Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 17
Found at i:1913078 original size:86 final size:86
Alignment explanation
Indices: 1912951--1913111 Score: 225
Period size: 86 Copynumber: 1.9 Consensus size: 86
1912941 CATTTCTCAC
** * * * * * *
1912951 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTCA
1 CCTTCAAAAGCCCACAAACCAGTGGCACCATTTCCAAAGCCCACAAGTCAGTGGCATCTTCTCCA
1913016 AAGTCCACAAGTCAGTGGCAA
66 AAGTCCACAAGTCAGTGGCAA
*
1913037 CCTTC-AAAGCCCACAAACCAGTGGCACCCATTTCCGAAGCCCACAAGTCAGTGGCATCTTCTCC
1 CCTTCAAAAGCCCACAAACCAGTGGCA-CCATTTCCAAAGCCCACAAGTCAGTGGCATCTTCTCC
1913101 AAAGTCCACAA
65 AAAGTCCACAA
1913112 CTCCATGGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
85 19 0.29
86 46 0.71
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAACCAGTGGCACCATTTCCAAAGCCCACAAGTCAGTGGCATCTTCTCCA
AAGTCCACAAGTCAGTGGCAA
Found at i:1913174 original size:34 final size:35
Alignment explanation
Indices: 1913106--1913180 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
1913096 TCTCCAAAGT
* *
1913106 CCACAACTCCATGGCACTCCTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCCTTTTCCTTTGTAAGC
* *
1913141 CCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCATAGCACTCCTTTTCCTTTGTAAGC
1913175 CCACAA
1 CCACAA
1913181 GTTAGTGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.23, C:0.36, G:0.09, T:0.32
Consensus pattern (35 bp):
CCACAACTCCATAGCACTCCTTTTCCTTTGTAAGC
Found at i:1913197 original size:34 final size:35
Alignment explanation
Indices: 1913106--1913197 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 35
1913096 TCTCCAAAGT
*
1913106 CCACAACTCCA-TGGCACTCC-TTTTCTTTTGTAAGC
1 CCACAACT-CAGTGGCAC-CCTTTTTCCTTTGTAAGC
* * *
1913141 CCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCAGTGGCACCCTTTTTCCTTTGTAAGC
* *
1913175 CCACAAGTTAGTGGCACCCTTTT
1 CCACAACTCAGTGGCACCCTTTT
1913198 CAAAAACCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
34 25 0.54
35 21 0.46
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (35 bp):
CCACAACTCAGTGGCACCCTTTTTCCTTTGTAAGC
Found at i:1913209 original size:30 final size:28
Alignment explanation
Indices: 1913171--1913268 Score: 133
Period size: 28 Copynumber: 3.4 Consensus size: 28
1913161 TTTTCCTTTT
* *
1913171 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC--TTCAA
* *
1913201 AAACCCACAAGTCAATGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
1913229 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
*
1913257 AAGCACACAAGT
1 AAGCCCACAAGT
1913269 TGATGCAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 42 0.69
30 19 0.31
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.16
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAA
Found at i:1913236 original size:28 final size:29
Alignment explanation
Indices: 1913171--1913299 Score: 129
Period size: 28 Copynumber: 4.4 Consensus size: 29
1913161 TTTTCCTTTT
* * *
1913171 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAATGGCAACC-TTTCAA
*
1913201 AAACCCACAAGTCAATGGCAACC-TTCAA
1 AAGCCCACAAGTCAATGGCAACCTTTCAA
*
1913229 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAATGGCAACCTTTCAA
* **
1913257 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAATGGCAA-CCTTTCAA
1913286 AAGTCCACACAAGT
1 AAG-CC-CACAAGT
1913300 TGGTGGCGTC
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.05
28 45 0.54
29 8 0.10
30 20 0.24
31 7 0.08
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAATGGCAACCTTTCAA
Found at i:1913410 original size:21 final size:20
Alignment explanation
Indices: 1913385--1913491 Score: 60
Period size: 21 Copynumber: 5.0 Consensus size: 20
1913375 TATCGCTGGC
1913385 CTTGAATCAGCATATTGACA
1 CTTGAATCAGCATATTGACA
* *
1913405 CTTTGAAGTCCG-ATATCGTTGGC-
1 C-TTGAA-TCAGCATA---TTGACA
1913428 CTTGAATCAGCATATTGACA
1 CTTGAATCAGCATATTGACA
* *
1913448 CCTTGAAGTCCG-ATATCGTTGGC-
1 -CTTGAA-TCAGCATA---TTGACA
1913471 CTTGAATCAGCATATTGACA
1 CTTGAATCAGCATATTGACA
1913491 C
1 C
1913492 CGGCATCTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 28
0.64 0.08 0.28
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 23 0.35
22 23 0.35
23 1 0.02
24 8 0.12
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
CTTGAATCAGCATATTGACA
Found at i:1913435 original size:43 final size:43
Alignment explanation
Indices: 1913374--1913492 Score: 220
Period size: 43 Copynumber: 2.8 Consensus size: 43
1913364 TTTAAACCCA
* *
1913374 ATATCGCTGGCCTTGAATCAGCATATTGACACTTTGAAGTCCG
1 ATATCGTTGGCCTTGAATCAGCATATTGACACCTTGAAGTCCG
1913417 ATATCGTTGGCCTTGAATCAGCATATTGACACCTTGAAGTCCG
1 ATATCGTTGGCCTTGAATCAGCATATTGACACCTTGAAGTCCG
1913460 ATATCGTTGGCCTTGAATCAGCATATTGACACC
1 ATATCGTTGGCCTTGAATCAGCATATTGACACC
1913493 GGCATCTTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
ATATCGTTGGCCTTGAATCAGCATATTGACACCTTGAAGTCCG
Found at i:1913485 original size:22 final size:22
Alignment explanation
Indices: 1913374--1913485 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
1913364 TTTAAACCCA
*
1913374 ATATCGCTGGCCTTGAATCAGC
1 ATATCGTTGGCCTTGAATCAGC
* *
1913396 ATA---TTGACACTTTGAAGTCCG-
1 ATATCGTTGGC-C-TTGAA-TCAGC
1913417 ATATCGTTGGCCTTGAATCAGC
1 ATATCGTTGGCCTTGAATCAGC
* *** *
1913439 ATATTG-ACACCTTGAAGTCCG-
1 ATATCGTTGGCCTTGAA-TCAGC
1913460 ATATCGTTGGCCTTGAATCAGC
1 ATATCGTTGGCCTTGAATCAGC
1913482 ATAT
1 ATAT
1913486 TGACACCGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 26 0.40
22 30 0.46
23 1 0.02
24 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
ATATCGTTGGCCTTGAATCAGC
Found at i:1914396 original size:19 final size:19
Alignment explanation
Indices: 1914372--1914425 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
1914362 ATTCAACGAT
*
1914372 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
1914391 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1914410 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1914426 TTAGCTACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1919300 original size:17 final size:19
Alignment explanation
Indices: 1919261--1919301 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1919251 ATGTTTGTCG
*
1919261 ATATTTCCACGTGATGAAT
1 ATATCTCCACGTGATGAAT
1919280 ATATCTCCACGTGATGAAT
1 ATATCTCCACGTGATGAAT
1919299 ATA
1 ATA
1919302 AAGCAGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (19 bp):
ATATCTCCACGTGATGAAT
Found at i:1919900 original size:18 final size:18
Alignment explanation
Indices: 1919877--1919921 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1919867 AAAAAACGAA
* *
1919877 GAAGATGAATATGATTAT
1 GAAGATGAAGATGATGAT
1919895 GAAGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
*
1919913 GATGATGAA
1 GAAGATGAA
1919922 AACAATAAGC
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:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:1922316 original size:20 final size:20
Alignment explanation
Indices: 1922271--1922319 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1922261 AAAAGTTTAT
* *
1922271 AAGTTATGACGGAATGTCAA
1 AAGTTGTGACCGAATGTCAA
1922291 AAGTTGTGACCGAATGTCAA
1 AAGTTGTGACCGAATGTCAA
1922311 AAGTTGTGA
1 AAGTTGTGA
1922320 TGAAATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (20 bp):
AAGTTGTGACCGAATGTCAA
Found at i:1922551 original size:13 final size:13
Alignment explanation
Indices: 1922533--1922558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1922523 AATAAAATAG
1922533 TGACAGAATTTAA
1 TGACAGAATTTAA
1922546 TGACAGAATTTAA
1 TGACAGAATTTAA
1922559 ATAGGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
TGACAGAATTTAA
Found at i:1922571 original size:16 final size:16
Alignment explanation
Indices: 1922527--1922572 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1922517 TTTAGTAATA
1922527 AAATAGTGACAGAATTT
1 AAATAG-GACAGAATTT
1922544 -AAT--GACAGAATTT
1 AAATAGGACAGAATTT
*
1922557 AAATAGGACAAAATTT
1 AAATAGGACAGAATTT
1922573 GTAATAGTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 10 0.40
14 3 0.12
16 12 0.48
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (16 bp):
AAATAGGACAGAATTT
Found at i:1923042 original size:155 final size:152
Alignment explanation
Indices: 1922745--1923270 Score: 478
Period size: 155 Copynumber: 3.4 Consensus size: 152
1922735 TCTAGTAGTG
* * * *
1922745 TTAGGATAGGTTCATCCTTTTATGATCATTTT-AGTGCCCTTT-AGAGTTACCAAGATATTTTC-
1 TTAGGAAAGGTTCATCCTTTTATGATCATTTTCA-TG-TCTTTAAG-GTTACCAGGATACTTTCA
* * * *
1922807 ATGTCGAAAATATAAC-CCAAGGGCATTTTGGTAATTTCTATAGAAACAAGTCTTAAGTAGTCAT
63 AT-T-GAAAGTATATCTTCAA-GGCATTTTGGTAATTTCCATAG-AACAAGTCTTAAGTAGTCAT
* ** *
1922871 -TAGATCATTTTCATGCCAAAGGTGTGCAT
124 GCA-ATTGTTTTTATGCCAAAGGTGTGCAT
* *
1922900 TTAGGAAAGGTTCATCCTTTTATTATCATTTTCATGTCTTTTAAGGTTACCTGGATACTTTCACA
1 TTAGGAAAGGTTCATCCTTTTATGATCATTTTCATGTC-TTTAAGGTTACCAGGATACTTTCA-A
** * *
1922965 TTGAAAGTATATCTTCAAGGCATTTCAGTAATTTCCCTAGAATCAAGTCTTAAGTAGTCATGGAA
64 TTGAAAGTATATCTTCAAGGCATTTTGGTAATTTCCATAGAA-CAAGTCTTAAGTAGTCATGCAA
* *
1923030 TTGTTTTTATGCCAAAAGTATGCAT
128 TTGTTTTTATGCCAAAGGTGTGCAT
* * *
1923055 TTAGGATAAGG-TCGTCATTTTATGATCATTTTCATGTCTTTAGGGTTACCAGGATACTTTCAAG
1 TTAGGA-AAGGTTCATCCTTTTATGATCATTTTCATGTCTTTAAGGTTACCAGGATACTTTCAA-
** * * * *
1923119 TTGAGGGTGTAT-TCTAAAGGCATTTTGGTAATTTCCTTAGAACTAAGTCTTAATTAGTCA-GCA
64 TTGAAAGTATATCT-TCAAGGCATTTTGGTAATTTCCATAGAAC-AAGTCTTAAGTAGTCATGCA
* * *
1923182 AGTTGCTTTTATGTCAAAGGTGTACAT
127 A-TTGTTTTTATGCCAAAGGTGTGCAT
* * * * * *
1923209 TTAGGATAGATTCATCCTTTTATGATC-TTATT-ATATCCTTTGAGGTTATCAAGATACTTTCA
1 TTAGGAAAGGTTCATCCTTTTATGATCATT-TTCATGT-CTTTAAGGTTACCAGGATACTTTCA
1923271 CGTCGAAGGT
Statistics
Matches: 308, Mismatches: 47, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
153 13 0.04
154 136 0.44
155 145 0.47
156 12 0.04
157 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (152 bp):
TTAGGAAAGGTTCATCCTTTTATGATCATTTTCATGTCTTTAAGGTTACCAGGATACTTTCAATT
GAAAGTATATCTTCAAGGCATTTTGGTAATTTCCATAGAACAAGTCTTAAGTAGTCATGCAATTG
TTTTTATGCCAAAGGTGTGCAT
Found at i:1923192 original size:154 final size:156
Alignment explanation
Indices: 1922745--1923375 Score: 460
Period size: 154 Copynumber: 4.1 Consensus size: 156
1922735 TCTAGTAGTG
* * * * *
1922745 TTAGGAT-AGGTTCATCCTTTTATGATCATTTT-AGTGCCCTTT-AGAGTTACCAAGATATTTTC
1 TTAGGATAAGGTTCATCATTTTATGATCATTTTCA-TGTCTTTTAAG-GTTACCAGGATACTTTC
** * * * ** *
1922807 ATGTCGAAAATATAACCCAAGGGCATTTTGGTAATTT-CTATAGAAAC-AAGTCTTAAGTAGTCA
64 ACATTGAAAGTATATCTTAAAGGCATTTTGGTAATTTCCT-TAG-AACTAAGTCTTAAGTAGTCA
** *
1922870 -TTAGAT-CATTTTCATGCCAAAGGTGTGCAT
127 GCAAGTTGC-TTTT-ATGCCAAAGGTGTGCAT
* * *
1922900 TTAGGA-AAGGTTCATCCTTTTATTATCATTTTCATGTCTTTTAAGGTTACCTGGATACTTTCAC
1 TTAGGATAAGGTTCATCATTTTATGATCATTTTCATGTCTTTTAAGGTTACCAGGATACTTTCAC
* ** * *
1922964 ATTGAAAGTATATCTTCAAGGCATTTCAGTAATTTCCCTAGAA-TCAAGTCTTAAGTAGTCATGG
66 ATTGAAAGTATATCTTAAAGGCATTTTGGTAATTTCCTTAGAACT-AAGTCTTAAGTAGTCA-GC
* * *
1923028 AA-TTGTTTTTATGCCAAAAGTATGCAT
129 AAGTTGCTTTTATGCCAAAGGTGTGCAT
* *
1923055 TTAGGATAAGG-TCGTCATTTTATGATCATTTTCATGTC-TTTAGGGTTACCAGGATACTTTCA-
1 TTAGGATAAGGTTCATCATTTTATGATCATTTTCATGTCTTTTAAGGTTACCAGGATACTTTCAC
