAACCCATAAGGGTTGAACGAAAGCTCATAAGAGCTGAACAGAAACCCATAAG
1 AGAGCTAAACAGAAACAAATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACAGAAACCCATAAG
* * *
51449114 GGTTGAACAAAATCTTGTA
66 AGTTAAACAAAAGCTTGTA
* * * *
51449133 AGAGCTTAACAGAAACAAATAAAGGTTAAAC-AGAAGCTCAAAAGAGCTGAACGGAAACTCATAT
1 AGAGCTAAACAGAAACAAATAAAGGTTAAACGA-AAGCTCAAAAGAGCTGAACAGAAACCCATAA
* *
51449197 GAGTTAAACAGAAGCTTGTG
65 GAGTTAAACAAAAGCTTGTA
*
51449217 AGAGCTAAACGGAAA
1 AGAGCTAAACAGAAA
51449232 ATAAACACTA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
83 1 0.01
84 80 0.99
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (84 bp):
AGAGCTAAACAGAAACAAATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACAGAAACCCATAAG
AGTTAAACAAAAGCTTGTA
Found at i:51451768 original size:16 final size:16
Alignment explanation
Indices: 51451738--51451767 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51451728 TTAATTAACT
51451738 AACAAACTCAAAAAAG
1 AACAAACTCAAAAAAG
51451754 AACAAA-TCAAAAAA
1 AACAAACTCAAAAAA
51451768 ATAATCGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.17, G:0.03, T:0.07
Consensus pattern (16 bp):
AACAAACTCAAAAAAG
Found at i:51451930 original size:17 final size:17
Alignment explanation
Indices: 51451908--51451941 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51451898 TGCTAATATC
51451908 TCTTTCAAGCATAAGAG
1 TCTTTCAAGCATAAGAG
* *
51451925 TCTTTCGAGCATTAGAG
1 TCTTTCAAGCATAAGAG
51451942 CAATTGACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (17 bp):
TCTTTCAAGCATAAGAG
Found at i:51452656 original size:25 final size:27
Alignment explanation
Indices: 51452622--51452672 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
51452612 ATATTATTAA
51452622 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
51452647 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
51452673 ACATTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:51453614 original size:43 final size:43
Alignment explanation
Indices: 51453553--51453682 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
51453543 CATAGGATTT
*
51453553 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
51453596 TCGATTTGTGTTTACGTGTAAGACC-CTTTCTGGGACAG-CGACA
1 TCGATATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * * *
51453639 TCGATCTGAGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
51453682 T
1 T
51453683 TGTATGAGCT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.03
43 67 0.94
44 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:51458083 original size:19 final size:19
Alignment explanation
Indices: 51458048--51458102 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
51458038 CTTTACTTTA
* *
51458048 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
51458066 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
51458085 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
51458103 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:51458339 original size:3 final size:3
Alignment explanation
Indices: 51458326--51458380 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
51458316 AATTTATTCC
51458326 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51458373 ATA ATA AT
1 ATA ATA AT
51458381 TGCAACAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:51458553 original size:24 final size:23
Alignment explanation
Indices: 51458522--51458585 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
51458512 GCATATTTTG
51458522 ATTT-ATTTAATAATAT-AATATC
1 ATTTAATTTAATAATATAAAT-TC
*
51458544 ATTATAATTTAATTATCATAAATTC
1 ATT-TAATTTAATAAT-ATAAATTC
*
51458569 ATTTAATATAA-AATATA
1 ATTTAATTTAATAATATA
51458586 TTTAAATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 6 0.17
23 3 0.09
24 16 0.46
25 7 0.20
26 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTAATTTAATAATATAAATTC
