Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 107 of 202
Found at i:32753396 original size:27 final size:26
Alignment explanation
Indices: 32753344--32753400 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
32753334 ATTTAATAAC
32753344 ACTTATTAATTACTTAACCAGTATTTA
1 ACTTATTAATTACTTAACCAG-ATTTA
*
32753371 ACTTAATTAATTAGCTTAACTA-ATTTA
1 ACTT-ATTAATTA-CTTAACCAGATTTA
32753398 ACT
1 ACT
32753401 AACAACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 12 0.44
28 8 0.30
29 7 0.26
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.44
Consensus pattern (26 bp):
ACTTATTAATTACTTAACCAGATTTA
Found at i:32756299 original size:20 final size:20
Alignment explanation
Indices: 32756274--32756320 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32756264 AGCTCGTTTC
*
32756274 CAGCTCAGTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
32756294 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
32756314 CAGCTCA
1 CAGCTCA
32756321 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:32759170 original size:27 final size:27
Alignment explanation
Indices: 32759113--32759174 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
32759103 TCAAAATTCA
**
32759113 AAAAAAAAAAGAAAAAAAGAAGTGAGC
1 AAAAAAAAAAGAAAAAAAGAAAAGAGC
**
32759140 AAAAAAAAAAGAGTAAAAGAAAAGAAG-
1 AAAAAAAAAAGAAAAAAAGAAAAG-AGC
32759167 AAAAAAAA
1 AAAAAAAA
32759175 GAAGTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAAGAAAAAAAGAAAAGAGC
Found at i:32759183 original size:14 final size:14
Alignment explanation
Indices: 32759124--32759184 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 14
32759114 AAAAAAAAAG
32759124 AAAAAAAGAAGTGA
1 AAAAAAAGAAGTGA
* *
32759138 GCAAAAAAAAAAGAGTA
1 --AAAAAAAGAAGTG-A
32759155 AAAGAAAAGAA--GA
1 AAA-AAAAGAAGTGA
32759168 AAAAAAAGAAGTGA
1 AAAAAAAGAAGTGA
32759182 AAA
1 AAA
32759185 GTCTTGCGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
12 7 0.18
13 4 0.11
14 6 0.16
15 3 0.08
16 17 0.45
17 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAAGTGA
Found at i:32759184 original size:13 final size:13
Alignment explanation
Indices: 32759142--32759184 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
32759132 AAGTGAGCAA
32759142 AAAAAAAAG-AGT
1 AAAAAAAAGAAGT
32759154 AAAAGAAAAGAAG-
1 AAAA-AAAAGAAGT
32759167 AAAAAAAAGAAGT
1 AAAAAAAAGAAGT
32759180 GAAAA
1 -AAAA
32759185 GTCTTGCGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.44
13 9 0.33
14 6 0.22
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (13 bp):
AAAAAAAAGAAGT
Found at i:32760245 original size:15 final size:14
Alignment explanation
Indices: 32760224--32760266 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
32760214 AAGAATAAAG
32760224 AAAATGAAAATGAA
1 AAAATGAAAATGAA
*
32760238 ACAAATGAAAAAGAA
1 A-AAATGAAAATGAA
32760253 AAATATGAAAATGA
1 AAA-ATGAAAATGA
32760267 GATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAATGAAAATGAA
Found at i:32760313 original size:12 final size:12
Alignment explanation
Indices: 32760296--32760371 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
32760286 AGTGAAAAGC
32760296 AAAAAGAGATTG
1 AAAAAGAGATTG
*
32760308 AAAAAGAAATT-
1 AAAAAGAGATTG
*
32760319 -AAAAGAGA-AG
1 AAAAAGAGATTG
*
32760329 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
32760344 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
32760356 AAAGAGAGCTTG
1 AAAAAGAGATTG
32760368 AAAA
1 AAAA
32760372 GAAATCGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
10 7 0.15
11 5 0.10
12 24 0.50
13 5 0.10
15 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.24, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:32760333 original size:21 final size:22
Alignment explanation
Indices: 32760297--32760337 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32760287 GTGAAAAGCA
*
32760297 AAAAGAGATTGAAAAAGAAATT
1 AAAAGAGATAGAAAAAGAAATT
32760319 AAAAGAGA-AGAAAAAGAAA
1 AAAAGAGATAGAAAAAGAAA
32760338 GAGTGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.10
Consensus pattern (22 bp):
AAAAGAGATAGAAAAAGAAATT
Found at i:32761903 original size:8 final size:7
Alignment explanation
Indices: 32761891--32761932 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
32761881 ATATCTAACT
*
32761891 TAAAAAC
1 TAAAAAA
32761898 TAAAAAA
1 TAAAAAA
32761905 TAAAAAA
1 TAAAAAA
32761912 -ATAAAAA
1 TA-AAAAA
32761919 TAAAAAAA
1 T-AAAAAA
32761927 TAAAAA
1 TAAAAA
32761933 TCATTAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
6 1 0.03
7 23 0.74
8 6 0.19
9 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:32761910 original size:14 final size:14
Alignment explanation
Indices: 32761900--32761933 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
32761890 TTAAAAACTA
32761900 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
32761914 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
32761928 AAAAAT
1 AAAAAT
32761934 CATTAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:32761916 original size:22 final size:22
Alignment explanation
Indices: 32761891--32761932 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
32761881 ATATCTAACT
32761891 TAAAAACT-AAAAAATAAAAAAA
1 TAAAAA-TAAAAAAATAAAAAAA
32761913 TAAAAATAAAAAAATAAAAA
1 TAAAAATAAAAAAATAAAAA
32761933 TCATTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (22 bp):
TAAAAATAAAAAAATAAAAAAA
Found at i:32765680 original size:21 final size:19
Alignment explanation
Indices: 32765637--32765681 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
32765627 GAGCTCAAAT
* *
32765637 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
32765656 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
32765677 GAGCT
1 GAGCT
32765682 CAATGAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:32765829 original size:10 final size:10
Alignment explanation
Indices: 32765815--32765872 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32765805 CAGCTCCGAC
32765815 CAGCTCAATT
1 CAGCTCAATT
* *
32765825 GAGCTCATTT
1 CAGCTCAATT
32765835 CAGCTCAA-T
1 CAGCTCAATT
32765844 CGAGCTCAATT
1 C-AGCTCAATT
*
32765855 TAGCTACAATT
1 CAGCT-CAATT
32765866 CAGCTCA
1 CAGCTCA
32765873 TTTAGTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32765838 original size:20 final size:20
Alignment explanation
Indices: 32765815--32765875 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32765805 CAGCTCCGAC
32765815 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32765835 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32765856 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32765876 AGTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32767743 original size:20 final size:20
Alignment explanation
Indices: 32767718--32767764 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32767708 AGCTCGTTTC
*
32767718 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
32767738 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
32767758 CAGCTCA
1 CAGCTCA
32767765 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:32770499 original size:30 final size:30
Alignment explanation
Indices: 32770464--32770527 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
32770454 AGCTTGATTT
32770464 AGCTCACA-TGAGCTTAATTTAGCTCGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* * *
32770494 AGCTCAATTTAGCTTACTTTAGCTTGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
32770524 AGCT
1 AGCT
32770528 TGGCTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:32777045 original size:23 final size:23
Alignment explanation
Indices: 32777013--32777123 Score: 116
Period size: 23 Copynumber: 4.9 Consensus size: 23
32777003 CTTTTTGAAC
* *
32777013 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
32777036 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
32777059 CCTTACCAATTC-TACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
32777081 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
32777104 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
32777124 CCCAAAACCG
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
22 16 0.24
23 52 0.76
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:32777090 original size:45 final size:45
Alignment explanation
Indices: 32777026--32777111 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
32777016 TAACATTTCG
*
32777026 TACCAAATCGTATTACCATTTCGAACCAAATCACCTTACCAATTC
1 TACCAAATCGTATTACCATTTCGAACCAAATCACATTACCAATTC
*
32777071 TACCAAATCGTATTACCATTTTGAACCAAATCACATTACCA