** * *
1923117 AGTTGAGGGTGTAT-TCTAAAGGCATTTTGGTAATTTCCTTAGAACTAAGTCTTAATTAGTCAGC
66 A-TTGAAAGTATATCT-TAAAGGCATTTTGGTAATTTCCTTAGAACTAAGTCTTAAGTAGTCAGC
* *
1923181 AAGTTGCTTTTATGTCAAAGGTGTACAT
129 AAGTTGCTTTTATGCCAAAGGTGTGCAT
* * * * * * *
1923209 TTAGGAT-AGATTCATCCTTTTATGATC-TTATT-ATATCCTTTGAGGTTATCAAGATACTTTCA
1 TTAGGATAAGGTTCATCATTTTATGATCATT-TTCATGTCTTTTAAGGTTACCAGGATACTTTCA
* * * * * * *** * * * * *
1923271 CGTCGAAGGTATACCCTAAGGGCAGTTTTTAAAATTT-TTTATAACAAAGTCCTAGGTAGTCA-C
65 CATTGAAAGTATATCTTAAAGGCA-TTTTGGTAATTTCCTTAGAACTAAGTCTTAAGTAGTCAGC
* *
1923334 TAGGTCT-ATTTTATGCCAAAGGTGTGCAT
129 -AAGT-TGCTTTTATGCCAAAGGTGTGCAT
1923363 TTA-GAT-AGGTTCA
1 TTAGGATAAGGTTCA
1923376 CCTTTTTAAG
Statistics
Matches: 382, Mismatches: 72, Indels: 46
0.76 0.14 0.09
Matches are distributed among these distances:
153 23 0.06
154 194 0.51
155 151 0.40
156 13 0.03
157 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (156 bp):
TTAGGATAAGGTTCATCATTTTATGATCATTTTCATGTCTTTTAAGGTTACCAGGATACTTTCAC
ATTGAAAGTATATCTTAAAGGCATTTTGGTAATTTCCTTAGAACTAAGTCTTAAGTAGTCAGCAA
GTTGCTTTTATGCCAAAGGTGTGCAT
Found at i:1925895 original size:22 final size:19
Alignment explanation
Indices: 1925864--1925907 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
1925854 CTTTGTGCAC
1925864 TTTTCTTTTCATTTCATGCTT
1 TTTTCTTTTC-TTTCAT-CTT
*
1925885 TTTTGCTTTTCTTTTATCTT
1 TTTT-CTTTTCTTTCATCTT
1925905 TTT
1 TTT
1925908 CTATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.07, C:0.16, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTCTTTTCTTTCATCTT
Found at i:1931210 original size:6 final size:6
Alignment explanation
Indices: 1931201--1931234 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1931191 AAATAAATCC
*
1931201 AAAATT AAAA-G AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1931235 ATGTAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (6 bp):
AAAATT
Found at i:1931220 original size:23 final size:22
Alignment explanation
Indices: 1931185--1931233 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1931175 AACTAGTAAA
*
1931185 AAAATAAAAT-AAATCCAAAATT
1 AAAAGAAAATAAAAT-CAAAATT
*
1931207 AAAAGAAAATTAAAATTAAAATT
1 AAAAGAAAA-TAAAATCAAAATT
1931230 AAAA
1 AAAA
1931234 TATGTAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 11 0.48
24 4 0.17
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAGAAAATAAAATCAAAATT
Found at i:1936852 original size:20 final size:20
Alignment explanation
Indices: 1936827--1936864 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1936817 TCAAAAACCT
1936827 AAAATGTATCAATACAATAA
1 AAAATGTATCAATACAATAA
1936847 AAAATGTATCAATACAAT
1 AAAATGTATCAATACAAT
1936865 TGTAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAATGTATCAATACAATAA
Found at i:1936878 original size:22 final size:19
Alignment explanation
Indices: 1936826--1936884 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
1936816 GTCAAAAACC
1936826 TAAAATGTATCAATACAAT
1 TAAAATGTATCAATACAAT
*
1936845 AAAAAATGTATCAATACAATT
1 -TAAAATGTATCAATACAA-T
*
1936866 GTAAACATGTATCGATACA
1 -TAAA-ATGTATCAATACA
1936885 TTTAGCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.52
21 4 0.12
22 12 0.36
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAAATGTATCAATACAAT
Found at i:1938338 original size:10 final size:10
Alignment explanation
Indices: 1938320--1938354 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1938310 TCTATACATT
*
1938320 GGCTTGTAAC
1 GGCTAGTAAC
1938330 GGCTAGTAAC
1 GGCTAGTAAC
1938340 GGCTAGTAAC
1 GGCTAGTAAC
1938350 GGCTA
1 GGCTA
1938355 TATTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:1944260 original size:40 final size:42
Alignment explanation
Indices: 1944198--1944278 Score: 94
Period size: 40 Copynumber: 1.9 Consensus size: 42
1944188 AGTGCACTTT
* * *
1944198 TGATGTTTTATTTGATTAAATTT-TG-TGATTTTGTGTTGAA
1 TGATGTTGTAATTGAATAAATTTATGATGATTTTGTGTTGAA
*
1944238 TGATGTTGTAATTGAATGAATTTGATGATTGATTTTGTGTT
1 TGATGTTGTAATTGAATAAATTT-ATGA-TGATTTTGTGTT
1944279 TTTATTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
40 19 0.58
42 2 0.06
44 12 0.36
ACGTcount: A:0.23, C:0.00, G:0.22, T:0.54
Consensus pattern (42 bp):
TGATGTTGTAATTGAATAAATTTATGATGATTTTGTGTTGAA
Found at i:1944454 original size:13 final size:13
Alignment explanation
Indices: 1944436--1944474 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1944426 ACATCATTCT
1944436 TTGTATCGATACA
1 TTGTATCGATACA
1944449 TTGTATCGATACA
1 TTGTATCGATACA
*
1944462 CTGTATCGATACA
1 TTGTATCGATACA
1944475 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1946309 original size:43 final size:43
Alignment explanation
Indices: 1946260--1946346 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
1946250 TATATGTGCA
1946260 AATAAATTTTTGATTAAAGGGGAGAAAAAGATAAGTGCTTATG
1 AATAAATTTTTGATTAAAGGGGAGAAAAAGATAAGTGCTTATG
* *
1946303 AATAAATTTTTGATTAAGGGGGAGAAAGAGATAAGTGCTTATG
1 AATAAATTTTTGATTAAAGGGGAGAAAAAGATAAGTGCTTATG
1946346 A
1 A
1946347 TTAAGGGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (43 bp):
AATAAATTTTTGATTAAAGGGGAGAAAAAGATAAGTGCTTATG
Found at i:1947073 original size:13 final size:13
Alignment explanation
Indices: 1947055--1947079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1947045 ACACATAGGA
1947055 TGTATCGATACAT
1 TGTATCGATACAT
1947068 TGTATCGATACA
1 TGTATCGATACA
1947080 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1947096 original size:33 final size:32
Alignment explanation
Indices: 1947035--1947102 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1947025 GTAGCTAAAC
**
1947035 TTGTATCGATACACATAGGATGTATCGATACA
1 TTGTATCGATACACATAAAATGTATCGATACA
1947067 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CATAAAATGTATCGATACA
1947100 TTG
1 TTG
1947103 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACATAAAATGTATCGATACA
Found at i:1948335 original size:19 final size:19
Alignment explanation
Indices: 1948285--1948339 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 19
1948275 TGATTACATT
*
1948285 AATAT-TAATATTTATTTA
1 AATATATAATAATTATTTA
* *
1948303 ACT-TA-AAAAATTATTTA
1 AATATATAATAATTATTTA
1948320 AATATATAATAATTATTTA
1 AATATATAATAATTATTTA
1948339 A
1 A
1948340 TATGAGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.45
18 4 0.14
19 12 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATATAATAATTATTTA
Found at i:1949065 original size:95 final size:95
Alignment explanation
Indices: 1948902--1949076 Score: 287
Period size: 95 Copynumber: 1.8 Consensus size: 95
1948892 TGAATCACTC
* * * * *
1948902 ATTGGTTTTTAATGGCCACCATGAAGTGGCCAAAAATTTGGAGTCATCACCTAGCATTTGGCTAA
1 ATTGGTCTTTAATAGCCACCATGAAGTGGCCAAAAATTTAGAGTCACCACCTACCATTTGGCTAA
1948967 GTATGATCAACACCTGTAATCACTCATCTA
66 GTATGATCAACACCTGTAATCACTCATCTA
* *
1948997 ATTGGTCTTTAATAGCCACCATGAAGTTGCCAAAAATTTAGAGTCGCCACCTACCATTTGGCTAA
1 ATTGGTCTTTAATAGCCACCATGAAGTGGCCAAAAATTTAGAGTCACCACCTACCATTTGGCTAA
1949062 GTATGATCAACACCT
66 GTATGATCAACACCT
1949077 ATTAAAATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (95 bp):
ATTGGTCTTTAATAGCCACCATGAAGTGGCCAAAAATTTAGAGTCACCACCTACCATTTGGCTAA
GTATGATCAACACCTGTAATCACTCATCTA
Found at i:1952626 original size:28 final size:28
Alignment explanation
Indices: 1952554--1952634 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
1952544 CATAGTCCGA
1952554 GGAATTATTATTCAATTATATAAGAATT
1 GGAATTATTATTCAATTATATAAGAATT
* ** * *
1952582 GTTAATTGA-TA-AGAATTATGTAAGAGTT
1 G-GAATT-ATTATTCAATTATATAAGAATT
1952610 GGAATTATTATTCAATTATATAAGA
1 GGAATTATTATTCAATTATATAAGA
1952635 TGTACATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
26 1 0.03
27 6 0.15
28 26 0.65
29 6 0.15
30 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (28 bp):
GGAATTATTATTCAATTATATAAGAATT
Found at i:1952917 original size:22 final size:21
Alignment explanation
Indices: 1952877--1952926 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1952867 AACAATCTAC
*
1952877 ACATATAGTAAAATAATATGT
1 ACATATAGTAAAATAATATAT
*
1952898 ATATATAGTAAAA-ACGATATAT
1 ACATATAGTAAAATA--ATATAT
1952920 ACATATA
1 ACATATA
1952927 CCCTAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (21 bp):
ACATATAGTAAAATAATATAT
Found at i:1953052 original size:25 final size:22
Alignment explanation
Indices: 1953000--1953061 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
1952990 TCCTCTGAAT
*
1953000 AAAATAATATTTAAATATAGTA
1 AAAATAATATGTAAATATAGTA
1953022 AAAATAATATGTAAATATAGTA
1 AAAATAATATGTAAATATAGTA
* *
1953044 AAAACAATATGTATATAT
1 AAAATAATATGTAAATAT
1953062 GTTTTAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (22 bp):
AAAATAATATGTAAATATAGTA
Found at i:1953196 original size:20 final size:22
Alignment explanation
Indices: 1953154--1953201 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1953144 ATTATGTATG
*
1953154 TATAGTAAAAATAATATATATA
1 TATAATAAAAATAATATATATA
* *
1953176 TATAATAAAAATGATAAATATA
1 TATAATAAAAATAATATATATA
1953198 TATA
1 TATA
1953202 CCCAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
TATAATAAAAATAATATATATA
Found at i:1955806 original size:2 final size:2
Alignment explanation
Indices: 1955799--1955844 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1955789 AAGGTTTGAT
1955799 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1955841 TC TC
1 TC TC
1955845 ACACCCACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1957845 original size:2 final size:2
Alignment explanation
Indices: 1957840--1957881 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1957830 CAGACAGCTG
*
1957840 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1957882 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:1957886 original size:2 final size:2
Alignment explanation
Indices: 1957881--1957911 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1957871 TCTCTCTCTC
1957881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1957912 CATTTTCCTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1958552 original size:31 final size:31
Alignment explanation
Indices: 1958516--1958577 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1958506 TCAACGTCAG
1958516 ATGTTTAAATTGAGACGGGTTCTTCTGCCTT
1 ATGTTTAAATTGAGACGGGTTCTTCTGCCTT
1958547 ATGTTTAAATTGAGACGGGTTCTTCTGCCTT
1 ATGTTTAAATTGAGACGGGTTCTTCTGCCTT
1958578 TCTTTTGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (31 bp):
ATGTTTAAATTGAGACGGGTTCTTCTGCCTT
Found at i:1959878 original size:22 final size:23
Alignment explanation
Indices: 1959859--1959909 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1959849 TTATTTAACT
1959859 ATAATTT-TTTAATAAGTTAAAA
1 ATAATTTGTTTAATAAGTTAAAA
*
1959881 ATATTTTGTTTAATAAGTTAAAA
1 ATAATTTGTTTAATAAGTTAAAA
1959904 A-AATTT
1 ATAATTT
1959910 AATTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
ATAATTTGTTTAATAAGTTAAAA
Found at i:1959915 original size:22 final size:23
Alignment explanation
Indices: 1959859--1959915 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
1959849 TTATTTAACT
*
1959859 ATAATTT-TTTAATAAGTTAAAA
1 ATAATTTAATTAATAAGTTAAAA