Found at i:51458589 original size:35 final size:33
Alignment explanation
Indices: 51458550--51458614 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
51458540 TATCATTATA
* *
51458550 ATTTAATTATCATAAATTCATTTAATATAAAATAT
1 ATTTAAATATCATAAATT-ATATAAT-TAAAATAT
*
51458585 ATTTAAATATCATTAATTATATAATTAAAA
1 ATTTAAATATCATAAATTATATAATTAAAA
51458615 AGCCTCAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 5 0.19
34 6 0.22
35 16 0.59
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (33 bp):
ATTTAAATATCATAAATTATATAATTAAAATAT
Found at i:51459936 original size:17 final size:18
Alignment explanation
Indices: 51459899--51459939 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
51459889 CTATTTCCAA
*
51459899 AAATAAATATTATTTATT
1 AAATAAATATTATTAATT
*
51459917 AAATTAATATT-TTAATT
1 AAATAAATATTATTAATT
51459934 AAATAA
1 AAATAA
51459940 TTTTCTCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAATATTATTAATT
Found at i:51460927 original size:23 final size:23
Alignment explanation
Indices: 51460908--51460975 Score: 127
Period size: 23 Copynumber: 2.9 Consensus size: 23
51460898 GTATTGTTAG
51460908 TCCAGTCAGTCACATCTTGTCAA
1 TCCAGTCAGTCACATCTTGTCAA
51460931 TCCAGTCAGTCACATCTTGTCAA
1 TCCAGTCAGTCACATCTTGTCAA
51460954 TCCAGTCAGTCACATCTATGTC
1 TCCAGTCAGTCACATCT-TGTC
51460976 TCTATCTTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 40 0.91
24 4 0.09
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (23 bp):
TCCAGTCAGTCACATCTTGTCAA
Found at i:51467443 original size:27 final size:26
Alignment explanation
Indices: 51467389--51467447 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
51467379 AAAAATAACC
51467389 AAAATATTATAATTTTTTTATTTACA
1 AAAATATTATAATTTTTTTATTTACA
*
51467415 AAAATATTATAATTTTTTTATTTACC
1 AAAATATTATAATTTTTTTATTTACA
51467441 AAAATAT
1 AAAATAT
51467448 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (26 bp):
AAAATATTATAATTTTTTTATTTACA
Found at i:51467572 original size:27 final size:27
Alignment explanation
Indices: 51467499--51467556 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
51467489 CCTTGGTCAG
51467499 GCCAAAGCCATTGGCGGCACCAAAGGT
1 GCCAAAGCCATTGGCGGCACCAAAGGT
*
51467526 GCCAAAGCCATTGGCGGCACCAATGGT
1 GCCAAAGCCATTGGCGGCACCAAAGGT
51467553 GCCA
1 GCCA
51467557 TACTGATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.31, G:0.29, T:0.12
Consensus pattern (27 bp):
GCCAAAGCCATTGGCGGCACCAAAGGT
Found at i:51467635 original size:3 final size:3
Alignment explanation
Indices: 51467621--51467653 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
51467611 GAGAAAAATC
*
51467621 AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
51467654 GGTGCTGCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:51467831 original size:3 final size:3
Alignment explanation
Indices: 51467823--51467874 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
51467813 TTTTAGTTAG
51467823 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51467871 TAT T
1 TAT T
51467875 GCTGTTGCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51467889 original size:3 final size:3
Alignment explanation
Indices: 51467877--51467910 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
51467867 TTATTATTGC
*
51467877 TGT TGC TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
51467911 AGTATTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.32, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:51468726 original size:18 final size:18
Alignment explanation
Indices: 51468696--51468740 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
51468686 TTGATATGGT
*
51468696 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
*
51468714 TGTTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