1 TACCAAATCGTATTACCATTTCGAACCAAATCACATTACCA
32777112 TTTCGTAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (45 bp):
TACCAAATCGTATTACCATTTCGAACCAAATCACATTACCAATTC
Found at i:32785183 original size:4 final size:4
Alignment explanation
Indices: 32785174--32785198 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32785164 TAAAGTTTTA
32785174 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
32785199 CACTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:32786786 original size:22 final size:22
Alignment explanation
Indices: 32786758--32786826 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
32786748 TGAGTGATTA
32786758 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
32786780 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
** *
32786802 ATGTTTCACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
32786824 ATG
1 ATG
32786827 TTTGAACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGGCTAACGTACTAAGCTCTC
Found at i:32796999 original size:25 final size:25
Alignment explanation
Indices: 32796971--32797033 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
32796961 TGTAAATTCG
*
32796971 TAAGCTCATACGAGCTGA-GAATCGA
1 TAAGCTCATACGAGCT-ACAAATCGA
* *
32796996 TAAGCTC-TCACGAGCTACAAATTGG
1 TAAGCTCAT-ACGAGCTACAAATCGA
32797021 TAAGCTCATACGA
1 TAAGCTCATACGA
32797034 TCTGTGGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACGAGCTACAAATCGA
Found at i:32797003 original size:50 final size:50
Alignment explanation
Indices: 32796924--32797033 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
32796914 GTACATGTAT
* * * **
32796924 GCTCATACGAGCTATGAATCGGTATGCTCTCAAGAGTTGTAAATTCGTAA
1 GCTCATACGAGCTATGAATCGATAAGCTCTCAAGAGCTACAAATTCGTAA
* *
32796974 GCTCATACGAGCTGA-GAATCGATAAGCTCTCACGAGCTACAAATTGGTAA
1 GCTCATACGAGCT-ATGAATCGATAAGCTCTCAAGAGCTACAAATTCGTAA
32797024 GCTCATACGA
1 GCTCATACGA
32797034 TCTGTGGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 51 0.98
51 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTATGAATCGATAAGCTCTCAAGAGCTACAAATTCGTAA
Found at i:32798317 original size:46 final size:46
Alignment explanation
Indices: 32798264--32798400 Score: 265
Period size: 46 Copynumber: 3.0 Consensus size: 46
32798254 ATAGGGTGTC
32798264 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
32798310 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
32798356 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGA
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGA
32798401 TGTCTTTTCA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:32798805 original size:16 final size:15
Alignment explanation
Indices: 32798784--32798822 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
32798774 ATCAAGTTGT
*
32798784 AAAAAAAATTTCGTG
1 AAAAAAAAATTCGTG
32798799 AAAAAAAAATTCGTG
1 AAAAAAAAATTCGTG
32798814 AAAGAAAAA
1 AAA-AAAAA
32798823 GTTAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.13, T:0.18
Consensus pattern (15 bp):
AAAAAAAAATTCGTG
Found at i:32800285 original size:29 final size:29
Alignment explanation
Indices: 32800251--32800352 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
32800241 ATGTATTAGT
32800251 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACTTGAACTAA
32800280 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACTTGAACTAA
* *
32800309 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACTTGAACTAA
32800338 TTAGGACATATTTAA
1 TTAGGACATATTTAA
32800353 TAATATCTAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACTTGAACTAA
Found at i:32805796 original size:17 final size:16
Alignment explanation
Indices: 32805771--32805813 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
32805761 AGACCGTATA
32805771 CAATTTTTTTTCTTTT
1 CAATTTTTTTTCTTTT
32805787 CAATTTTTTTTCTTTT
1 CAATTTTTTTTCTTTT
32805803 CAATTTTTTTT
1 CAATTTTTTTT
32805814 GATTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (16 bp):
CAATTTTTTTTCTTTT
Found at i:32805813 original size:11 final size:11
Alignment explanation
Indices: 32805794--32805849 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
32805784 TTTCAATTTT
32805794 TTTTCTTTTCAA
1 TTTT-TTTTCAA
*
32805806 TTTTTTTT-GA
1 TTTTTTTTCAA
*
32805816 TTTTTTTTCGAT
1 TTTTTTTTC-AA
32805828 TTTTTTTTCAAA
1 TTTTTTTTC-AA
32805840 TTTTTTTTCA
1 TTTTTTTTCA
32805850 GAAATCTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 9 0.24
11 5 0.14
12 23 0.62
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:32805823 original size:21 final size:22
Alignment explanation
Indices: 32805794--32805834 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32805784 TTTCAATTTT
32805794 TTTTCTTTTCAATTTTTTTTGA
1 TTTTCTTTTCAATTTTTTTTGA
*
32805816 TTTT-TTTTCGATTTTTTTT
1 TTTTCTTTTCAATTTTTTTT
32805835 TCAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTCAATTTTTTTTGA
Found at i:32808616 original size:29 final size:29
Alignment explanation
Indices: 32808562--32808633 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
32808552 ATGTATTAGT
* *
32808562 TTAGGACATA-TTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
32808590 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
32808619 TTAGGACATATTTAA
1 TTAGGACATATTTAA
32808634 TAATATCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 10 0.24
29 31 0.76
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:32830238 original size:46 final size:46
Alignment explanation
Indices: 32830187--32830280 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
32830177 ATAGTGTGGC
32830187 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
* *
32830233 GTTCATCATATACTAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
32830279 GT
1 GT
32830281 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:32832345 original size:20 final size:20
Alignment explanation
Indices: 32832306--32832346 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32832296 ATTTTGTTTA
*
32832306 TAATTTAAGAAAAACATAAT
1 TAATTTAAGAAAAAAATAAT
32832326 TAATTT-AGAAAAAAATTAAT
1 TAATTTAAGAAAAAAA-TAAT
32832346 T
1 T
32832347 TATCAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
TAATTTAAGAAAAAAATAAT
Found at i:32836654 original size:22 final size:22
Alignment explanation
Indices: 32836621--32836700 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
32836611 TGTCTGGACG
**
32836621 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAAAC
* * *
32836643 ATGAGGGTTTAGTTCGTTAAAC
1 ATGAGAGCTTAGTACGTTAAAC
32836665 ATGAGAGCTTAGTACGTTAAAC
1 ATGAGAGCTTAGTACGTTAAAC
32836687 ATGAGAGCTTAGTA
1 ATGAGAGCTTAGTA
32836701 ATTTAAAGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (22 bp):
ATGAGAGCTTAGTACGTTAAAC
Found at i:32837200 original size:30 final size:32
Alignment explanation
Indices: 32837145--32837214 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
32837135 AAATGTTCCC
* *
32837145 TTCACACACTAAGGCCTTTCAATTTCGTGT-G
1 TTCACACACTAAGGCCTGTCAATTTCCTGTAG
*
32837176 TTCACACAC-AAGGCCTGGTC-ATTTCCTTTAG
1 TTCACACACTAAGGCCT-GTCAATTTCCTGTAG
32837207 TTCACACA
1 TTCACACA
32837215 TAGAAATGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (32 bp):
TTCACACACTAAGGCCTGTCAATTTCCTGTAG
Found at i:32842899 original size:13 final size:12
Alignment explanation
Indices: 32842867--32842900 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32842857 TTTTCTTTCA
*
32842867 TTTCTTTTTCTT
1 TTTCATTTTCTT
32842879 TTTCATTTTCTT
1 TTTCATTTTCTT
*
32842891 TTTCAATTTC
1 TTTCATTTTC
32842901 ATTACAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:32842903 original size:18 final size:16
Alignment explanation
Indices: 32842848--32842894 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
32842838 TATCTCACAC
*
32842848 TCATCTTCTTTTTCTT
1 TCATTTTCTTTTTCTT
32842864 TCA-TTTCTTTTTCTTTT
1 TCATTTTCTTTTTC--TT
32842881 TCATTTTCTTTTTC
1 TCATTTTCTTTTTC
32842895 AATTTCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 9 0.33
16 3 0.11
17 5 0.19
18 10 0.37
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATTTTCTTTTTCTT
Found at i:32843898 original size:12 final size:12
Alignment explanation
Indices: 32843881--32843911 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
32843871 ATAATACTAA
32843881 TTTTTTTCGAAT
1 TTTTTTTCGAAT
32843893 TTTTTTTCGAAT
1 TTTTTTTCGAAT
32843905 TTTTTTT
1 TTTTTTT
32843912 ACAATCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:32846279 original size:20 final size:20
Alignment explanation
