Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 103 of 198
Found at i:33075234 original size:39 final size:39
Alignment explanation
Indices: 33075168--33075267 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 39
33075158 CATGTTTTTA
* * * *
33075168 AGTATTGCGATATATACTTAAATGTTATGCGACTATATG
1 AGTATTGTGATATATGCTTAAACGTTATGCAACTATATG
* * * *
33075207 AGTATTGTGATATGTGCTTGAACGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAACGTTATGCAACTATATG
* *
33075246 TGTAATGTGATATATGCTTAAA
1 AGTATTGTGATATATGCTTAAA
33075268 AGTGAATATG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAACGTTATGCAACTATATG
Found at i:33076086 original size:20 final size:20
Alignment explanation
Indices: 33076046--33076086 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33076036 TTCTAGGTGC
*
33076046 TATCGATACCCTAGTGTCAG
1 TATCGATACCCTAGTGACAG
33076066 TATCGATA-CCTACGTGACAG
1 TATCGATACCCTA-GTGACAG
33076086 T
1 T
33076087 TTTGAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
TATCGATACCCTAGTGACAG
Found at i:33080654 original size:27 final size:27
Alignment explanation
Indices: 33080339--33080651 Score: 427
Period size: 27 Copynumber: 11.6 Consensus size: 27
33080329 ATTCGTGGAC
33080339 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * *
33080366 AAATGACCGAAATACCC-CAAATGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
33080392 AAATGACTAAAATACCCTTGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
33080419 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
33080446 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
33080473 AAATGACTGAAATACCCTCAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
** * *
33080500 AAATGACCCAAAAACCCTCGAAGGATA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
33080527 AAATGACTGAAATACCCTCGAAGAGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * *
33080554 AAATGAAC-CAAATACCCTCAAAAGGTA
1 AAATG-ACTGAAATACCCTCGAAGGGTA
33080581 AAATGA-TCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
33080608 AAATGA-TCGAAATACCCCCAAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
33080635 AAATGACTGAAATACCC
1 AAATGACTGAAATACCC
33080652 CCATAAGGTA
Statistics
Matches: 251, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
26 23 0.09
27 225 0.90
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:33080899 original size:26 final size:26
Alignment explanation
Indices: 33080864--33080913 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
33080854 CCACATATAT
33080864 TATTACTGGCAGCTTTGCTGCGATTC
1 TATTACTGGCAGCTTTGCTGCGATTC
*
33080890 TATTATTGGCAGCTTTGCTGCGAT
1 TATTACTGGCAGCTTTGCTGCGAT
33080914 ATTGGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (26 bp):
TATTACTGGCAGCTTTGCTGCGATTC
Found at i:33081645 original size:33 final size:33
Alignment explanation
Indices: 33081603--33081666 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
33081593 TGGGTTTGGG
33081603 GTGTTACATTATTTATTGAAATTTCTTTACTAT
1 GTGTTACATTATTTATTGAAATTTCTTTACTAT
33081636 GTGTTACATTATTTATTGAAATTTCTTTACT
1 GTGTTACATTATTTATTGAAATTTCTTTACT
33081667 TTTTGTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (33 bp):
GTGTTACATTATTTATTGAAATTTCTTTACTAT
Found at i:33082146 original size:23 final size:23
Alignment explanation
Indices: 33082113--33082159 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33082103 AGGACTAAAA
33082113 AAACACCGAAGGGATCTACTGAC
1 AAACACCGAAGGGATCTACTGAC
*
33082136 AAACACTGAAGGGATCTACTGAC
1 AAACACCGAAGGGATCTACTGAC
33082159 A
1 A
33082160 CACTTCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (23 bp):
AAACACCGAAGGGATCTACTGAC
Found at i:33082923 original size:48 final size:48
Alignment explanation
Indices: 33082867--33082961 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
33082857 TACCACGAAC
* *
33082867 CGCTCCAAGTGTGGGCACGAATAATCATGAATCAAACACAAAACCAGT
1 CGCTCCAAGTATGGGCACGAATAATCACGAATCAAACACAAAACCAGT
*
33082915 CGCTCCAAGTATGGGCACGAATAATCACGAATCAAACACATAACCAG
1 CGCTCCAAGTATGGGCACGAATAATCACGAATCAAACACAAAACCAG
33082962 AAATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (48 bp):
CGCTCCAAGTATGGGCACGAATAATCACGAATCAAACACAAAACCAGT
Found at i:33097301 original size:12 final size:12
Alignment explanation
Indices: 33097284--33097316 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33097274 TCAAAACAGA
*
33097284 ATTTTGCTGAAC
1 ATTTTGCTAAAC
33097296 ATTTTGCTAAAC
1 ATTTTGCTAAAC
33097308 ATTTTGCTA
1 ATTTTGCTA
33097317 TGGCAAGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (12 bp):
ATTTTGCTAAAC
Found at i:33099181 original size:29 final size:29
Alignment explanation
Indices: 33099147--33099288 Score: 153
Period size: 29 Copynumber: 4.9 Consensus size: 29
33099137 GGCTATGATA
*
33099147 ATGAAAAAGGATGGTGACGACCATC-AACT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
*
33099176 ATGAAAAGGGATAGTGACGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * * * * *
33099205 ATGAAAAGGGATAGCT-TCGGCTATGGATT
1 ATGAAAAGGGAT-GGTGACGACCATCGAAT
33099234 ATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * *
33099263 ATGAAAAGGCACGGTTACGACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
33099289 TTTAGCAAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.02
29 87 0.95
30 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.19
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:33106188 original size:26 final size:26
Alignment explanation
Indices: 33106111--33106189 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
33106101 CCAACACGCT
* *
33106111 AATATCGCAGCAAAGCTGGT-AGTAAT
1 AATAACGCAGCAAAGCT-GTCAGTAAC
* * *
33106137 AATAACACAACAAAGCTGCCAGTAAC
1 AATAACGCAGCAAAGCTGTCAGTAAC
33106163 AATAACGCAGCAAAGCTGTCAGTAAC
1 AATAACGCAGCAAAGCTGTCAGTAAC
33106189 A
1 A
33106190 GTATATGTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGTCAGTAAC
Found at i:33106390 original size:27 final size:27
Alignment explanation
Indices: 33106360--33106465 Score: 160
Period size: 27 Copynumber: 3.9 Consensus size: 27
33106350 TTTTAACTTC
33106360 TAGGGGTATTTCGGTAATTTTACCCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
33106387 TAGGGGTATTTCGGTAATTTTA-CCTAT
1 TAGGGGTATTTCGGTAATTTTACCCT-T
* *
33106414 TAGGGGTATTTCGGTAATTGTACTCTT
1 TAGGGGTATTTCGGTAATTTTACCCTT
* *
33106441 CAAGGGTATTTCGGTAATTTTACCC
1 TAGGGGTATTTCGGTAATTTTACCC
33106466 CCAATTCACA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.04
27 66 0.93
28 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTTACCCTT
Found at i:33107165 original size:15 final size:14
Alignment explanation
Indices: 33107142--33107186 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
33107132 AATAAAGAGG
33107142 AGAAGAAGAGAAGA
1 AGAAGAAGAGAAGA
*
33107156 AGAGAGAAGAAAAAGA
1 AGA-AGAAG-AGAAGA
33107172 AGAAGAACGAGAAGA
1 AGAAGAA-GAGAAGA
33107187 GGGATTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 14 0.54
16 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAGAAGA
Found at i:33107166 original size:21 final size:20
Alignment explanation
Indices: 33107136--33107186 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
33107126 ACAAAAAATA
* *
33107136 AAGAGGAGAAG-AAGAGAAG
1 AAGAAGAGAAGAAAAAGAAG
33107155 AAG-AGAGAAGAAAAAGAAG
1 AAGAAGAGAAGAAAAAGAAG
33107174 AAGAACGAGAAGA
1 AAGAA-GAGAAGA
33107187 GGGATTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 1 0.04
21 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGAAGAGAAGAAAAAGAAG
Found at i:33107184 original size:12 final size:11
Alignment explanation
Indices: 33107136--33107186 Score: 63
Period size: 10 Copynumber: 4.8 Consensus size: 11
33107126 ACAAAAAATA
*
33107136 AAGAGGAGAAG
1 AAGAGAAGAAG
33107147 AAGAGAAGAAG
1 AAGAGAAGAAG
33107158 -AGAGAAGAA-
1 AAGAGAAGAAG
33107167 AA-AGAAGAAG
1 AAGAGAAGAAG
33107177 AACGAGAAGA
1 AA-GAGAAGA
33107187 GGGATTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 7 0.20
10 12 0.34
11 10 0.29
12 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (11 bp):
AAGAGAAGAAG
Found at i:33108268 original size:72 final size:68
Alignment explanation
Indices: 33108135--33108272 Score: 199
Period size: 72 Copynumber: 2.0 Consensus size: 68
33108125 TTTAATAGAT
*
33108135 TTAATATTAAATTTCATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
1 TTAATATTAAATTTAATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