51468732 TGGTGGCGA
1 TGGTGGCGA
51468741 TCATTGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.49, T:0.18
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:51473771 original size:10 final size:10
Alignment explanation
Indices: 51473758--51473784 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
51473748 TTTTAAAATA
51473758 TTTTTTTTAT
1 TTTTTTTTAT
51473768 TTTTTTTTAT
1 TTTTTTTTAT
51473778 TTTTTTT
1 TTTTTTT
51473785 GTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:51474471 original size:24 final size:26
Alignment explanation
Indices: 51474444--51474605 Score: 81
Period size: 24 Copynumber: 6.3 Consensus size: 26
51474434 TTTTCTTTTC
51474444 TTTTTTCCTTTCTTC-CCTCTTCTTT
1 TTTTTTCCTTTCTTCTCCTCTTCTTT
* *
51474469 TTTTTTCC-CTCTTCTCCTTTTC-TT
1 TTTTTTCCTTTCTTCTCCTCTTCTTT
* * *
51474493 TTCTTTCC-TTCTTTTTCT-TTCGTTT
1 TTTTTTCCTTTCTTCTCCTCTTC-TTT
* * *
51474518 TTCTTCTCCTTTCATCTTCTTCTTCTTT
1 TT-TTTTCCTTTCTTC-TCCTCTTCTTT
* *
51474546 GTTTTTT-TTTCTCTTCTCCT-TTCATT
1 -TTTTTTCCTT-TCTTCTCCTCTTCTTT
* * *
51474572 TTCTTTCCTCTCCT-TCCT-TTCTTT
1 TTTTTTCCTTTCTTCTCCTCTTCTTT
51474596 CTTTCTTTCC
1 -TTT-TTTCC
51474606 CTCTCCTTCT
Statistics
Matches: 102, Mismatches: 23, Indels: 23
0.69 0.16 0.16
Matches are distributed among these distances:
23 3 0.03
24 30 0.29
25 28 0.27
26 15 0.15
27 9 0.09
28 12 0.12
29 5 0.05
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTTCCTTTCTTCTCCTCTTCTTT
Found at i:51474489 original size:17 final size:17
Alignment explanation
Indices: 51474449--51474489 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51474439 TTTTCTTTTT
*
51474449 TCCTTTCTTCCCTCTTC
1 TCCTTTTTTCCCTCTTC
**
51474466 TTTTTTTTTCCCTCTTC
1 TCCTTTTTTCCCTCTTC
51474483 TCCTTTT
1 TCCTTTT
51474490 CTTTTCTTTC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
TCCTTTTTTCCCTCTTC
Found at i:51474504 original size:38 final size:36
Alignment explanation
Indices: 51474430--51474580 Score: 101
Period size: 40 Copynumber: 3.9 Consensus size: 36
51474420 AAAAATTACC
* * * *
51474430 TTTTTTTTCTTTTCT-TTTTTCCTTTCTTCCCTCTTCT
1 TTTTTTTTCTCTTCTCCTTTTCTTTTCTT-TC-CTTCT
51474467 TTTTTTTTCCCTCTTCTCCTTTTCTTTTCTTTCCTTCTTT
1 TTTTTTTT--CTCTTCTCCTTTTCTTTTCTTTCCTTC--T
* * *
51474507 TTCTTTCGTTTTTCTTCTCCTTTCATCTTCTTC-TTCTTTGT
1 TT-TTT--TTTCTCTTCTCCTTT--TCTT-TTCTTTCCTTCT
51474548 TTTTTTTTCTCTTCTCC-TTTCATTTTCTTTCCT
1 TTTTTTTTCTCTTCTCCTTTTC-TTTTCTTTCCT
51474581 CTCCTTCCTT
Statistics
Matches: 92, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
35 5 0.05
36 6 0.07
37 10 0.11
38 15 0.16
39 7 0.08
40 17 0.18
41 17 0.18
43 12 0.13
44 3 0.03
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (36 bp):
TTTTTTTTCTCTTCTCCTTTTCTTTTCTTTCCTTCT
Found at i:51478861 original size:24 final size:24
Alignment explanation
Indices: 51478833--51478880 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51478823 CATATTGGCT
* *
51478833 AGGAGAATTAGATTAAATGAATTG
1 AGGAGAATCAAATTAAATGAATTG
* *
51478857 AGGAGAGTCAAATTGAATGAATTG
1 AGGAGAATCAAATTAAATGAATTG
51478881 GTATGTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (24 bp):
AGGAGAATCAAATTAAATGAATTG
Found at i:51479192 original size:42 final size:42
Alignment explanation
Indices: 51479097--51479193 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
51479087 GTTATCACCT
*
51479097 GGTTTAAGACATGGCCGTGTGTATCAAGTCAGAGAGTTACAC
1 GGTTTAAGACACGGCCGTGTGTATCAAGTCAGAGAGTTACAC
* * *
51479139 GAG-TTATGACACGGTCGTGTG-ATCTAAGTCAGTGAGTTACAC
1 G-GTTTAAGACACGGCCGTGTGTATC-AAGTCAGAGAGTTACAC
51479181 GGTTTAAGACACG
1 GGTTTAAGACACG
51479194 AGCTGGGACA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.09
42 42 0.89
43 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (42 bp):
GGTTTAAGACACGGCCGTGTGTATCAAGTCAGAGAGTTACAC
Found at i:51486308 original size:30 final size:30