* **
1959881 ATATTTTGTTTAATAAGTTAAAA
1 ATAATTTAATTAATAAGTTAAAA
1959904 A-AATTTAATTAA
1 ATAATTTAATTAA
1959916 AAAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (23 bp):
ATAATTTAATTAATAAGTTAAAA
Found at i:1961575 original size:11 final size:11
Alignment explanation
Indices: 1961546--1961586 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
1961536 AAAGATAAAT
1961546 TTATTTATTT-
1 TTATTTATTTA
1961556 TTA-TTATTTA
1 TTATTTATTTA
1961566 TTATTTATTTA
1 TTATTTATTTA
*
1961577 TTATTAATTT
1 TTATTTATTT
1961587 TTGCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 16 0.57
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:1961581 original size:7 final size:7
Alignment explanation
Indices: 1961546--1961574 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1961536 AAAGATAAAT
1961546 TTATTTA
1 TTATTTA
1961553 TT-TTTA
1 TTATTTA
1961559 TTATTTA
1 TTATTTA
1961566 TTATTTA
1 TTATTTA
1961573 TT
1 TT
1961575 TATTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:1962953 original size:30 final size:31
Alignment explanation
Indices: 1962894--1962965 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
1962884 CCCTTTAAAT
* * *
1962894 CCTTAAAATATTATTTTTTTGTTTAATTAAGC
1 CCTTAAAGTATTACTTTTATG-TTAATTAAGC
1962926 CCTTAAAGTATTACTTTTATG-TAATTAAGC
1 CCTTAAAGTATTACTTTTATGTTAATTAAGC
**
1962956 TATTAAAGTA
1 CCTTAAAGTA
1962966 CTATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 17 0.49
32 18 0.51
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (31 bp):
CCTTAAAGTATTACTTTTATGTTAATTAAGC
Found at i:1963440 original size:16 final size:16
Alignment explanation
Indices: 1963422--1963482 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
1963412 ATAAATTTGG
*
1963422 ATTTAGATTATTTTAG
1 ATTTAGATTATTTTAA
*
1963438 A-TTGGAGTTA-TTTAA
1 ATTTAGA-TTATTTTAA
*
1963453 ATTTAAATTATTTTAA
1 ATTTAGATTATTTTAA
1963469 ATTT-GAATTATTTT
1 ATTTAG-ATTATTTT
1963483 GAGTTTAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
ATTTAGATTATTTTAA
Found at i:1963463 original size:31 final size:31
Alignment explanation
Indices: 1963422--1963481 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1963412 ATAAATTTGG
* * *
1963422 ATTTAGATTATTTTAGATTGGAGTTATTTAA
1 ATTTAAATTATTTTAAATTGGAATTATTTAA
*
1963453 ATTTAAATTATTTTAAATTTGAATTATTT
1 ATTTAAATTATTTTAAATTGGAATTATTT
1963482 TGAGTTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (31 bp):
ATTTAAATTATTTTAAATTGGAATTATTTAA
Found at i:1963830 original size:21 final size:21
Alignment explanation
Indices: 1963806--1963845 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1963796 ATTAAGGGTA
1963806 TTATATATAAATTTTGATATG
1 TTATATATAAATTTTGATATG
* *
1963827 TTATGTATATATTTTGATA
1 TTATATATAAATTTTGATA
1963846 CATTTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTATATATAAATTTTGATATG
Found at i:1963893 original size:29 final size:28
Alignment explanation
Indices: 1963860--1963916 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
1963850 TATATATTCA
*
1963860 TATTCTA-CTAGTATTATTTTTTCTTATTG
1 TATTCTATCTAG--TTATTTTTTCATATTG
1963889 TATTCTATTCTAGTTATTTTTTCATATT
1 TATTCTA-TCTAGTTATTTTTTCATATT
1963917 CATTTCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 21 0.84
31 4 0.16
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (28 bp):
TATTCTATCTAGTTATTTTTTCATATTG
Found at i:1964085 original size:21 final size:21
Alignment explanation
Indices: 1964060--1964109 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1964050 CATATTTAAG
1964060 ATATTCTATATAAATTTTGAT
1 ATATTCTATATAAATTTTGAT
* *
1964081 ATATTATATATAGATTTTGAT
1 ATATTCTATATAAATTTTGAT
1964102 ATA-TCTAT
1 ATATTCTAT
1964110 GTTGTGTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (21 bp):
ATATTCTATATAAATTTTGAT
Found at i:1964163 original size:28 final size:28
Alignment explanation
Indices: 1964122--1964175 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1964112 TGTGTCAGTA
1964122 TTTTTTTGTATTGTATTGTGTTTTAGTT
1 TTTTTTTGTATTGTATTGTGTTTTAGTT
*
1964150 TTTTTTTGTGTTGTATTGTGTTTTAG
1 TTTTTTTGTATTGTATTGTGTTTTAG
1964176 ATGTTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.20, T:0.70
Consensus pattern (28 bp):
TTTTTTTGTATTGTATTGTGTTTTAGTT
Found at i:1964205 original size:17 final size:16
Alignment explanation
Indices: 1964183--1964216 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1964173 TAGATGTTAG
*
1964183 TATTATTTTTTATATTA
1 TATTATATTTTA-ATTA
1964200 TATTATATTTTAATTA
1 TATTATATTTTAATTA
1964216 T
1 T
1964217 TTTTTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATATTTTAATTA
Found at i:1968966 original size:25 final size:25
Alignment explanation
Indices: 1968920--1968967 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1968910 GGATTTTCAA
* *
1968920 TCCAGATTTTTTTCATTATATTATT
1 TCCAAATTTTTTTCATAATATTATT
1968945 TCCAAATTTTTTT-ATAATTATTA
1 TCCAAATTTTTTTCATAA-TATTA
1968968 ATTCTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (25 bp):
TCCAAATTTTTTTCATAATATTATT
Found at i:1968995 original size:5 final size:5
Alignment explanation
Indices: 1968965--1969012 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
1968955 TTTATAATTA
*
1968965 TTAAT TCTAATT TTAAT TT-TT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT T-TAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1969013 TATGTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.08
5 27 0.71
6 6 0.16
7 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (5 bp):
TTAAT
Found at i:1970818 original size:53 final size:54
Alignment explanation
Indices: 1970716--1970819 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 54
1970706 CCCTCAGAAG
* * * ***
1970716 TGGGGTTGAAGTTTCCTCAGAGATTAAAATTTTGGTATTGTGGAAGTAAAAAAA
1 TGGGGTTGAAGTATCCTCAGAGATGAAAAATTCAATATTGTGGAAGTAAAAAAA
*
1970770 TGGGGTTGAAGTATCCT-AGAGATGAAAAATTCAATATTTTGGAAGTAAAA
1 TGGGGTTGAAGTATCCTCAGAGATGAAAAATTCAATATTGTGGAAGTAAAA
1970820 GCTAGATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 27 0.63
54 16 0.37
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (54 bp):
TGGGGTTGAAGTATCCTCAGAGATGAAAAATTCAATATTGTGGAAGTAAAAAAA
Found at i:1970876 original size:80 final size:80
Alignment explanation
Indices: 1970772--1970962 Score: 262
Period size: 80 Copynumber: 2.4 Consensus size: 80
1970762 TAAAAAAATG
* * *
1970772 GGGTTGAAGTAT-CCTAGAGATGAAAAATTCAATATTTTGGAAGTAAAAGCT-AGATT-ATAGTA
1 GGGTTGGAGTATCCCTAGAGATGAAAAATTCAACATTTTGGAAGTAAAA-ATGAGATTGA-AGTA
*
1970834 TCCCCTCAGAGATGGTA
64 TCCCCTCAGAGACGGTA
* * *
1970851 GGGTTGGAGTATCCCTAGAGATGAAAAATTCGACATTTTGGAAGTAAAAATGGGGTTGAAGTATC
1 GGGTTGGAGTATCCCTAGAGATGAAAAATTCAACATTTTGGAAGTAAAAATGAGATTGAAGTATC
* *
1970916 CTCTCAGATACGGTA
66 CCCTCAGAGACGGTA
1970931 GGGTTGGAGTATCCCTAGAGATGAAAAATTCA
1 GGGTTGGAGTATCCCTAGAGATGAAAAATTCA
1970963 GTGTTTTAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.12
80 86 0.87
81 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (80 bp):
GGGTTGGAGTATCCCTAGAGATGAAAAATTCAACATTTTGGAAGTAAAAATGAGATTGAAGTATC
CCCTCAGAGACGGTA
Found at i:1973499 original size:21 final size:20
Alignment explanation
Indices: 1973452--1973505 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1973442 CATTACAAGC
* *
1973452 ATGTATCAATACATTCATTT
1 ATGTATCAATACATTAACTT
1973472 ATGTATCAATACATTAACTT
1 ATGTATCAATACATTAACTT
*
1973492 ATTGTATCGATACA
1 A-TGTATCAATACA
1973506 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (20 bp):
ATGTATCAATACATTAACTT
Found at i:1973798 original size:2 final size:2
Alignment explanation
Indices: 1973791--1973829 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1973781 ATTTGTTTAC
1973791 AT AT AT AT 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 AT AT AT AT A
1973830 CGTTTGATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1975328 original size:155 final size:154
Alignment explanation
Indices: 1974812--1975332 Score: 394
Period size: 155 Copynumber: 3.4 Consensus size: 154
1974802 CCTCAAGGGT
* * * * * *
1974812 ATTTTGATAATTTTCTTAGAA-TAGAGTCTTAGGTCATCACTAGGTCACTTTTATGCCAAATGTG
1 ATTTTGGTAATTTTCTTAGAACT-GAGTCCTAGGTCGTCACCAGGTCATTTTTATGCCAAAAGTG
* * * *
1974876 TGAATTTAGGATAGGTTCATCCTTTTACTTATCATTTTCATGTCTTTTAAGTTACTAGGAGAT--
65 TGCATTTAGGATAGGTTCATCCTTTTACTAATCATTTTCATGTCTTTTAGGTTAC--CGAGATAC
* * * * *
1974939 TTTCACGTCTAAAGTATACCCTAAGGGC
128 TTCCACATCGAAAGTATACCTTAA-AGC
* * *
1974967 ATTTTGGT-ATTTTTTTAGAACCT-AGTCCTAGGTCGTTACCTA-GT--TGCTTTATGCCAAAAG
1 ATTTTGGTAATTTTCTTAGAA-CTGAGTCCTAGGTCGTCACC-AGGTCAT-TTTTATGCCAAAAG
* * ** * *** *
1975027 TGTGCATTTAGAATAGGTTCATCCTTTTACTTATTTTTTTTCTTGTCTTTTAGGGTTATTAAAAT
63 TGTGCATTTAGGATAGGTTCATCCTTTTAC-TAATCATTTTCATGTCTTTTA-GGTTACCGAGAT
* * *
1975092 ACTTCCACATCGAATGTTTACCCTAAAAGC
126 ACTTCCACATCGAAAGTATA-CCTTAAAGC
* * * * * * *** * * *
1975122 ATTTTGGGAGTTTCCCTAGAACTGAATCCTAGGTAGTCATTGGGTCGTTTTTATGCCAAAGGAGT
1 ATTTTGGTAATTTTCTTAGAACTGAGTCCTAGGTCGTCACCAGGTCATTTTTATGCCAAAAGTGT
* ** * *
1975187 GCTTTTAGGATAGGTTCATCCTTTTA-TGCTCATTTTCGTGTCATTTAGGATTACCGAGATACTT
66 GCATTTAGGATAGGTTCATCCTTTTACTAATCATTTTCATGTCTTTTAGG-TTACCGAGATACTT
* * *
1975251 GCACATAGAAGGTATACCTTTAAAGC
130 CCACATCGAAAGTATACC-TTAAAGC
* * *
1975277 ATTTTGGTAATTTTCTTAGAATTGAGTCGTAGGTTGTCACCAGGTCATTTTTATGC
1 ATTTTGGTAATTTTCTTAGAACTGAGTCCTAGGTCGTCACCAGGTCATTTTTATGC
1975333 TAAATGTATG
Statistics
Matches: 278, Mismatches: 72, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
153 43 0.15
154 46 0.17
155 123 0.44
156 27 0.10
157 38 0.14
158 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (154 bp):
ATTTTGGTAATTTTCTTAGAACTGAGTCCTAGGTCGTCACCAGGTCATTTTTATGCCAAAAGTGT
GCATTTAGGATAGGTTCATCCTTTTACTAATCATTTTCATGTCTTTTAGGTTACCGAGATACTTC
CACATCGAAAGTATACCTTAAAGC
Found at i:1975826 original size:156 final size:155
Alignment explanation
Indices: 1975480--1975961 Score: 395
Period size: 156 Copynumber: 3.1 Consensus size: 155
1975470 TACCCCATAT
** *
1975480 GCATTTT-AGTAATTTCTTTAGAATTGAGTCCTA-G-GTTACCACTAGGTCGCTTTTATGCCAAG
1 GCATTTTGA-TAATTTCCCTAGAATTGAGTCCTAGGTGTTA-C-CTA-GTCGCTTTTATGCCAAA
* * * * *
1975542 GGTATGCATTTTGGATAGGTTCGTCCTTTTATTTATCATTTTCATGTCCTTTAAGGTTACTAGGA
62 AGTGTGCATTTAGGATAGGTTCATCTTTTTATTTATCATTTTCATGTCCTTTAAGGTTACTAGGA
* ** * *
1975607 TATTTTAATGTCTAAAGTATACCCTAAGG
127 TACTTTAACATCGAAAGTATACCCTAAAG
* ** * * * *
1975636 GCGTTTTGATAATTTCTTTATACCTT-AGTTCTAGGTCGTTACCTAGTTGCTTTTATGCCAAAAG
1 GCATTTTGATAATTTCCCTAGA-ATTGAGTCCTAGGT-GTTACCTAGTCGCTTTTATGCCAAAAG
* * *
1975700 TGTACATTTAGGATAGGTTCATCTTTTTATTTATCTTTTTCATGTCCTTTAAGGTTA-TCGGGAT
64 TGTGCATTTAGGATAGGTTCATCTTTTTATTTATCATTTTCATGTCCTTTAAGGTTACT-AGGAT
* * *
1975764 ACTTTCACATCGAATGTTTACCCTAAAG
128 ACTTTAACATCGAAAGTATACCCTAAAG
* ** * * * *
1975792 GCATTTTGGTGGTTTCCCTAGAATTGAGTCCTAGGTAGTCA-CTGGGTCACTTTTATGCCAAATG
1 GCATTTTGATAATTTCCCTAGAATTGAGTCCTAGGT-GTTACCT-AGTCGCTTTTATGCCAAAAG
* * * ** ** *
1975856 AGTGCTTTTAGGATAGGTTTATCTTTTTA-TGCTCATTTTTGTGTCATTT-AGGATTACTAGGAT
64 TGTGCATTTAGGATAGGTTCATCTTTTTATTTATCATTTTCATGTCCTTTAAGG-TTACTAGGAT
* * * **
1975919 ACTTTCACGTTGAAAGTATACTTTAAAG
