Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 35 of 259
Found at i:10333840 original size:7 final size:7
Alignment explanation
Indices: 10333830--10333870 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
10333820 TTTTTCAATT
10333830 TTTTATA
1 TTTTATA
10333837 TTTTATA
1 TTTTATA
* *
10333844 --TAATG
1 TTTTATA
10333849 TTTTATA
1 TTTTATA
10333856 TTTTATA
1 TTTTATA
10333863 TTTTATA
1 TTTTATA
10333870 T
1 T
10333871 AATTGATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 3 0.11
7 25 0.89
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTTATA
Found at i:10333852 original size:19 final size:20
Alignment explanation
Indices: 10333812--10333863 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
10333802 CTTTTTGATT
*
10333812 TTTTATATTTT-T-TCAATT
1 TTTTATATTTTATATCAATG
10333830 TTTTATATTTTATAT-AATG
1 TTTTATATTTTATATCAATG
10333849 TTTTATATTTTATAT
1 TTTTATATTTTATAT
10333864 TTTATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 11 0.35
19 19 0.61
20 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATATTTTATATCAATG
Found at i:10333940 original size:23 final size:21
Alignment explanation
Indices: 10333909--10333961 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
10333899 TTTTAAATTT
* *
10333909 TAATATTTTTTTGAGTTTTTATA
1 TAAT-TTTTTTTTA-TTTCTATA
10333932 TAATTTTTTTTTATTTCTATA
1 TAATTTTTTTTTATTTCTATA
10333953 TAATTTTTT
1 TAATTTTTT
10333962 ATTTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.57
22 8 0.29
23 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TAATTTTTTTTTATTTCTATA
Found at i:10333971 original size:19 final size:19
Alignment explanation
Indices: 10333906--10333972 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
10333896 AATTTTTAAA
* *
10333906 TTTTA-ATATTTTTTTGAGT
1 TTTTATATAATTTTTT-ATT
*
10333925 TTTTATATAATTTTTTTTT
1 TTTTATATAATTTTTTATT
10333944 ATTTCTATATAATTTTTTATT
1 -TTT-TATATAATTTTTTATT
10333965 TTTTATAT
1 TTTTATAT
10333973 TTTATATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.27
20 15 0.37
21 15 0.37
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTATATAATTTTTTATT
Found at i:10339639 original size:31 final size:32
Alignment explanation
Indices: 10339604--10339670 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
10339594 TTGATAAGTC
*
10339604 TTTATTTGAGCACTTTTAAAAAGGTTTGA-CA
1 TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
** * *
10339635 TTTATTTGATTACTTTCGAAAATGTTTGACCA
1 TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
10339667 TTTA
1 TTTA
10339671 AAAAGGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
Found at i:10344376 original size:34 final size:35
Alignment explanation
Indices: 10344330--10344399 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
10344320 TTGGTATTAA
*
10344330 AATTTCTATAAAATTTATGT-AAAATCAAACAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
* *
10344364 AATTTCTTTAAAATTTTTATAAAAATCAAACAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
10344399 A
1 A
10344400 GAAAACAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.37
Consensus pattern (35 bp):
AATTTCTATAAAATTTATATAAAAATCAAACAATC
Found at i:10347674 original size:27 final size:27
Alignment explanation
Indices: 10347640--10347694 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
10347630 GATTGTAGGC
*
10347640 TTTCTCTAAGTCAACTTTGATTGCCAA
1 TTTCTCTAAATCAACTTTGATTGCCAA
10347667 TTTCTCTAAATCAACTTTGATTGCCAA
1 TTTCTCTAAATCAACTTTGATTGCCAA
10347694 T
1 T
10347695 GATGTGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTCTCTAAATCAACTTTGATTGCCAA
Found at i:10353318 original size:47 final size:47
Alignment explanation
Indices: 10353257--10353380 Score: 148
Period size: 47 Copynumber: 2.6 Consensus size: 47
10353247 TCTCGTAGCT
* **
10353257 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCTC-TCAAAAGTGGCTG
*
10353303 ATGCCATGTCTCAGACATGGTCTTACACT-G-GCTCTCAAAATGTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCGCTCTCAAAA-GTGGCTG
10353351 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
10353381 ACACAAGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 4 0.06
46 16 0.24
47 29 0.44
48 17 0.26
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCGCTCTCAAAAGTGGCTG
Found at i:10353324 original size:91 final size:91
Alignment explanation
Indices: 10353211--10353380 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 91
10353201 TATACGTGTC
10353211 GATGCCATATCCTAGACATGGTCTTACACTGACACATC-TCGTAGCT-ATGCATGTCCCAGACAT
1 GATGCCATATCCTAGACATGGTCTTACACTGACAC-TCAT-GTAGCTGATGCATGTCCCAGACAT
10353274 GTCTTACACTAGCTCTCGTCTCAATGCT
64 GTCTTACACTAGCTCTCGTCTCAATGCT
* * * *
10353302 GATGCCATGT-CTCAGACATGGTCTTACACTGGCTCTCAAAATGTGGCTGATGCATGTCCCAGAC
1 GATGCCATATCCT-AGACATGGTCTTACACTGACACTC---ATGTAGCTGATGCATGTCCCAGAC
10353366 ATGTCTTACACTAGC
62 ATGTCTTACACTAGC
10353381 ACACAAGTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
90 4 0.06
91 29 0.42
93 5 0.07
94 31 0.45
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
GATGCCATATCCTAGACATGGTCTTACACTGACACTCATGTAGCTGATGCATGTCCCAGACATGT
CTTACACTAGCTCTCGTCTCAATGCT
Found at i:10353385 original size:139 final size:141
Alignment explanation
Indices: 10353118--10353377 Score: 309
Period size: 139 Copynumber: 1.9 Consensus size: 141
10353108 AGGCTAACGC
* *
10353118 CATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCGTGCTGATGCCATGTTCCAGACATG
1 CATGTCCCAGACATGGTCTTACACCAGCTCT-ACATACTCATGCTGATGCCATGTTCCAGACATG
* * * * *
10353183 GTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCTAGACATGGTCTTACACTGACACAT
65 GTCTTACACTAACACCTCAAAACGTGGCGATGCCATATCCCAGACATGGTCTTACACTGACACAT
10353248 CTCGTAGCTATG
130 CTCGTAGCTATG
* *
10353260 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGT-CTCAATGCTGATGCCATG-TCTCAGACAT
1 CATGTCCCAGACATGGTCTTACACCAGCTCTACATACTC-ATGCTGATGCCATGTTC-CAGACAT
** * * *
10353321 GGTCTTACACTGGC-TCTCAAAATGTGGCTGATG-CATGTCCCAGACAT-GTCTTACACT
64 GGTCTTACACTAACACCTCAAAACGTGGC-GATGCCATATCCCAGACATGGTCTTACACT
10353378 AGCACACAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
137 10 0.10
138 25 0.25
139 37 0.37
141 15 0.15
142 14 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACCAGCTCTACATACTCATGCTGATGCCATGTTCCAGACATGG
TCTTACACTAACACCTCAAAACGTGGCGATGCCATATCCCAGACATGGTCTTACACTGACACATC
TCGTAGCTATG
Found at i:10357502 original size:33 final size:33
Alignment explanation
Indices: 10357461--10357533 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
10357451 AGAGCCATGA
* *
10357461 AAAACCTTCTCAAAACTAACTTCCTTCACCAAG
1 AAAACCTTCTCAAAACTAACCTCATTCACCAAG
*
10357494 AAAACCTTCTCAAAACTAACCTCATTCATCAAG
1 AAAACCTTCTCAAAACTAACCTCATTCACCAAG
10357527 AAAACCT
1 AAAACCT
10357534 AGCTTTCGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (33 bp):
AAAACCTTCTCAAAACTAACCTCATTCACCAAG
Found at i:10360041 original size:149 final size:150
Alignment explanation
Indices: 10359770--10360048 Score: 470
Period size: 149 Copynumber: 1.9 Consensus size: 150
10359760 AAAAGTCAAT
* * *
10359770 TACTATCAAATAGTAATTAAGTCATTCATCACAAAGACAAATGACCTGTGACCACATTTACTTTT
1 TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
* * *
10359835 CATCTATCATGTAATGCTAATGAAAGGTTATCATTTACCCATGTCTTGGGCAATGAATTCCACTA
66 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
10359900 TACTATAGAAGTTGTATACA
131 TACTATAGAAGTTGTATACA
* * *
10359920 TACTATCAAATAGTAATTAAGTCATTCATCATAAAAACGAACGACCCGTGATCACATTTAC-TTT
1 TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
10359984 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
66 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
10360049 CTATGAATTA
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
149 65 0.54
150 55 0.46
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (150 bp):
TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
TACTATAGAAGTTGTATACA
Found at i:10360633 original size:21 final size:20
Alignment explanation
Indices: 10360573--10360634 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
10360563 TTATGTTTTG
*
10360573 TTAATTAAG-TAAAATATGA
1 TTAATTAAGTTAAAATATAA
10360592 TTAATTAAGATTAAAATATAA
1 TTAATTAAG-TTAAAATATAA
*
10360613 TTAATTAAGTTATAATCATAA
1 TTAATTAAGTTAAAAT-ATAA
10360634 T
1 T
10360635 ATATACTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.24
20 6 0.16
21 23 0.61
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (20 bp):
TTAATTAAGTTAAAATATAA
Found at i:10360892 original size:20 final size:21
Alignment explanation
Indices: 10360867--10360905 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
10360857 TTTCCATGAT
10360867 TGTGAAATTGAT-GAAATTGG
1 TGTGAAATTGATAGAAATTGG
10360887 TGTGAAATTGATAGAAATT
1 TGTGAAATTGATAGAAATT
10360906 AAGCTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGAAATTGATAGAAATTGG
Found at i:10368035 original size:19 final size:19
Alignment explanation
Indices: 10368011--10368055 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
10368001 ATTTTGGCAT
*
10368011 TATCTCACAAAATTTTTTA