Alignment explanation
Indices: 51486274--51486333 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
51486264 TTACTCATGT
51486274 TGTTTATTTTCTCTCCCTAATGTTGGGAAA
1 TGTTTATTTTCTCTCCCTAATGTTGGGAAA
51486304 TGTTTATTTTCTCTCCCTAATGTTGGGAAA
1 TGTTTATTTTCTCTCCCTAATGTTGGGAAA
51486334 ATTATTAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.47
Consensus pattern (30 bp):
TGTTTATTTTCTCTCCCTAATGTTGGGAAA
Found at i:51493748 original size:78 final size:78
Alignment explanation
Indices: 51493620--51493777 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
51493610 TAGGACATTC
* *
51493620 AATATGTAACTTTTTAAAGATTTCAATCTGTAATTTTAAATAACAATCTTAAGGATGTCAAGGCT
1 AATATGTAACTTTTTAAAGATTTCAATCTATAATTTTAAATAACAATCTTAAGGATATCAAGGCT
51493685 CGAGCTCAAC-AA
66 CGAGCTCAACTAA
*
51493697 AATATGTAACTTCTTTAAAGATTTCAATCTATAATTTTAGATAACAATCTTAAGGATATCAAGGC
1 AATATGTAACTT-TTTAAAGATTTCAATCTATAATTTTAAATAACAATCTTAAGGATATCAAGGC
*
51493762 TCGAGCTTAACTAA
65 TCGAGCTCAACTAA
51493776 AA
1 AA
51493778 GTGCAAGCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 12 0.16
78 59 0.79
79 4 0.05
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (78 bp):
AATATGTAACTTTTTAAAGATTTCAATCTATAATTTTAAATAACAATCTTAAGGATATCAAGGCT
CGAGCTCAACTAA
Found at i:51498767 original size:46 final size:46
Alignment explanation
Indices: 51498717--51498855 Score: 260
Period size: 46 Copynumber: 3.0 Consensus size: 46
51498707 AGACAAACTT
*
51498717 TAACTCAAGTAGGCTATGAATAAATGGAAATTTGAATCCAACACAA
1 TAACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
51498763 TAACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
1 TAACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
*
51498809 TCACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
1 TAACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
51498855 T
1 T
51498856 TTGACATTAG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (46 bp):
TAACTCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAA
Found at i:51502078 original size:19 final size:20
Alignment explanation
Indices: 51502054--51502092 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51502044 AAATTATTTT
51502054 TATTA-TATTTGTTAA-AAAA
1 TATTATTATTT-TTAATAAAA
51502073 TATTATTATTTTTAATAAAA
1 TATTATTATTTTTAATAAAA
51502093 AAATTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TATTATTATTTTTAATAAAA
Found at i:51506115 original size:1 final size:1
Alignment explanation
Indices: 51506109--51506133 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
51506099 CCCTAAAAGC
51506109 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
51506134 CATATTCTAA
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:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:51506532 original size:52 final size:52
Alignment explanation
Indices: 51506454--51506563 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
51506444 GTTAAGTAAT
51506454 TTTGTTGACAGAATTCTCAGTCTCTTTCTCTCTAATTCTCTCCATCTCTCTC
1 TTTGTTGACAGAATTCTCAGTCTCTTTCTCTCTAATTCTCTCCATCTCTCTC
*
51506506 TTTGTTGACAGAATTCTCAGTCTCTTTCTCTCTAATTCTCTCTATCTCTCTC
1 TTTGTTGACAGAATTCTCAGTCTCTTTCTCTCTAATTCTCTCCATCTCTCTC
51506558 TTTGTT
1 TTTGTT
51506564 TCTTCTACAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.15, C:0.28, G:0.08, T:0.49
Consensus pattern (52 bp):
TTTGTTGACAGAATTCTCAGTCTCTTTCTCTCTAATTCTCTCCATCTCTCTC
Found at i:51534117 original size:17 final size:17
Alignment explanation
Indices: 51534095--51534128 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51534085 GCAATTAAAA
51534095 AAATTAGAAATTAAATT
1 AAATTAGAAATTAAATT
*
51534112 AAATTATAAATTAAATT
1 AAATTAGAAATTAAATT
51534129 CGAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTAGAAATTAAATT
Found at i:51539585 original size:29 final size:29