128 ACTTTAACATCGAAAGTATACCCTAAAG
*
1975947 GCATTTGGATAATTT
1 GCATTTTGATAATTT
1975962 TCTTAAAATC
Statistics
Matches: 258, Mismatches: 58, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
154 3 0.01
155 59 0.23
156 184 0.71
157 7 0.03
158 1 0.00
159 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (155 bp):
GCATTTTGATAATTTCCCTAGAATTGAGTCCTAGGTGTTACCTAGTCGCTTTTATGCCAAAAGTG
TGCATTTAGGATAGGTTCATCTTTTTATTTATCATTTTCATGTCCTTTAAGGTTACTAGGATACT
TTAACATCGAAAGTATACCCTAAAG
Found at i:1976381 original size:672 final size:668
Alignment explanation
Indices: 1974790--1976410 Score: 1895
Period size: 672 Copynumber: 2.4 Consensus size: 668
1974780 ATACTTTTAC
* * * * *
1974790 GTCGAAGGTATACCTCA-AGGGTATTTTGATAATTT-TCTTAGAATAGAGTCTTAGGTCATCACT
1 GTCGAAGGTATACCCCATA-TGCATTTTGGTAATTTCTC-TAGAATA-AGTCCTAGGTCATCACT
* *
1974853 AGGTCACTTTTATGCCAAATGTGTG-AATTTAGGATAGGTTCATCCTTTTACTTATCATTTTCAT
63 AGGTCACTTTTATGCCAAAGGTGTGCAA-TTAGGATAGGTTCATCCTTTTATTTATCATTTTCAT
* * * *
1974917 GTCTTTTAAGTTACTAGGAGATTTTCACGTCTAAAGTATACCCTAAGGGCATTTTGGT-ATTTTT
127 GTCTTTTAGGTTACTAGGATATTTTCACGTCTAAAGTATACCCTAAGGGCATTTTGATAATTTCT
* * *
1974981 TTAGAACCTAGTCCTAGGTCGTTACCTAGTTGC-TTTATGCCAAAAGTGTG-CATTTAGAATAGG
192 TTAGAA-TTAGTCTTAGGTCGTTACCTAGTTGCTTTTATGCCAAAAG-GTGACATTTAGGATAGG
* * * * *
1975044 TTCATCCTTTTACTTATTTTTTTTCTTGTCTTTTAGGGTTATTAAAATACTTCCACATCGAATGT
255 TTCATCCTTTTA-TTA-TCTTTTTCATGTCCTTTAAGGTTATCAAAATACTTCCACATCGAATGT
* **
1975109 TTACCCTAAAAGCATTTTGGGAGTTTCCCTAGAACTGAATCCTAGGTAGTCATTGGGTCGTTTTT
318 TTACCCTAAAAGCATTTTGGGAGTTTCCCTAGAACTGAATCCTAGGTAGTCACTGGGTCACTTTT
1975174 ATGCCAAAGGAGTGCTTTTAGGATAGGTTCATCCTTTTATGCTCATTTTCGTGTCATTTAGGATT
383 ATGCCAAAGGAGTGCTTTTAGGATAGGTTCATCCTTTTATGCTCATTTTCGTGTCATTTAGGATT
* * * *
1975239 ACCGAGATACTTGCACATAGAAGGTATACCTTTAAAGCATTTTGGTAATTTTCTTAGAATTGAGT
448 ACAGAGATACTTGCACATAGAAAGTATACCTTTAAAGCATTTTGGTAATTTTCTTAAAATCGAGT
* * * *
1975304 CGTAGGTTGTCACCAGGTCATTTTTATGCTAAATGTATGCATAAGTTCAATCTTTTACTTATCTT
513 CGTAGATTGTCACCAGCTCATTTTTATGCTAAAGGTATGCATAAGTTCAATCTTTTACTTATATT
* * *
1975369 TTTTGTATCTTTTAAAGTTACCGGGATACTTTCATGTCGAAGATATATTCTAGGGGCATTTTAGT
578 TTTTGTATCTTTTAAAGTTACCAGGATACTTTCATGTCAAAGATATATTCTAAGGGCATTTTAGT
*
1975434 AATTTTACATTAAAAGATACCTTAAG
643 AATTTTACATCAAAAGATACCTTAAG
* * * * * *
1975460 GTTGAAGGTATACCCCATATGCATTTTAGTAATTTCTTTAGAATTGAGTCCTAGGTTACCACTAG
1 GTCGAAGGTATACCCCATATGCATTTTGGTAATTTCTCTAGAA-TAAGTCCTAGGTCATCACTAG
* * * * * *
1975525 GTCGCTTTTATGCCAAGGGTATGCATTTTGGATAGGTTCGTCCTTTTATTTATCATTTTCATGTC
65 GTCACTTTTATGCCAAAGGTGTGCAATTAGGATAGGTTCATCCTTTTATTTATCATTTTCATGT-
* * * *
1975590 CTTTAAGGTTACTAGGATATTTTAATGTCTAAAGTATACCCTAAGGGCGTTTTGATAATTTCTTT
129 CTTTTAGGTTACTAGGATATTTTCACGTCTAAAGTATACCCTAAGGGCATTTTGATAATTTCTTT
* *
1975655 ATACCTTAGT-TCTAGGTCGTTACCTAGTTGCTTTTATGCCAAAA-GTGTACATTTAGGATAGGT
194 AGA-ATTAGTCT-TAGGTCGTTACCTAGTTGCTTTTATGCCAAAAGGTG-ACATTTAGGATAGGT
* *** *
1975718 TCATCTTTTTATTTATCTTTTTCATGTCCTTTAAGGTTATCGGGATACTTTCACATCGAATGTTT
256 TCATCCTTTTA-TTATCTTTTTCATGTCCTTTAAGGTTATCAAAATACTTCCACATCGAATGTTT
* * *
1975783 ACCCTAAAGGCATTTTGGTG-GTTTCCCTAGAATTGAGTCCTAGGTAGTCACTGGGTCACTTTTA
320 ACCCTAAAAGCATTTTGG-GAGTTTCCCTAGAACTGAATCCTAGGTAGTCACTGGGTCACTTTTA
* * * *
1975847 TGCCAAATGAGTGCTTTTAGGATAGGTTTATCTTTTTATGCTCATTTTTGTGTCATTTAGGATTA
384 TGCCAAAGGAGTGCTTTTAGGATAGGTTCATCCTTTTATGCTCATTTTCGTGTCATTTAGGATTA
* * *
1975912 CTAG-GATACTTTCACGTTGAAAGTATA-CTTTAAAGGCA-TTTGGATAATTTTCTTAAAATCGA
449 C-AGAGATACTTGCACATAGAAAGTATACCTTTAAA-GCATTTTGG-TAATTTTCTTAAAATCGA
*
1975974 GTCTTAGATTGTCACCAGCTCACTTTTATAT-C-AAAGGTATGCATAAGTTCAATCTTTTACTTA
511 GTCGTAGATTGTCACCAGCTCA-TTTT-TATGCTAAAGGTATGCATAAGTTCAATCTTTTACTTA
* * * ** * *
1976037 TATTTTTT-T-TGTTGTTTAGGTCTATTAGGATACTCTT-ATGTCAAAGGTATA-TCTTAAGGGT
574 TATTTTTTGTATCTT-TTAAAGT-TACCAGGATACT-TTCATGTCAAAGATATATTC-TAAGGGC
* ** *
1976098 ATTTTGGTAATTTTATGTCAAAAGTATACGC-TAGG
635 ATTTTAGTAATTTTACATCAAAAG-ATAC-CTTAAG
* * *
1976133 GTCGAAGTTATACCCCATATGCATTTTGGTAATTTCTCTAGAATCAAGTCCTAAGTCATCACTGG
1 GTCGAAGGTATACCCCATATGCATTTTGGTAATTTCTCTAGAAT-AAGTCCTAGGTCATCACTAG
* * *
1976198 GTCTCTTTTATGCCAAAGGTGTGCAATTAGGATAGGTTCATTCTTTTATTTATC-TTATTCAAG-
65 GTCACTTTTATGCCAAAGGTGTGCAATTAGGATAGGTTCATCCTTTTATTTATCATT-TTCATGT
* * * * * *
1976261 CTTTTAGGGTTACGA-GATATTTTCACGTCGAAGGTATA-TCTTAGGTGTATTTTGATAATTTCT
129 CTTTTA-GGTTACTAGGATATTTTCACGTCTAAAGTATACCCTAAGG-GCATTTTGATAATTTCT
* * * * * *
1976324 CTAGAATTGAGTCTTAGGTAGTCA-TTGGGTTACTTTTATGCCAAAAGGTGCACATTTAGGATAG
192 TTAGAATT-AGTCTTAGGTCGTTACCT-AGTTGCTTTTATGCCAAAAGGTG-ACATTTAGGATAG
*
1976388 ATTCATCCTTTTATTATCTTTTT
254 GTTCATCCTTTTATTATCTTTTT
1976411 ACATCTTTTA
Statistics
Matches: 802, Mismatches: 118, Indels: 61
0.82 0.12 0.06
Matches are distributed among these distances:
670 113 0.14
671 156 0.19
672 369 0.46
673 160 0.20
674 4 0.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (668 bp):
GTCGAAGGTATACCCCATATGCATTTTGGTAATTTCTCTAGAATAAGTCCTAGGTCATCACTAGG
TCACTTTTATGCCAAAGGTGTGCAATTAGGATAGGTTCATCCTTTTATTTATCATTTTCATGTCT
TTTAGGTTACTAGGATATTTTCACGTCTAAAGTATACCCTAAGGGCATTTTGATAATTTCTTTAG
AATTAGTCTTAGGTCGTTACCTAGTTGCTTTTATGCCAAAAGGTGACATTTAGGATAGGTTCATC
CTTTTATTATCTTTTTCATGTCCTTTAAGGTTATCAAAATACTTCCACATCGAATGTTTACCCTA
AAAGCATTTTGGGAGTTTCCCTAGAACTGAATCCTAGGTAGTCACTGGGTCACTTTTATGCCAAA
GGAGTGCTTTTAGGATAGGTTCATCCTTTTATGCTCATTTTCGTGTCATTTAGGATTACAGAGAT
ACTTGCACATAGAAAGTATACCTTTAAAGCATTTTGGTAATTTTCTTAAAATCGAGTCGTAGATT
GTCACCAGCTCATTTTTATGCTAAAGGTATGCATAAGTTCAATCTTTTACTTATATTTTTTGTAT
CTTTTAAAGTTACCAGGATACTTTCATGTCAAAGATATATTCTAAGGGCATTTTAGTAATTTTAC
ATCAAAAGATACCTTAAG
Found at i:1976405 original size:154 final size:155
Alignment explanation
Indices: 1976153--1976476 Score: 399
Period size: 154 Copynumber: 2.1 Consensus size: 155
1976143 TACCCCATAT
*
1976153 GCATTTTGGTAATTTCTCTAGAATCAAGTCCTAAGTCATCACTGGGTCTCTTTTATGCCAAAGGT
1 GCATTTTGGTAATTTCTCTAGAATCAAGTCCTAAGTCATCACTGGGTCTCTTTTATGCCAAAAGT
* * * *
1976218 GTGCAATTAGGATAGGTTCATTCTTTTATTTATCTTATTCA-AGCTTTTAGGGTTA-CGAGATAT
66 GTGCAATTAGGATAGATTCATCCTTTTATTTATCTT-TTCACAGCTTTTAGGGTTATCAAGATAC
* *
1976281 TTTCACGTCGAAGGTATATCTTAGGT
130 TTTCACGTCGAAGGTATACCTTAGGA
* * ** * * *
1976307 GTATTTTGATAATTTCTCTAGAATTGAGTCTTAGGT-AGTCATTGGGT-TACTTTTATGCCAAAA
1 GCATTTTGGTAATTTCTCTAGAATCAAGTCCTAAGTCA-TCACTGGGTCT-CTTTTATGCCAAAA
* * *
1976370 G-GTGCACATTTAGGATAGATTCATCCTTTTA-TTATCTTTTTACATCTTTTAGGGTTATTAAGA
64 GTGTGCA-A-TTAGGATAGATTCATCCTTTTATTTATCTTTTCACAGCTTTTAGGGTTATCAAGA
*
1976433 TACTTTCATGTCGAAGGTATACCTTAGGA
127 TACTTTCACGTCGAAGGTATACCTTAGGA
1976462 GCATTTTGGTAATTT
1 GCATTTTGGTAATTT
1976477 TTTAGAACTA
Statistics
Matches: 144, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
153 10 0.07
154 73 0.51
155 61 0.42
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (155 bp):
GCATTTTGGTAATTTCTCTAGAATCAAGTCCTAAGTCATCACTGGGTCTCTTTTATGCCAAAAGT
GTGCAATTAGGATAGATTCATCCTTTTATTTATCTTTTCACAGCTTTTAGGGTTATCAAGATACT
TTCACGTCGAAGGTATACCTTAGGA
Found at i:1976530 original size:155 final size:154
Alignment explanation
Indices: 1976153--1976530 Score: 367
Period size: 154 Copynumber: 2.5 Consensus size: 154
1976143 TACCCCATAT
* * * * *
1976153 GCATTTTGGTAATTTCTCTAGAA-TCAAGTCCTA-AGTCA-TCACTGGGTCTCTTTTATGCCAAA
1 GCATTTTGATAATTTCTCTAGAACT-AAGTCTTAGA-T-AGTCACTAGATCACTTTTATGCCAAA
* * *
1976215 GGTGTGCAATTAGGATAGGTTCATTCTTTTATTTATCTTATTCAAGCTTTTAGGGTTACGAGATA
63 GGTGTGCAATTAGGATAGATTCATCCTTTTATTTATCTTATTCAAGCTTTTAGGGTTACAAGATA
* * *
1976280 TTTTCACGTCGAAGGTATATCTTAGGT
128 CTTTCACGTCGAAGGTATACCTTAGGA
* * * * * * * * *
1976307 GTATTTTGATAATTTCTCTAGAATTGAGTCTTAGGTAGTCATTGGGTTACTTTTATGCCAAAAG-
1 GCATTTTGATAATTTCTCTAGAACTAAGTCTTAGATAGTCACTAGATCACTTTTATGCCAAAGGT
* * *
1976371 GTGCACATTTAGGATAGATTCATCCTTTTA-TTATCTT-TTTACATCTTTTAGGGTTATTAAGAT
66 GTGCA-A-TTAGGATAGATTCATCCTTTTATTTATCTTATTCA-AGCTTTTAGGGTTA-CAAGAT
*
1976434 ACTTTCATGTCGAAGGTATACCTTAGGA
127 ACTTTCACGTCGAAGGTATACCTTAGGA
* * * * *
1976462 GCATTTTGGTAATTT-TTTAGAACTAAGT-TTGATATAGTCACTAGATCGCTTTTATCCCAAAGG
1 GCATTTTGATAATTTCTCTAGAACTAAGTCTT-AGATAGTCACTAGATCACTTTTATGCCAAAGG
1976525 TGTGCA
65 TGTGCA
1976531 TTAAGAATAG
Statistics
Matches: 182, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
153 11 0.06
154 104 0.57
155 67 0.37
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (154 bp):
GCATTTTGATAATTTCTCTAGAACTAAGTCTTAGATAGTCACTAGATCACTTTTATGCCAAAGGT
GTGCAATTAGGATAGATTCATCCTTTTATTTATCTTATTCAAGCTTTTAGGGTTACAAGATACTT
TCACGTCGAAGGTATACCTTAGGA
Found at i:1981604 original size:52 final size:52
Alignment explanation
Indices: 1981526--1981654 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1981516 CGAAATATGA
*
1981526 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGG-C
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCT-GGCC
*
1981578 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGCC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCC
1981630 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1981655 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
51 2 0.03
52 72 0.97
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCC
Found at i:1981667 original size:52 final size:51
Alignment explanation
Indices: 1981526--1981674 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 51
1981516 CGAAATATGA
1981526 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* *
1981578 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCT-GGCC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGG-C
*
1981630 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1981675 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 85 0.96
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:1981681 original size:13 final size:13
Alignment explanation
Indices: 1981663--1981687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1981653 CAAAGATCAG
1981663 TGTATCGATACAA
1 TGTATCGATACAA
1981676 TGTATCGATACA
1 TGTATCGATACA
1981688 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1981768 original size:13 final size:13
Alignment explanation
Indices: 1981750--1981774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1981740 CAAAAAAATA
1981750 TGTATCGATACAT
1 TGTATCGATACAT
1981763 TGTATCGATACA
1 TGTATCGATACA
1981775 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1981790 original size:33 final size:33
Alignment explanation
Indices: 1981728--1981794 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1981718 AGTAGCTTAA
*
1981728 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
* ***
1981761 ATTGTATCGATACAACACTTTATGCATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
1981794 A
1 A
1981795 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGCATCGATAC
Found at i:1982884 original size:49 final size:49
Alignment explanation
Indices: 1982724--1983093 Score: 467
Period size: 49 Copynumber: 7.7 Consensus size: 49
1982714 AAAAGGATGT
*