Indices: 32846256--32846302 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32846246 GGGTTAAAAT
*
32846256 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
32846276 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
32846296 TGAGCTG
1 TGAGCTG
32846303 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:32851219 original size:18 final size:18
Alignment explanation
Indices: 32851181--32851222 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32851171 AAATCGAAAG
* **
32851181 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCAA
32851199 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCAA
32851217 AAAAGA
1 AAAAGA
32851223 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCAA
Found at i:32853286 original size:30 final size:32
Alignment explanation
Indices: 32853231--32853300 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
32853221 AAATGTTCCC
* *
32853231 TTCACACACTAAGGCCTTTCAATTTCGTGT-G
1 TTCACACACTAAGGCCTATCAATTTCCTGTAG
*
32853262 TTCACACAC-AAGGCCTGATC-ATTTCCTTTAG
1 TTCACACACTAAGGCCT-ATCAATTTCCTGTAG
32853293 TTCACACA
1 TTCACACA
32853301 TAGAAACGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
TTCACACACTAAGGCCTATCAATTTCCTGTAG
Found at i:32856799 original size:11 final size:10
Alignment explanation
Indices: 32856774--32856834 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32856764 ACCAATAAAA
32856774 TAAA-TGAGC
1 TAAATTGAGC
*
32856783 TGAATTGTAGC
1 TAAATTG-AGC
32856794 TAAATTGAGC
1 TAAATTGAGC
**
32856804 TCGATTGAGC
1 TAAATTGAGC
32856814 TGAAA-TGAGC
1 T-AAATTGAGC
*
32856824 TCAATTGAGC
1 TAAATTGAGC
32856834 T
1 T
32856835 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32856835 original size:20 final size:20
Alignment explanation
Indices: 32856775--32856835 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32856765 CCAATAAAAT
*
32856775 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32856795 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32856816 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32856836 GTCGGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32856844 original size:30 final size:30
Alignment explanation
Indices: 32856779--32856855 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
32856769 TAAAATAAAT
* *
32856779 GAGCTGAATTGTAGCTAAATTGAGCTCGATT
1 GAGCTGAAATG-AGCTAAATTGAGCTCGATG
* *
32856810 GAGCTGAAATGAGCTCAATTGAGCT-GGTCG
1 GAGCTGAAATGAGCTAAATTGAGCTCGAT-G
*
32856840 GAGCTGAAACGAGCTA
1 GAGCTGAAATGAGCTA
32856856 GAAAAGCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 27 0.69
31 10 0.26
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
GAGCTGAAATGAGCTAAATTGAGCTCGATG
Found at i:32861793 original size:15 final size:16
Alignment explanation
Indices: 32861772--32861829 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
32861762 ACGACCTCTT
32861772 TTTTTTTATGCACGAA
1 TTTTTTTATGCACGAA
*
32861788 TTTTTTTTTGCACGAA
1 TTTTTTTATGCACGAA
*
32861804 TTTTTTTTCTTTGCACGAA
1 --TTTTTT-TATGCACGAA
32861823 TTTTTTT
1 TTTTTTT
32861830 TCAATTCACG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
16 16 0.42
17 6 0.16
18 6 0.16
19 10 0.26
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (16 bp):
TTTTTTTATGCACGAA
Found at i:32861793 original size:16 final size:16
Alignment explanation
Indices: 32861771--32861830 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 16
32861761 TACGACCTCT
32861771 TTTTTTTTATGCACGAA
1 TTTTTTTT-TGCACGAA
32861788 TTTTTTTTTGCACGAA
1 TTTTTTTTTGCACGAA
32861804 TTTTTTTTCTTTGCACGAA
1 --TTTTTT-TTTGCACGAA
32861823 TTTTTTTT
1 TTTTTTTT
32861831 CAATTCACGA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.25
17 14 0.35
18 6 0.15
19 10 0.25
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTTTTTTTGCACGAA
Found at i:32861831 original size:19 final size:18
Alignment explanation
Indices: 32861770--32861830 Score: 90
Period size: 19 Copynumber: 3.4 Consensus size: 18
32861760 ATACGACCTC
*
32861770 TTTTTTTTTATGCACGAA
1 TTTTTTTTTTTGCACGAA
32861788 --TTTTTTTTTGCACGAA
1 TTTTTTTTTTTGCACGAA
32861804 TTTTTTTTCTTTGCACGAA
1 TTTTTTTT-TTTGCACGAA
32861823 TTTTTTTT
1 TTTTTTTT
32861831 CAATTCACGA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
16 15 0.38
18 6 0.15
19 18 0.46
ACGTcount: A:0.16, C:0.11, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTTTTTTTTGCACGAA
Found at i:32861839 original size:19 final size:17
Alignment explanation
Indices: 32861771--32861841 Score: 72
Period size: 19 Copynumber: 4.0 Consensus size: 17
32861761 TACGACCTCT
* *
32861771 TTTTTTTTATGCACGAA
1 TTTTTTTTCTTCACGAA
*
32861788 TTTTTTTT-TGCACGAA
1 TTTTTTTTCTTCACGAA
32861804 TTTTTTTTCTTTGCACGAA
1 TTTTTTTTC-TT-CACGAA
32861823 TTTTTTTTCAATTCACGAA
1 TTTTTTTTC--TTCACGAA
32861842 CCTAATTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 16 0.33
17 8 0.17
18 1 0.02
19 21 0.44
20 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (17 bp):
TTTTTTTTCTTCACGAA
Found at i:32863106 original size:20 final size:20
Alignment explanation
Indices: 32863081--32863118 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32863071 AAATGAGCTG
*
32863081 ATGAGCTCGATTGAGCTGAA
1 ATGAGCTCAATTGAGCTGAA
32863101 ATGAGCTCAATTGAGCTG
1 ATGAGCTCAATTGAGCTG
32863119 GTCGGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
ATGAGCTCAATTGAGCTGAA
Found at i:32873701 original size:11 final size:10
Alignment explanation
Indices: 32873676--32873736 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32873666 ACCAATAAAA
32873676 TAAA-TGAGC
1 TAAATTGAGC
*
32873685 TGAATTGTAGC
1 TAAATTG-AGC
32873696 TAAATTGAGC
1 TAAATTGAGC
**
32873706 TCGATTGAGC
1 TAAATTGAGC
32873716 TGAAA-TGAGC
1 T-AAATTGAGC
*
32873726 TCAATTGAGC
1 TAAATTGAGC
32873736 T
1 T
32873737 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32873737 original size:20 final size:20
Alignment explanation
Indices: 32873677--32873737 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32873667 CCAATAAAAT
*
32873677 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32873697 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32873718 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32873738 GTCGGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32873746 original size:30 final size:30
Alignment explanation
Indices: 32873681--32873756 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
32873671 TAAAATAAAT
* *
32873681 GAGCTGAATTGTAGCTAAATTGAGCTCGATT
1 GAGCTGAAATG-AGCTAAATTGAGCTCGATG
* *
32873712 GAGCTGAAATGAGCTCAATTGAGCT-GGTCG
1 GAGCTGAAATGAGCTAAATTGAGCTCGAT-G
*
32873742 GAGCTGAAACGAGCT
1 GAGCTGAAATGAGCT
32873757 TGAAAAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.05
30 27 0.69
31 10 0.26
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
GAGCTGAAATGAGCTAAATTGAGCTCGATG
Found at i:32882745 original size:11 final size:10
Alignment explanation
Indices: 32882720--32882780 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32882710 ACCAATAAAA
32882720 TAAA-TGAGC
1 TAAATTGAGC
*
32882729 TGAATTGTAGC
1 TAAATTG-AGC
32882740 TAAATTGAGC
1 TAAATTGAGC
**
32882750 TCGATTGAGC
1 TAAATTGAGC
32882760 TGAAA-TGAGC
1 T-AAATTGAGC
*
32882770 TCAATTGAGC
1 TAAATTGAGC
32882780 T
1 T
32882781 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32882781 original size:20 final size:20
Alignment explanation
Indices: 32882721--32882781 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32882711 CCAATAAAAT
*
32882721 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32882741 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32882762 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32882782 GTCGGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32882790 original size:30 final size:30
Alignment explanation
Indices: 32882725--32882801 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
32882715 TAAAATAAAT
* *
32882725 GAGCTGAATTGTAGCTAAATTGAGCTCGATT
1 GAGCTGAAATG-AGCTAAATTGAGCTCGATG
* *
32882756 GAGCTGAAATGAGCTCAATTGAGCT-GGTCG
1 GAGCTGAAATGAGCTAAATTGAGCTCGAT-G
*
32882786 GAGCTGAAACGAGCTA
1 GAGCTGAAATGAGCTA
32882802 GAAAAGCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 27 0.69
31 10 0.26
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
GAGCTGAAATGAGCTAAATTGAGCTCGATG
Found at i:32886874 original size:20 final size:20
Alignment explanation
Indices: 32886851--32886904 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
32886841 AACTAAGAAC
*
32886851 GAGCTGAGTGAGCTAAGGAT
1 GAGCTGAATGAGCTAAGGAT
* * *