33108200 ATC
66 ATC
33108203 TTAATATTAAATTTAATTTAAT-TTCTATCTTGTAGATAAATATTTTATTAATTTAATAT-TAAA
1 TTAATATTAAATTTAATTTAATATT-TATC--GTA-ATAAA-ATTTTATTAATTTAATATAT-AA
33108266 GTGATTA
60 GTGATTA
33108273 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
67 2 0.03
68 25 0.40
70 3 0.05
71 6 0.10
72 27 0.43
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATATTTATCGTAATAAAATTTTATTAATTTAATATATAAGTGATT
ATC
Found at i:33111786 original size:13 final size:13
Alignment explanation
Indices: 33111768--33111798 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
33111758 AATAAAATTT
33111768 TTAAACTCTATAA
1 TTAAACTCTATAA
33111781 TTAAACTCTATAA
1 TTAAACTCTATAA
33111794 TTAAA
1 TTAAA
33111799 AAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAACTCTATAA
Found at i:33112501 original size:12 final size:11
Alignment explanation
Indices: 33112484--33112540 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
33112474 AACAAATCCT
33112484 CTCTCATATTTC
1 CTCTCA-ATTTC
33112496 CTCTCAA-TTC
1 CTCTCAATTTC
33112506 CTCTCAATTTC
1 CTCTCAATTTC
*
33112517 CT-TCCAAAATT-
1 CTCT-C-AATTTC
33112528 CTCTCAATTTC
1 CTCTCAATTTC
33112539 CT
1 CT
33112541 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:33112531 original size:22 final size:22
Alignment explanation
Indices: 33112501--33112556 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
33112491 ATTTCCTCTC
33112501 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
33112524 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
33112546 AATTCTCTCAA
1 AATTCTCTCAA
33112557 ATCTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:33112585 original size:51 final size:51
Alignment explanation
Indices: 33112528--33112643 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
33112518 TTCCAAAATT
*
33112528 CTCTCAATTTCCTTCCAAAA-TTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTTCCTT-CAAAACTTCTCTCAAATCCATATTTAATTTCAATTTC
33112579 CTCTCAATTTCCTTCAAAACTTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAACTTCTCTCAAATCCATATTTAATTTCAATTTC
*
33112630 TTCTCAATTTCCTT
1 CTCTCAATTTCCTT
33112644 TTTTAAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 5 0.08
51 57 0.92
ACGTcount: A:0.28, C:0.27, G:0.00, T:0.46
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAACTTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:33113793 original size:7 final size:7
Alignment explanation
Indices: 33113781--33113805 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33113771 ATTTGATTGA
33113781 TATTTAG
1 TATTTAG
33113788 TATTTAG
1 TATTTAG
33113795 TATTTAG
1 TATTTAG
33113802 TATT
1 TATT
33113806 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33114471 original size:18 final size:18
Alignment explanation
Indices: 33114445--33114479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33114435 AGGTGCGTTT
*
33114445 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
33114463 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
33114480 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:33114930 original size:43 final size:44
Alignment explanation
Indices: 33114878--33114976 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 44
33114868 TTATTTGTAC
* *
33114878 AAATATTTTGA-ATATTTTGATATTATTTTATGTTAA-AAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATG-TAATAAAATAG
*
33114921 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATGTAATAAAATAG
*
33114965 AATTTTATTTGA
1 AAATTT-TTTGA
33114977 TGTAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 13 0.27
44 31 0.63
45 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (44 bp):
AAATTTTTTGAGATATTTTGATATTATTTGATGTAATAAAATAG
Found at i:33114938 original size:44 final size:45
Alignment explanation
Indices: 33114890--33114976 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
33114880 ATATTTTGAA
*
33114890 TATTTTGATATTATTTTATGTTAA-AAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATG-TAATAAAATAGAAATTTATTTGAGT
*
33114934 TATTTTGATATTATTTGATGTAATAAAATAGAATTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
33114977 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 3 0.08
44 31 0.79
45 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:33115012 original size:23 final size:23
Alignment explanation
Indices: 33114982--33115505 Score: 455
Period size: 23 Copynumber: 21.7 Consensus size: 23
33114972 TTTGATGTAA
**
33114982 TAAAAACCCTAGGCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
33115005 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
33115028 TAAAAACCTTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
33115051 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
*
33115079 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
33115101 TAAAAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCTAATTTAAT
*
33115124 TAAAAGCCTTAGCCTAACCTAATTTAAT
1 TAAAA-----ACCCTAACCTAATTTAAT
33115152 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
33115175 TAAAAACCCTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
* *
33115199 AAAACCTAACCCTAACCTAATTCAAT
1 TAAA---AACCCTAACCTAATTTAAT
*
33115225 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
33115247 TAAAAACCCTAACCTAATTCAAT
1 TAAAAACCCTAACCTAATTTAAT
33115270 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
*
33115298 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
33115320 TAAAAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCTAATTTAAT
33115343 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
*
33115371 TAAAAAACCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
33115394 TAAAAACCCTAATCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
33115417 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
33115440 TAAAAACCCTAACCCTAACCTAATTCAAT
1 TAAAAACCCTAA-CCTAA--T--TT-AAT
*
33115469 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
33115491 TAAAAACCCTAACCT
1 TAAAAACCCTAACCT
33115506 TAACGTAATG
Statistics
Matches: 422, Mismatches: 27, Indels: 105
0.76 0.05 0.19
Matches are distributed among these distances:
21 29 0.07
22 46 0.11
23 179 0.42
24 34 0.08
25 14 0.03
26 11 0.03
27 6 0.01
28 86 0.20
29 15 0.04
30 2 0.00
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:33115126 original size:73 final size:71
Alignment explanation
Indices: 33114995--33115455 Score: 578
Period size: 73 Copynumber: 6.4 Consensus size: 71
33114985 AAACCCTAGG
* *
33114995 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAACCTAATTTAATTAAAAACCC
1 CTAATTTAATTAAAAACCCTAACC---CTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
33115060 TAGCCTAAC
63 TAGCCTAAC
* * *
33115069 CTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTGATTAAAAGCCTT
1 CTAATTTAATTAAAAACCCT-AACCCTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCT
33115134 AGCCTAAC
64 AGCCTAAC
* * *
33115142 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAAAC
1 CTAATTTAATTAAAAACCCTAACC---CTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACC
*
33115204 CTAACCCTAAC
62 CT-AGCCTAAC
* *
33115215 CTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTCAATTAAAAACCCT
1 CTAATTTAATTAAAAACCCT-AACCCTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCT
33115280 AGCCTAAC
64 AGCCTAAC
*
33115288 CTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTGATTAAAAACCCT
1 CTAATTTAATTAAAAACCCT-AACCCTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCT
33115353 AGCCTAAC
64 AGCCTAAC
* * *
33115361 CTAATTTAATTAAAAAACCTAACCTAATTTAATTAAAAACCCTAATCTAATTTAATTAAAAA--C
1 CTAATTTAATTAAAAACCCTAACC---CTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
33115424 ---CCTAAC
63 TAGCCTAAC
33115430 CTAATTTAATTAAAAACCCTAACCCT
1 CTAATTTAATTAAAAACCCTAACCCT
33115456 AACCTAATTC
Statistics
Matches: 345, Mismatches: 27, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
66 1 0.00
69 29 0.08
71 8 0.02
72 35 0.10
73 180 0.52
74 76 0.22
75 16 0.05
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (71 bp):
CTAATTTAATTAAAAACCCTAACCCTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAG
CCTAAC
Found at i:33115496 original size:22 final size:20
Alignment explanation
Indices: 33115468--33115509 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
33115458 CCTAATTCAA