1982724 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1982776 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1982819 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1982868 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1982917 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1982966 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1983009 CAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** * *
1983058 CAATAAGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1983094 GAAGGGTTGC
Statistics
Matches: 280, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
43 76 0.27
45 1 0.00
47 2 0.01
48 1 0.00
49 169 0.60
52 31 0.11
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1983007 original size:190 final size:191
Alignment explanation
Indices: 1982724--1983093 Score: 607
Period size: 190 Copynumber: 1.9 Consensus size: 191
1982714 AAAAGGATGT
*
1982724 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGA--GAAAAGGTGCCAATATGCTGATT
*
1982789 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
64 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTT
* **
1982854 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
129 AAAGAAGAAGGTGCCAATAAGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
* * *
1982917 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA-AGAATGTGCCAATATGCTGATTCA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGAGAAAAGGTGCCAATATGCTGATTCA
1982981 AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAA
66 AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAA
* * * *
1983046 AGAAGAAGGTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGGCTTA
131 AGAAGAAGGTGCCAATAAGCTGAGTCAAGGCCAACTACATTGGACTTA
1983094 GAAGGGTTGC
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
190 127 0.77
193 38 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (191 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGAGAAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAA
AGAAGAAGGTGCCAATAAGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
Found at i:1983058 original size:92 final size:92
Alignment explanation
Indices: 1982715--1983098 Score: 534
Period size: 92 Copynumber: 4.1 Consensus size: 92
1982705 AAGATGAGAA
* * *
1982715 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
1982780 ATGCTGATTCAAGGCCAGCGATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1982811 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* * * *
1982876 TGAGTCAAGGCCAACTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1982903 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAATGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
1982968 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1983001 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAAGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
1983066 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1983093 AGAAGG
1 A-AAGG
1983099 GTTGCCACCG
Statistics
Matches: 258, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
92 123 0.48
93 4 0.02
94 1 0.00
95 41 0.16
96 6 0.02
98 83 0.32
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1983169 original size:27 final size:27
Alignment explanation
Indices: 1983135--1983344 Score: 168
Period size: 27 Copynumber: 7.1 Consensus size: 27
1983125 GAAGGAGAAA
1983135 GGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAAG
*
1983162 GGTGCCACGGAGTTGTGGACTTAAAGATG
1 GGTGCCACGGAGTTGTGGGCTTAAA-A-G
*
1983191 AAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 -----GGTGCCACGGAGTTGTGGGCTTAAAAG
* *
1983223 GGTGCCACAGAGTTGTGGACTTAAAGATG
1 GGTGCCACGGAGTTGTGGGCTTAAA-A-G
* *
1983252 AAAAAAGTGCCAAGGAGTTGTGGGCTTAAAAG
1 -----GGTGCCACGGAGTTGTGGGCTTAAAAG
*
1983284 GGTGCCACGGAGTTGTGGGCTTTGAAAAAAA
1 GGTGCCACGGAGTTGTGGGC-TT---AAAAG
* *
1983315 GGTGCCACGGAGTCGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGGC-TTAAAAG
1983343 GG
1 GG
1983345 AAAAAGAGTG
Statistics
Matches: 149, Mismatches: 16, Indels: 35
0.75 0.08 0.17
Matches are distributed among these distances:
27 64 0.43
28 10 0.07
29 2 0.01
31 25 0.17
32 2 0.01
33 2 0.01
34 44 0.30
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:1983430 original size:33 final size:33
Alignment explanation
Indices: 1983285--1983918 Score: 561
Period size: 33 Copynumber: 18.7 Consensus size: 33
1983275 GCTTAAAAGG
* *
1983285 GTGCCACGGAGTTGTGGGCTTT-GAAA-AAAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * *
1983316 GTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAA-A
*
1983352 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTT-AAAA-AG-AAAA-A
1983389 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* *
1983422 GTGCCACGGAGTGGTGGGCTTTGAAAAGGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTT-AAAA--AG-AAAA-A
1983460 GTGCCACGGAGTTGTGGGCTTTAAAAA-AAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
** * * *
1983492 GTGCCATAGAGTGGTGGGCTTTGAGAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * *
1983525 GGTTGCCACGAAATTGTGGGCTTTGAAAAG--AAG
1 -G-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * *
1983558 GTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAA-AAA
* * *
1983591 GTGCCACGAAGTTGTGGAC-TTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAA-A
1983626 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* *
1983659 GTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTT-AAAA-AG-AAAA-A
1983696 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * *
1983729 GTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * *
1983762 GGTTGCCACGAAATTGTGGGCTTTGAAAAG--AAG
1 -G-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * *
1983795 GTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAA-AAA
** * *
1983828 GTGCCACAAAGTTGTGGAC-TTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAA-A
1983863 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1983896 GGTGCCACGGAGTTGTGGGCTTT
1 -GTGCCACGGAGTTGTGGGCTTT
1983919 GAAGAAAAGG
Statistics
Matches: 506, Mismatches: 62, Indels: 67
0.80 0.10 0.11
Matches are distributed among these distances:
30 12 0.02
31 48 0.09
32 27 0.05
33 140 0.28
34 56 0.11
35 90 0.18
36 45 0.09
37 66 0.13
38 22 0.04
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
Found at i:1983446 original size:70 final size:69
Alignment explanation
Indices: 1983285--1983921 Score: 601
Period size: 70 Copynumber: 9.4 Consensus size: 69
1983275 GCTTAAAAGG
* * *
1983285 GTGCCACGGAGTTGTGGGCTTTG--AA--AAAAAG-GTGCCACGGAGTCGTGGACTTTAAAAGGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG
1983345 AAAAAGA
65 -AAAA-A
1983352 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1983417 AAAAA
65 AAAAA
*
1983422 GTGCCACGGAGTGGTGGGCTTTGAAAAGGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1983487 -AAAAA
64 GAAAAA
** * * * * *
1983492 GTGCCATAGAGTGGTGGGCTTTGAGAA-GAAAAAG-GTTGCCACGAAATTGTGGGCTTTGAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAAAAAG
*
1983555 --AAG
65 AAAAA
* * * * * *
1983558 GTGCCACGGAGTCGTGGAC-TT-AAAAGGAACAAG-GTGCCACGAAGTTGTGGAC-TTAAAAGGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG
1983619 AAAAAGA
65 -AAAA-A
* * *
1983626 GTGCCACGGAGTTGTGGGCTTT-AAAAAG-AAAA-AGTGCCACGGAGTGGTGGGCTTTGAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-A
1983688 GAAAAAGA
64 G-AAAA-A
* * * *
1983696 GTGCCACGGAGTTGTGGGCTTT-AAAAAG-AAAA-AGTGCCACGGAGTGGTGGGCTTTGAGAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1983758 AAAA
66 AAAA
* * * * *
1983762 GGTTGCCACGAAATTGTGGGCTTTGAAAA-G---AAG-GTGCCACGGAGTCGTGGAC-TTAAAAG
1 -G-TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
*
1983821 GAACAAG
64 GAA-AAA
** *
1983828 GTGCCACAAAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1983891 AAAAA
65 AAAAA
1983896 GGTGCCACGGAGTTGTGGGCTTTGAA
1 -GTGCCACGGAGTTGTGGGCTTTGAA
1983922 GAAAAGGATG
Statistics
Matches: 486, Mismatches: 50, Indels: 64
0.81 0.08 0.11
Matches are distributed among these distances:
62 4 0.01
63 7 0.01
64 36 0.07
65 17 0.03
66 40 0.08
67 63 0.13
68 76 0.16
69 42 0.09
70 127 0.26
71 43 0.09
72 7 0.01
73 24 0.05
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (69 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
AAAA
Found at i:1983658 original size:237 final size:237
Alignment explanation
Indices: 1983279--1983921 Score: 1117
Period size: 237 Copynumber: 2.7 Consensus size: 237
1983269 TTGTGGGCTT
* * * *
1983279 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGG
1 AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAA-G
* * *
1983344 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
64 GAACAAG-GTGCCACGAAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1983409 TTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGGGGAAAAAGAGTGCCACGGAGTTG
126 TTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAA-GGGAAAAAGAGTGCCACGGAGTTG
*
1983474 TGGGCTTTAAAAA-AAAAAGTGCCATAGAGTGGTGGGCTTTGAGAAGA
190 TGGGCTTTAAAAAGAAAAAGTGCCACAGAGTGGTGGGCTTTGAGAAGA
1983521 AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
1983586 ACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
66 ACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1983651 AAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
131 AAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
*
1983716 TTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGA
196 TTAAAAAGAAAAAGTGCCACAGAGTGGTGGGCTTTGAGAAGA
1983758 AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
*
1983823 ACAAGGTGCCACAAAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
66 ACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
*
1983888 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
131 AAGAAAAA-GTGCCACGGAGTGGTGGGCTTTGAA
1983922 GAAAAGGATG
Statistics
Matches: 388, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
236 37 0.10
237 243 0.63
238 26 0.07
239 17 0.04
240 7 0.02
241 6 0.02
242 52 0.13
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.19
Consensus pattern (237 bp):
AAAAGGTTGCCACGAAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
ACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
TTAAAAAGAAAAAGTGCCACAGAGTGGTGGGCTTTGAGAAGA
Found at i:1983951 original size:32 final size:32
Alignment explanation
Indices: 1983777--1984045 Score: 196
Period size: 31 Copynumber: 8.3 Consensus size: 32
1983767 CCACGAAATT
* *
1983777 GTGGGCTTTGAA-AAGAAGG-TGCCACGGAGTC
1 GTGGACTTTGAAGAA-AAGGATGCCACTGAGTC
** ** *
1983808 GTGGACTTAAAAGGAACAAGG-TGCCACAAAGTT
1 GTGGACTTTGAA-GAA-AAGGATGCCACTGAGTC
** * * *
1983841 GTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTT
1 GTGGACTTTGAA--GAAAAGGA-TGCCACTGAGTC
* * * *
1983876 GTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTT
1 GTGGACTTT--GAAG-AAAAGGATGCCACTGAGTC
* *
1983910 GTGGGCTTTGAAGAAAAGGATGCAACTGAGTC
1 GTGGACTTTGAAGAAAAGGATGCCACTGAGTC
1983942 GTGGACTTTG-AGACAAA--ATGCCACTGAGTC
1 GTGGACTTTGAAGA-AAAGGATGCCACTGAGTC
1983972 GTGGACTTTGAAGAAAAGGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGGATGCCACTGAGTC
*
1984004 GTGGACTTTG-AGAAGA-GATTGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGGA-TGCCACTGAGTC
*