32886871 GAGCTCAATGAGCTATGGTT
1 GAGCTGAATGAGCTAAGGAT
32886891 GAGCTGAATGAGCT
1 GAGCTGAATGAGCT
32886905 TGAAGTAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (20 bp):
GAGCTGAATGAGCTAAGGAT
Found at i:32890170 original size:22 final size:21
Alignment explanation
Indices: 32890139--32890180 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
32890129 CTCATTTAAC
*
32890139 ACTTAACTAAATTAATTAAAT
1 ACTTAACTAAATTAACTAAAT
32890160 ACTTAAACTAAATTAACTAAA
1 ACTT-AACTAAATTAACTAAA
32890181 ATTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTTAACTAAATTAACTAAAT
Found at i:32892044 original size:15 final size:15
Alignment explanation
Indices: 32892023--32892080 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
32892013 AGTCTCACTC
32892023 TCTTTTTCAATTTCT
1 TCTTTTTCAATTTCT
32892038 T-TCTTTT---TTTCT
1 TCT-TTTTCAATTTCT
**
32892050 TCTTTTTCTTTTTCT
1 TCTTTTTCAATTTCT
32892065 TCTTTTTCAATTTCT
1 TCTTTTTCAATTTCT
32892080 T
1 T
32892081 TTTCACTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 10 0.28
13 1 0.03
14 1 0.03
15 24 0.67
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTTTTCAATTTCT
Found at i:32892048 original size:12 final size:12
Alignment explanation
Indices: 32892033--32892083 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
32892023 TCTTTTTCAA
32892033 TTTCTTTCTTTT
1 TTTCTTTCTTTT
32892045 TTTC-TTCTTTT
1 TTTCTTTCTTTT
32892056 TCTT-TTTCTTCTT
1 T-TTCTTTCTT-TT
32892069 TTTCAATTTCTTTT
1 TTTC--TTTCTTTT
32892083 T
1 T
32892084 CACTTTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 8 0.24
12 13 0.39
13 3 0.09
14 3 0.09
15 6 0.18
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTCTTTT
Found at i:32892090 original size:27 final size:27
Alignment explanation
Indices: 32892023--32892090 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
32892013 AGTCTCACTC
*
32892023 TCTTTTTCAATTTCTTTCTTTTTTTCT
1 TCTTTTTCAATTTCTTTCTTTTTATCT
**
32892050 TCTTTTTCTTTTTC-TTCTTTTTCAAT-T
1 TCTTTTTCAATTTCTTTCTTTTT--ATCT
*
32892077 TCTTTTTCACTTTC
1 TCTTTTTCAATTTC
32892091 ATTTTTCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 8 0.24
27 25 0.74
28 1 0.03
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (27 bp):
TCTTTTTCAATTTCTTTCTTTTTATCT
Found at i:32892095 original size:13 final size:12
Alignment explanation
Indices: 32892064--32892097 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32892054 TTTCTTTTTC
32892064 TTCTTTTTCAAT
1 TTCTTTTTCAAT
*
32892076 TTCTTTTTCACT
1 TTCTTTTTCAAT
32892088 TTCATTTTTC
1 TTC-TTTTTC
32892098 TCTTCTCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTTTTTCAAT
Found at i:32893249 original size:8 final size:8
Alignment explanation
Indices: 32893236--32893275 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
32893226 TTTCTATGAT
32893236 TTTTTTTA
1 TTTTTTTA
32893244 TTTTTTTA
1 TTTTTTTA
32893252 TTTTTTTA
1 TTTTTTTA
*
32893260 TTTTTTGAA
1 TTTTTT-TA
32893269 TTTTTTT
1 TTTTTTT
32893276 TACAATATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:32907672 original size:23 final size:23
Alignment explanation
Indices: 32907645--32907701 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
32907635 AAATAAATAT
* *
32907645 TAAA-CTATAATTACAATTGAAAA
1 TAAACCTA-AATTACAAGTAAAAA
32907668 TAAACCTAAATTACAAGTAAAAA
1 TAAACCTAAATTACAAGTAAAAA
*
32907691 TAAAACTAAAT
1 TAAACCTAAAT
32907702 AGGAAACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAACCTAAATTACAAGTAAAAA
Found at i:32916416 original size:24 final size:24
Alignment explanation
Indices: 32916389--32916435 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
32916379 CACACTTGTG
32916389 TGAATACTTTAGTTTTGGTGTGCA
1 TGAATACTTTAGTTTTGGTGTGCA
32916413 TGAATACTTTAGTTTTGGTGTGC
1 TGAATACTTTAGTTTTGGTGTGC
32916436 CAGTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.47
Consensus pattern (24 bp):
TGAATACTTTAGTTTTGGTGTGCA
Found at i:32920250 original size:15 final size:15
Alignment explanation
Indices: 32920206--32920251 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
32920196 CTTAAATTAC
32920206 GTTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
*
32920221 GTTTGAA-T--GTTAT
1 GTTT-AAGTCACTTAT
32920234 GTTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
32920249 GTT
1 GTT
32920252 AACATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 2 0.08
13 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (15 bp):
GTTTAAGTCACTTAT
Found at i:32920258 original size:28 final size:28
Alignment explanation
Indices: 32920206--32920259 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
32920196 CTTAAATTAC
*
32920206 GTTTAAGTCACTTATGTTTGAATGTTAT
1 GTTTAAGTCACTTATGTTTAAATGTTAT
32920234 GTTTAAGTCACTTATG-TTAACATGTT
1 GTTTAAGTCACTTATGTTTAA-ATGTT
32920260 GTAACATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (28 bp):
GTTTAAGTCACTTATGTTTAAATGTTAT
Found at i:32922917 original size:70 final size:70
Alignment explanation
Indices: 32922828--32923062 Score: 341
Period size: 70 Copynumber: 3.3 Consensus size: 70
32922818 AAAATAATCT
** *
32922828 TTTTGCGCCCAGTACTAGTTGGATATA-CCAACGATAAGTGTGCCCAGTACTAGTCGAATAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATA-AGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCG
32922892 ACAATG
65 ACAATG
* *
32922898 TTTTGCGCCCAGCGCTAGTTGGATAAGGCAACGATAGGTGTGCCCAGCACTAGTCGAATAATCGA
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
*
32922963 CGATG
66 CAATG
32922968 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTC-AAGTAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAA-TAATCG
32923032 ACAA-G
65 ACAATG
* *
32923037 ATTTTTGCGCCTAGCGCTAGTCGGAT
1 --TTTTGCGCCCAGCGCTAGTTGGAT
32923063 TAACCGACAA
Statistics
Matches: 150, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
69 4 0.03
70 124 0.83
71 22 0.15
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (70 bp):
TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
CAATG
Found at i:32923013 original size:35 final size:35
Alignment explanation
Indices: 32922834--32923021 Score: 123
Period size: 35 Copynumber: 5.4 Consensus size: 35
32922824 ATCTTTTTGC
*
32922834 GCCCAGTACTAGTTGGATATA-CCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATA-AGCCAACGATAAGTGT
* * * * * ** *
32922869 GCCCAGTACTAGTCGAATAATCGACAATG-T-TTTGC
1 GCCCAGCACTAGTTGGATAA--GCCAACGATAAGTGT
* * *
32922904 GCCCAGCGCTAGTTGGATAAGGCAACGATAGGTGT
1 GCCCAGCACTAGTTGGATAAGCCAACGATAAGTGT
* * * * *** *
32922939 GCCCAGCACTAGTCGAATAA-TCGACGATGTTTTGC
1 GCCCAGCACTAGTTGGATAAGCCAACGAT-AAGTGT
*
32922974 GCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATAAGCCAACGATAAGTGT
32923009 GCCCAGCACTAGT
1 GCCCAGCACTAGT
32923022 CAAGTAATCG
Statistics
Matches: 111, Mismatches: 35, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
33 5 0.05
34 8 0.07
35 87 0.78
36 7 0.06
37 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (35 bp):
GCCCAGCACTAGTTGGATAAGCCAACGATAAGTGT
Found at i:32923857 original size:18 final size:18
Alignment explanation
Indices: 32923834--32923889 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
32923824 CCAAGGGTTC
32923834 TAAAAATGTAAAATCCAT
1 TAAAAATGTAAAATCCAT
32923852 TAAAAATGGT----T-C--
1 TAAAAAT-GTAAAATCCAT
32923864 TAAAAATGTAAAATCCAT
1 TAAAAATGTAAAATCCAT
32923882 TAAAAATG
1 TAAAAATG
32923890 AAGGCATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 16
0.65 0.00 0.35
Matches are distributed among these distances:
11 2 0.07
12 7 0.23
14 1 0.03
15 2 0.07
16 1 0.03
18 15 0.50
19 2 0.07
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (18 bp):
TAAAAATGTAAAATCCAT
Found at i:32923865 original size:30 final size:30
Alignment explanation
Indices: 32923829--32923889 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32923819 TAGCTCCAAG
32923829 GGTTCTAAAAATGTAAAATCCATTAAAAAT
1 GGTTCTAAAAATGTAAAATCCATTAAAAAT
32923859 GGTTCTAAAAATGTAAAATCCATTAAAAAT
1 GGTTCTAAAAATGTAAAATCCATTAAAAAT
32923889 G
1 G
32923890 AAGGCATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (30 bp):
GGTTCTAAAAATGTAAAATCCATTAAAAAT
Found at i:32924085 original size:25 final size:26
Alignment explanation
Indices: 32924057--32924118 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 26
32924047 TATTTTTTAT
32924057 TATAATAGTA-TTAACAT-CACATATA
1 TATAATA-TACTTAACATACACATATA
* *
32924082 TATATTATACTTAACATAATACATATA
1 TATAATATACTTAACAT-ACACATATA
32924109 TATATATATA
1 TATA-ATATA
32924119 TATATATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
27 11 0.37
28 4 0.13