33115468 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCT-AA-CCTTAAC
33115490 TTAAAAACCCTAACCTTAAC
1 TTAAAAACCCTAACCTTAAC
33115510 GTAATGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (20 bp):
TTAAAAACCCTAACCTTAAC
Found at i:33115647 original size:116 final size:116
Alignment explanation
Indices: 33115511--33115728 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
33115501 AACCTTAACG
*
33115511 TAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAACAAATAATAATTGTACATAATTTGATA
33115576 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * *
33115627 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAACAAATAATAATTGTACATAATTTGATA
33115692 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
33115729 CAATTTATCA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTAGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:33115745 original size:17 final size:18
Alignment explanation
Indices: 33115704--33115745 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
33115694 TTTACTAACC
* *
33115704 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
33115722 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
33115739 ATTAATA
1 ATTAATA
33115746 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:33119057 original size:126 final size:125
Alignment explanation
Indices: 33118757--33119108 Score: 483
Period size: 126 Copynumber: 2.8 Consensus size: 125
33118747 CCCAAACATG
** * * *
33118757 CTACTGTAGCAAAATTGCGTCCACGAGGGCGCGATTTCACAAATTCTACTCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
33118822 TAGAAGCGATTTTATATTATTTGCTCAAAAACGTC-AAAAAAAATTATTTCTTACATGAG
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * * * *
33118881 CTACTATAGCAAAAGCGCG-CTGACGAGGCCGCAATATCACAAATTCTTCTCAAATAGCATTCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
33118945 CTAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* * *
33119007 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCTATTTCACAAATTTTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
33119072 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
33119109 CTCGAAATTA
Statistics
Matches: 196, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
123 1 0.01
124 85 0.43
125 6 0.03
126 103 0.53
127 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:33119562 original size:24 final size:24
Alignment explanation
Indices: 33119515--33119562 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33119505 TTAAGTAGAA
*
33119515 AAAGGGGAAACTGGAAAGAGAAAT
1 AAAGGGGAAACTGGAAAGACAAAT
*
33119539 AAAGGGTAAAC-GGAAGAGACAAAT
1 AAAGGGGAAACTGGAA-AGACAAAT
33119563 TCAAAGGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.54, C:0.06, G:0.31, T:0.08
Consensus pattern (24 bp):
AAAGGGGAAACTGGAAAGACAAAT
Found at i:33123144 original size:3 final size:3
Alignment explanation
Indices: 33123136--33123178 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
33123126 TCTCCTTCAA
33123136 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33123179 TTATGAACTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33140555 original size:17 final size:17
Alignment explanation
Indices: 33140535--33140571 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
33140525 AAACAACTTG
*
33140535 AAAAATTAAAAATAATT
1 AAAAATTAAAAATAAAT
33140552 AAAAATTAAAAATAAAT
1 AAAAATTAAAAATAAAT
33140569 AAA
1 AAA
33140572 CAAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTAAAAATAAAT
Found at i:33140585 original size:17 final size:17
Alignment explanation
Indices: 33140535--33140586 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 17
33140525 AAACAACTTG
**
33140535 AAAAATTAAAAATAATT
1 AAAAATTAAAAATAAAC
33140552 AAAAATTAAAAATAAATAAAC
1 AAAAATT---AA-AAATAAAC
33140573 AAAAATTAAAAATA
1 AAAAATTAAAAATA
33140587 TCGTATTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
20 2 0.07
21 13 0.45
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATTAAAAATAAAC
Found at i:33146826 original size:22 final size:20
Alignment explanation
Indices: 33146758--33146819 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
33146748 GAAAATCATT
* * *
33146758 TTAAAATGATTTTAACTTTA
1 TTAAAATCATTTTGACTTGA
*
33146778 TTGAAATCATTTTGACTTGA
1 TTAAAATCATTTTGACTTGA
33146798 TTAAAATCA-TTTGCACTTGA
1 TTAAAATCATTTTG-ACTTGA
33146818 TT
1 TT
33146820 TTAAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTAAAATCATTTTGACTTGA
Found at i:33154523 original size:20 final size:20
Alignment explanation
Indices: 33154500--33154547 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
33154490 AATGAATTCA
* *
33154500 ACTTGATTGAAATCATTTTG-
1 ACTTGATTAAAACCA-TTTGC
*
33154520 ACTTGGTTAAAACCATTTGC
1 ACTTGATTAAAACCATTTGC
33154540 ACTTGATT
1 ACTTGATT
33154548 TTAAAATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ACTTGATTAAAACCATTTGC
Found at i:33154979 original size:22 final size:23
Alignment explanation
Indices: 33154948--33154998 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
33154938 ATATTTTAAT
33154948 ATTTTT-TATACTT-TTTTTCTA
1 ATTTTTATATACTTATTTTTCTA
*
33154969 ATTTTTATATATTTATTTTTCTA
1 ATTTTTATATACTTATTTTTCTA
33154992 ATTTTTA
1 ATTTTTA
33154999 AAATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 6 0.22
23 15 0.56
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTTTATATACTTATTTTTCTA
Found at i:33171916 original size:68 final size:67
Alignment explanation
Indices: 33171808--33171952 Score: 200
Period size: 68 Copynumber: 2.1 Consensus size: 67
33171798 TCAGAAACTA
* * **
33171808 AAGTCCGCCAGGACAGTAACATGGGATCATATTGTGTAAGACCATAGCTGGACTATGACAACATA
1 AAGTCCGCCAAGACAATAACATAAGATCATATTGTGTAAGACCATAGCTGGACTATGACAACATA
33171873 TG
66 TG
* * * *
33171875 AAGTCCGCCAAGACAATAAGCATAAGATCATATTGTGTAAGACCATGGTTGGATTATGGCAACAT
1 AAGTCCGCCAAGACAATAA-CATAAGATCATATTGTGTAAGACCATAGCTGGACTATGACAACAT
33171940 ATG
65 ATG
*
33171943 AAGTCTGCCA
1 AAGTCCGCCA
33171953 GGATGGTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
67 17 0.25
68 51 0.75
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (67 bp):
AAGTCCGCCAAGACAATAACATAAGATCATATTGTGTAAGACCATAGCTGGACTATGACAACATA
TG
Found at i:33175722 original size:24 final size:24
Alignment explanation
Indices: 33175695--33175747 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33175685 CCACCTTTTT
33175695 TTTCACAAAC-AAATCCTATCTCAA
1 TTTC-CAAACAAAATCCTATCTCAA
***
33175719 TTTCCTTCCAAAATCCTATCTCAA
1 TTTCCAAACAAAATCCTATCTCAA
33175743 TTTCC
1 TTTCC
33175748 TTCCAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTCCAAACAAAATCCTATCTCAA
Found at i:33175748 original size:24 final size:24
Alignment explanation
Indices: 33175705--33175807 Score: 129
Period size: 24 Copynumber: 4.1 Consensus size: 24
33175695 TTTCACAAAC
33175705 AAATCCTATCTCAATTTCCTTCCA
1 AAATCCTATCTCAATTTCCTTCCA
33175729 AAATCCTATCTCAATTTCCTTCCA
1 AAATCCTATCTCAATTTCCTTCCA
33175753 AAATCCTCTTAAACTCTCAATTTCCTTCCA
1 AAAT-C-C-T--A-TCTCAATTTCCTTCCA
*
33175783 AAATCC--TCTCAATTTCATTCCA
1 AAATCCTATCTCAATTTCCTTCCA
33175805 AAA
1 AAA
33175808 ATCTCTCAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
22 18 0.25
24 28 0.39
25 1 0.01
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.03
30 20 0.28
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATCCTATCTCAATTTCCTTCCA
Found at i:33175771 original size:30 final size:27
Alignment explanation
Indices: 33175711--33175791 Score: 114
Period size: 30 Copynumber: 3.0 Consensus size: 27
33175701 AAACAAATCC
33175711 TATCTCAATTTCCTTCCAAAAT-C-C-
1 TATCTCAATTTCCTTCCAAAATCCTCT
33175735 TATCTCAATTTCCTTCCAAAATCCTCT
1 TATCTCAATTTCCTTCCAAAATCCTCT
33175762 TAAACTCTCAATTTCCTTCCAAAATCCTCT
1 T--A-TCTCAATTTCCTTCCAAAATCCTCT
33175792 CAATTTCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
24 22 0.43
25 1 0.02
26 1 0.02
27 1 0.02
29 1 0.02
30 25 0.49
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.38
Consensus pattern (27 bp):
TATCTCAATTTCCTTCCAAAATCCTCT
Found at i:33175791 original size:22 final size:22
Alignment explanation
Indices: 33175766--33175816 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
33175756 TCCTCTTAAA
*
33175766 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
33175787 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
33175810 CTCTCAA
1 CTCTCAA