Alignment explanation
Indices: 51539514--51539587 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
51539504 TTGACACGAT
* *
51539514 TCTCAATGAACAAATTCTTCATCGCGAAC
1 TCTCAACGAACAAGTTCTTCATCGCGAAC
51539543 TCTCAACGAACAAGTTCTTCATCGCGAAC
1 TCTCAACGAACAAGTTCTTCATCGCGAAC
51539572 TCTCAACGAACAAGTT
1 TCTCAACGAACAAGTT
51539588 TTCCACCTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (29 bp):
TCTCAACGAACAAGTTCTTCATCGCGAAC
Found at i:51546203 original size:41 final size:39
Alignment explanation
Indices: 51546153--51546244 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
51546143 AGCGGCATTT
* *
51546153 TTAGTGGCGTTTGGACA-AAAAACGCCGCTAAAAATCGAGCA
1 TTAGCGGCGTTT-GA-AGAAAAACACCGCTAAAAAT-GAGCA
* * * *
51546194 TTAGCGGCGTTTTAAGGAAAGCACCGCTAAAAATGAGTA
1 TTAGCGGCGTTTGAAGAAAAACACCGCTAAAAATGAGCA
51546233 TTAGCGGCGTTT
1 TTAGCGGCGTTT
51546245 TATGAAATGC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 17 0.39
40 16 0.36
41 11 0.25
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGTTTGAAGAAAAACACCGCTAAAAATGAGCA
Found at i:51546265 original size:39 final size:40
Alignment explanation
Indices: 51546175--51546265 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 40
51546165 GGACAAAAAA
51546175 CGCCGCTAAAAATCGAGCATTAGCGGCGTTTTAAGGAAAG
1 CGCCGCTAAAAATCGAGCATTAGCGGCGTTTTAAGGAAAG
* * *
51546215 CACCGCTAAAAAT-GAGTATTAGCGGCGTTTT-ATGAAATG
1 CGCCGCTAAAAATCGAGCATTAGCGGCGTTTTAAGGAAA-G
*
51546254 CGCCGCAAAAAA
1 CGCCGCTAAAAA
51546266 CCTAAGCCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 5 0.11
39 28 0.62
40 12 0.27
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
CGCCGCTAAAAATCGAGCATTAGCGGCGTTTTAAGGAAAG
Found at i:51546353 original size:41 final size:41
Alignment explanation
Indices: 51546296--51546486 Score: 303
Period size: 41 Copynumber: 4.7 Consensus size: 41
51546286 GACCTTTCGG
* *
51546296 GGCTTTAGCGGCGTTTTTGAGATAGCGCCGCTAATGCTCCT
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAT
*
51546337 GGCTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAT
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAT
* *
51546378 GGCTTTAGCGGCGTTTTTGAGAAAGCGACGCTAATACTCAT
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAT
*
51546419 GGCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGCTCAT
*
51546460 GGCTTTAGCGGCGTTTTTGAAAAAGCG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCG
51546487 ACGCAAAAAC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 137 0.99
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAT
Found at i:51546797 original size:14 final size:14
Alignment explanation
Indices: 51546778--51546806 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51546768 ATATATATTG
51546778 TTAGGGTATATGGT
1 TTAGGGTATATGGT
51546792 TTAGGGTATATGGT
1 TTAGGGTATATGGT
51546806 T
1 T
51546807 AATTTAAGAT
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:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (14 bp):
TTAGGGTATATGGT
Found at i:51548014 original size:23 final size:21
Alignment explanation
Indices: 51547972--51548014 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51547962 CCCTTCCCTC
*
51547972 CAAAACCCAAATTCCTTCAAG
1 CAAAACCCAAACTCCTTCAAG
51547993 CAAAACCCAAACCCTCCTTCAA
1 CAAAACCCAAA--CTCCTTCAA
51548015 ATTATCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (21 bp):
CAAAACCCAAACTCCTTCAAG
Found at i:51548949 original size:46 final size:46
Alignment explanation
Indices: 51548898--51548988 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
51548888 TTCATATTTT
*
51548898 CTTTATTTATTTTTTTTTCTCATTTATATCAGTAGCTTAGTAAATA
1 CTTTATTTATTTTGTTTTCTCATTTATATCAGTAGCTTAGTAAATA
51548944 CTTTATTTATTTTGTTTTCTCATTTATATCAGTAGCTTAGTAAAT
1 CTTTATTTATTTTGTTTTCTCATTTATATCAGTAGCTTAGTAAAT