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (26 bp):
TATAATATACTTAACATACACATATA
Found at i:32933635 original size:98 final size:98
Alignment explanation
Indices: 32933466--32933663 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
32933456 AATAATCCTT
* *
32933466 AGCAAATTGAAGGATGAAAAATGAATTCCCACGGCTCCTTAAAGAAAATCAAAAAGAAAACTAAT
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAAAAGAAAACTAAT
*
32933531 TCTAAAAATCACAAGAAAGCAATCTTGCACAAA
66 TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
* * **
32933564 AGCAAATTGAAGGATGAAGAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTGCT
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAAAAGAAAACTAAT
*
32933629 TCTAAAAACCATAAGAAAGCAATCTTGCACAAA
66 TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
32933662 AG
1 AG
32933664 AACTAACTCT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (98 bp):
AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAAAAGAAAACTAAT
TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
Found at i:32939030 original size:13 final size:13
Alignment explanation
Indices: 32939014--32939038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32939004 ACTTAATTAA
32939014 ATTATTATATTTT
1 ATTATTATATTTT
32939027 ATTATTATATTT
1 ATTATTATATTT
32939039 CATGTCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:32939908 original size:126 final size:126
Alignment explanation
Indices: 32939683--32940108 Score: 626
Period size: 126 Copynumber: 3.4 Consensus size: 126
32939673 ATAAAATATC
* * * * * *
32939683 AGAAGGATTTTTGAAGTTGCGCCCATGTGTACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
*
32939748 TTTCAAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
*
32939809 AGAAGTATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* *
32939874 TTTCGAGTTCACATTTCTGAGCAAATAGTATAAAACAACGTTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
* * * * *
32939935 AGCAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * *
32940000 TTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATC-A--CTTCTAGCAGGATGCT-TTATG
66 TTTCGAGTTGACATTTCTGAGCAAATAGTATAAAA-CAACGCTGCAAGCAGGATGCTATT-TG
*
32940059 AGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
32940109 CATGTTTGGG
Statistics
Matches: 273, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
123 2 0.01
124 61 0.22
126 209 0.77
127 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (126 bp):
AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
TTTCGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
Found at i:32940785 original size:43 final size:44
Alignment explanation
Indices: 32940710--32941052 Score: 459
Period size: 43 Copynumber: 8.0 Consensus size: 44
32940700 GCTCGAAAGA
* *
32940710 GTTTATGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAAGTTAA-G
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * * *
32940753 GTCTAGGGATTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
*
32940797 GTTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * *
32940840 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGGTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* *** *
32940884 G-TTATGGTTTTTAAGTTAAGGG-TTACTATTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
32940926 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* *
32940970 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTT--GG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* *
32941011 GTTTAGGGTTTTTAAGTTGAGGG-TTAGGGTTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
32941053 AATTAAGGGT
Statistics
Matches: 265, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 17 0.06
42 36 0.14
43 154 0.58
44 58 0.22
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (44 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
Found at i:32940816 original size:65 final size:64
Alignment explanation
Indices: 32940712--32941052 Score: 465
Period size: 65 Copynumber: 5.3 Consensus size: 64
32940702 TCGAAAGAGT
* * *
32940712 TTATGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAAGTTAA-GGTCTAGGGATTTTAGGTTAAGGG
1 TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGG
*
32940776 TTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
1 -TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *
32940841 TTTATGGTTTTTAAGTTAAGGGTTTAGGGGTTTTAGGTTAAGGGTTATGGTTTTTAAGTTAAGGG
1 -TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* *
32940906 TTACT-ATTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
1 TTA-TGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGG
32940970 G
64 G
* * * *
32940971 TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTT--GGGTTTAGGGTTTTTAAGTTGAGGG
1 TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
* *
32941034 TTAGGGTTTTTAGGTTAAG
1 TTATGGTTTTTAAGTTAAG
32941053 AATTAAGGGT
Statistics
Matches: 257, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
63 43 0.17
64 37 0.14
65 174 0.68
66 3 0.01
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (64 bp):
TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
Found at i:32941063 original size:22 final size:22
Alignment explanation
Indices: 32940710--32941052 Score: 459
Period size: 22 Copynumber: 16.0 Consensus size: 22
32940700 GCTCGAAAGA
*
32940710 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940732 TTTTAGGGTTTTTAAGTTAA-G
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
32940753 GTCTAGGGATTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940775 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940797 GTTTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
32940819 G-TTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940840 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
32940862 GTTTAGGGGTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940884 G-TTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*** *
32940905 G-TTACTATTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
32940926 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
32940948 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940970 G-TTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32940991 GTTTATGGTTTTTAAGTT--GG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32941011 GTTTAGGGTTTTTAAGTTGAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
32941033 G-TTAGGGTTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAGTTAAG
32941053 AATTAAGGGT
Statistics
Matches: 281, Mismatches: 34, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
20 19 0.07
21 109 0.39
22 153 0.54
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (22 bp):
GTTTAGGGTTTTTAAGTTAAGG
Found at i:32941090 original size:14 final size:14
Alignment explanation
Indices: 32941055--32941097 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
32941045 AGGTTAAGAA
32941055 TTAAGGGTT-AGGGTT
1 TTAA-GGTTAAGGG-T
*
32941070 TTTAGGTTAAGGGT
1 TTAAGGTTAAGGGT
32941084 TTAAGGTTAAGGGT
1 TTAAGGTTAAGGGT
32941098 CAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
TTAAGGTTAAGGGT
Found at i:32941664 original size:18 final size:18
Alignment explanation
Indices: 32941638--32941680 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32941628 GACTCGAAAA
* *
32941638 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
32941656 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
32941674 AGGAAAC
1 AGGAAAC
32941681 GCACCTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:32942344 original size:7 final size:7
Alignment explanation
Indices: 32942332--32942360 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
32942322 ATACATAATT
32942332 CTAAATA
1 CTAAATA
32942339 CTAAATA
1 CTAAATA
32942346 CTAAATA
1 CTAAATA
32942353 CTAAATA
1 CTAAATA
32942360 C
1 C
32942361 CAATCGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (7 bp):
CTAAATA
Found at i:32942566 original size:20 final size:20
Alignment explanation
Indices: 32942529--32942566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32942519 TTTATTTTTA
*
32942529 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
32942549 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
32942567 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:32943402 original size:18 final size:18
Alignment explanation
Indices: 32943379--32943414 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32943369 TTACCATTTT
32943379 CATTTGTTCCTTTAATGC
1 CATTTGTTCCTTTAATGC
32943397 CATTTGTTCCTTTAATGC