1 TATCTCACAAAATTTATTA
10368030 TATCTCACAAAATTTATTA
1 TATCTCACAAAATTTATTA
10368049 TATCTCA
1 TATCTCA
10368056 TAATCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (19 bp):
TATCTCACAAAATTTATTA
Found at i:10373495 original size:42 final size:42
Alignment explanation
Indices: 10373367--10373530 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 42
10373357 ACATAGGATC
* * * ** *
10373367 CGATATATGTTTTCGTGTAAGGCCACATCTGGGACATTGGCAT
1 CGATAT-TGATTTCATGTAAGACCATGTCTGGGACATCGGCAT
* *
10373410 TGACT-TATGATTTACATGTAAGACCATGTCTGGGATATCGGCAT
1 CGA-TAT-TGATTT-CATGTAAGACCATGTCTGGGACATCGGCAT
* *
10373454 C-ATATGTGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCAT
1 CGATAT-TGATTTCATGTAAGACCATGTCTGGGACA-TCGGCAT
* * *
10373496 CGATATTCGATTACATGTAAGACCACGTCTAGGAC
1 CGATATT-GATTTCATGTAAGACCATGTCTGGGAC
10373531 GTTGGCATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
42 28 0.29
43 44 0.45
44 25 0.26
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CGATATTGATTTCATGTAAGACCATGTCTGGGACATCGGCAT
Found at i:10377542 original size:14 final size:14
Alignment explanation
Indices: 10377523--10377551 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10377513 CTATGAGGAA
10377523 ATATATTTAATTTT
1 ATATATTTAATTTT
10377537 ATATATTTAATTTT
1 ATATATTTAATTTT
10377551 A
1 A
10377552 ACATTAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATATTTAATTTT
Found at i:10379289 original size:28 final size:28
Alignment explanation
Indices: 10379256--10379309 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
10379246 AGAGAGTATG
10379256 AAATTAGAAA-ACAAGAATA-TTAGTAAAT
1 AAATTAGAAATA-AA-AATATTTAGTAAAT
10379284 AAATTAGAAATAAAAATATTTAGTAA
1 AAATTAGAAATAAAAATATTTAGTAA
10379310 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.17
28 19 0.79
29 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (28 bp):
AAATTAGAAATAAAAATATTTAGTAAAT
Found at i:10379301 original size:27 final size:26
Alignment explanation
Indices: 10379256--10379328 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 26
10379246 AGAGAGTATG
10379256 AAATTAGAAA-ACAAGAATATTAGTAAAT
1 AAATTAGAAATA-AA-AATATTAGT-AAT
10379284 AAATTAGAAATAAAAATATTTAGTAAT
1 AAATTAGAAATAAAAATA-TTAGTAAT
*
10379311 TAATT--AAAT-AAAATATTA
1 AAATTAGAAATAAAAATATTA
10379329 ATATAGATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 4 0.10
27 11 0.26
28 17 0.40
29 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTAGAAATAAAAATATTAGTAAT
Found at i:10379379 original size:28 final size:30
Alignment explanation
Indices: 10379330--10379389 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
10379320 AAAATATTAA
*
10379330 TATAGATATTTATGTATCAAGT-ATGAAAT
1 TATAGATATTGATGTATCAAGTAATGAAAT
* * *
10379359 TATAG-TATTGATTTATTAAGTAATTAAAT
1 TATAGATATTGATGTATCAAGTAATGAAAT
10379388 TA
1 TA
10379390 AGAAAGTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.45
Consensus pattern (30 bp):
TATAGATATTGATGTATCAAGTAATGAAAT
Found at i:10382483 original size:25 final size:25
Alignment explanation
Indices: 10382455--10382511 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
10382445 AGGCATTATG
* * *
10382455 CCACATAGCCTTTATAAGTAACCTA
1 CCACAAAGACTTTACAAGTAACCTA
*
10382480 CCACAAAGACTTTACAGGTAACCTA
1 CCACAAAGACTTTACAAGTAACCTA
*
10382505 CAACAAA
1 CCACAAA
10382512 AGCTTCCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (25 bp):
CCACAAAGACTTTACAAGTAACCTA
Found at i:10382557 original size:46 final size:48
Alignment explanation
Indices: 10382480--10382612 Score: 155
Period size: 50 Copynumber: 2.8 Consensus size: 48
10382470 AAGTAACCTA
* * * * *
10382480 CCACAAAGACTTTACAGGTAAC-CTACAACAAAAGCTT-CC-TAAATCG
1 CCACAAAGGCTTTACAGGTGACTC-GCCACAAAGGCTTCCCATAAATCG
*
10382526 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAGTAAATTG
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCC-A-TAAATCG
*
10382576 CCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTT
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTT
10382613 TACAAGTGAC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 30 0.40
47 3 0.04
50 42 0.56
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (48 bp):
CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCATAAATCG
Found at i:10382619 original size:50 final size:50
Alignment explanation
Indices: 10382519--10382619 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
10382509 AAAAGCTTCC
*
10382519 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAG
1 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
* * *
10382569 TAAATTGCCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTTTACAAG
1 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
10382619 T
1 T
10382620 GACTTACTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
Found at i:10382632 original size:50 final size:50
Alignment explanation
Indices: 10382526--10382635 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
10382516 TCCTAAATCG
* *
10382526 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAGTAAATTG
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
* * * *
10382576 CCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTTTACAAGTGACTTA
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
*
10382626 CTACAAAGGC
1 CCACAAAGGC
10382636 ACTACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (50 bp):
CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
Found at i:10382635 original size:25 final size:25
Alignment explanation
Indices: 10382523--10382623 Score: 130
Period size: 25 Copynumber: 4.0 Consensus size: 25
10382513 GCTTCCTAAA
*
10382523 TCGCCACAAAGGCTTTACAGGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
** * *
10382548 TCGCCACAAAGGCTTCCCAAGTAAA
1 TCGCCACAAAGGCTTTACAAGTGAC
* * *
10382573 TTGCCACAAAGGCTTTATAGGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
10382598 TCGCCACAAAGGCTTTACAAGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
10382623 T
1 T
10382624 TACTACAAAG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (25 bp):
TCGCCACAAAGGCTTTACAAGTGAC
Found at i:10384829 original size:43 final size:43
Alignment explanation
Indices: 10384764--10384930 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
10384754 AGCTCGTACA
* * * * *
10384764 ATGCC-ATATCCCAGATAAGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
10384806 ATGCCAATGTCCCAGACATGGTCTTACACGGAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
10384849 ATGCCAATGTCCCAAACATGATATTACACATAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * * *
10384892 ATGCCAATGTTCTAGACATGGTCTTACATGCAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
10384931 TTCGGTAATC
Statistics
Matches: 98, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 6 0.06
43 92 0.94
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:10386225 original size:51 final size:51
Alignment explanation
Indices: 10386156--10386252 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
10386146 AACAACTGCA
* * *
10386156 TACATGATTATGAAATTTCCATTAGAATCCCTATTTACAGATAGTTCACCT
1 TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTTCACCT
*
10386207 TACAAGATCATGAAATTTCCATTATAATACCTATTTACAGATAGTT
1 TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTT
10386253 TACTAACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (51 bp):
TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTTCACCT
Found at i:10390158 original size:22 final size:20
Alignment explanation
Indices: 10390121--10390163 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
10390111 TATTACTTTA
10390121 TCCATTTTTTTATTTTTATT
1 TCCATTTTTTTATTTTTATT
*
10390141 TCCATTTAATTTTGTTTTTATT
1 TCCATTT--TTTTATTTTTATT
10390163 T
1 T
10390164 TTACTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (20 bp):
TCCATTTTTTTATTTTTATT
Found at i:10394566 original size:54 final size:54
Alignment explanation
Indices: 10394484--10394591 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
10394474 ATTACAGTGG
* *
10394484 GACTAAGACCGCAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACGCTATT
1 GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
* *
10394538 GACTAATACCACACATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
1 GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
10394592 CAAAGACACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (54 bp):
GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
Found at i:10394862 original size:25 final size:25
Alignment explanation
Indices: 10394828--10394877 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10394818 GATGCTAGAG
*
10394828 TAGTGGTGAGGTTCCTTAAGAAACT
1 TAGTGGTGAGATTCCTTAAGAAACT
10394853 TAGTGGTGAGATTCCTTAAGAAACT
1 TAGTGGTGAGATTCCTTAAGAAACT
10394878 CTTCTCTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (25 bp):
TAGTGGTGAGATTCCTTAAGAAACT
Found at i:10398714 original size:17 final size:17
Alignment explanation
Indices: 10398681--10398721 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10398671 TTGAGTTTAA