1984035 GTGGGCTTTGA
1 GTGGACTTTGA
1984046 GAAGAGATTT
Statistics
Matches: 202, Mismatches: 21, Indels: 29
0.80 0.08 0.12
Matches are distributed among these distances:
30 27 0.13
31 47 0.23
32 47 0.23
33 30 0.15
34 25 0.12
35 18 0.09
36 5 0.02
37 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (32 bp):
GTGGACTTTGAAGAAAAGGATGCCACTGAGTC
Found at i:1983981 original size:62 final size:63
Alignment explanation
Indices: 1983898--1984045 Score: 228
Period size: 62 Copynumber: 2.4 Consensus size: 63
1983888 AAGAAAAAGG
* *
1983898 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCAACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCAACTGAGTCGTGGACTTTGAGA-AGAGAA
* * *
1983960 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCAACTGAGTCGTGGACTTTGAGAAGAGAA
1984023 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
1984046 GAAGAGATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
61 1 0.01
62 54 0.69
63 23 0.29
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCAACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:1984054 original size:31 final size:30
Alignment explanation
Indices: 1983892--1984053 Score: 191
Period size: 32 Copynumber: 5.2 Consensus size: 30
1983882 TTTAAAAAGA
* * * *
1983892 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
1983923 AAAAGGATGCAACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
1983954 ACAAA-ATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTG-AG
1983985 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
1984016 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
1984047 AAGAGAT
1 AAAAGAT
1984054 TTGAAGAATT
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
30 28 0.24
31 44 0.38
32 45 0.38
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:1992219 original size:52 final size:52
Alignment explanation
Indices: 1992141--1992269 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1992131 CGAAATATGA
*
1992141 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGCC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCC
* *
1992193 AAATTTGCCTGCGTGTATCGATACATTTTATAATGTATCGATACATCTGGCC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCC
1992245 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1992270 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGCC
Found at i:1992282 original size:52 final size:51
Alignment explanation
Indices: 1992141--1992289 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
1992131 CGAAATATGA
1992141 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGCC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGCC
* * *
1992193 AAATTTGCCTGCGTGTATCGATACATTTTATAATGTATCGATACATCTGGCC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGCC
*
1992245 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1992290 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGCC
Found at i:1992296 original size:13 final size:13
Alignment explanation
Indices: 1992278--1992302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1992268 CAAAGATCAG
1992278 TGTATCGATACAA
1 TGTATCGATACAA
1992291 TGTATCGATACA
1 TGTATCGATACA
1992303 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1992383 original size:13 final size:13
Alignment explanation
Indices: 1992365--1992389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1992355 CAAAAAAATA
1992365 TGTATCGATACAT
1 TGTATCGATACAT
1992378 TGTATCGATACA
1 TGTATCGATACA
1992390 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1992405 original size:33 final size:33
Alignment explanation
Indices: 1992343--1992409 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1992333 AGTAGCTTAA
*
1992343 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
* ***
1992376 ATTGTATCGATACAACACTTTATGCATCGATAC
1 ATTGTATCGATACAAAAAAATATGCATCGATAC
1992409 A
1 A
1992410 AATCATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGCATCGATAC
Found at i:1994173 original size:13 final size:13
Alignment explanation
Indices: 1994155--1994180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1994145 CAATTTGGGA
1994155 TGTATCGATACAT
1 TGTATCGATACAT
1994168 TGTATCGATACAT
1 TGTATCGATACAT
1994181 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1994177 original size:33 final size:32
Alignment explanation
Indices: 1994135--1994198 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1994125 TACAAGCCAC
1994135 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
1994168 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1994199 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1994267 original size:21 final size:21
Alignment explanation
Indices: 1994241--1994296 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1994231 CCAATCACCT
1994241 GTATCGATACATTTTTTGCAA
1 GTATCGATACATTTTTTGCAA
*
1994262 GTATCGATACATTCTTTGCAA
1 GTATCGATACATTTTTTGCAA
1994283 GTATCGATACATTT
1 GTATCGATACATTT
1994297 GCTCATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
GTATCGATACATTTTTTGCAA
Found at i:1994358 original size:20 final size:19
Alignment explanation
Indices: 1994335--1994373 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1994325 CTGTGCATTC
1994335 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1994355 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1994374 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1998852 original size:52 final size:52
Alignment explanation
Indices: 1998743--1998859 Score: 182
Period size: 52 Copynumber: 2.2 Consensus size: 52
1998733 ATTTGCCTGC
***
1998743 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATA
1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGATA
1998795 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCA
1 ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGAT-A
*
1998847 GTGTATCGATACA
1 ATGTATCGATACA
1998860 ATGTATCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.03
52 58 0.97
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGATA
Found at i:1998866 original size:13 final size:13
Alignment explanation
Indices: 1998848--1998872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1998838 CAAAGATCAG
1998848 TGTATCGATACAA
1 TGTATCGATACAA
1998861 TGTATCGATACA
1 TGTATCGATACA
1998873 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1998954 original size:13 final size:13
Alignment explanation
Indices: 1998936--1998960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1998926 AAAAAAAAAA
1998936 TGTATCGATACAT
1 TGTATCGATACAT
1998949 TGTATCGATACA
1 TGTATCGATACA
1998961 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1999735 original size:43 final size:43
Alignment explanation
Indices: 1999687--2000221 Score: 319
Period size: 43 Copynumber: 12.1 Consensus size: 43
1999677 GACTTAAAGA
* *
1999687 TAAAGGTGCCAATGTGCTGATTCATGGCCAGCTACATTGAACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* *
1999730 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1999773 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * * *
1999816 TAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGGCT
1 T-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1999865 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * * * **
1999908 TAAAGATG-AAGATGAGAAAAGTGA-TAAAGATGCCA-ATATGTT-GA-T
1 TAAAGGTGCCA-ATGTG----CTGATTCAAG--GCCAGCTACATTGGACT
* * * * * * * * *
1999953 T-CACG-GCCAA--CGAT-ATT--GGGCTTA--AAGA-TGAGA-A
1 TAAAGGTGCCAATGTGCTGATTCAAGGC-CAGCTACATTG-GACT
* * * * *
1999987 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T
* * *
2000031 AAAGATGGAAAAGGTGCCAATATGCTGATTCAATGCCAGCTATATTGGACT
1 -----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* *
2000082 TAAAGGTGCTAATGTGTTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * *
2000125 TAAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 T--A-AAG--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
*
2000174 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
2000217 TAAAG
1 TAAAG
2000222 ATGAAGGTGC
Statistics
Matches: 373, Mismatches: 75, Indels: 88
0.70 0.14 0.16
Matches are distributed among these distances:
32 1 0.00
33 3 0.01
34 3 0.01
35 1 0.00
36 5 0.01
37 2 0.01
38 2 0.01
39 3 0.01
40 1 0.00
41 4 0.01
42 4 0.01
43 203 0.54
44 6 0.02
45 4 0.01
46 15 0.04
47 8 0.02
48 8 0.02
49 65 0.17
51 1 0.00
52 34 0.09
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
Found at i:1999756 original size:21 final size:21
Alignment explanation
Indices: 1999732--1999799 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1999722 ATTGAACTTA
1999732 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
1999753 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
*
1999775 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1999796 AAGG
1 AAGG
1999800 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.30
22 6 0.18
23 4 0.12
24 4 0.12
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1999847 original size:92 final size:92
Alignment explanation
Indices: 1999687--1999921 Score: 374
Period size: 92 Copynumber: 2.6 Consensus size: 92
1999677 GACTTAAAGA
* *
1999687 TAAAGGTGCCAATGTGCTGATTCATGGCCAGCTACATTGAACTT-AA-A-G--G-TGCCAATATG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
* * *
1999746 CTGATTCAAGGCCAGCTATATTGGACT
66 CTGATTCAAGGCCAACGATATCGGACT
1999773 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
*
1999838 CTGATTCAAGGCCAACGATATCGGGCT
66 CTGATTCAAGGCCAACGATATCGGACT
1999865 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1999922 AGAAAAGTGA
Statistics
Matches: 137, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
86 42 0.31
87 2 0.01
88 1 0.01
89 1 0.01
91 1 0.01
92 90 0.66
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (92 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
CTGATTCAAGGCCAACGATATCGGACT
Found at i:2000033 original size:55 final size:52
Alignment explanation
Indices: 1999933--2000254 Score: 224
Period size: 43 Copynumber: 6.6 Consensus size: 52
1999923 GAAAAGTGAT
* * * * * * **
1999933 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
1999987 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
2000040 AAAGGTGCCAATATGCTGATTCAATGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
2000083 AAAGGTGCTAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
2000132 GAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2000176 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
2000225 -AAGGTGCCAATATGTTGATTCAAGGCCAGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGC
2000255 GATATTGGGC
Statistics
Matches: 219, Mismatches: 33, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
43 72 0.33
44 2 0.01
46 1 0.00
48 1 0.00
49 64 0.29
51 1 0.00
52 31 0.14
53 6 0.03
54 5 0.02
55 36 0.16
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:2000171 original size:49 final size:48
Alignment explanation
Indices: 1999996--2000267 Score: 276
Period size: 43 Copynumber: 5.8 Consensus size: 48
1999986 AAAAGGATGT
* * * *
1999996 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA---AGAA-GTGC