1 CATTTGTTCCTTTAATGC
32943415 TTTAATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (18 bp):
CATTTGTTCCTTTAATGC
Found at i:32944574 original size:5 final size:5
Alignment explanation
Indices: 32944533--32944572 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
32944523 TTCTTTTTAG
* * *
32944533 AATTT AATTT AATTT AATTT AATTT GATTT GATTT TATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
32944573 TACTTTGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (5 bp):
AATTT
Found at i:32952541 original size:27 final size:26
Alignment explanation
Indices: 32952520--32952687 Score: 158
Period size: 27 Copynumber: 6.2 Consensus size: 26
32952510 GGTATAACAT
*
32952520 TCATTTTACCCTATGGGAGTATTTCA
1 TCATTTTACCCTATGGGGGTATTTCA
*
32952546 GTCATTCTACCCTATGGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTC-A
* *
32952574 TCATTTTACCATATGGGGGTATTTCGGT
1 TCATTTTACCCTATGGGGGTATTTC--A
*
32952602 TAATTTT-CCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTC-A
* * *
32952628 TCAATTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTC-A
* * * *
32952655 TTATTTTATCGTATAGGGGTATTTCTA
1 TCATTTTACCCTATGGGGGTATTTC-A
32952682 TCATTT
1 TCATTT
32952688 ATCGACCTCT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.05
27 105 0.88
28 8 0.07
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGGTATTTCA
Found at i:32952566 original size:54 final size:53
Alignment explanation
Indices: 32952520--32952687 Score: 194
Period size: 54 Copynumber: 3.1 Consensus size: 53
32952510 GGTATAACAT
*
32952520 TCATTTTACCCTATGGGAGTATTTCAG-TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGG-GTATTTCAGTTAATT-TACCCTATGGGGGTATTTCGA
* * *
32952574 TCATTTTACCATATGGGGGTATTTCGGTTAATTTTCCCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCAGTTAATTTACCCTATGGGGGTATTTCGA
* * * * * * *
32952628 TCAATTTACCCTATAGGGGTATTTCGGTTATTTTATCGTATAGGGGTATTTCTA
1 TCATTTTACCCTAT-GGGGTATTTCAGTTAATTTACCCTATGGGGGTATTTCGA
32952682 TCATTT
1 TCATTT
32952688 ATCGACCTCT
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
54 91 0.93
55 7 0.07
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCAGTTAATTTACCCTATGGGGGTATTTCGA
Found at i:32952638 original size:81 final size:82
Alignment explanation
Indices: 32952522--32952679 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 82
32952512 TATAACATTC
*
32952522 ATTTTACCCTATGGGAGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCATA
1 ATTTTACCCTATGGGAGTATTTCAGTCATTCTACCCTATAGGGGTATTTCGATCATTTTACCATA
*
32952587 TGGGGGTATTTCGGTTA
66 TAGGGGTATTTCGGTTA
* * * * *
32952604 ATTTT-CCCTATGGGGGTATTTC-GATCAATT-TACCCTATAGGGGTATTTCGGTTATTTTATCG
1 ATTTTACCCTATGGGAGTATTTCAG-TC-ATTCTACCCTATAGGGGTATTTCGATCATTTTACCA
32952666 TATAGGGGTATTTC
64 TATAGGGGTATTTC
32952680 TATCATTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 1 0.01
81 58 0.87
82 8 0.12
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (82 bp):
ATTTTACCCTATGGGAGTATTTCAGTCATTCTACCCTATAGGGGTATTTCGATCATTTTACCATA
TAGGGGTATTTCGGTTA
Found at i:32955258 original size:27 final size:27
Alignment explanation
Indices: 32955225--32955362 Score: 168
Period size: 27 Copynumber: 5.1 Consensus size: 27
32955215 ATAACAATCT
*
32955225 TTTTACCCTATAAGGGTATTTCGGTCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* *
32955252 TTCTACCCTATGGGGGTATTTCGGTCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* *
32955279 TTTTACCTTATGAGGGTATTTTGGTCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * *
32955306 ATTTACCCTATGGGGGTATTTCGATCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
* * * *
32955333 TTTTACCGTGTGGGGGTATTTCGATCA
1 TTTTACCCTATGAGGGTATTTCGGTCA
32955360 TTT
1 TTT
32955363 ATTGACCTCT
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (27 bp):
TTTTACCCTATGAGGGTATTTCGGTCA
Found at i:32955268 original size:54 final size:54
Alignment explanation
Indices: 32955210--32955339 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
32955200 TCATCTCCTA
*
32955210 GGGGTATAACAATCTTTTTACCCTATAAGGGTATTTCGGTC-ATTCTACCCTATG
1 GGGGTATAACAATCATTTTACCCTATAAGGGTATTTCGGTCAATT-TACCCTATG
** ** * * *
32955264 GGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTGGTCAATTTACCCTATG
1 GGGGTATAACAATCATTTTACCCTATAAGGGTATTTCGGTCAATTTACCCTATG
** *
32955318 GGGGTATTTCGATCATTTTACC
1 GGGGTATAACAATCATTTTACC
32955340 GTGTGGGGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 63 0.95
55 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGGTATAACAATCATTTTACCCTATAAGGGTATTTCGGTCAATTTACCCTATG
Found at i:32955350 original size:54 final size:54
Alignment explanation
Indices: 32955225--32955361 Score: 186
Period size: 54 Copynumber: 2.5 Consensus size: 54
32955215 ATAACAATCT
* * *
32955225 TTTTACCCTATAAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGGTCA
1 TTTTACCGTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCA
* *
32955279 TTTTACCTTATGAGGGTATTTTGGTCAATT-TACCCTATGGGGGTATTTCGATCA
1 TTTTACCGTATGAGGGTATTTCGGTC-ATTCTACCCTATGGGGGTATTTCGATCA
* * *
32955333 TTTTACCGTGTGGGGGTATTTCGATCATT
1 TTTTACCGTATGAGGGTATTTCGGTCATT
32955362 TATTGACCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 67 0.92
55 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (54 bp):
TTTTACCGTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCA
Found at i:32961052 original size:44 final size:44
Alignment explanation
Indices: 32960989--32961079 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
32960979 TTTTAAACTC
32960989 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
1 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
32961033 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
1 TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
32961077 TAT
1 TAT
32961080 TGTTTAGATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (44 bp):
TATCCTTGAATTGTTCTTTATGTTCATTCTTTTCATTAAGTTTA
Found at i:32962143 original size:45 final size:45
Alignment explanation
Indices: 32962092--32962324 Score: 403
Period size: 45 Copynumber: 5.2 Consensus size: 45
32962082 TCAGCCATGG
* * * *
32962092 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
32962137 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
32962182 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
32962227 TGCTTTCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
32962272 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
32962317 TGCTTCCT
1 TGCTTCCT
32962325 TAATTTCATG
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:32964465 original size:31 final size:31
Alignment explanation
Indices: 32964429--32964498 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
32964419 ACCGTTTCTA
* *
32964429 TGTGTGAACTAAAGGAAA-TGATCAGGCCTT-G
1 TGTGTGAAC-AAACGAAATTGA-AAGGCCTTAG
*
32964460 TGTGTGAACACACGAAATTGAAAGGCCTTAG
1 TGTGTGAACAAACGAAATTGAAAGGCCTTAG
32964491 TGTGTGAA
1 TGTGTGAA
32964499 GGGAACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (31 bp):
TGTGTGAACAAACGAAATTGAAAGGCCTTAG
Found at i:32965050 original size:31 final size:32
Alignment explanation
Indices: 32965012--32965080 Score: 122
Period size: 33 Copynumber: 2.2 Consensus size: 32
32965002 CATTAATTTA
32965012 ACATTTAG-ACACACAATTAATTCGGCCAGAC
1 ACATTTAGAACACACAATTAATTCGGCCAGAC
32965043 ACATTTAGACACACACAATTAATTCGGCCAGAC
1 ACATTTAGA-ACACACAATTAATTCGGCCAGAC
32965076 ACATT
1 ACATT
32965081 AAATAGGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 8 0.22
33 28 0.78
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (32 bp):
ACATTTAGAACACACAATTAATTCGGCCAGAC
Found at i:32971865 original size:16 final size:17
Alignment explanation
Indices: 32971842--32971879 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
32971832 AATAAACAAT
32971842 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
32971857 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
32971874 TAAATT
1 TAAATT
32971880 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:32982034 original size:29 final size:28
Alignment explanation
Indices: 32982002--32982174 Score: 211
Period size: 29 Copynumber: 6.0 Consensus size: 28
32981992 GGTTATCGAT
*
32982002 TATGAAAAGGGATGGTGAGGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
32982030 CTATGAAAAGGGATGGTGACGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
*
32982060 TATGAAAAGGGATGGTGACGACCATTGAA
1 TATGAAAAGGGATGGTGACGACCA-TCAA
* * *
32982089 TATGAAAAGGGATGGTGACAACTATCGAT
1 TATGAAAAGGGATGGTGACGACCATC-AA