10398681 TTATTTTCACTTTGTTT
1 TTATTTTCACTTTGTTT
*
10398698 TTCTTTTC-CTTTCGTTT
1 TTATTTTCACTTT-GTTT
10398715 TTATTTT
1 TTATTTT
10398722 TATTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (17 bp):
TTATTTTCACTTTGTTT
Found at i:10400975 original size:109 final size:109
Alignment explanation
Indices: 10400784--10400998 Score: 403
Period size: 109 Copynumber: 2.0 Consensus size: 109
10400774 TCCACATGGG
10400784 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
1 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
*
10400849 ATTAAACCATATCAGAATTACACACGGCCTGAGCACCTTCACAC
66 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCACAC
* *
10400893 TAATCCACACGTCAGTGCGCGACACACGGGTAATCCACAGGCCAGTGTGTCATGGCCGTGTCGAC
1 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
10400958 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCA
66 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCA
10400999 TACTGGCGTG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (109 bp):
TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCACAC
Found at i:10416638 original size:46 final size:45
Alignment explanation
Indices: 10416585--10416756 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
10416575 TGGGCATCCA
*
10416585 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
10416631 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
10416678 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
10416724 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10416757 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:10416736 original size:93 final size:93
Alignment explanation
Indices: 10416577--10416748 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
10416567 AGGATATTTG
* **
10416577 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10416642 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
10416670 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10416735 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
10416749 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10420373 original size:92 final size:92
Alignment explanation
Indices: 10420204--10420383 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
10420194 CAAATAATAA
* * * * *
10420204 CTGCCAGTATAAGTTTTGGATAAACCATGAGTGCTTACAGGTTGATACATTATCATTAGTTGTGA
1 CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
*
10420269 ATACAAATTGGTTTTTGTAGATGTTAG
66 ATACAAATTGGTTTTTGCAGATGTTAG
* **
10420296 CTGCTAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATATGTTACCAGTAGTTGTGA
1 CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
10420361 ATACACAA-TGGTTTTTGCAGATG
66 ATACA-AATTGGTTTTTGCAGATG
10420384 AAAGTTGCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 76 0.97
93 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (92 bp):
CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
ATACAAATTGGTTTTTGCAGATGTTAG
Found at i:10423989 original size:21 final size:20
Alignment explanation
Indices: 10423941--10423989 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
10423931 GGCTACTCAG
10423941 AAAATTTTTAATGAAATTTC
1 AAAATTTTTAATGAAATTTC
10423961 AAAATTTTTAATGAAATTTC
1 AAAATTTTTAATGAAATTTC
10423981 AAAATTTTT
1 AAAATTTTT
10423990 CCGACATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
AAAATTTTTAATGAAATTTC
Found at i:10424218 original size:13 final size:13
Alignment explanation
Indices: 10424200--10424225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10424190 AGGGGTCACG
10424200 CGGCCAAGCCACA
1 CGGCCAAGCCACA
10424213 CGGCCAAGCCACA
1 CGGCCAAGCCACA
10424226 TGCCCGTGTG
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:0.46, G:0.23, T:0.00
Consensus pattern (13 bp):
CGGCCAAGCCACA
Found at i:10425441 original size:23 final size:23
Alignment explanation
Indices: 10425411--10425458 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10425401 GGATAACCAT
*
10425411 ATATCGGGAAGATCAAGCGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
* *
10425434 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
10425457 AT
1 AT
10425459 TAATCAGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (23 bp):
ATATCGGGAAGATCAAGAGAGCC
Found at i:10425481 original size:26 final size:26
Alignment explanation
Indices: 10425451--10425510 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
10425441 GAAGCTCTAG
*
10425451 AGAGCCATTAATC-AGGAAACTTACAA
1 AGAGCCATTAATCGA-GAAACTCACAA
* *
10425477 AGAGCCTTTAATCGAGAAGCTCACAA
1 AGAGCCATTAATCGAGAAACTCACAA
10425503 AGAGCCAT
1 AGAGCCAT
10425511 ATACCAGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAACTCACAA
Found at i:10433249 original size:18 final size:18
Alignment explanation
Indices: 10433208--10433242 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10433198 AATTGCTTTT
*
10433208 GCTTTTGGGTTCAAAAGA
1 GCTTTTGAGTTCAAAAGA
10433226 GCTTTTGAGTTCAAAAG
1 GCTTTTGAGTTCAAAAG
10433243 CACTTTTCAC
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:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
GCTTTTGAGTTCAAAAGA
Found at i:10433256 original size:18 final size:18
Alignment explanation
Indices: 10433217--10433259 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10433207 TGCTTTTGGG
* *
10433217 TTCAAAAGAGCTTTTGAG
1 TTCAAAAGAGCTTTTCAC
10433235 TTCAAAAGCA-CTTTTCAC
1 TTCAAAAG-AGCTTTTCAC
10433253 TTCAAAA
1 TTCAAAA
10433260 ATTATCCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (18 bp):
TTCAAAAGAGCTTTTCAC
Found at i:10435979 original size:21 final size:21
Alignment explanation
Indices: 10435949--10436001 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
10435939 GTATTATATT
*
10435949 TTATAGAAAAAATCAT-CCACC
1 TTATATAAAAAA-CATACCACC
*
10435970 TTATATAAAAAACTTACCACC
1 TTATATAAAAAACATACCACC
10435991 TTAT-TAAAAAA
1 TTATATAAAAAA
10436002 ACCCTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (21 bp):
TTATATAAAAAACATACCACC
Found at i:10441316 original size:17 final size:17
Alignment explanation
Indices: 10441281--10441331 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
10441271 AATTGATACA
* **
10441281 TTTTGTTTCACCACCAG
1 TTTTGTTTCACTATGAG
10441298 TTTTGTTTCACTATGAG
1 TTTTGTTTCACTATGAG
*
10441315 TTTCGTTTCACTATGAG
1 TTTTGTTTCACTATGAG
10441332 CGTATAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.47
Consensus pattern (17 bp):
TTTTGTTTCACTATGAG
Found at i:10441558 original size:31 final size:31
Alignment explanation
Indices: 10441523--10441582 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
10441513 ATCCTTTAAC
*
10441523 TATTTGAGAGGTTTCATTTAAGTTATTGAAT
1 TATTTGAAAGGTTTCATTTAAGTTATTGAAT
* *
10441554 TATTTGAAAGTTTTTATTTAAGTTATTGA
1 TATTTGAAAGGTTTCATTTAAGTTATTGA
10441583 GCTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (31 bp):
TATTTGAAAGGTTTCATTTAAGTTATTGAAT
Found at i:10446184 original size:43 final size:43
Alignment explanation
Indices: 10446102--10446257 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
10446092 TGAGACATCG
* * * * *
10446102 TGTAAGACCGTGTATGGGACA-CAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTACA
* *
10446145 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CT
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* *** *
10446187 TGTAAGACCCTGTCTGGGACAAAAGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* *
10446230 TGTAAGACTACGTCTGGGACATCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
10446258 TGTACTTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 32 0.36
43 56 0.63
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:10447035 original size:13 final size:13
Alignment explanation
Indices: 10447017--10447041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10447007 AGCTAAGAAT
10447017 CACACGGCCGTGG
1 CACACGGCCGTGG
10447030 CACACGGCCGTG
1 CACACGGCCGTG
10447042 TCTATTGGTT
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:0.16, C:0.40, G:0.36, T:0.08
Consensus pattern (13 bp):
CACACGGCCGTGG
Found at i:10453433 original size:43 final size:43
Alignment explanation
Indices: 10453386--10453506 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
10453376 CCTCGATTGA
* *
10453386 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATAT-T
* **
10453429 GATTT-CATGTAAGACCTTGTCTGGGACAGAGGCATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATATT
* * *
10453471 GAATTACATGTAAGACCACGTCCGGGACATCGGCAT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCAT
10453507 TGTACTTGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:10456823 original size:55 final size:53
Alignment explanation
Indices: 10456680--10456887 Score: 186
Period size: 55 Copynumber: 3.8 Consensus size: 53
10456670 ATCCTTTTGA
* * *
10456680 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
10456733 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * * * *** *
10456787 TAACTTATCAATGTCATGTCTTGACATGGCCTTACATGATTTCCGTGCCTTA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