33175817 ATCCATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:33175888 original size:31 final size:31
Alignment explanation
Indices: 33175850--33175916 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
33175840 GCTCAAGTTC
*
33175850 ATTTTTTTTAAATAATTTCAAATTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
* *
33175881 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAT
33175912 ATTTT
1 ATTTT
33175917 CATCAATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTCAAATTTTTTTAT
Found at i:33179016 original size:123 final size:124
Alignment explanation
Indices: 33178792--33179088 Score: 510
Period size: 123 Copynumber: 2.4 Consensus size: 124
33178782 ACTGCAGCAA
33178792 AATT-GCATCCACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCT
1 AATTAGCATCCACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCT
33178856 TACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTC
66 TACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTC
*
33178915 AATTAGCATCCACGAGGGCGTGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA-TATTTCT
1 AATTAGCATCCACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCT
*
33178979 TACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTC
66 TACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTC
* * * *
33179038 AATTAGCATTCTCGAGGGCGCGATTTTAAACTATTTGAC-CAGAAGCGTCAA
1 AATTAGCATCCACGAGGGCGCGATTTTATACTATTTG-CTCAGAAACGTCAA
33179089 CTCGAAATAA
Statistics
Matches: 165, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
123 113 0.68
124 52 0.32
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (124 bp):
AATTAGCATCCACGAGGGCGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCT
TACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCACAATTTCACAATTTCTTCTC
Found at i:33197186 original size:54 final size:54
Alignment explanation
Indices: 33197083--33197188 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
33197073 TAAAAAGCTG
* * *
33197083 AAGCCATGTGTAAATGAGTCATACAACCATGTAGCCAAGCCGTGTAACTAACTA
1 AAGCCATGTGTAAAGGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAACTA
* * **
33197137 AAGCCATGTGTAAAGGAGTCACATAACCATGTTGCCAAGTTGTGCAACTAAC
1 AAGCCATGTGTAAAGGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAAC
33197189 AGAAGTTGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (54 bp):
AAGCCATGTGTAAAGGAGTCACACAACCATGTAGCCAAGCCGTGCAACTAACTA
Found at i:33198641 original size:107 final size:107
Alignment explanation
Indices: 33198463--33198658 Score: 250
Period size: 107 Copynumber: 1.8 Consensus size: 107
33198453 GGATTGCTCT
*
33198463 GCAATGATGGTTTCTTAAATCATTTATGTCATCCCAGATTGCCCGGCAACAATGACCTACCACCC
1 GCAATGATGGTTTCTTAAATCATTCATGTCATCCCAGATTGCCCGGCAACAATGACCTACCACCC
**
33198528 CGGGTTG-CCTGACGACGATGGCTTACCACATTGAATTTCTTG
66 AAGGTTGTCC-GACGACGATGGCTTACCACATTGAATTTCTTG
* * *** * * * ** *
33198570 GCAATGATGGTTTCTTAATTCATTCATGTCATCCTAGATTTTTCGGTAACGATGACTTGTCACCT
1 GCAATGATGGTTTCTTAAATCATTCATGTCATCCCAGATTGCCCGGCAACAATGACCTACCACCC
33198635 AAGGTTGTCCGACGACGATGGCTT
66 AAGGTTGTCCGACGACGATGGCTT
33198659 TGTCGAGTCT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 72 0.97
108 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (107 bp):
GCAATGATGGTTTCTTAAATCATTCATGTCATCCCAGATTGCCCGGCAACAATGACCTACCACCC
AAGGTTGTCCGACGACGATGGCTTACCACATTGAATTTCTTG
Found at i:33205138 original size:14 final size:16
Alignment explanation
Indices: 33205119--33205161 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
33205109 GAGAACTCAT
33205119 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
33205133 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
33205149 ATTCAGTTTAATT
1 ATTTA-TTTAATT
33205162 CATGTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 5 0.20
17 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:33211001 original size:21 final size:21
Alignment explanation
Indices: 33210977--33211045 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
33210967 ATGAGTTGCT
*
33210977 CACATGACCATCTGACCTATC
1 CACATGGCCATCTGACCTATC
* *
33210998 CACATGGCCATTTGACCTATT
1 CACATGGCCATCTGACCTATC
* * *
33211019 CACACGGCCATGTGGCCTATC
1 CACATGGCCATCTGACCTATC
33211040 TCACAT
1 -CACAT
33211046 AGACACGACT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 35 0.90
22 4 0.10
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (21 bp):
CACATGGCCATCTGACCTATC
Found at i:33226063 original size:22 final size:22
Alignment explanation
Indices: 33226035--33226077 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
33226025 TGTTGATAGT
33226035 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
33226057 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
33226078 AATCTCTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:33226102 original size:3 final size:3
Alignment explanation
Indices: 33226094--33226188 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
33226084 TGTGGGATCG
33226094 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
33226142 TCT TCT TCT TCT TTT TCT TTT TCT TTT TCT TCT TCT TAT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
33226189 AGAATCCTCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:33228949 original size:13 final size:13
Alignment explanation
Indices: 33228929--33228962 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
33228919 ACGGCATGAT
33228929 AGAAATTTCGTGTA
1 AGAAATTTCGT-TA
33228943 A-AAATTTCGTTA
1 AGAAATTTCGTTA
33228955 AGAAATTT
1 AGAAATTT
33228963 TACCGCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 15 0.79
14 1 0.05
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (13 bp):
AGAAATTTCGTTA
Found at i:33230085 original size:50 final size:50
Alignment explanation
Indices: 33230026--33230200 Score: 287
Period size: 50 Copynumber: 3.5 Consensus size: 50
33230016 GTCATTAGGG
33230026 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
33230076 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
* * ** *
33230126 TTACCGATTCTTAGCTCGTATGAGCTTACCAATTTACAGCTCGTGAGAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
* *
33230176 ATACCGATTCATAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
33230201 ATACATGTAC
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (50 bp):
TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGTAGCTCGTGAAAGC
Found at i:33230204 original size:25 final size:25
Alignment explanation
Indices: 33230026--33230200 Score: 182
Period size: 25 Copynumber: 7.0 Consensus size: 25
33230016 GTCATTAGGG
33230026 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
* *
33230051 TTACCGAGTT-GTAGCTCGTGA-AAGC
1 TTACCGA-TTCTTAGCTCGT-ATGAGC
33230076 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
* *
33230101 TTACCGAGTT-GTAGCTCGTGA-AAGC
1 TTACCGA-TTCTTAGCTCGT-ATGAGC
33230126 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
* *
33230151 TTACCAATT-TACAGCTCGTGA-GAGC
1 TTACCGATTCT-TAGCTCGT-ATGAGC
* *
33230176 ATACCGATTCATAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
33230201 ATACATGTAC
Statistics
Matches: 124, Mismatches: 14, Indels: 24
0.77 0.09 0.15
Matches are distributed among these distances:
24 8 0.06
25 109 0.88
26 7 0.06
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (25 bp):
TTACCGATTCTTAGCTCGTATGAGC
Found at i:33230928 original size:43 final size:43
Alignment explanation
Indices: 33230867--33231043 Score: 237
Period size: 43 Copynumber: 4.1 Consensus size: 43
33230857 TTGATCACTG
* *
33230867 CACTAAAGATCATGATCTTTAGCGGCGCTTCTACCACAAAAGC
1 CACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
* * * *
33230910 CACTAAAGGTCATGATCTTTAGCGGCACTTCTACCACAAATGC
1 CACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
*
33230953 AACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
1 CACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
* * * * * *
33230996 CGCTAAAGATCATGACCTTCAACGACGCTTTTACAACAAACGC
1 CACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
33231039 CACTA
1 CACTA
33231044 TAAAGATGAC
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 118 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (43 bp):
CACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
Found at i:33231068 original size:42 final size:42
Alignment explanation
Indices: 33230867--33231100 Score: 130