**
32982118 TAATGAAAAGGGATGGTTTCGACCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATC-AA
* *
32982148 TATGAAAAGGGACGGTTACGACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
32982175 TTTAGCACAC
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.02
29 98 0.77
30 27 0.21
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:32982058 original size:58 final size:57
Alignment explanation
Indices: 32981996--32982173 Score: 239
Period size: 58 Copynumber: 3.1 Consensus size: 57
32981986 AGCTTCGGTT
*
32981996 ATCGATTATGAAAAGGGATGGTGAGGACCATCAACTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACCATCAA-TATGAAAAGGGATGGTGACGACC
* * * *
32982054 ATCGAATATGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATGGTGACAACT
1 ATCGATTATGAAAAGGGATGGTGACGACCA-TCAATATGAAAAGGGATGGTGACGACC
** * *
32982112 ATCGATTAATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGACGGTTACGACC
1 ATCGATT-ATGAAAAGGGATGGTGACGACCATC-AATATGAAAAGGGATGGTGACGACC
32982171 ATC
1 ATC
32982174 ATTTAGCACA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 56 0.54
59 48 0.46
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (57 bp):
ATCGATTATGAAAAGGGATGGTGACGACCATCAATATGAAAAGGGATGGTGACGACC
Found at i:32982151 original size:88 final size:87
Alignment explanation
Indices: 32982002--32982172 Score: 252
Period size: 88 Copynumber: 2.0 Consensus size: 87
32981992 GGTTATCGAT
**
32982002 TATGAAAAGGGATGGTGAGGACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAA
1 TATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAA
*
32982067 AGGGATGGTGACGACCATTGAA
66 AGGGACGGTGACGACCATTGAA
* * * **
32982089 TATGAAAAGGGATGGTGACAACTATCGATTAATGAAAAGGGATGGTTTCGACCATCGAATATGAA
1 TATGAAAAGGGATGGTGACAACCATCAACT-ATGAAAAGGGATGGTGACGACCATCGAATATGAA
*
32982154 AAGGGACGGTTACGACCAT
65 AAGGGACGGTGACGACCAT
32982173 CATTTAGCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 25 0.34
88 49 0.66
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.20
Consensus pattern (87 bp):
TATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCGAATATGAAA
AGGGACGGTGACGACCATTGAA
Found at i:32990600 original size:21 final size:21
Alignment explanation
Indices: 32990574--32990636 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
32990564 TTGGTATTTG
32990574 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
32990595 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
32990616 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
32990637 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:32996948 original size:22 final size:22
Alignment explanation
Indices: 32996888--32996950 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
32996878 AATGAAAGAA
**
32996888 GTACTAAGCTCTCATGGCTAAC
1 GTACTAAGCTCTCATGTTTAAC
*
32996910 GTACTAAGCTCTCATGTTTCAC
1 GTACTAAGCTCTCATGTTTAAC
32996932 GTACTAAGCTCTCATGTTT
1 GTACTAAGCTCTCATGTTT
32996951 GAACAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (22 bp):
GTACTAAGCTCTCATGTTTAAC
Found at i:32997588 original size:20 final size:20
Alignment explanation
Indices: 32997555--32997599 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32997545 TAAATTCACA
32997555 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
32997575 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
32997595 TAATT
1 TAATT
32997600 CGATTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:33003138 original size:29 final size:28
Alignment explanation
Indices: 33003057--33003148 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
33003047 TCAACGACCA
* *
33003057 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTC-GCTATCGATT
*
33003086 ATGAAAAGGGATAACTTCGTCTATCGATT
1 ATGAAAAGGGATAGCTTCG-CTATCGATT
* * *
33003115 ATGAAAAGAGATAGCATCTGCTATTGATT
1 ATGAAAAGGGATAGCTTC-GCTATCGATT
33003144 ATGAA
1 ATGAA
33003149 TGGTCAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.96
30 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (28 bp):
ATGAAAAGGGATAGCTTCGCTATCGATT
Found at i:33005400 original size:14 final size:14
Alignment explanation
Indices: 33005381--33005412 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
33005371 ATTATGCCAG
33005381 AATTAAAAACACAT
1 AATTAAAAACACAT
33005395 AATT-AAAACACAT
1 AATTAAAAACACAT
33005408 -ATTAA
1 AATTAA
33005413 TGATATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (14 bp):
AATTAAAAACACAT
Found at i:33005455 original size:39 final size:38
Alignment explanation
Indices: 33005391--33005518 Score: 154
Period size: 39 Copynumber: 3.4 Consensus size: 38
33005381 AATTAAAAAC
*
33005391 ACATAATTAAAACA-CATATTAATGATATTCAAACTAAG
1 ACATAATTAAAA-ATCATATTAATGATGTTCAAACTAAG
33005429 ACATAATTAAAAATGCATATTAATGATGTTCAAACTAAG
1 ACATAATTAAAAAT-CATATTAATGATGTTCAAACTAAG
* * * *
33005468 ACATAATTAAGGACTCATATTAACGATGTTAAAACTAA-
1 ACATAATTAA-AAATCATATTAATGATGTTCAAACTAAG
*
33005506 A-ATAACTAAAAAT
1 ACATAATTAAAAAT
33005519 GGATTAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
36 2 0.03
37 8 0.10
38 13 0.16
39 54 0.68
40 2 0.03
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (38 bp):
ACATAATTAAAAATCATATTAATGATGTTCAAACTAAG
Found at i:33007991 original size:50 final size:50
Alignment explanation
Indices: 33007928--33008058 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
33007918 CGTTGCCCAT
* * *
33007928 GCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAAC
* *
33007978 GCCATG-CACCAGACATGGTCTTACATGGGACCTCTTATCTCGGTACCAAC
1 GCCATGTC-CCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAAC
* *
33008028 GCCATGTCCCAGGCATGGTCTTACATGGGAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGAC
33008059 TTCATTCCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 1 0.01
50 71 0.97
51 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAAC
Found at i:33016404 original size:78 final size:78
Alignment explanation
Indices: 33016309--33016463 Score: 267
Period size: 78 Copynumber: 2.0 Consensus size: 78
33016299 TAAAACATCA
*
33016309 AAATAAACATATTTCACCAATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTG-TTAG
1 AAATAAACACATTTCACCAATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGCTT-G
33016373 AATAAGCTAAATCT
65 AATAAGCTAAATCT
*
33016387 AAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGCTTGA
1 AAATAAACACATTTCACCAATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGCTTGA
*
33016452 ATAAGTTAAATC
66 ATAAGCTAAATC
33016464 AAGTGATCGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 71 0.97
79 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (78 bp):
AAATAAACACATTTCACCAATGGGTATTTTTCCAAATATGAACCCTAGGTTAAATTATTGCTTGA
ATAAGCTAAATCT
Found at i:33017322 original size:29 final size:29
Alignment explanation
Indices: 33017296--33017509 Score: 137
Period size: 29 Copynumber: 7.3 Consensus size: 29
33017286 TCATAACCGA
*
33017296 CCCTTTTCATATTTGATGGTTGAAACCAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
* * **
33017325 CCCTTTTCATTAATCGATGGTCGTCACCAT
1 CCCTTTTCA-TATTTGATGGTCGAAACCAT
* *
33017355 CCCTTTTCATATTTGATGGTC-ATCACTAT
1 CCCTTTTCATATTTGATGGTCGA-AACCAT
* * * * * *
33017384 CCCTTTTCATAATCGAT-ATCCGTAGCTAT
1 CCCTTTTCATATTTGATGGT-CGAAACCAT
* * * *
33017413 CCCTTTTCATATTCGATAG-CTGAAGCTAT
1 CCCTTTTCATATTTGATGGTC-GAAACCAT
* * **
33017442 CACTTTTCATATTCGATGGTCGTCACCAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
* * * * *
33017471 CCCTTTTCATAATCGATAGTCGAAGCTAT
1 CCCTTTTCATATTTGATGGTCGAAACCAT
33017500 CCCTTTTCAT
1 CCCTTTTCAT
33017510 TGGCCAATGA
Statistics
Matches: 147, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.01
29 120 0.82
30 25 0.17
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (29 bp):
CCCTTTTCATATTTGATGGTCGAAACCAT
Found at i:33017487 original size:58 final size:58
Alignment explanation
Indices: 33017296--33017509 Score: 222
Period size: 58 Copynumber: 3.7 Consensus size: 58
33017286 TCATAACCGA
* * * * *
33017296 CCCTTTTCATATTTGATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCAT
1 CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCA-TAATCGATGGTCGTCACCAT
* * * * *
33017355 CCCTTTTCATATTTGATGGTCAT-CA-CTATCCCTTTTCATAATCGAT-ATCCGT-AGCTAT
1 CCCTTTTCATATTCGATAG-C-TGAAGCTATCCCTTTTCATAATCGATGGT-CGTCA-CCAT
* *
33017413 CCCTTTTCATATTCGATAGCTGAAGCTATCACTTTTCATATTCGATGGTCGTCACCAT
1 CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATAATCGATGGTCGTCACCAT
*
33017471 CCCTTTTCATAATCGATAG-TCGAAGCTATCCCTTTTCAT
1 CCCTTTTCATATTCGATAGCT-GAAGCTATCCCTTTTCAT
33017510 TGGCCAATGA
Statistics