10456840 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
10456888 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 46 0.37
54 8 0.07
55 65 0.53
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:10460942 original size:36 final size:36
Alignment explanation
Indices: 10460886--10460958 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
10460876 TACGAAGTCT
* *
10460886 TACCCGGACATAATCTCCACACGAAGTTATCGGGTC
1 TACCCGGACAAAATCTCCACACGAAGTCATCGGGTC
*
10460922 TACCCGGACAAAAT-TCCCACACGTAGTCATCGGGTC
1 TACCCGGACAAAATCT-CCACACGAAGTCATCGGGTC
10460958 T
1 T
10460959 TTAGAGCTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (36 bp):
TACCCGGACAAAATCTCCACACGAAGTCATCGGGTC
Found at i:10461147 original size:46 final size:46
Alignment explanation
Indices: 10461078--10461507 Score: 613
Period size: 46 Copynumber: 9.4 Consensus size: 46
10461068 CCCTTCGGGA
* * * * * *
10461078 CTTATCACAT-TATGCAC-TTCACATCCATCACGTTGGCCACTCGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
* *
10461122 CCTGTCACATATATACACTTTCACATTCATCA-ATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
* *
10461168 CTTACCA-ATATATACAGTTTCACATTCATCACATCGGCCATTAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
* *
10461213 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
*
10461260 CTTATCACATATATACACTTTCACATTCATCA-ATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
*
10461306 CTTATCACATATATATACTTTCACATTCATCACATCGG-CATTAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
10461351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
* *
10461398 CTTATCACACATATACACTTTCACATTCATCACATC-GCCATTAGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
* *
10461443 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
10461489 CTTATCACATATATACACT
1 CTTATCACATATATACACT
10461508 GTCTTGGCTG
Statistics
Matches: 352, Mismatches: 24, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
44 8 0.02
45 118 0.34
46 151 0.43
47 75 0.21
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGC
Found at i:10464735 original size:23 final size:25
Alignment explanation
Indices: 10464700--10464748 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
10464690 AAAGGAATTC
10464700 CACACACACAGTGCTC-TAATCATT
1 CACACACACAGTGCTCTTAATCATT
* *
10464724 CACA-ACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
10464748 C
1 C
10464749 GTTATACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:10465028 original size:38 final size:39
Alignment explanation
Indices: 10464920--10465095 Score: 195
Period size: 38 Copynumber: 4.6 Consensus size: 39
10464910 ACAGCATGAT
*
10464920 TGCTCTTCGGGATTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGTC-CGGATATATCACTAGCACGAA
* *
10464960 T-CTCTTCGG-GTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGACTTAGTCCGGATATATCACTAGCACGAA
*
10464997 TGCTCTTCGGACTTAGTCCGGATA-ATAACTAGCACGAA
1 TGCTCTTCGGACTTAGTCCGGATATATCACTAGCACGAA
*
10465035 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGA-CTTAGTCCGGATAT-ATCAC-TAGCACGAA
* *
10465075 AGC-CTTCGGACTTAGCCCGGA
1 TGCTCTTCGGACTTAGTCCGGA
10465096 CATCATTCAA
Statistics
Matches: 121, Mismatches: 8, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
37 33 0.27
38 40 0.33
39 27 0.22
40 15 0.12
41 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGTCCGGATATATCACTAGCACGAA
Found at i:10465095 original size:77 final size:76
Alignment explanation
Indices: 10464921--10465095 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 76
10464911 CAGCATGATT
* * * *
10464921 GCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATCTCTTCGGGTTAGCCCGGATATATC
1 GCTCTTC-GGACTTAGCCCGGATATATAACTAGCACGAATCTCTTCGGCTTAGCCCGGATATATC
*
10464986 ACTAGCACGAAT
65 ACTAGCACGAAA
* *
10464998 GCTCTTCGGACTTAGTCCGGATA-ATAACTAGCACGAATGC-CTTCGGATCTTAGTCCGGATATG
1 GCTCTTCGGACTTAGCCCGGATATATAACTAGCACGAAT-CTCTTCGG--CTTAGCCCGGATAT-
*
10465061 GTCACTTAGCAC-AAA
62 ATCAC-TAGCACGAAA
10465076 GC-CTTCGGACTTAGCCCGGA
1 GCTCTTCGGACTTAGCCCGGA
10465096 CATCATTCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
75 20 0.24
76 14 0.17
77 36 0.43
78 8 0.10
79 6 0.07
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (76 bp):
GCTCTTCGGACTTAGCCCGGATATATAACTAGCACGAATCTCTTCGGCTTAGCCCGGATATATCA
CTAGCACGAAA
Found at i:10465436 original size:29 final size:29
Alignment explanation
Indices: 10465397--10465475 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
10465387 CTTAATAATC
*
10465397 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
10465427 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
10465456 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
10465476 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:10465518 original size:43 final size:43
Alignment explanation
Indices: 10465457--10465559 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
10465447 TGCATTTCAA
10465457 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
10465500 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
10465543 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
10465560 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:10467875 original size:47 final size:47
Alignment explanation
Indices: 10467744--10468062 Score: 496
Period size: 47 Copynumber: 6.9 Consensus size: 47
10467734 CATATCACTT
*
10467744 ACATTC-TCACATCGGCTATTA-GCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
10467789 ACATTCATCACATC-GCTATTAGGCCTTATCACACATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
10467835 ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
10467882 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTACCACTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC-A-C-TTTC
10467932 ACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACA--TTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
10467976 ACATTCATCACATCGGCCATTA-G-CTTATCACATATAT-C-CTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
10468019 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
10468063 GTCTTGGCTG
Statistics
Matches: 257, Mismatches: 4, Indels: 24
0.90 0.01 0.08
Matches are distributed among these distances:
42 6 0.02
43 34 0.13
44 26 0.10
45 27 0.11
46 45 0.18
47 73 0.28
48 2 0.01
49 11 0.04
50 33 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
Found at i:10468082 original size:137 final size:140
Alignment explanation
Indices: 10467744--10468062 Score: 494
Period size: 137 Copynumber: 2.3 Consensus size: 140
10467734 CATATCACTT
* *
10467744 ACATTC-TCACATCGGCTATTA-GCCTTATCACATATATACACT-TTCACATTCATCACATCGCT
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTTCACATTCATCACATCGCC
10467806 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACA
66 ATTAGGCCTTATCACACATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACACA
10467871 TATACACTTTC
130 TATACACTTTC
*
10467882 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTACCACTTCACATTCATCACATCG
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC-A-CTCTTCACATTCATCACATC-
*
10467947 GCCATTAGGCCTTAT-ACATATATACA-TTCACATTCATCACATCGGCCATTA-G-CTTATCACA
63 GCCATTAGGCCTTATCACACATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
10468008 TATAT-C-CTTTC
128 CATATACACTTTC
10468019 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
10468063 GTCTTGGCTG
Statistics
Matches: 169, Mismatches: 6, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
135 1 0.01
136 1 0.01
137 46 0.27
138 7 0.04
139 27 0.16
140 19 0.11
141 26 0.15
142 1 0.01
143 27 0.16
144 14 0.08
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (140 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTTCACATTCATCACATCGCC
ATTAGGCCTTATCACACATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
ATACACTTTC
Found at i:10481694 original size:3 final size:3
Alignment explanation
Indices: 10481686--10481732 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10481676 ATTACAGAAT
10481686 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10481733 CCAACATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10490486 original size:18 final size:18
Alignment explanation
Indices: 10490463--10490499 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10490453 GTAGTATTTA
*
10490463 ATTTTCTTTTAATGTTGG
1 ATTTTCTTTTAATATTGG
10490481 ATTTTCTTTTAATATTGG
1 ATTTTCTTTTAATATTGG
10490499 A
1 A
10490500 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
ATTTTCTTTTAATATTGG
Found at i:10490508 original size:18 final size:18
Alignment explanation
Indices: 10490466--10490509 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10490456 GTATTTAATT
* *
10490466 TTCTTTTAATGTTGGATT
1 TTCTTTTAATATTGGATA
10490484 TTCTTTTAATATTGGAATA
1 TTCTTTTAATATTGG-ATA
10490503 TT-TTTTA
1 TTCTTTTA
10490510 GTTCTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (18 bp):
TTCTTTTAATATTGGATA
Found at i:10495734 original size:103 final size:101
Alignment explanation
Indices: 10495509--10495744 Score: 239
Period size: 101 Copynumber: 2.3 Consensus size: 101