Period size: 43 Copynumber: 5.5 Consensus size: 42
33230857 TTGATCACTG
* * * * *
33230867 CACTAAAGATCATGA-TCTTTAGCGGCGCTTCTACCACAAAAGC
1 CACTAAA-AACATGACT-TTTAGCGTCGCTTTTACAACAAACGC
** * * * * *
33230910 CACTAAAGGTCATGA-TCTTTAGCGGCACTTCTACCACAAATGC
1 CACTAAA-AACATGACT-TTTAGCGTCGCTTTTACAACAAACGC
* * * * * *
33230953 AACTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGC
1 CACTAAA-AACATGACTTTTAGCGTCGCTTTTACAACAAACGC
* * * * * *
33230996 CGCTAAAGATCATGACCTTCAACGACGCTTTTACAACAAACGC
1 CACTAAA-AACATGACTTTTAGCGTCGCTTTTACAACAAACGC
* * *** *
33231039 CACTATAAAGATGACTTTTAGCGTCGCTTTTTTGACAAATGC
1 CACTAAAAACATGACTTTTAGCGTCGCTTTTACAACAAACGC
33231081 CACTAAAAACATGACTTTTA
1 CACTAAAAACATGACTTTTA
33231101 AAAAAATGTT
Statistics
Matches: 161, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 43 0.27
43 118 0.73
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
CACTAAAAACATGACTTTTAGCGTCGCTTTTACAACAAACGC
Found at i:33234901 original size:14 final size:14
Alignment explanation
Indices: 33234864--33234901 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
33234854 AGTTATGTGA
*
33234864 TTTTATAAAATATT
1 TTTTATAAACTATT
33234878 TTTTAT-AACTATT
1 TTTTATAAACTATT
33234891 TTTTATAAACT
1 TTTTATAAACT
33234902 GGATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATAAACTATT
Found at i:33235247 original size:7 final size:7
Alignment explanation
Indices: 33235237--33235275 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
33235227 AAACTCGTAA
33235237 CCCTAAC
1 CCCTAAC
33235244 CCCTAAC
1 CCCTAAC
*
33235251 CTCTAAC
1 CCCTAAC
**
33235258 CATTAAC
1 CCCTAAC
33235265 CCCTAAC
1 CCCTAAC
33235272 CCCT
1 CCCT
33235276 CTTTTACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.51, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:33236171 original size:41 final size:42
Alignment explanation
Indices: 33236107--33236264 Score: 182
Period size: 41 Copynumber: 3.8 Consensus size: 42
33236097 TTCAGGTCTG
* **
33236107 AGCATTAGCGGCGCATTTCTAAAAACGCCGCT-AAAGCTCTA
1 AGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAGCTCTA
* * * *
33236148 AGCATTTGCGGCGCTTTAT-TAAAAACGCCACTAAAAGCT-AA
1 AGCATTAGCGGCGCTTT-TGAAAAAACGCCGCTAAAAGCTCTA
*
33236189 AGCATTAGTGGCGCTTTTGAAAAAACGCCGCTAAAAG--CTA
1 AGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAGCTCTA
*
33236229 GAGCACTAGCGGCGCTTTTGAAAAAACGCCGCTAAA
1 -AGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAA
33236265 GCCCCGAAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.02
41 92 0.91
42 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (42 bp):
AGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAAGCTCTA
Found at i:33237003 original size:12 final size:12
Alignment explanation
Indices: 33236988--33237017 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33236978 CCAGGTTGTT
33236988 ACACGGCCTAGC
1 ACACGGCCTAGC
*
33237000 ACACGGCCTGGC
1 ACACGGCCTAGC
33237012 ACACGG
1 ACACGG
33237018 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:33237217 original size:30 final size:30
Alignment explanation
Indices: 33237183--33237240 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
33237173 TGTCTCTTGG
*
33237183 CCGTGTGAGTCACACGGCCTGGCCACACAT
1 CCGTGTGAGTCACACGACCTGGCCACACAT
33237213 CCGTGTGAGTCACACGACCTGGCCACAC
1 CCGTGTGAGTCACACGACCTGGCCACAC
33237241 GGCTGTGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (30 bp):
CCGTGTGAGTCACACGACCTGGCCACACAT
Found at i:33237249 original size:30 final size:30
Alignment explanation
Indices: 33237182--33237250 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
33237172 GTGTCTCTTG
*
33237182 GCCGTGTGAGTCACACGGCCTGGCCACACA
1 GCCGTGTGAGTCACACGACCTGGCCACACA
* *
33237212 TCCGTGTGAGTCACACGACCTGGCCACACG
1 GCCGTGTGAGTCACACGACCTGGCCACACA
*
33237242 GCTGTGTGA
1 GCCGTGTGA
33237251 CCCCTACAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.17
Consensus pattern (30 bp):
GCCGTGTGAGTCACACGACCTGGCCACACA
Found at i:33237349 original size:14 final size:14
Alignment explanation
Indices: 33237330--33237367 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
33237320 CTTTTCCAGT
*
33237330 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
33237344 AAAATGATTTCTGG
1 AAAATGATTTCTGG
33237358 AAAATGATTT
1 AAAATGATTT
33237368 AATTTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:33243825 original size:49 final size:48
Alignment explanation
Indices: 33243730--33243826 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
33243720 TTTCTTTGCT
* * *
33243730 TAAAAACGCCTAAGTCAGCCTAACTTGCAATGATAACGAATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
* *
33243778 TAAAAACACCTAAGTCAGCTTAATCTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAA-CTCGCAATGATAAAGAATTCAACAG
33243827 AATTCCCCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 21 0.49
49 22 0.51
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
Found at i:33244041 original size:17 final size:17
Alignment explanation
Indices: 33244019--33244082 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
33244009 CATCAAGGGC
*
33244019 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
33244036 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
33244055 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
33244072 TACAATTAGAA
1 TACAATTAGAA
33244083 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:33244061 original size:19 final size:19
Alignment explanation
Indices: 33244037--33244090 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
33244027 AAAGCTGTAT
33244037 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
33244056 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
33244073 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
33244091 TTTTATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:33244068 original size:36 final size:36
Alignment explanation
Indices: 33244020--33244090 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
33244010 ATCAAGGGCT
33244020 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
33244056 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
33244091 TTTTATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:33248955 original size:49 final size:48
Alignment explanation
Indices: 33248860--33248956 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
33248850 TTTCTTTGCT
* * *
33248860 TAAAAACGCCTAAGTCAGCCTAACTTGCAATGATAATGAATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
* *
33248908 TAAAAACACCTAAGTCAGCTTAATCTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAA-CTCGCAATGATAAAGAATTCAACAG
33248957 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 21 0.49
49 22 0.51
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
Found at i:33249191 original size:19 final size:19
Alignment explanation
Indices: 33249167--33249220 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
33249157 AAAGCTGTAT
33249167 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
33249186 ACAATTAGAAGT-T--GTAT
1 ACAATTAGAACTCTAAG-AC
33249203 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
33249221 TTTTATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 2 0.07
19 12 0.43
20 1 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:33249202 original size:36 final size:36
Alignment explanation
Indices: 33249150--33249220 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
33249140 ATCAAGGGCT
33249150 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
* *
33249186 ACAATTAGAAGTTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
33249221 TTTTATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:33249208 original size:17 final size:17
Alignment explanation
Indices: 33249149--33249212 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
33249139 CATCAAGGGC
* *
33249149 TACAATTAAAAGCTGTA
1 TACAATTAGAAGTTGTA
*
33249166 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAGT-T--GTA
*
33249185 CACAATTAGAAGTTGTA
1 TACAATTAGAAGTTGTA
33249202 TACAATTAGAA
1 TACAATTAGAA
33249213 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGTTGTA
Found at i:33252601 original size:15 final size:16
Alignment explanation
Indices: 33252571--33252603 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33252561 AAAGAGAGAG
33252571 AGATGTGTAGGAATGA
1 AGATGTGTAGGAATGA
*