51548989 TAGCGAGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (46 bp):
CTTTATTTATTTTGTTTTCTCATTTATATCAGTAGCTTAGTAAATA
Found at i:51552376 original size:43 final size:42
Alignment explanation
Indices: 51552328--51552487 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
51552318 ATAAGATATC
* *
51552328 GAGCTATAGCGGCGCTTGTGGGAAAAGCGCCACCAAAGCTCTT
1 GAGCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAG-TCTT
* *
51552371 GAGCTATAGCGGCGTTTCTGGGAAAAGCGCCGCTAAATGTCTT
1 GAGCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAA-GTCTT
* * *
51552414 GATCTATAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCAAT
1 GAGCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAA-GTC-TT
* * **
51552458 G-TCTTTAGCGGCGTTTGTTAGAAAAGCGCC
1 GAGCTATAGCGGCGTTTGTGGGAAAAGCGCC
51552488 GTTAAAGTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 98 0.97
44 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (42 bp):
GAGCTATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGTCTT
Found at i:51552482 original size:86 final size:86
Alignment explanation
Indices: 51552331--51552493 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 86
51552321 AGATATCGAG
* * *
51552331 CTATAGCGGCGCTTGTGGGAAAAGCGCCACCAAAGCTCTTGAGCTATAGCGGCGTTTCTGGGAAA
1 CTATAGCGGCGCTTGTGGAAAAAGCGCCACCAAAGCTCATGAGCTATAGCGGCGTTTCTGAGAAA
51552396 AGCGCCGCTAAATGTCTTGAT
66 AGCGCCGCTAAATGTCTTGAT
* * * * * * *
51552417 CTATAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCAATG-TCTTTAGCGGCGTTTGTTAGAA
1 CTATAGCGGCGCTTGTGGAAAAAGCGCCACCAAAGCTC-ATGAGCTATAGCGGCGTTTCTGAGAA
*
51552481 AAGCGCCGTTAAA
65 AAGCGCCGCTAAA
51552494 GTTAGCGACG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 63 0.97
87 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (86 bp):
CTATAGCGGCGCTTGTGGAAAAAGCGCCACCAAAGCTCATGAGCTATAGCGGCGTTTCTGAGAAA
AGCGCCGCTAAATGTCTTGAT
Found at i:51556539 original size:35 final size:35
Alignment explanation
Indices: 51556493--51556563 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
51556483 AAAAATATAT
* *
51556493 ATTTTGGTTAACTTGATTTGCAAGTAATCTCTTAG
1 ATTTTGGTTAACTTGACTTGCAAGTAATATCTTAG
*
51556528 ATTTTGTTTAACTTGACTTGCAAGTAATATCTTAG
1 ATTTTGGTTAACTTGACTTGCAAGTAATATCTTAG
51556563 A
1 A
51556564 ATTTAGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (35 bp):
ATTTTGGTTAACTTGACTTGCAAGTAATATCTTAG
Found at i:51560843 original size:39 final size:41
Alignment explanation
Indices: 51560770--51560861 Score: 134
Period size: 39 Copynumber: 2.3 Consensus size: 41
51560760 TAAAAAGTAT
* * * *
51560770 TTATATTAAAAAACACTACCATAAATATAATAAATGTTTTG
1 TTATATTAAACAACACTACAATAAATATAATAAATATTTTA
51560811 TTATATTAAACAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAACAACACTACAATAAATATAATAAATATTTTA
51560850 TTATATTAAACA
1 TTATATTAAACA
51560862 TAATTTTTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
39 31 0.66
40 1 0.02
41 15 0.32
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (41 bp):
TTATATTAAACAACACTACAATAAATATAATAAATATTTTA
Found at i:51561507 original size:11 final size:11
Alignment explanation
Indices: 51561491--51561520 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51561481 CTTTCATACT
51561491 TTTTTTTATAA
1 TTTTTTTATAA
*
51561502 TTTTTTTATGA
1 TTTTTTTATAA
51561513 TTTTTTTA
1 TTTTTTTA
51561521 ATATATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:51569818 original size:34 final size:34
Alignment explanation
Indices: 51569774--51569838 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
51569764 TCTTGTAAAA
* *
51569774 TACTCGTTCTCGCATGCTTCCACTAATTAATCAT
1 TACTCATTCTCGCACGCTTCCACTAATTAATCAT
51569808 TACTCATTCTCGCACGCTTCCACTAATTAAT
1 TACTCATTCTCGCACGCTTCCACTAATTAAT
51569839 ATGAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.37
Consensus pattern (34 bp):