10495499 TAATGCCTCC
** * * * *
10495509 ACATGAAGAGGCGACACAAAAAAATTCAAAAAAAATTACTGGTGTCGTCATATTTGGAGTTGGCA
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTCACATCTAGAGTTGGCA
**
10495574 CAAGAGAAATTTTTTTTAATAGATTTTGGTGCCTTT
66 CAAGAGAAATTTTTTTTAATAGATTTTGGTAACTTT
** * * *
10495610 ACATGAAGAGATGATATTGAAAAATTTAAAAAAAA-TACTTGTGTCG-CTACATCTAGAGTTGGC
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTC-ACATCTAGAGTTGGC
*
10495673 ACCAAGAGAAACTTTTTATTTTACT-GATTTTGGTAACTCTT
65 A-CAAGAGAAA--TTTT-TTTTAATAGATTTTGGTAACT-TT
* *
10495714 -GATGAAGAGGCGACACTGAAAAA-GTAAAAAA
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAA
10495745 GAAAAAATTA
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
99 1 0.01
100 23 0.21
101 37 0.34
102 7 0.06
103 33 0.30
104 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTCACATCTAGAGTTGGCA
CAAGAGAAATTTTTTTTAATAGATTTTGGTAACTTT
Found at i:10496756 original size:19 final size:19
Alignment explanation
Indices: 10496734--10496777 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
10496724 AATTTAATTC
* * *
10496734 ATTAAATATAATTGAATAA
1 ATTAAAAATAAATAAATAA
10496753 ATTAAAAATAAATAAATAA
1 ATTAAAAATAAATAAATAA
10496772 A-TAAAA
1 ATTAAAA
10496778 CTTTTAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTAAAAATAAATAAATAA
Found at i:10497260 original size:14 final size:16
Alignment explanation
Indices: 10497226--10497262 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10497216 AAACAATTAT
10497226 TATTTTAAATATAATA
1 TATTTTAAATATAATA
*
10497242 TATTTTTAAT-TAA-A
1 TATTTTAAATATAATA
10497256 TATTTTA
1 TATTTTA
10497263 TTAATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTAAATATAATA
Found at i:10497666 original size:5 final size:5
Alignment explanation
Indices: 10497649--10497686 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
10497639 CATGTATCGC
*
10497649 AAAGA AAAAA AAAGA AAAGA AAAG- AAAGA AAAGTA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAA
10497687 CAAATAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:10497676 original size:14 final size:15
Alignment explanation
Indices: 10497649--10497686 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
10497639 CATGTATCGC
10497649 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
*
10497664 AAAG-AAAAGAAAGA
1 AAAGAAAAAAAAAGA
10497678 AAAGTAAAA
1 AAAG-AAAA
10497687 CAAATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
15 4 0.20
16 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:10498641 original size:30 final size:30
Alignment explanation
Indices: 10498588--10498649 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
10498578 GGTCTATATA
*
10498588 TTTATAATTTTTAAAGGATTAAATCA-AATT
1 TTTATAATTTTTAAAGGACTAAAT-ATAATT
*
10498618 TTTATAA-TTTTAAAGGGGCTAAATATAATT
1 TTTATAATTTTTAAA-GGACTAAATATAATT
10498648 TT
1 TT
10498650 ACCTTTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGACTAAATATAATT
Found at i:10500923 original size:31 final size:31
Alignment explanation
Indices: 10500866--10500927 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
10500856 CCAACTTAAG
* *
10500866 AAAAAGTATCAATTCTAAGTGCCAAATTAGA
1 AAAAAGTATCAATTCTAAATACCAAATTAGA
*
10500897 AAAAAGTATCAAATT-TAAATATCAAATTAGA
1 AAAAAGTATC-AATTCTAAATACCAAATTAGA
10500928 CCCAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (31 bp):
AAAAAGTATCAATTCTAAATACCAAATTAGA
Found at i:10506249 original size:9 final size:9
Alignment explanation
Indices: 10506235--10506368 Score: 66
Period size: 9 Copynumber: 15.0 Consensus size: 9
10506225 TTAAATTTCT
10506235 TATTATTAC
1 TATTATTAC
10506244 TATTATT--
1 TATTATTAC
*
10506251 T-TTATTCC
1 TATTATTAC
* *
10506259 TTTTACTACC
1 TATTATTA-C
* *
10506269 TATTATCAA
1 TATTATTAC
10506278 TATATTATTAC
1 TA--TTATTAC
*
10506289 TA-TAGCTAC
1 TATTA-TTAC
10506298 TATTATTA-
1 TATTATTAC
10506306 TATTATTA-
1 TATTATTAC
* *
10506314 TCATCATCA-
1 T-ATTATTAC
*
10506323 TCATTATTAT
1 T-ATTATTAC
*
10506333 TATTATTAT
1 TATTATTAC
*
10506342 TATTATTAT
1 TATTATTAC
10506351 TATTATTAC
1 TATTATTAC
10506360 TATTATTAC
1 TATTATTAC
10506369 ACTTATATGT
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 12 0.12
9 66 0.66
10 9 0.09
11 7 0.07
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (9 bp):
TATTATTAC
Found at i:10506304 original size:3 final size:3
Alignment explanation
Indices: 10506298--10506367 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
10506288 CTATAGCTAC
* * * *
10506298 TAT TAT TA- TAT TAT TAT CAT CAT CAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10506345 TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
10506368 CACTTATATG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10506374 original size:9 final size:9
Alignment explanation
Indices: 10506280--10506368 Score: 69
Period size: 9 Copynumber: 10.0 Consensus size: 9
10506270 ATTATCAATA
10506280 TATTATTAC
1 TATTATTAC
*
10506289 TA-TAGCTAC
1 TATTA-TTAC
10506298 TATTATTA-
1 TATTATTAC
10506306 TATTATTA-
1 TATTATTAC
* *
10506314 TCATCATCA-
1 T-ATTATTAC
*
10506323 TCATTATTAT
1 T-ATTATTAC
*
10506333 TATTATTAT
1 TATTATTAC
*
10506342 TATTATTAT
1 TATTATTAC
10506351 TATTATTAC
1 TATTATTAC
10506360 TATTATTAC
1 TATTATTAC
10506369 ACTTATATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
8 11 0.16
9 55 0.80
10 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (9 bp):
TATTATTAC
Found at i:10506467 original size:21 final size:23
Alignment explanation
Indices: 10506429--10506511 Score: 75
Period size: 22 Copynumber: 3.7 Consensus size: 23
10506419 ATTATCATCA
*
10506429 TTTTAATATTATTATGTATTTAT
1 TTTTAATATTATTATGTATATAT
10506452 TTTTAATA-TA-TATGTATATAT
1 TTTTAATATTATTATGTATATAT
* * *
10506473 TTATGTAGTATTATTA-ATAGT-TGT
1 TT-T-TAATATTATTATGTA-TATAT
10506497 TTTTAATATTATTAT
1 TTTTAATATTATTAT
10506512 TATTTGTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
21 12 0.24
22 13 0.27
23 13 0.27
24 8 0.16
25 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTATGTATATAT
Found at i:10513218 original size:20 final size:20
Alignment explanation
Indices: 10513193--10513235 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10513183 TAATGTTGAC
10513193 TAAAAC-TGGATTAAGCTAAT
1 TAAAACATGG-TTAAGCTAAT
*
10513213 TAAAACATGGTTAAGTTAAT
1 TAAAACATGGTTAAGCTAAT
10513233 TAA
1 TAA
10513236 TTTAGGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (20 bp):
TAAAACATGGTTAAGCTAAT
Found at i:10514635 original size:13 final size:13
Alignment explanation
Indices: 10514617--10514644 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10514607 TTTTGAATGG
10514617 TTGATTGATTAGT
1 TTGATTGATTAGT
10514630 TTGATTGATTAGT
1 TTGATTGATTAGT
10514643 TT
1 TT
10514645 ATACATGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (13 bp):
TTGATTGATTAGT
Found at i:10515776 original size:22 final size:22
Alignment explanation
Indices: 10515751--10515795 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10515741 GGAGGGGCTC
10515751 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
10515773 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
10515795 A
1 A
10515796 GTAAGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCTCTTATAAGGACTAAGATA
Found at i:10517799 original size:62 final size:58
Alignment explanation
Indices: 10517627--10517801 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 58
10517617 AAAAAACACT
* *
10517627 AAAATAAATTTTTAAACAATAAAATTTATATATTATTACGAGATGACCATACTAATTGAG
1 AAAAT-AATTTTTAAACAAT-AAATTTATATATTATCATGAGATGACCATACTAATTGAG
* * *
10517687 AAAATAATTCTTCAAACAATATATTGTATATATTATCATGAGATCG-CCATACTAATTGATTT
1 AAAATAATT-TTTAAACAATAAATT-TATATATTATCATGAGAT-GACCATACTAATTGA--G
* * * *
10517749 ATCAATAATTTTTAAACAATAGATTATATATATTATCATAAAATGACCATACT
1 A-AAATAATTTTTAAACAATAAATT-TATATATTATCATGAGATGACCATACT
10517802 GTATCAAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 8 0.08
60 43 0.44
61 2 0.02
62 37 0.38
63 7 0.07
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (58 bp):
AAAATAATTTTTAAACAATAAATTTATATATTATCATGAGATGACCATACTAATTGAG
Found at i:10519628 original size:20 final size:20
Alignment explanation
Indices: 10519576--10519628 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10519566 ATATTTCATA
**
10519576 TATGTATGTATATAAGAATG
1 TATGTATGTATGCAAGAATG
* * *
10519596 TATGCATGCATGCAAGCATG
1 TATGTATGTATGCAAGAATG
10519616 TATGTATGTATGC
1 TATGTATGTATGC
10519629 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (20 bp):
TATGTATGTATGCAAGAATG
Found at i:10523719 original size:29 final size:29
Alignment explanation
Indices: 10523682--10523738 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10523672 ATTGTGAAAA
*
10523682 ATTACAAAATGATCACCTAACTATTAAAC
1 ATTACAAAATAATCACCTAACTATTAAAC
* **
10523711 ATTATAAAATAATCATTTAACTATTAAA
1 ATTACAAAATAATCACCTAACTATTAAA
10523739 TTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (29 bp):
ATTACAAAATAATCACCTAACTATTAAAC
Found at i:10523785 original size:26 final size:26
Alignment explanation