Matches: 132, Mismatches: 14, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
56 1 0.01
57 5 0.04
58 91 0.69
59 33 0.25
60 1 0.01
61 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (58 bp):
CCCTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATAATCGATGGTCGTCACCAT
Found at i:33020451 original size:42 final size:42
Alignment explanation
Indices: 33020371--33020452 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
33020361 CGTTTTCTCT
* **
33020371 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
33020413 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
33020453 CACACAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:33023035 original size:23 final size:22
Alignment explanation
Indices: 33022992--33023035 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33022982 TTCTAAGCCG
33022992 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33023015 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33023036 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33023146 original size:45 final size:45
Alignment explanation
Indices: 33023082--33023173 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
33023072 CAGATACTCA
* *
33023082 GTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTCCG
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCG
* *
33023127 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCG
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCG
33023172 GT
1 GT
33023174 TCACATAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCG
Found at i:33023237 original size:51 final size:50
Alignment explanation
Indices: 33023179--33023365 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
33023169 TCGGTTCACA
** *
33023179 TAGTAGCCTGCACATAGTACTACACTTGTGACCATTACCATTTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTTGGTACACG
* * * * * * *
33023230 TAGTAGCCTGCACATAGTATTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATTTGGTACACG
* * * * *
33023281 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACAAG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATT-TGGTACACG
33023331 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
33023366 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.34
51 67 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTTGGTACACG
Found at i:33023357 original size:101 final size:101
Alignment explanation
Indices: 33023177--33023361 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
33023167 GTTCGGTTCA
* * * *
33023177 CATAGTAGCCTGCACATAGTACTACACTTGTGACCATTACCATTTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACAAGTAGTAGCCTGCA
*
33023242 CATAGTATTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
33023279 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACAAGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACAAGTAGTAGCCTGCA
33023343 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
33023362 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 6 0.08
101 36 0.48
102 33 0.44
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACAAGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:33028185 original size:92 final size:93
Alignment explanation
Indices: 33028021--33028201 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 93
33028011 ACAAACTTGG
** * * * *
33028021 ACCTAAACTTAGAAACTGTAATTCAGTTTGATATTTTTTTTAGATACCTGACTAACTATCGTTAA
1 ACCTAAACTTAGAAACTGTAAGCCAATTTAATATTTTTTTTAAATACCTGACTAACTATCCTTAA
*
33028086 ATTATTATTTTCATCGAATCATATCAAT
66 ATTATTATTTTCATCCAATCATATCAAT
* * * *
33028114 ACCTAAATTTAGAAATTGTAAGCCAATTTAATA-TTTTTTTAAATACTTGACTAACTGTCCTTAA
1 ACCTAAACTTAGAAACTGTAAGCCAATTTAATATTTTTTTTAAATACCTGACTAACTATCCTTAA
33028178 ATTATTATTTTCATCCAATCATAT
66 ATTATTATTTTCATCCAATCATAT
33028202 TGACACCACG
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 50 0.65
93 27 0.35
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (93 bp):
ACCTAAACTTAGAAACTGTAAGCCAATTTAATATTTTTTTTAAATACCTGACTAACTATCCTTAA
ATTATTATTTTCATCCAATCATATCAAT
Found at i:33039428 original size:29 final size:29
Alignment explanation
Indices: 33039383--33039439 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33039373 AGGGGAGAGA
* *
33039383 CTCGAGGCTGTTTAGCTGGTGTGGGTAAC
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
*
33039412 CTCGAGTCTGTTGAGCTGGTGCGGGTAA
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAA
33039440 TTTAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.30
Consensus pattern (29 bp):
CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
Found at i:33051373 original size:6 final size:6
Alignment explanation
Indices: 33051357--33051407 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
33051347 ATATTGCAAG
* * * * *
33051357 TTTCTA TTTTCA TTTTCA TTTCCA TTTCCA TTTCCA TTTCCG TTTCGA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
33051405 TTT
1 TTT
33051408 TTGGAAACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.14, C:0.24, G:0.04, T:0.59
Consensus pattern (6 bp):
TTTCCA
Found at i:33055714 original size:59 final size:59
Alignment explanation
Indices: 33055643--33055761 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
33055633 TTATTCTCGT
33055643 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTAGAAA
1 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTAGAAA
*
33055702 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTATAAA
1 ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTAGAAA
33055761 A
1 A
33055762 AGTTTTCTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (59 bp):
ACCACGAACTGCTTCAAGTGTGGGCTCGAACCAATTGAACCAAAACATAGAACTAGAAA
Found at i:33058598 original size:41 final size:41
Alignment explanation
Indices: 33058538--33058620 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
33058528 ATATGGAAGT
33058538 ATGTTAGGATTTAGTTTTTGACATGTTCTTCAATAAAAGAA
1 ATGTTAGGATTTAGTTTTTGACATGTTCTTCAATAAAAGAA
*
33058579 ATGTTAGGATTTA-TGTTTTGACGTGTTCTTCAATAAAAGAA
1 ATGTTAGGATTTAGT-TTTTGACATGTTCTTCAATAAAAGAA
33058620 A
1 A
33058621 GAATTCAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (41 bp):
ATGTTAGGATTTAGTTTTTGACATGTTCTTCAATAAAAGAA
Found at i:33061755 original size:46 final size:44
Alignment explanation
Indices: 33061702--33061835 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 44
33061692 GGAGAGATGT
33061702 TAGGATATTAGTATGAGATATTATCTTTTAGCAATTTGATTCCTAA
1 TAGGATATTA-TAT-AGATATTATCTTTTAGCAATTTGATTCCTAA
* * *
33061748 TAGGATATTATA-AGATATTATCTCTTAGCAATTTGTTTTCTAA
1 TAGGATATTATATAGATATTATCTTTTAGCAATTTGATTCCTAA
* *
33061791 TAGGATATTATTTTAGGATATTATCTTTTAGTAATTTGATTCCTA
1 TAGGATATTA-TATA-GATATTATCTTTTAGCAATTTGATTCCTA
33061836 CGTAACTACT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
43 38 0.49
44 1 0.01
45 3 0.04
46 35 0.45
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.47
Consensus pattern (44 bp):
TAGGATATTATATAGATATTATCTTTTAGCAATTTGATTCCTAA
Found at i:33062080 original size:10 final size:10
Alignment explanation
Indices: 33062067--33062092 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33062057 ATATTTTTCC
33062067 AATTTTGTTT
1 AATTTTGTTT
33062077 AATTTTGTTT
1 AATTTTGTTT
33062087 AATTTT
1 AATTTT
33062093 TTTCACTTTT
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (10 bp):
AATTTTGTTT
Found at i:33062201 original size:9 final size:10
Alignment explanation
Indices: 33062178--33062210 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33062168 ATTCCATGGA
33062178 ATTTTTTAAT
1 ATTTTTTAAT
33062188 ATTTTTTAAT
1 ATTTTTTAAT
*
33062198 -TTTTTTAAA
1 ATTTTTTAAT
33062207 ATTT
1 ATTT
33062211 AGAACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:33109830 original size:18 final size:18
Alignment explanation
Indices: 33109785--33109830 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
33109775 GGAGGAATTC
*
33109785 TTTTTCTTTA-GTTTTTAT
1 TTTTTC-TTAGGTGTTTAT
33109803 TTCTTT-TTAGGTGTTTAT
1 TT-TTTCTTAGGTGTTTAT
33109821 TTTTTCTTAG
1 TTTTTCTTAG
33109831 TTAGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.72
Consensus pattern (18 bp):
TTTTTCTTAGGTGTTTAT
Found at i:33116311 original size:26 final size:26
Alignment explanation
Indices: 33116275--33116325 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
33116265 TTGGATAAAA
*
33116275 AGGGGTCGCTATGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* **
33116301 AGGGGTTGCTAAGTGTTGATTCCCC
1 AGGGGTCGCTAAGTGCAGATTCCCC
33116326 AAATTATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Done.