33252587 AGATGTGT-TGAATGA
1 AGATGTGTAGGAATGA
33252602 AG
1 AG
33252604 TAGCAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (16 bp):
AGATGTGTAGGAATGA
Found at i:33259831 original size:20 final size:21
Alignment explanation
Indices: 33259793--33259834 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
33259783 GTCCTTAAGC
33259793 AAACTAAACAACACAAAATAA
1 AAACTAAACAACACAAAATAA
33259814 AAACTAAA-AACA-AGAAATAA
1 AAACTAAACAACACA-AAATAA
33259834 A
1 A
33259835 CATTTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.74, C:0.14, G:0.02, T:0.10
Consensus pattern (21 bp):
AAACTAAACAACACAAAATAA
Found at i:33262621 original size:37 final size:37
Alignment explanation
Indices: 33262514--33262622 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
33262504 TACGTATGAT
* *
33262514 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
33262549 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
33262586 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
33262623 TAAAGCTATC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 10 0.15
36 4 0.06
37 54 0.79
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:33262639 original size:46 final size:46
Alignment explanation
Indices: 33262586--33262755 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
33262576 TAAGTGTAGC
* *
33262586 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
33262632 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAA-CTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCC-AAAGCTAT
* * *
33262684 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
33262730 CACTTTTCACTTT-TCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
33262756 AGTACTCAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
45 14 0.13
46 51 0.47
49 2 0.02
52 39 0.36
53 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:33262665 original size:52 final size:52
Alignment explanation
Indices: 33262586--33262749 Score: 207
Period size: 52 Copynumber: 3.2 Consensus size: 52
33262576 TAAGTGTAGC
* *
33262586 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
33262639 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAA-CTATCACTTAT
1 CACTTTTCACTTGTCTCTTGATCAGATAAGTGTAGCC-AAAGCTATCACTTAT
* * *
33262691 CAC---T---TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTTT
1 CACTTTTCACTTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
33262737 CACTTTTCACTTG
1 CACTTTTCACTTG
33262750 ATCAGAAGTA
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
45 2 0.02
46 38 0.40
49 2 0.02
52 42 0.44
53 12 0.12
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
CACTTTTCACTTGTCTCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:33264224 original size:17 final size:17
Alignment explanation
Indices: 33264202--33264235 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33264192 AAAACTTTCA
33264202 ACAAAATGAGAAACTAG
1 ACAAAATGAGAAACTAG
33264219 ACAAAATGAGAAACTAG
1 ACAAAATGAGAAACTAG
33264236 TAGAATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
ACAAAATGAGAAACTAG
Found at i:33271323 original size:42 final size:43
Alignment explanation
Indices: 33271228--33271450 Score: 238
Period size: 43 Copynumber: 5.2 Consensus size: 43
33271218 AGAAATAAAT
* * *
33271228 GCCGCTAAAGACCATGACCTTTAG-TAGCGCTTTTTCGACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGA-CGCTTTTTCCACAAAC
*
33271271 GCCGCTATAGACCATGACCTTTAGCGACGCTCTTT-CACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGACGCTTTTTCCACAAAC
* * *
33271313 GCTGCTATAGACCATGACCTTTAGCAACGCTTTTTGCACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGACGCTTTTTCCACAAAC
* * * *
33271356 GCCGCTAAAGACCATTACCATTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGACGCTTTTTCCACAAAC
* * *
33271399 GCTGCTATAGA--ATAGGCCTTTAGCGACCGCGCTTTTCACACAAAC
1 GCCGCTATAGACCAT-GACCTTTAGCGA-CGC-TTTTTC-CACAAAC
*
33271444 GTCGCTA
1 GCCGCTA
33271451 AAAACATATC
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 46 0.30
43 85 0.56
44 6 0.04
45 12 0.08
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCGCTATAGACCATGACCTTTAGCGACGCTTTTTCCACAAAC
Found at i:33271380 original size:85 final size:86
Alignment explanation
Indices: 33271231--33271409 Score: 263
Period size: 85 Copynumber: 2.1 Consensus size: 86
33271221 AATAAATGCC
* * * * *
33271231 GCTAAAGACCATGACCTTTAGTAGCGCTTTTTCGACAAACGCCGCTATAGACCATGACCTTTAGC
1 GCTATAGACCATGACCTTTAGCAACGCTTTTTCGACAAACGCCGCTAAAGACCATGACCATTAGC
33271296 GACGCTCTTT-CACAAACGCT
66 GACGCTCTTTCCACAAACGCT
*
33271316 GCTATAGACCATGACCTTTAGCAACGCTTTTT-GCACAAACGCCGCTAAAGACCATTACCATTAG
1 GCTATAGACCATGACCTTTAGCAACGCTTTTTCG-ACAAACGCCGCTAAAGACCATGACCATTAG
* *
33271380 CGGCGCTTTTTCCACAAACGCT
65 CGACGCTCTTTCCACAAACGCT
33271402 GCTATAGA
1 GCTATAGA
33271410 ATAGGCCTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
84 1 0.01
85 65 0.77
86 18 0.21
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (86 bp):
GCTATAGACCATGACCTTTAGCAACGCTTTTTCGACAAACGCCGCTAAAGACCATGACCATTAGC
GACGCTCTTTCCACAAACGCT
Found at i:33271603 original size:21 final size:21
Alignment explanation
Indices: 33271579--33271619 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
33271569 ATTTTAACTT
33271579 TAAAACTAAATATAAATATAG
1 TAAAACTAAATATAAATATAG
33271600 TAAAACTAAATATAAATATA
1 TAAAACTAAATATAAATATA
33271620 AAAATTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAACTAAATATAAATATAG
Found at i:33271796 original size:43 final size:43
Alignment explanation
Indices: 33271748--33271838 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
33271738 ACATATGCAA
* * * *
33271748 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
33271791 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
33271834 -GTAAT
1 GGTAAT
33271839 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:33278220 original size:19 final size:19
Alignment explanation
Indices: 33278169--33278220 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33278159 ATTATAACAG
*
33278169 TAAAAATTATTTA-AAAATA
1 TAAAAATT-TTAATAAAATA
**
33278188 TAAAAATTCAAATAAAATA
1 TAAAAATTTTAATAAAATA
33278207 TAAAAATTTTAATA
1 TAAAAATTTTAATA
33278221 TATATAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAATTTTAATAAAATA
Found at i:33279551 original size:2 final size:2
Alignment explanation
Indices: 33279546--33279576 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33279536 AAAAAAAAAA
*
33279546 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33279577 CACGGTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33279963 original size:22 final size:23
Alignment explanation
Indices: 33279935--33279979 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33279925 ATGCAATTTT
33279935 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
33279957 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
33279980 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:33283368 original size:15 final size:16
Alignment explanation
Indices: 33283338--33283370 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33283328 TTTTCCTTTA
33283338 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
*
33283354 TTATT-ATTTTTAAAT
1 TTATTCATTTTCAAAT
33283369 TT
1 TT
33283371 GTTTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:33287421 original size:21 final size:21
Alignment explanation
Indices: 33287395--33287449 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
33287385 ATAATAGCAT
33287395 AATCCAAACATAAAGTTTAGA
1 AATCCAAACATAAAGTTTAGA
*
33287416 AATCCAAACATAAAGTTTATA
1 AATCCAAACATAAAGTTTAGA
33287437 AATCCAAACATAA
1 AATCCAAACATAA
33287450 TCCAAAGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (21 bp):
AATCCAAACATAAAGTTTAGA
Found at i:33290743 original size:15 final size:15
Alignment explanation
Indices: 33290720--33290749 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33290710 ACTAGTATAC
*
33290720 CAAAGAAAAAACAAA
1 CAAAAAAAAAACAAA
33290735 CAAAAAAAAAACAAA
1 CAAAAAAAAAACAAA
33290750 AATAGAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAACAAA
Found at i:33290868 original size:15 final size:16
Alignment explanation
Indices: 33290848--33290880 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33290838 AGACGGCGAC
33290848 GAGCGGT-GATGGCGG
1 GAGCGGTAGATGGCGG
33290863 GAGCGGTCAGATGGCGG
1 GAGCGGT-AGATGGCGG