Indices: 10523731--10523783 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10523721 AATCATTTAA
*
10523731 CTATTAAATTTTGTATTTTGATCACC
1 CTATTAAATTTTGTATTTTCATCACC
*
10523757 CTATTCAATTTTGTATTTTTCATCACC
1 CTATTAAATTTTGTA-TTTTCATCACC
10523784 TAACTGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.51
Consensus pattern (26 bp):
CTATTAAATTTTGTATTTTCATCACC
Found at i:10528874 original size:23 final size:23
Alignment explanation
Indices: 10528844--10528889 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10528834 ACAGTTAATG
10528844 CATTTTGTAACAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
*
10528867 CATTTTGTAATAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
10528890 AATTGGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
CATTTTGTAACAGTTATGAAATA
Found at i:10533903 original size:44 final size:42
Alignment explanation
Indices: 10533855--10534004 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 42
10533845 CAGCTCTACT
10533855 GCAACTTCAGAGAGATAAGACTTGTATCTTTAACCTGCTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
* * * *
10533899 GCAACTTCAGGAGATAAG-GTTAATGGCTTCT-ATCTGCTCCACT
1 GCAACTTCAGGAGATAAGACTTTAT--CTT-TAACCTGCTCCACA
* * *
10533942 GTAACTTCAGAGAGATAAGACTTATATCTTCAACCTACTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
10533986 GCAACTTCAGGCAGATAAG
1 GCAACTTCAGG-AGATAAG
10534005 GTTAATGGCT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 31 0.36
44 47 0.55
45 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GCAACTTCAGGAGATAAGACTTTATCTTTAACCTGCTCCACA
Found at i:10533948 original size:87 final size:87
Alignment explanation
Indices: 10533794--10534049 Score: 323
Period size: 87 Copynumber: 2.9 Consensus size: 87
10533784 AGGATCGTAA
* * * * * ** * * *
10533794 CTTCCACCTGCCCCACTGCAAGTTCAGGGGGATAAGGTTTGTGGCTTCCATCAGCTCTACTGCAA
1 CTTCAACCTGCTCCACAGCAACTTCA-GGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
*
10533859 CTTCAGAGAGATAAGACTTGTAT
65 CTTCAGAGAGATAAGACTTATAT
* *
10533882 CTTTAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGTAAC
1 CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
10533947 TTCAGAGAGATAAGACTTATAT
66 TTCAGAGAGATAAGACTTATAT
* * * *
10533969 CTTCAACCTACTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTATAA
1 CTTCAACCTGCTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
* *
10534034 CTTCGGGGAGATAAGA
65 CTTCAGAGAGATAAGA
10534050 TTCGCCATGA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
87 79 0.54
88 67 0.46
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
TTCAGAGAGATAAGACTTATAT
Found at i:10534024 original size:44 final size:43
Alignment explanation
Indices: 10533892--10534027 Score: 159
Period size: 44 Copynumber: 3.1 Consensus size: 43
10533882 CTTTAACCTG
* *
10533892 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTG
1 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
* * * *
10533935 CTCCACTGTAACTTCAGAGAGATAAGACTTATAT--CTTCAACCTA
1 CTCCACAGCAACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTA
*
10533979 CTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTA
1 CTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCAATCTA
10534023 CTCCA
1 CTCCA
10534028 TTATAACTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 19 0.25
44 50 0.66
45 3 0.04
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
Found at i:10534036 original size:44 final size:42
Alignment explanation
Indices: 10533901--10534048 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 42
10533891 GCTCCACAGC
* * *
10533901 AACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGT
1 AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
* * * *
10533944 AACTTCAGAGAGATAAGACTTATAT--CTTCAACCTACTCCACAGC
1 AACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTACTCCATA-T
*
10533988 AACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTAT
1 AACTTCAGG-AGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
*
10534032 AACTTCGGGGAGATAAG
1 AACTTC-AGGAGATAAG
10534049 ATTCGCCATG
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 12 0.14
44 61 0.73
45 6 0.07
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCATAT
Found at i:10534194 original size:45 final size:45
Alignment explanation
Indices: 10534130--10534288 Score: 139
Period size: 44 Copynumber: 3.6 Consensus size: 45
10534120 CCTGTTCCAT
* * *
10534130 TGCAACTTCAGGGAAATAAGATTTATTATCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
* *
10534175 TGCAACTTCAGGGAGATAAGACTTGGTAAT-TTCAACCTGC-TCTAC
1 TGCAACTTCAGGGAGATAAGA-TTTGTAATCTTCAATCTGCTTC-AC
** * * ** * *
10534220 -GCATA-TTCAGATAGATGAGGTTTGCGA-CTTCAATCTGCTCCGC
1 TGCA-ACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
10534263 TGCAACTTCAGGGAGATAAGATTTGT
1 TGCAACTTCAGGGAGATAAGATTTGT
10534289 CATGGTAACT
Statistics
Matches: 87, Mismatches: 20, Indels: 15
0.71 0.16 0.12
Matches are distributed among these distances:
43 15 0.17
44 35 0.40
45 32 0.37
46 5 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
Found at i:10541721 original size:19 final size:20
Alignment explanation
Indices: 10541699--10541743 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10541689 TCGTGAAACT
*
10541699 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
10541718 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
10541738 -AATGCA
1 TAATGCA
10541744 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:10549537 original size:15 final size:15
Alignment explanation
Indices: 10549517--10549555 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
10549507 ACTATTTTAA
*
10549517 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
10549532 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
*
10549547 GGTTAAGGG
1 GGTTTAGGG
10549556 TGGTTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:10549537 original size:22 final size:22
Alignment explanation
Indices: 10549512--10549556 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10549502 AAGTTACTAT
* *
10549512 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
10549534 TTTAGGGATTATGGGTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
10549556 T
1 T
10549557 GGTTTAAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:10549610 original size:14 final size:14
Alignment explanation
Indices: 10549593--10549662 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
10549583 AAGGGTCAGG
10549593 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
* *
10549607 GGTTTATGTTTTAT
1 GGTTTATGGTTTAA
** *
10549621 GACTCATGGTTTAA
1 GGTTTATGGTTTAA
* *
10549635 GGTTTAGGGATTAA
1 GGTTTATGGTTTAA
*
10549649 GAGTTTAGGGTTTA
1 G-GTTTATGGTTTA
10549663 GATTAATTAG
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:10549891 original size:21 final size:21
Alignment explanation
Indices: 10549867--10549913 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
10549857 TTAGGGTGTA
10549867 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAGATTTAG
* *
10549888 GGTTTATGGTCTAGGATTTTG
1 GGTTTATGGTCTAAGATTTAG
10549909 GGTTT
1 GGTTT
10549914 GAAGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (21 bp):
GGTTTATGGTCTAAGATTTAG
Found at i:10550195 original size:21 final size:20
Alignment explanation
Indices: 10550167--10550208 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
10550157 GATTAGGGTG
10550167 TAGGTTTATGGTCTAAGATT
1 TAGGTTTATGGTCTAAGATT
*
10550187 TAGGATTTATGGTCTAGGATT
1 TAGG-TTTATGGTCTAAGATT
10550208 T
1 T
10550209 TGGGTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (20 bp):
TAGGTTTATGGTCTAAGATT
Found at i:10550895 original size:7 final size:7
Alignment explanation
Indices: 10550879--10550910 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10550869 AATACAATTT
10550879 AAAAAT-
1 AAAAATA
10550885 AAAAATA
1 AAAAATA
10550892 AAAAATA
1 AAAAATA
10550899 AAAAATA
1 AAAAATA
10550906 AAAAA
1 AAAAA
10550911 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:10551251 original size:14 final size:13
Alignment explanation
Indices: 10551223--10551258 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10551213 CCCATTGAAA
*
10551223 CCCCTAAAATTTC
1 CCCCTAAAATTTT
10551236 CCCCTAAAATTTT
1 CCCCTAAAATTTT
10551249 CCCCTAAAAT
1 CCCCTAAAAT
10551259 CAGTATCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (13 bp):
CCCCTAAAATTTT
Found at i:10552080 original size:3 final size:3
Alignment explanation
Indices: 10552072--10552101 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10552062 TGTTAGGGAG
*
10552072 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10552102 ATATAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10553503 original size:40 final size:40
Alignment explanation
Indices: 10553448--10553527 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10553438 GGAGAATGGG
10553448 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
1 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
10553488 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