*
2000048 CAATATGCTGATTCAATGCCAGCTATATTGGACTT--A-AAG--GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGTGC
* * * *
2000091 TAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAG-TGC
*
2000140 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---GAAG--GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGTGC
* * *
2000183 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAA-GTGC
* * *
2000232 CAATATGTTGATTCAAGGCCAGCGATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2000268 GAAGGGTTGC
Statistics
Matches: 184, Mismatches: 24, Indels: 27
0.78 0.10 0.11
Matches are distributed among these distances:
43 69 0.38
44 1 0.01
45 1 0.01
46 11 0.06
48 1 0.01
49 69 0.38
50 1 0.01
52 31 0.17
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGTGC
Found at i:2000180 original size:92 final size:92
Alignment explanation
Indices: 1999996--2000272 Score: 419
Period size: 92 Copynumber: 3.0 Consensus size: 92
1999986 AAAAGGATGT
* *
1999996 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
* * *
2000061 CAATGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATTGGACTTGAAGGTGC
* * *
2000091 TAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
2000156 GGCCAGCGATATTGGACTTGAAGGTGC
66 GGCCAGCGATATTGGACTTGAAGGTGC
* *
2000183 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
2000248 GGCCAGCGATATTGGGCTTAGAAGG
66 GGCCAGCGATATTGGACTT-GAAGG
2000273 GTTGCCACTA
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 125 0.75
93 5 0.03
95 37 0.22
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTGAAGGTGC
Found at i:2000308 original size:32 final size:31
Alignment explanation
Indices: 2000260--2000350 Score: 134
Period size: 32 Copynumber: 3.0 Consensus size: 31
2000250 CCAGCGATAT
2000260 TGGGC-TTAGAAGGGTTGCCACTAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACTAACTTGTG
**
2000290 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-AGGGTTGCCACTAACTTGTG
2000322 TGGGCTTT-GAA-GGTTGCCACTAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACTAACTTGTG
2000351 GGCTTTTGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.29
30 6 0.11
31 7 0.13
32 26 0.47
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACTAACTTGTG
Found at i:2000382 original size:34 final size:30
Alignment explanation
Indices: 2000336--2000480 Score: 154
Period size: 29 Copynumber: 4.8 Consensus size: 30
2000326 CTTTGAAGGT
*
2000336 TGCCACTAACTTGTGGGCTTTTGAAAAAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTG----AAAAAAA
* *
2000370 TGCCACTGACTTGTGGAC-TTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
***
2000399 TGCCACTGACTTGTGGGCTTTT--AAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
2000427 TGCCACTGACTTGTGGGC-TTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
2000456 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
2000481 GGGTGAGGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.03
28 22 0.23
29 43 0.44
30 9 0.09
33 4 0.04
34 16 0.16
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAAA
Found at i:2000405 original size:29 final size:29
Alignment explanation
Indices: 2000363--2000476 Score: 158
Period size: 29 Copynumber: 4.0 Consensus size: 29
2000353 CTTTTGAAAA
*
2000363 AAAAAAATGCCACTGACTTGTGGACTTTG
1 AAAAAGATGCCACTGACTTGTGGACTTTG
*
2000392 AAAAAGATGCCACTGACTTGTGGGCTTT-
1 AAAAAGATGCCACTGACTTGTGGACTTTG
* * * *
2000420 TAAAGGTTGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGACTTTG
*
2000449 AAAAATATGCCACTGACTTGTGGACTTT
1 AAAAAGATGCCACTGACTTGTGGACTTT
2000477 TGAAGGGTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 25 0.34
29 49 0.66
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAAAGATGCCACTGACTTGTGGACTTTG
Found at i:2000438 original size:57 final size:57
Alignment explanation
Indices: 2000370--2000482 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
2000360 AAAAAAAAAA
*
2000370 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGT
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGACTTTTAAAGGT
* * *
2000427 TGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGGACTTTTGAAGG
1 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGACTTTTAAAGG
2000483 GTGAGGAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (57 bp):
TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGACTTTTAAAGGT
Found at i:2001922 original size:1 final size:1
Alignment explanation
Indices: 2001916--2001987 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
2001906 TCCGGACCCC
* * * * * * * * *
2001916 TTTTTTTGTTTTTTTTGTTTGTTTTTTTGTTTTTTGTTTTGTTTTTGTTTTTTTTTGTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2001981 TTTTTTT
1 TTTTTTT
2001988 ATGGAGGACG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:2001957 original size:33 final size:32
Alignment explanation
Indices: 2001916--2001987 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
2001906 TCCGGACCCC
2001916 TTTTTTTGTTTTT-TTTGTTTGTTT-TTTTGTTT
1 TTTTTTTGTTTTTGTTT-TTT-TTTGTTTTGTTT
2001948 TTTGTTTTGTTTTTGTTTTTTTTTGTTTTGTTT
1 TTT-TTTTGTTTTTGTTTTTTTTTGTTTTGTTT
2001981 TTTTTTT
1 TTTTTTT
2001988 ATGGAGGACG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 10 0.27
33 24 0.65
34 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (32 bp):
TTTTTTTGTTTTTGTTTTTTTTTGTTTTGTTT
Found at i:2001986 original size:26 final size:26
Alignment explanation
Indices: 2001917--2001987 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
2001907 CCGGACCCCT
2001917 TTTTTTGTTTTTTTTGTTTGTTTTTTTG
1 TTTTTTG-TTTTTTT-TTTGTTTTTTTG
*
2001945 TTTTTTGTTTTGTTTTTGTTTTTTT-
1 TTTTTTGTTTTTTTTTTGTTTTTTTG
2001970 TTGTTTTGTTTTTTTTTT
1 TT-TTTTGTTTTTTTTTT
2001988 ATGGAGGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 2 0.05
26 25 0.62
27 6 0.15
28 7 0.17
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (26 bp):
TTTTTTGTTTTTTTTTTGTTTTTTTG
Found at i:2001987 original size:21 final size:21
Alignment explanation
Indices: 2001916--2001987 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
2001906 TCCGGACCCC
2001916 TTTTTTTGTTTTTTTTG-TTTG
1 TTTTTTT-TTTTTTTTGTTTTG
*
2001937 -TTTTTTTGTTTTTTGTTTTG
1 TTTTTTTTTTTTTTTGTTTTG
*
2001957 TTTTTGTTTTTTTTTGTTTTG
1 TTTTTTTTTTTTTTTGTTTTG
2001978 TTTTTTTTTT
1 TTTTTTTTTT
2001988 ATGGAGGACG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.18
20 10 0.22
21 27 0.60
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTGTTTTG
Found at i:2015910 original size:52 final size:52
Alignment explanation
Indices: 2015832--2015960 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2015822 CGAAATATGA
*
2015832 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCAATACATCTGGGC
***
2015884 AAATTTGCCTGCATGTATCGATACATTTTGTAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCAATACATCTGGGC
2015936 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2015961 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCAATACATCTGGGC
Found at i:2015973 original size:52 final size:52
Alignment explanation
Indices: 2015832--2015980 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 52
2015822 CGAAATATGA
2015832 AAATTTGCCTGCATGTATCGATACATTAA-ATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGC
** *
2015884 AAATTTGCCTGCATGTATCGATACATTTTG-TAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGC
*
2015936 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
2015981 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGC
Found at i:2015987 original size:13 final size:13
Alignment explanation
Indices: 2015969--2015993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2015959 CAAAGATCAG
2015969 TGTATCGATACAA
1 TGTATCGATACAA
2015982 TGTATCGATACA
1 TGTATCGATACA
2015994 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2016075 original size:13 final size:13
Alignment explanation
Indices: 2016057--2016081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2016047 AAAAAAAAAA
2016057 TGTATCGATACAT
1 TGTATCGATACAT
2016070 TGTATCGATACA
1 TGTATCGATACA
2016082 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2023378 original size:20 final size:21
Alignment explanation
Indices: 2023328--2023380 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2023318 GCCAATCACC
*
2023328 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
* *
2023349 AGTATTGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
2023369 TGTATCGATACA
1 TGTATCGATACA
2023381 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:2023439 original size:19 final size:20
Alignment explanation
Indices: 2023402--2023440 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2023392 TTGTGCAATT
2023402 TGTATCGATACATTTTAAGG
1 TGTATCGATACATTTTAAGG
2023422 TGTATCGATACA-TTTAAGG
1 TGTATCGATACATTTTAAGG
2023441 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTTAAGG
Found at i:2023538 original size:21 final size:21
Alignment explanation
Indices: 2023512--2023553 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
2023502 ACTTTGATTT
2023512 ATTTTAA-CTTGAAAATCAATC
1 ATTTTAACCTTGAAAA-CAATC
2023533 ATTTTAAGCCTTGAAAACAAT
1 ATTTTAA-CCTTGAAAACAAT
2023554 TATACTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTTTAACCTTGAAAACAATC
Found at i:2025624 original size:32 final size:32
Alignment explanation
Indices: 2025583--2025648 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2025573 ATTTGAAAGA
2025583 TAGTTAAATAGAGTTTTAATTTGTGAATAAGT
1 TAGTTAAATAGAGTTTTAATTTGTGAATAAGT
2025615 TAGTTAAATAGAGTTTTAATTTGTGAATAAGT
1 TAGTTAAATAGAGTTTTAATTTGTGAATAAGT
2025647 TA
1 TA
2025649 CATTTGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (32 bp):
TAGTTAAATAGAGTTTTAATTTGTGAATAAGT
Found at i:2025800 original size:44 final size:44
Alignment explanation
Indices: 2025752--2025891 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
2025742 ATTGATGCTT
2025752 GCATTTGCATCATTTCATGCACATCTGCACTTTAGATTACATTG
1 GCATTTGCATCATTTCATGCACATCTGCACTTTAGATTACATTG
** * ** * **
2025796 GCATTTGCATTGTATCATGTGCATTTGTTTCTTTACTGATT-C-TT-
1 GCATTTGCATCATTTCATGCACATCTG-CACTTTA--GATTACATTG
* * *
2025840 GCATTTGCATCATTTCATGCACACCTGCATTTTAGATGACATTG
1 GCATTTGCATCATTTCATGCACATCTGCACTTTAGATTACATTG
2025884 GCATTTGC
1 GCATTTGC
2025892 GTTGTATCTT
Statistics
Matches: 71, Mismatches: 19, Indels: 12
0.70 0.19 0.12
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 6 0.08
44 49 0.69
45 7 0.10
46 1 0.01
47 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (44 bp):
GCATTTGCATCATTTCATGCACATCTGCACTTTAGATTACATTG
Found at i:2025996 original size:87 final size:88
Alignment explanation
Indices: 2025703--2026032 Score: 353
Period size: 88 Copynumber: 3.8 Consensus size: 88
2025693 CCATTAGACC
* * *
2025703 ACATTGGCATTTACATTATATC-TATGCATTTACCTCTTTATTGATGCTTGCATTTGCATCATTT
1 ACATTGGCATTTGCATTGTATCTTATGCATTTACCTCTTTATTGATGCTTGCAATTGCATCATTT
* * *
2025767 CATGCACATCTGCACTTTAGATT
66 CACGCACATCTGCATTTTAGATG
* * *** * * *
2025790 ACATTGGCATTTGCATTGTATCATGTGCATTTGTTTCTTTACTGATTCTTGCATTTGCATCATTT
1 ACATTGGCATTTGCATTGTATCTTATGCATTTACCTCTTTATTGATGCTTGCAATTGCATCATTT