33290880 G
1 G
33290881 TGTCGGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.58, T:0.12
Consensus pattern (16 bp):
GAGCGGTAGATGGCGG
Found at i:33291456 original size:29 final size:28
Alignment explanation
Indices: 33291414--33291469 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
33291404 CTTTTTATCT
* *
33291414 TATAAATTTTTATTCTTAATTATAAATTG
1 TATAAATTTATATTATTAATTA-AAATTG
*
33291443 TATAGATTTATATTATTAATTAAAATT
1 TATAAATTTATATTATTAATTAAAATT
33291470 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (28 bp):
TATAAATTTATATTATTAATTAAAATTG
Found at i:33294258 original size:2 final size:2
Alignment explanation
Indices: 33294251--33294283 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
33294241 GTAGTTCTTT
*
33294251 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33294284 TGCTGCATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33294377 original size:23 final size:23
Alignment explanation
Indices: 33294325--33294371 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33294315 ATGCAGCTAA
33294325 TGTTACATATCTTCCATAATCTT
1 TGTTACATATCTTCCATAATCTT
33294348 TGTTACATATCTTCCATAATCTT
1 TGTTACATATCTTCCATAATCTT
33294371 T
1 T
33294372 TATACAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (23 bp):
TGTTACATATCTTCCATAATCTT
Found at i:33299498 original size:10 final size:10
Alignment explanation
Indices: 33299477--33299506 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
33299467 ATCCTTTACC
33299477 TCTTTTTCTTT
1 TCTTTTT-TTT
33299488 TCTTTTTTTT
1 TCTTTTTTTT
33299498 TCTTTTTTT
1 TCTTTTTTT
33299507 GGGGGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:33301127 original size:2 final size:2
Alignment explanation
Indices: 33301120--33301149 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
33301110 TTCTCTTCTT
33301120 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
33301150 TACTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33306385 original size:6 final size:6
Alignment explanation
Indices: 33306371--33306419 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
33306361 GTGTGTTGAA
*
33306371 TACTGT TACTTT TACTGT TACTGT TA-TCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TACTG-T TACTG
33306420 GTGTGTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 1 0.03
6 23 0.62
7 13 0.35
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:33306388 original size:45 final size:45
Alignment explanation
Indices: 33306285--33306391 Score: 153
Period size: 46 Copynumber: 2.4 Consensus size: 45
33306275 TATGTGCCGA
*
33306285 TTACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAAATACTG
1 TTACTGTTACTGTTA-CAATTCAGCACTTTGTGTGTCGAAATACTG
* *
33306331 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTG-AATACTG
1 TTACTGTTACTGTTACA-ATTCAGCACTTTGTGTGTCGAAATACTG
*
33306376 TTACTTTTACTGTTAC
1 TTACTGTTACTGTTAC
33306392 TGTTATCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 23 0.42
46 32 0.58
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TTACTGTTACTGTTACAATTCAGCACTTTGTGTGTCGAAATACTG
Found at i:33307522 original size:26 final size:26
Alignment explanation
Indices: 33307492--33307542 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
33307482 GAAAATATTA
*
33307492 AAAATA-TTAAAATTATTTTTAAAAAT
1 AAAATATTTAAAATT-TTCTTAAAAAT
33307518 AAAATATTTAAAATTTTCTTAAAAA
1 AAAATATTTAAAATTTTCTTAAAAA
33307543 ATGAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATATTTAAAATTTTCTTAAAAAT
Found at i:33307543 original size:27 final size:26
Alignment explanation
Indices: 33307492--33307549 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
33307482 GAAAATATTA
*
33307492 AAAATATTAAAATTATTTTTAAAAAT
1 AAAATATTAAAATTATTTTAAAAAAT
33307518 AAAATATTTAAAATT-TTCTTAAAAAAT
1 AAAATA-TTAAAATTATT-TTAAAAAAT
*
33307545 GAAAT
1 AAAAT
33307550 TGAATGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAATATTAAAATTATTTTAAAAAAT
Found at i:33307603 original size:22 final size:21
Alignment explanation
Indices: 33307578--33307628 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
33307568 TAATATGGAG
*
33307578 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
33307600 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
33307622 TTGAGAG
1 TTGAGAG
33307629 TTTAAGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:33307658 original size:22 final size:22
Alignment explanation
Indices: 33307633--33307701 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
33307623 TGAGAGTTTA
* *
33307633 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
33307655 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
*
33307677 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
33307699 AGA
1 AGA
33307702 TAGGATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:33318431 original size:19 final size:20
Alignment explanation
Indices: 33318407--33318448 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
33318397 ACACCTAGAC
33318407 ACCGACTTAACAATAA-GAA
1 ACCGACTTAACAATAAGGAA
33318426 ACCGACTTAACAATAAGGAA
1 ACCGACTTAACAATAAGGAA
33318446 ACC
1 ACC
33318449 ACAGCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (20 bp):
ACCGACTTAACAATAAGGAA
Found at i:33320280 original size:7 final size:7
Alignment explanation
Indices: 33320270--33320294 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33320260 TTAGCTTTTA
33320270 TATATTT
1 TATATTT
33320277 TATATTT
1 TATATTT
33320284 TATATTT
1 TATATTT
33320291 TATA
1 TATA
33320295 GACATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:33326247 original size:23 final size:22
Alignment explanation
Indices: 33326204--33326247 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33326194 TTCTAAGTCG
33326204 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33326227 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33326248 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33326402 original size:51 final size:50
Alignment explanation
Indices: 33326337--33326478 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
33326327 TAATGATGTT
*
33326337 CGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAAC-TATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAAACAT-TC
* * * ** *
33326388 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACATTC
* *
33326438 CGGTACACGTAGTAGCCTGCACATAATACTACACACGTGAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
33326479 CATCACTTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 41 0.53
51 37 0.47
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAACATTC
Found at i:33328916 original size:36 final size:36
Alignment explanation
Indices: 33328857--33328926 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
33328847 AACAACAACA
* *
33328857 TACCTTCTAATTACGCTATGGAGGCTATTGCTTGTG
1 TACCTTCCAATTACGCTACGGAGGCTATTGCTTGTG
**
33328893 TACCTTCCAATTTTGCTACGGAGGCTATTGCTTG
1 TACCTTCCAATTACGCTACGGAGGCTATTGCTTG
33328927 ACTACAGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (36 bp):
TACCTTCCAATTACGCTACGGAGGCTATTGCTTGTG
Found at i:33330811 original size:15 final size:15
Alignment explanation
Indices: 33330776--33330811 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
33330766 AACCCTTAAA
*
33330776 TCTTAAACCCGAACC
1 TCTTAAACCCCAACC
33330791 -CTTAAACCCCAACC
1 TCTTAAACCCCAACC
33330805 TCTTAAA
1 TCTTAAA
33330812 ACTCGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.36, C:0.39, G:0.03, T:0.22
Consensus pattern (15 bp):
TCTTAAACCCCAACC
Found at i:33333214 original size:44 final size:44
Alignment explanation
Indices: 33333143--33333232 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
33333133 AATTAAATAA
** * * *
33333143 AATAAAATTTATGATAATTGTATATTTAAAAATAATTATAATTT
1 AATAAAATTTATGATAATTACACATTTAAAAATAATCAGAATTT
* *
33333187 AATAAAATTTGTGATGATTACACATTTAAAAATAATCAGAATTT
1 AATAAAATTTATGATAATTACACATTTAAAAATAATCAGAATTT
33333231 AA
1 AA
33333233 ATTTAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (44 bp):
AATAAAATTTATGATAATTACACATTTAAAAATAATCAGAATTT
Found at i:33334077 original size:12 final size:13
Alignment explanation
Indices: 33334060--33334089 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33334050 TGCAAATGCA
33334060 AATTT-ATGTTTT
1 AATTTAATGTTTT
33334072 AATTTAATGTTTT
1 AATTTAATGTTTT
33334085 AATTT
1 AATTT