1 AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
10553528 GCAACATAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.35
Consensus pattern (40 bp):
AACTTGTTGGAATTGGTTGATACAAGGATTGGCTCAGATT
Found at i:10554792 original size:23 final size:23
Alignment explanation
Indices: 10554765--10555310 Score: 470
Period size: 23 Copynumber: 23.8 Consensus size: 23
10554755 GTTGTAATGT
*
10554765 TGCAAATTGAAGTGTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAGTGC
10554788 TGCAAATTGAAGTGTTT-AGTTGC
1 TGCAAATTGAAGTGTTTAAG-TGC
* * *
10554811 TGGAAATTG-AGATGTTTTA-TCAC
1 TGCAAATTGAAG-TGTTTAAGT-GC
* * * *
10554834 TG-TAATTG-AGCTGTATAAATGT
1 TGCAAATTGAAG-TGTTTAAGTGC
** * *
10554856 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10554879 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
*
10554902 T-CTAAATTGAAGTGTTAAAGTGC
1 TGC-AAATTGAAGTGTTTAAGTGC
10554925 TGCAAATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
10554948 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
10554971 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10554994 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* * *
10555017 TGTAAATTGAAGTGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAGTGC
* *
10555040 TGCAAGTTAAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* * *
10555063 TGTAAATTGAAGTGTTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
** * *
10555086 TGTTAATTGAAATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10555109 TGCAAATTGAAGTGTTTTAA-TGC
1 TGCAAATTGAAGTG-TTTAAGTGC
* *
10555132 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
10555155 TGCAAATTGAAGTGTTTGAA-TGC
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
10555178 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* *
10555201 TGTAAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAGTGC
*
10555224 TGCAAATTGAAGTGTTTGAA-TGT
1 TGCAAATTGAAGTGTTT-AAGTGC
* *
10555247 TGTAAATTGAAGTGTTTAAATGC
1 TGCAAATTGAAGTGTTTAAGTGC
* * * * *
10555270 TGTAAATTGAACTGCTTAAATGT
1 TGCAAATTGAAGTGTTTAAGTGC
*
10555293 TGCACATTGAAGTGTTTA
1 TGCAAATTGAAGTGTTTA
10555311 TTGAAGTGTT
Statistics
Matches: 429, Mismatches: 71, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
22 40 0.09
23 366 0.85
24 23 0.05
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCAAATTGAAGTGTTTAAGTGC
Found at i:10554827 original size:46 final size:46
Alignment explanation
Indices: 10554768--10555509 Score: 459
Period size: 46 Copynumber: 16.4 Consensus size: 46
10554758 GTAATGTTGC
* * *
10554768 AAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
* * * * * *
10554814 AAATTG-AGATGTTTTA-TCACTG-TAATTG-AGCTGTATAAATGTTGT
1 AAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAG-TGTTTAGATGCTGT
* * * *
10554859 TAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTA-ATGCTCT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTG-TTTAGATGCTGT
*
10554905 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-ATGCTGT
* * ** * * *
10554951 AAATTGAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGA-TGCTGT
* * * *
10554997 AAATTGAAGTGTTTTAA-TGCTGTAAATTGAAGTG-TTAAAGTGTTGC
1 AAATTGAAGTG-TTTAAGTGCTGCAAATTGAAGTGTTTAGA-TGCTGT
* * * * *
10555043 AAGTTAAAGTGTTTGAA-TGCTGTAAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTT-AAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
* * *
10555089 TAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTA-ATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTG-TTTAGATGCTGT
*
10555135 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG-ATGCTGT
* * * *
10555181 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGA-TGCTGT
* * *
10555227 AAATTGAAGTGTTTGAA-TGTTGTAAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
* * * * *
10555273 AAATTGAACTGCTTAAATGTTGCACATTGAA--G--T-G-T--T-T
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
* * * *
10555310 --ATTGAAGTGTTT-AGTTGCTGGACATTG-AGATGTTT-TATCTCTGT
1 AAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TGTTTAGAT-GCTGT
* * * * ** * *
10555354 -AATTGAGGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAG-TGTTTAGA-TGCTGT
* * *
10555399 AAATTGAAGTGTTAAAAGTGCTGCAAATTGAAGTGTTT-GAATACTGC
1 AAATTGAAGTGTT-TAAGTGCTGCAAATTGAAGTGTTTAG-ATGCTGT
* * * * * * * *
10555446 AAATTGAAGTCTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
10555492 AAATTGAAGTGTTTAAGT
1 AAATTGAAGTGTTTAAGT
10555510 ACTTATTTTG
Statistics
Matches: 560, Mismatches: 91, Indels: 90
0.76 0.12 0.12
Matches are distributed among these distances:
34 2 0.00
35 20 0.04
37 2 0.00
38 1 0.00
39 1 0.00
40 2 0.00
42 1 0.00
43 1 0.00
44 6 0.01
45 76 0.14
46 387 0.69
47 56 0.10
48 5 0.01
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (46 bp):
AAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGATGCTGT
Found at i:10554998 original size:115 final size:115
Alignment explanation
Indices: 10554765--10555310 Score: 782
Period size: 115 Copynumber: 4.8 Consensus size: 115
10554755 GTTGTAATGT
* * * *
10554765 TGCAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTT-TAGTTGCTGGAAATTG-AGATGTT
1 TGCAAATTGAAGTGTTTTAA-TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTT
* * *
10554827 T-TATCACTGT-AATTG-AGCTGTATAAATGTTGTTAATTGAAATGTTAAAGTGC
63 TGAAT-GCTGTAAATTGAAG-TGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
*
10554879 TGCAAATTGAAGTGTTTTAATGCTCTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
10554944 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
* * *
10554994 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGTTGCAAGTTAAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
10555059 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
10555109 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
* * *
10555174 ATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
* * * * * *
10555224 TGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAACTGCTTA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTG
* * *
10555288 AATGTTGCACATTGAAGTGTTTA
65 AATGCTGTAAATTGAAGTGTTTA
10555311 TTGAAGTGTT
Statistics
Matches: 398, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
114 50 0.13
115 341 0.86
116 7 0.02
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (115 bp):
TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
Found at i:10555315 original size:12 final size:12
Alignment explanation
Indices: 10555298--10555322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10555288 AATGTTGCAC
10555298 ATTGAAGTGTTT
1 ATTGAAGTGTTT
10555310 ATTGAAGTGTTT
1 ATTGAAGTGTTT
10555322 A
1 A
10555323 GTTGCTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
ATTGAAGTGTTT
Found at i:10555421 original size:24 final size:22
Alignment explanation
Indices: 10555354--10555504 Score: 133
Period size: 23 Copynumber: 6.5 Consensus size: 22
10555344 TTATCTCTGT
* * **
10555354 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGCA
10555377 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
10555400 AATTGAAGTGTTAAAAGTGCTGCA
1 AATTGAAGTGTT-AAA-TGCTGCA
* *
10555424 AATTGAAGTGTTTGAATACTGCA
1 AATTGAAGTG-TTAAATGCTGCA
* * *
10555447 AATTGAAGTCTTTAAATGTTGTA
1 AATTGAAGT-GTTAAATGCTGCA
*
10555470 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGCA
10555493 AATTGAAGTGTT
1 AATTGAAGTGTT
10555505 TAAGTACTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
22 7 0.06
23 74 0.69
24 25 0.23
25 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.36
Consensus pattern (22 bp):
AATTGAAGTGTTAAATGCTGCA
Found at i:10555507 original size:23 final size:23
Alignment explanation
Indices: 10555387--10555507 Score: 152
Period size: 23 Copynumber: 5.2 Consensus size: 23
10555377 AATTGAGATG
10555387 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGCAAATTGAAGTGT
*
10555411 TAAAAGTGCTGCAAATTGAAGTGT
1 TTAAA-TGCTGCAAATTGAAGTGT
* * *
10555435 TTGAATACTGCAAATTGAAGTCT
1 TTAAATGCTGCAAATTGAAGTGT
* * *
10555458 TTAAATGTTGTAAATTGAAGTGC
1 TTAAATGCTGCAAATTGAAGTGT
*
10555481 TTAAATGTTGCAAATTGAAGTGT
1 TTAAATGCTGCAAATTGAAGTGT
10555504 TTAA
1 TTAA
10555508 GTACTTATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
23 58 0.69
24 26 0.31
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (23 bp):
TTAAATGCTGCAAATTGAAGTGT
Found at i:10556228 original size:43 final size:41
Alignment explanation
Indices: 10556180--10556274 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 41
10556170 TAATTTTTTT
*
10556180 TAAAGGTCATATTCTTTAGCGGCGTTTGT-GAGAAAAACGTCGC
1 TAAAGGTCAT-TT-TATAGCGGCGTTTGTAG-GAAAAACGTCGC
*
10556223 TAAAGGTCCATTTTATAGCGGCGTTTGTAGGAAAAGCGTCGC
1 TAAAGGT-CATTTTATAGCGGCGTTTGTAGGAAAAACGTCGC
10556265 TAAAGGTCAT
1 TAAAGGTCAT
10556275 GACTTTTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
41 3 0.06
42 32 0.67
43 10 0.21
44 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
TAAAGGTCATTTTATAGCGGCGTTTGTAGGAAAAACGTCGC
Found at i:10556321 original size:43 final size:44
Alignment explanation