TACTCATTCTCGCACGCTTCCACTAATTAATCAT
Found at i:51574101 original size:31 final size:31
Alignment explanation
Indices: 51574066--51574128 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
51574056 TTAACGGCCT
*
51574066 AGTGATTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
* * *
51574097 AGTGACTTCAATGAGAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
51574128 A
1 A
51574129 CTAATCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTC
Found at i:51576901 original size:5 final size:5
Alignment explanation
Indices: 51576882--51576930 Score: 75
Period size: 5 Copynumber: 10.0 Consensus size: 5
51576872 TCATCTTCTC
51576882 TATCA TCAT-A TATCA TATCA TATCA TATCA TATCA TATCA TA-CA TATCA
1 TATCA T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
51576931 AAAGTAGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.15
5 33 0.80
6 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
TATCA
Found at i:51582659 original size:30 final size:30
Alignment explanation
Indices: 51582623--51582871 Score: 309
Period size: 30 Copynumber: 8.2 Consensus size: 30
51582613 GTATATGTTT
*
51582623 TATATATTGCTGAATTGATTTGTATATGGATA
1 TATATATTGCCGAATTGATTTGTATATGG--A
* * * *
51582655 TATATATTACCGAATTAATTTATATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
51582685 TATATATAGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
51582715 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* *
51582745 TATACATTGCTGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* **
51582775 TATACATTGCTAAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* *
51582805 TATACATTGCCGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
** * *
51582835 TATATATTATCGAAATGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
51582865 TACATAT
1 TATATAT
51582872 ATATTACCAA
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
30 171 0.88
32 24 0.12
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:51590258 original size:20 final size:20
Alignment explanation
Indices: 51590221--51590259 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51590211 TAAAGATTTG
***
51590221 ATTAAATTAATTTTTTTAAC
1 ATTAAATTAATCAATTTAAC
51590241 ATTAAATTAATCAATTTAA
1 ATTAAATTAATCAATTTAA
51590260 TTTCAATACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAATTAATCAATTTAAC
Found at i:51591285 original size:13 final size:13
Alignment explanation
Indices: 51591269--51591334 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
51591259 TTTAAACTAA
51591269 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
51591282 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
51591295 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* * *
51591308 ACTTTTCCACACC
1 ACTTTTCAAAAGC
51591321 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
51591334 A
1 A
51591335 ATAAAGAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:51595676 original size:13 final size:13
Alignment explanation
Indices: 51595658--51595696 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
51595648 ATCTAAGTAT
51595658 AAGAAAAATAAAA
1 AAGAAAAATAAAA
*
51595671 AAGAAAAAGAAAA
1 AAGAAAAATAAAA
*
51595684 CAGATAAAATAAA
1 AAGA-AAAATAAA
51595697 TAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (13 bp):
AAGAAAAATAAAA
Found at i:51605795 original size:19 final size:19
Alignment explanation
Indices: 51605757--51605805 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
51605747 TATGGTTTAG
51605757 AAAATTT-TAAAAATATAT
1 AAAATTTCTAAAAATATAT
51605775 AAAATTTCTAATAAA-ATAT
1 AAAATTTCTAA-AAATATAT
51605794 AAAATTTC-AAAA
1 AAAATTTCTAAAA
51605806 GAAAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.07
18 9 0.31
19 15 0.52
20 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTCTAAAAATATAT
Done.