33334090 CACACCCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
AATTTAATGTTTT
Found at i:33336558 original size:26 final size:26
Alignment explanation
Indices: 33336513--33336569 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
33336503 TATACTAATT
*
33336513 AATAAA-ATTAAAAATATAATATTTA
1 AATAAATATTAAAAATATAATATTGA
*
33336538 AATAAATATT-AAATTAGTAATATTGA
1 AATAAATATTAAAAATA-TAATATTGA
33336564 AA-AAAT
1 AATAAAT
33336570 GCAACTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
AATAAATATTAAAAATATAATATTGA
Found at i:33339683 original size:26 final size:26
Alignment explanation
Indices: 33339654--33339706 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
33339644 CTGATCAAAA
33339654 AGGGGTTGCTAAGTGCAGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
*
33339680 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
33339706 A
1 A
33339707 ATTATTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:33339730 original size:42 final size:43
Alignment explanation
Indices: 33339683--33339833 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 43
33339673 TTCCCCGAGG
* *
33339683 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
* * *
33339725 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-AAAGGT
* * * * * * *
33339768 GGTTGCTATGTGTTGATTCC-CCGTATCACTAAATAT-AAGTT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
33339809 GGTTGCTAAGTGCTGATTCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
33339834 GTAACGGTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.03
41 18 0.20
42 34 0.38
43 30 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
Found at i:33347008 original size:20 final size:20
Alignment explanation
Indices: 33346983--33347037 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
33346973 GATCATGAAC
* *
33346983 CATTCCATTTGCTTACTTTT
1 CATTCCATTTACTTACTTTA
*
33347003 CATTCCATTTACTTCCTTTA
1 CATTCCATTTACTTACTTTA
*
33347023 CATTTCATTTACTTA
1 CATTCCATTTACTTA
33347038 ACATAAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.53
Consensus pattern (20 bp):
CATTCCATTTACTTACTTTA
Found at i:33347794 original size:40 final size:40
Alignment explanation
Indices: 33347749--33347825 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
33347739 AAGGGCACCA
*
33347749 AAGTGC-AATCAAGAGCACGAATGTGCAATCAAGGGTATCG
1 AAGTGCGAAT-AAGAGCACAAATGTGCAATCAAGGGTATCG
* * * *
33347789 AAGTGCGAATAGGGGCACAAATGTGCATTCAGGGGTA
1 AAGTGCGAATAAGAGCACAAATGTGCAATCAAGGGTA
33347826 CTGAAGTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (40 bp):
AAGTGCGAATAAGAGCACAAATGTGCAATCAAGGGTATCG
Found at i:33347832 original size:40 final size:40
Alignment explanation
Indices: 33347763--33347920 Score: 128
Period size: 40 Copynumber: 4.0 Consensus size: 40
33347753 GCAATCAAGA
* * * * *
33347763 GCACGAATGTGCAATCAAGGGTA-TCGAAGTGCGAATAGGG
1 GCACAAATGTGCATTCAGGGGTACT-GAAGTACGAACAGGG
* *
33347803 GCACAAATGTGCATTCAGGGGTACTGAAGTACAAACAGAG
1 GCACAAATGTGCATTCAGGGGTACTGAAGTACGAACAGGG
*
33347843 GCACGTAA-GTGCAATT-AGGGGTACTGAAGTACGAACAGGG
1 GCAC-AAATGTGC-ATTCAGGGGTACTGAAGTACGAACAGGG
* * * *
33347883 GCACGTAA-GTGCAATCAGAGGTA-TCGAAGTACAAACAG
1 GCAC-AAATGTGCATTCAGGGGTACT-GAAGTACGAACAG
33347921 AGACATGTAA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.03
40 91 0.91
41 6 0.06
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.17
Consensus pattern (40 bp):
GCACAAATGTGCATTCAGGGGTACTGAAGTACGAACAGGG
Found at i:33347865 original size:80 final size:80
Alignment explanation
Indices: 33347763--33347942 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
33347753 GCAATCAAGA
* * * * *
33347763 GCACG-AATGTGCAATCAAGGGTA-TCGAAGTGCGAATAGGGGCAC-AAATGTGCATTCAGGGGT
1 GCACGTAA-GTGCAATCAGGGGTACT-GAAGTACGAACAGGGGCACGAAA-GTGCAATCAGAGGT
33347825 A-CTGAAGTACAAACAGAG
63 ATC-GAAGTACAAACAGAG
* *
33347843 GCACGTAAGTGCAATTAGGGGTACTGAAGTACGAACAGGGGCACGTAAGTGCAATCAGAGGTATC
1 GCACGTAAGTGCAATCAGGGGTACTGAAGTACGAACAGGGGCACGAAAGTGCAATCAGAGGTATC
33347908 GAAGTACAAACAGAG
66 GAAGTACAAACAGAG
* *
33347923 ACATGTAAGTGCAATCAGGG
1 GCACGTAAGTGCAATCAGGG
33347943 TCTAATTTAC
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
80 80 0.93
81 6 0.07
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (80 bp):
GCACGTAAGTGCAATCAGGGGTACTGAAGTACGAACAGGGGCACGAAAGTGCAATCAGAGGTATC
GAAGTACAAACAGAG
Found at i:33347882 original size:20 final size:19
Alignment explanation
Indices: 33347818--33347883 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
33347808 AATGTGCATT
33347818 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTAC-AA
* * *
33347838 CAGAGGCAC-GTAAGTGCAA
1 CAGGGGTACTG-AAGTACAA
*
33347857 TTAGGGGTACTGAAGTACGAA
1 -CAGGGGTACTGAAGTAC-AA
33347878 CAGGGG
1 CAGGGG
33347884 CACGTAAGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (19 bp):
CAGGGGTACTGAAGTACAA
Found at i:33347921 original size:20 final size:19
Alignment explanation
Indices: 33347828--33347922 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 19
33347818 CAGGGGTACT
33347828 GAAGTACAAACAGAGGCAC
1 GAAGTACAAACAGAGGCAC
* ** * *
33347847 GTAAGTGCAATTAGGGGTAC
1 G-AAGTACAAACAGAGGCAC
* *
33347867 TGAAGTACGAACAGGGGCAC
1 -GAAGTACAAACAGAGGCAC
* * *
33347887 GTAAGTGCAATCAGAGGTATC
1 G-AAGTACAAACAGAGGCA-C
33347908 GAAGTACAAACAGAG
1 GAAGTACAAACAGAG
33347923 ACATGTAAGT
Statistics
Matches: 55, Mismatches: 17, Indels: 7
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.04
20 50 0.91
21 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.31, T:0.15
Consensus pattern (19 bp):
GAAGTACAAACAGAGGCAC
Found at i:33347931 original size:40 final size:40
Alignment explanation
Indices: 33347811--33347942 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
33347801 GGGCACAAAT
*
33347811 GTGCATTCAGGGGTACTGAAGTACAAACAGAGGCACGTAA
1 GTGCAATCAGGGGTACTGAAGTACAAACAGAGGCACGTAA
* * *
33347851 GTGCAATTAGGGGTACTGAAGTACGAACAGGGGCACGTAA
1 GTGCAATCAGGGGTACTGAAGTACAAACAGAGGCACGTAA
* * *
33347891 GTGCAATCAGAGGTA-TCGAAGTACAAACAGAGACATGTAA
1 GTGCAATCAGGGGTACT-GAAGTACAAACAGAGGCACGTAA
33347931 GTGCAATCAGGG
1 GTGCAATCAGGG
33347943 TCTAATTTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (40 bp):
GTGCAATCAGGGGTACTGAAGTACAAACAGAGGCACGTAA
Found at i:33350134 original size:28 final size:28
Alignment explanation
Indices: 33350103--33350165 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
33350093 TTTGGTGTAA
*
33350103 AAACTCAAA-AATTTGGATGGTGATGGTT
1 AAACT-AAATAATTTGGATGGTGATGATT
33350131 AAACTAAATAATTTGGATGGTGATGATT
1 AAACTAAATAATTTGGATGGTGATGATT
33350159 AAACTAA
1 AAACTAA
33350166 GTAAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (28 bp):
AAACTAAATAATTTGGATGGTGATGATT
Found at i:33353048 original size:25 final size:25
Alignment explanation
Indices: 33353020--33353069 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33353010 GAAGCCTAGT
* *
33353020 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
33353045 TTAAAAACTCATGCGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
33353070 CCCCCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
TTAAAAACTCATGCGAAATGCCTTA
Found at i:33353354 original size:17 final size:17
Alignment explanation
Indices: 33353314--33353355 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33353304 AGCGAAATTC
33353314 GAACTAAAAAAAATAAA
1 GAACTAAAAAAAATAAA
*
33353331 GACCTAAAAAGAAATAAA
1 GAACTAAAAA-AAATAAA
33353349 -AACTAAA
1 GAACTAAA
33353356 GACAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (17 bp):
GAACTAAAAAAAATAAA
Found at i:33358858 original size:6 final size:6
Alignment explanation
Indices: 33358847--33358875 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33358837 CGTGTCCCAA
33358847 CCCGTG CCCGTG CCCGTG CCCGTG CCCGT
1 CCCGTG CCCGTG CCCGTG CCCGTG CCCGT
33358876 ATGAGTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.31, T:0.17
Consensus pattern (6 bp):
CCCGTG
Found at i:33362749 original size:27 final size:27
Alignment explanation
Indices: 33362719--33362771 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33362709 GTATAGATAA
* *
33362719 CCTTTATTGCAAACTCTGACTGGATTG
1 CCTTTATGGCAAACTCTGAATGGATTG
* *
33362746 CCTTTGTGGCATACTCTGAATGGATT
1 CCTTTATGGCAAACTCTGAATGGATT
33362772 ATTTTGGTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
CCTTTATGGCAAACTCTGAATGGATTG
Done.