Indices: 10556264--10556379 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
10556254 AAAAGCGTCG
* * * *
10556264 CTAAAGGTCATGACTTTTAGTGGCGCTTTTCCC-ACAAACGCCG
1 CTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
* *
10556307 CTAAAAGT-ACTGACTTTTAGCGGCAC-TTCCCCAACAAAAGCCA
1 CTAAAAGTCA-TGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
*
10556350 CTAAAAGTCATGACTTTTAGCGGCGTTTTT
1 CTAAAAGTCATGACTTTTAGCGGCGCTTTT
10556380 TGTGGCGCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 6 0.10
43 51 0.85
44 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
Found at i:10559336 original size:47 final size:48
Alignment explanation
Indices: 10559284--10559447 Score: 217
Period size: 47 Copynumber: 3.5 Consensus size: 48
10559274 TGGTTAGACC
* *
10559284 ATGGCAACA-TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
* * * *
10559331 ATGGCATTAGTGTGATATGAGCTTTC-GTATAAAACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
* * * *
10559378 ATGGCATCGGTATGATATGTG-CTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
10559425 ATGGCATCAGTGTGATATGTGAT
1 ATGGCATCAGTGTGATATGTGAT
10559448 CCGTGTAAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
46 3 0.03
47 81 0.83
48 14 0.14
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (48 bp):
ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
Found at i:10562618 original size:12 final size:12
Alignment explanation
Indices: 10562601--10562625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10562591 AAGATGAGCA
10562601 TGATGAGCATAT
1 TGATGAGCATAT
10562613 TGATGAGCATAT
1 TGATGAGCATAT
10562625 T
1 T
10562626 AGAGTAGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATGAGCATAT
Found at i:10565173 original size:2 final size:2
Alignment explanation
Indices: 10565166--10565194 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10565156 TTGTTTGAAT
10565166 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10565195 TTTTTGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10576445 original size:3 final size:3
Alignment explanation
Indices: 10576437--10576473 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10576427 ACCGAAACTC
10576437 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10576474 TGCAACAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10578770 original size:20 final size:20
Alignment explanation
Indices: 10578733--10578771 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10578723 AAATTTATGT
*
10578733 TTTTGGATTTTTTTTTAAAA
1 TTTTGGATTTTTTCTTAAAA
10578753 TTTT-GATTTTTCTCTTAAA
1 TTTTGGATTTTT-TCTTAAA
10578772 CTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTGGATTTTTTCTTAAAA
Found at i:10597628 original size:12 final size:12
Alignment explanation
Indices: 10597611--10597635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10597601 TAGTAGGAGG
10597611 AGAAAGAGAAAA
1 AGAAAGAGAAAA
10597623 AGAAAGAGAAAA
1 AGAAAGAGAAAA
10597635 A
1 A
10597636 AAAATGAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAGAAAA
Found at i:10599052 original size:79 final size:80
Alignment explanation
Indices: 10598921--10599068 Score: 246
Period size: 79 Copynumber: 1.9 Consensus size: 80
10598911 TATTCGGATG
* *
10598921 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
10598985 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
10599000 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
10599064 ATTTG
65 ATTTG
10599069 AGCAAGTAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 2 0.03
79 48 0.75
80 14 0.22
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:10599090 original size:79 final size:79
Alignment explanation
Indices: 10598921--10599101 Score: 242
Period size: 79 Copynumber: 2.3 Consensus size: 79
10598911 TATTCGGATG
* *
10598921 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* *
10598986 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
*
10599000 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
10599064 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
* * *
10599080 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
10599102 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 64 0.70
80 25 0.27
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:10599101 original size:39 final size:40
Alignment explanation
Indices: 10598921--10599068 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
10598911 TATTCGGATG
* *
10598921 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
10598961 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10599000 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10599040 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
10599069 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
39 35 0.35
40 66 0.65
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:10606457 original size:12 final size:12
Alignment explanation
Indices: 10606442--10606482 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
10606432 AAATTACAGT
10606442 AAAAATTATTTA
1 AAAAATTATTTA
10606454 AAAAATTATTTA
1 AAAAATTATTTA
*
10606466 AAATATT-TTTA
1 AAAAATTATTTA
10606477 AAAAAT
1 AAAAAT
10606483 AAATCTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTA
Found at i:10608457 original size:31 final size:30
Alignment explanation
Indices: 10608419--10608479 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
10608409 AAAACCAACC
*
10608419 TATAATTACTTGTTTAGTGGTAGTTTTAAAG
1 TATAATTACTTGTTTAGTAGTAG-TTTAAAG
10608450 TATAATTACTTGTTTAGTAGTAGTTTAAAG
1 TATAATTACTTGTTTAGTAGTAGTTTAAAG
10608480 ACTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (30 bp):
TATAATTACTTGTTTAGTAGTAGTTTAAAG
Found at i:10611721 original size:13 final size:11
Alignment explanation
Indices: 10611690--10611718 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10611680 TTCCCTCCTC
10611690 CTCTCCCTCTT
1 CTCTCCCTCTT
10611701 CTCTCCCTCTT
1 CTCTCCCTCTT
10611712 CTCTCCC
1 CTCTCCC
10611719 CCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCCCTCTT
Found at i:10612194 original size:3 final size:3
Alignment explanation
Indices: 10612188--10612313 Score: 64
Period size: 3 Copynumber: 41.0 Consensus size: 3
10612178 TCATTCCTAA
* * * *
10612188 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TAT TAT TGT TTT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10612233 TAT TAA TAT T-C TAGT TAT TAAA TAT TAT TAT T-T TAAT GCAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT
*
10612280 T-T CTAGT TAT TAT TAT T-T CTAA TAT TAT TAT TAT
1 TAT -TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
10612314 ATATAATATT
Statistics
Matches: 94, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
2 6 0.06
3 77 0.82
4 10 0.11
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10612275 original size:16 final size:15
Alignment explanation
Indices: 10612253--10612311 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 15
10612243 CTAGTTATTA
10612253 AATATTATTATTT-T
1 AATATTATTATTTCT
10612267 AATGCATTATTATTTCT
1 AAT--ATTATTATTTCT
*
10612284 AGTTATTATTATTTCT
1 A-ATATTATTATTTCT
10612300 AATATTATTATT
1 AATATTATTATT
10612312 ATATATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
16 23 0.59
17 2 0.05
18 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (15 bp):
AATATTATTATTTCT
Found at i:10612320 original size:18 final size:18
Alignment explanation
Indices: 10612286--10612324 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10612276 TTATTTCTAG
* *
10612286 TTATTATTATTTCTAATA
1 TTATTATTATATATAATA
10612304 TTATTATTATATATAATA
1 TTATTATTATATATAATA
10612322 TTA
1 TTA
10612325 GTGTGTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTATATATAATA
Found at i:10612742 original size:18 final size:19
Alignment explanation
Indices: 10612721--10612767 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
10612711 GTTTTTTCTT
10612721 TATATATTATATTAT-TTG
1 TATATATTATATTATATTG
*
10612739 TATAT-TT-TATTGTATTG
1 TATATATTATATTATATTG
10612756 TATATA-TATATT
1 TATATATTATATT
10612768 TTAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TATATATTATATTATATTG
Found at i:10612845 original size:22 final size:21
Alignment explanation
Indices: 10612810--10612864 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
10612800 TATCATACTA
10612810 TTCATATATTTTATT-GTTAT
1 TTCATATATTTTATTAGTTAT
10612830 TTCATATATATATTATTAGTTAT
1 TTCATATAT-T-TTATTAGTTAT
*
10612853 AT-ATAT-TTTTAT
1 TTCATATATTTTAT
10612865 ACTATTTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 2 0.06
22 9 0.29
23 6 0.19
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (21 bp):
TTCATATATTTTATTAGTTAT
Found at i:10612946 original size:25 final size:25
Alignment explanation
Indices: 10612908--10612955 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10612898 ATTATTGTTG
* *
10612908 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
10612933 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
10612956 TTATGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Done.