* *
2025855 CATGCACACCTGCATTTTAGATG
66 CACGCACATCTGCATTTTAGATG
* *
2025878 ACATTGGCATTTGCGTTGTATCTTATGCATTTACCTCTTTAATGATGCTTGCAATTGCATCATTT
1 ACATTGGCATTTGCATTGTATCTTATGCATTTACCTCTTTATTGATGCTTGCAATTGCATCATTT
* *
2025943 CACGTA-ATTTGCATTTTAGATG
66 CACGCACATCTGCATTTTAGATG
* ** * ** * * *
2025965 ATATAAGTATTTGCATCATTTCTTATGCATTTGCCAT-TTTATTGATGCTTGC-ATTAACATCAT
1 ACATTGGCATTTGCATTGTATCTTATGCATTTACC-TCTTTATTGATGCTTGCAATT-GCATCAT
2026028 TTCAC
64 TTCAC
2026033 ATGCATCTAC
Statistics
Matches: 205, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
86 3 0.01
87 85 0.41
88 117 0.57
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (88 bp):
ACATTGGCATTTGCATTGTATCTTATGCATTTACCTCTTTATTGATGCTTGCAATTGCATCATTT
CACGCACATCTGCATTTTAGATG
Found at i:2026553 original size:60 final size:61
Alignment explanation
Indices: 2026451--2026686 Score: 223
Period size: 60 Copynumber: 3.9 Consensus size: 61
2026441 CATATCTAGC
* * * *
2026451 CATTATTTAGGTTTTTCGTTTTATGC-AGGCCATTTAGTTGAGTTTTGGTTTCACCT-AAGT
1 CATTGTTTAGGTTTTTAGTTTTAT-CTAGGCCATTTAGTTGAGTCTTGGTTTCACCTCAACT
* * * * *
2026511 TATTGTTTTGGTTTTTGGTTTTATCTAGGCTATTTAGTTGAGTCTTGGTTTTA-CTCAACT
1 CATTGTTTAGGTTTTTAGTTTTATCTAGGCCATTTAGTTGAGTCTTGGTTTCACCTCAACT
* * * * *
2026571 CATTGTTTAGGTGTTTAATTTTATCTAGGCCATTTCGTTGAATCTTGGTTTCACC-CAAAT
1 CATTGTTTAGGTTTTTAGTTTTATCTAGGCCATTTAGTTGAGTCTTGGTTTCACCTCAACT
* * * * * *
2026631 CATTGTTCAAGTTTCTTA-TATCATCCAAGCCATTGT-GTTGAGTCTTGGTTTCACCT
1 CATTGTTTAGGTTT-TTAGTTTTATCTAGGCCATT-TAGTTGAGTCTTGGTTTCACCT
2026687 ATGCCATTTT
Statistics
Matches: 144, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
59 3 0.02
60 136 0.94
61 5 0.03
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (61 bp):
CATTGTTTAGGTTTTTAGTTTTATCTAGGCCATTTAGTTGAGTCTTGGTTTCACCTCAACT
Found at i:2027639 original size:40 final size:40
Alignment explanation
Indices: 2027511--2027793 Score: 111
Period size: 40 Copynumber: 7.2 Consensus size: 40
2027501 TATCAATTTT
* * *
2027511 ATCCCAATTAA-CC-CTAAACTTGTTGACTTGTTGGTTTC
1 ATCCCAATCAACCCTCTTAACTTGTTGACTTGTTAGTTTC
* * * * * * * *
2027549 ATCCCAGTCAACCTTTCTT-ATTTTTTAACTTGTCAATTTT
1 ATCCCAATCAACC-CTCTTAACTTGTTGACTTGTTAGTTTC
* * *
2027589 GTCTGC-ATCAA-CCTCTTGAACTTGTTGACTTGTTGGTTTC
1 ATC-CCAATCAACCCTCTT-AACTTGTTGACTTGTTAGTTTC
* * * *
2027629 ATCCCAATCAATCCT-TTAAACTTGTTTACTTGTCAATTTC
1 ATCCCAATCAACCCTCTT-AACTTGTTGACTTGTTAGTTTC
* * * *
2027669 ATCTCGAA-CAACCCTTTTCTA-TTATTGACTTGTTAGTTTC
1 ATC-CCAATCAACCCTCTT-AACTTGTTGACTTGTTAGTTTC
* * * * *
2027709 ATCTCGATCAA-CCTCTT-ATTTGTTGACTCGTATGGTTTC
1 ATCCCAATCAACCCTCTTAACTTGTTGACTTGT-TAGTTTC
**** * * *
2027748 ATCATGTTCAA-CCTCTCTAACTTGTTGGCTTGTCAGTTTT
1 ATCCCAATCAACCCTCT-TAACTTGTTGACTTGTTAGTTTC
2027788 ATCCCA
1 ATCCCA
2027794 GTAAACCTTT
Statistics
Matches: 174, Mismatches: 56, Indels: 28
0.67 0.22 0.11
Matches are distributed among these distances:
37 1 0.01
38 23 0.13
39 28 0.16
40 99 0.57
41 23 0.13
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (40 bp):
ATCCCAATCAACCCTCTTAACTTGTTGACTTGTTAGTTTC
Found at i:2027660 original size:80 final size:78
Alignment explanation
Indices: 2027353--2027667 Score: 258
Period size: 80 Copynumber: 4.0 Consensus size: 78
2027343 TGGGTTTCAC
* * * * * * ** * * *
2027353 CTCAATTAACCCCTTAAACTTATTGCCTTGTCGATTTCATCCTGGTTAACCCTTTTTATTTGTTA
1 CTCAATCAACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CC-TTTAAATTGTTA
2027418 ACTTGTCAATTTTGT
64 ACTTGTCAATTTTGT
* * * * *** **
2027433 CTCGATCAACCTTTTAAACTTGTTAACTTATTGGTTTCATCTTGGTCAACCCCATAAATTTGTTA
1 CTCAATCAACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAA-TTGTTA
* *
2027498 ACTTATCAATTTTAT
64 ACTTGTCAATTTTGT
* * * * *
2027513 CCCAATTAACC-C-TAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTTCTTATTTTTTA
1 CTCAATCAACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACC-TT-TAAATTGTTA
2027576 ACTTGTCAATTTTGT
64 ACTTGTCAATTTTGT
* *
2027591 CTGC-ATCAACCTCTTGAACTTGTTGACTTGTTGGTTTCATCCCAATCAATCCTTTAAACTTGTT
1 CT-CAATCAACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAA-TTGTT
*
2027655 TACTTGTCAATTT
63 AACTTGTCAATTT
2027668 CATCTCGAAC
Statistics
Matches: 185, Mismatches: 42, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
77 2 0.01
78 55 0.30
79 8 0.04
80 118 0.64
81 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.44
Consensus pattern (78 bp):
CTCAATCAACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTTAAATTGTTAAC
TTGTCAATTTTGT
Found at i:2027665 original size:158 final size:160
Alignment explanation
Indices: 2027355--2027667 Score: 382
Period size: 158 Copynumber: 2.0 Consensus size: 160
2027345 GGTTTCACCT
* ** *
2027355 CAATTAACCCCTTAAACTTATTGCCTTGTCGATTTCATCCTGGTTAACCCTTTTTATTTGTTAAC
1 CAATTAACCCCTTAAACTTATTGACTTGTCGATTTCATCCCAGTCAACCCTTTTTATTTGTTAAC
* ****
2027420 TTGTCAATTTTGTCTCGATCAACCTTTTAAACTTGTTAACTTATTGGTTTCATCTTGGTCAACCC
66 TTGTCAATTTTGTCTCGATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAACCC
*
2027485 CATAAATTTGTTAACTTATCAATTTTATCC
131 CATAAACTTGTTAACTTATCAATTTTATCC
* * * *
2027515 CAATTAA-CCC-TAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTCTTATTTTTTAA
1 CAATTAACCCCTTAAACTTATTGACTTGTCGATTTCATCCCAGTCAACCCTTT-TTATTTGTTAA
* * * *
2027577 CTTGTCAATTTTGTCT-GCATCAACCTCTTGAACTTGTTGACTTGTTGGTTTCATCCCAATCAAT
65 CTTGTCAATTTTGTCTCG-ATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAAC
** * *
2027641 CCTTTAAACTTGTTTACTTGTCAATTT
129 CCCATAAACTTGTTAACTTATCAATTT
2027668 CATCTCGAAC
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 6 0.05
158 113 0.88
159 3 0.02
160 7 0.05
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.44
Consensus pattern (160 bp):
CAATTAACCCCTTAAACTTATTGACTTGTCGATTTCATCCCAGTCAACCCTTTTTATTTGTTAAC
TTGTCAATTTTGTCTCGATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAACCC
CATAAACTTGTTAACTTATCAATTTTATCC
Found at i:2027726 original size:158 final size:157
Alignment explanation
Indices: 2027367--2027732 Score: 355
Period size: 158 Copynumber: 2.3 Consensus size: 157
2027357 ATTAACCCCT
* * ** * *
2027367 TAAACTTATTGCCTTG-TCGATTTCATCCTGGTTAACCCTTTTTATTTGTTAACTTGTCAATTTT
1 TAAACTTATTGACTTGTTAG-TTTCATCCCAGTCAA-CCTTCTTATTTGTTAACTTGTCAATTTT
* **** *
2027431 GTCTCGATCAACCTTTTAAACTTGTTAACTTATTGGTTTCATCTTGGTCAACCCCATAAATTTGT
64 GTCTCGATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAACCCCATAAACTTGT
* *
2027496 TAACTTATCAATTTTATCCCAATTAACCC
129 TAACTTATCAATTTCATCCCAATCAACCC
* * *
2027525 TAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTTCTTATTTTTTAACTTGTCAATTTTG
1 TAAACTTATTGACTTGTTAGTTTCATCCCAGTCAACC-TTCTTATTTGTTAACTTGTCAATTTTG
* * * * **
2027590 TCT-GCATCAACCTCTTGAACTTGTTGACTTGTTGGTTTCATCCCAATCAATCCTTTAAACTTGT
65 TCTCG-ATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAACCCCATAAACTTGT
* * *
2027654 TTACTTGTCAATTTCATCTCGAA-CAACCC
129 TAACTTATCAATTTCATC-CCAATCAACCC
*** *
2027683 TTTTCTATTATTGACTTGTTAGTTTCATCTC-GATCAACC-TCTTATTTGTT
1 TAAAC--TTATTGACTTGTTAGTTTCATCCCAG-TCAACCTTCTTATTTGTT
2027733 GACTCGTATG
Statistics
Matches: 169, Mismatches: 32, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
157 3 0.02
158 133 0.79
159 6 0.04
160 27 0.16
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (157 bp):
TAAACTTATTGACTTGTTAGTTTCATCCCAGTCAACCTTCTTATTTGTTAACTTGTCAATTTTGT
CTCGATCAACCTCTTAAACTTGTTAACTTATTGGTTTCATCCCAATCAACCCCATAAACTTGTTA
ACTTATCAATTTCATCCCAATCAACCC
Found at i:2027940 original size:40 final size:40
Alignment explanation
Indices: 2027896--2027976 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
2027886 TCATTTATTA
*
2027896 ACTTGTTGGTTTTATCCTAATCAACCTCTTAAACTTGTTG
1 ACTTGTTGGTTTCATCCTAATCAACCTCTTAAACTTGTTG
* *
2027936 ACTTGTTGGTTTCATCCCAATCAACC-CTTTAAACTTATTG
1 ACTTGTTGGTTTCATCCTAATCAACCTC-TTAAACTTGTTG
2027976 A
1 A
2027977 ATTATCAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (40 bp):
ACTTGTTGGTTTCATCCTAATCAACCTCTTAAACTTGTTG
Found at i:2027974 original size:80 final size:79
Alignment explanation
Indices: 2027360--2027974 Score: 250
Period size: 80 Copynumber: 7.7 Consensus size: 79
2027350 CACCTCAATT
* * * * * ** * ** *
2027360 AACCCCTTAAACTTATTGCCTTGTCGATTTCATCCTGGTTAACCCTTTTTATTTGTTAACTTGTC
1 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAATTTATTAACTTGTC
* *
2027425 AATTTTGT-CTCGATC
65 AATTTTATCCT-AATC
* * * *** ** * *
2027440 AACCTTTTAAACTTGTTAACTTATTGGTTTCATCTTGGTCAACCCCATAAATTTGTTAACTTATC
1 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAATTTATTAACTTGTC
* *
2027505 AATTTTATCCCAATT
65 AATTTTATCCTAATC
** *
2027520 AACC-C-TAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTTCTTATTTTTTAACTTGTC
1 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTT-AAATTTATTAACTTGTC
* *
2027583 AATTTTGT-CTGCATC
65 AATTTTATCCT-AATC
* * * * *
2027598 AACCTCTTGAACTTGTTGACTTGTTGGTTTCATCCCAATCAATCCTTTAAACTTGTTTACTTGTC
1 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAATTTATTAACTTGTC
* *
2027663 AATTTCATCTCGAA-C
65 AATTTTATC-CTAATC
* ** * * * * * *
2027678 AACCCTTTTCTA-TTATTGACTTGTTAGTTTCATCTC-GATCAACCTCTT--ATTTGTTGACTCG
1 AA-CCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAG-TCAACCT-TTAAATTTATTAACTTG
* **
2027739 T--ATGGTTTCATCATGTTC
63 TCAAT--TTT-ATCCTAATC
* ** * * ** * * **
2027757 AACCTCTCT-AACTTGTTGGCTTGTCAGTTTTATCCCAGTAAACCTTTTTCATTCATTGACAAG-
1 AACCTCT-TAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACC-TTTAAATTTATTAACTTGT
* ** *
2027820 CATGGTTTTATTTTAGTC
64 CA--ATTTTATCCTAATC
* * * * ** * **
2027838 AACC-CTTTAAACCTGTTGAATTATTAGTTTTGTCCTAGTCAACCTTTCTCATTTATTAACTTGT
1 AACCTC-TTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTT-AAATTTATTAACTTGT
***
2027902 TGGTTTTATCCTAATC
64 CAATTTTATCCTAATC
* *
2027918 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAATCAACCCTTTAAACTTATT
1 AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAA-CCTTTAAATTTATT
2027975 GAATTATCAG
Statistics
Matches: 398, Mismatches: 106, Indels: 62
0.70 0.19 0.11
Matches are distributed among these distances:
76 2 0.01
77 4 0.01
78 74 0.19
79 37 0.09
80 200 0.50
81 76 0.19
82 4 0.01
84 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (79 bp):
AACCTCTTAAACTTGTTGACTTGTTGGTTTCATCCCAGTCAACCTTTAAATTTATTAACTTGTCA
ATTTTATCCTAATC
Found at i:2029545 original size:24 final size:23
Alignment explanation
Indices: 2029499--2029545 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2029489 GGAGAAGATA
*
2029499 TTAAAAAAAAAGGAGAATTGTTT
1 TTAAAAAAAAAGGAGAATCGTTT
* *
2029522 TTAAAAAATAAGAGATAATCGTTT
1 TTAAAAAAAAAG-GAGAATCGTTT
2029546 AAGGGGGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (23 bp):
TTAAAAAAAAAGGAGAATCGTTT
Found at i:2030135 original size:19 final size:20
Alignment explanation
Indices: 2030090--2030143 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2030080 TACACACCCG
*
2030090 ATGTATCGATACATGCTGCC
1 ATGTATCGATACATGCTGCA
* *
2030110 TTGTATCGATACATG-TTCA
1 ATGTATCGATACATGCTGCA
2030129 ATGTATCGATACATG
1 ATGTATCGATACATG
2030144 GACAAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATGCTGCA
Done.