Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 168 of 221
Found at i:50363279 original size:17 final size:17
Alignment explanation
Indices: 50363259--50363292 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50363249 CTTGCATATT
*
50363259 TGGTGAGCTTGTAGTTC
1 TGGTGAGCTCGTAGTTC
50363276 TGGTGAGCTCGTAGTTC
1 TGGTGAGCTCGTAGTTC
50363293 GCAGTTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (17 bp):
TGGTGAGCTCGTAGTTC
Found at i:50378662 original size:7 final size:7
Alignment explanation
Indices: 50378642--50378685 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
50378632 CTTCTTCATC
50378642 ATCACAT
1 ATCACAT
* *
50378649 CTTACAT
1 ATCACAT
50378656 ATCACAT
1 ATCACAT
50378663 ATCACAT
1 ATCACAT
50378670 ATCACAT
1 ATCACAT
50378677 ATCACAT
1 ATCACAT
50378684 AT
1 AT
50378686 TGGTGGTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (7 bp):
ATCACAT
Found at i:50384504 original size:15 final size:15
Alignment explanation
Indices: 50384463--50384505 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
50384453 TTTCTCATCA
*
50384463 TTTCCTACTTCATAAC
1 TTTCCTAC-TCTTAAC
* *
50384479 TTTCATCCTCTTAAC
1 TTTCCTACTCTTAAC
50384494 TTTCCTACTCTT
1 TTTCCTACTCTT
50384506 CCCCTTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTCCTACTCTTAAC
Found at i:50384611 original size:19 final size:21
Alignment explanation
Indices: 50384587--50384627 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
50384577 TTAGCTTCGC
50384587 TACTCTCA-CCTAT-TTTTCT
1 TACTCTCATCCTATCTTTTCT
*
50384606 TACTCTCATCGTATCTTTTCT
1 TACTCTCATCCTATCTTTTCT
50384627 T
1 T
50384628 TAGAGCGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (21 bp):
TACTCTCATCCTATCTTTTCT
Found at i:50391441 original size:50 final size:50
Alignment explanation
Indices: 50391373--50391482 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
50391363 CTCTATTCAA
*
50391373 TGGG-ACATGTGAGAGGAAATAAGGGGAACGTTAACTTTATGCTTCACTT
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
* **
50391422 TGGGAACATGTGAGGGGAAATAAGGAGAGTGTTAACTTTATGCTTCACTT
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
*
50391472 TTGGAACATGT
1 TGGGAACATGT
50391483 TTGACTCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (50 bp):
TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTT
Found at i:50391707 original size:39 final size:39
Alignment explanation
Indices: 50391663--50391841 Score: 209
Period size: 39 Copynumber: 4.6 Consensus size: 39
50391653 AATATGTTTT
* *
50391663 TGAGTATTGTGACATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
50391702 TGAGTATTGCGAAAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** *
50391741 TGAGTATTGTGATATATGCTTAAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
50391780 TGA-TATTGTTG-TATATGCTTAAAGGTTATGTGATTATA
1 TGAGTATTG-TGATATATGCTTAAATGTTATGTGATTATA
* * * *
50391818 TGTGTAATGTGATACATGCCTAAA
1 TGAGTATTGTGATATATGCTTAAA
50391842 AGTGAATATG
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 33 0.28
39 87 0.73
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:50396624 original size:42 final size:40
Alignment explanation
Indices: 50396577--50396663 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 40
50396567 TATTCTACTT
*
50396577 TTGGTCCATCTATCTCAACTCATAAAGTATTTTAGGGTCTGC
1 TTGGTCCATCTATCCCAACTCATAAAGTA-TTT-GGGTCTGC
50396619 TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
1 TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
50396659 TTGGT
1 TTGGT
50396664 TTGAAGGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 13 0.30
41 3 0.07
42 28 0.64
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
TTGGTCCATCTATCCCAACTCATAAAGTATTTGGGTCTGC
Found at i:50400501 original size:15 final size:15
Alignment explanation
Indices: 50400481--50400510 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50400471 ACTGATATAC
50400481 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
50400496 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
50400511 AATTTGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:50400618 original size:106 final size:105
Alignment explanation
Indices: 50400497--50400858 Score: 492
Period size: 106 Copynumber: 3.4 Consensus size: 105
50400487 GGAAAAAAAG
* *
50400497 AAAAAGGAAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAA
*
50400562 AAATTATTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
65 AAATTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
* * * * *
50400603 AAAAAGTAAAAAAAAAAAATTTTGGTGCTGGTCTGTTAATGGCCAGCACCCAGTACAATTTTTAA
1 AAAAAGT---AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TTTAAA
* * *
50400668 AAAAAATTCTTTTTTTTCATGTTAGAATCAGATATCAGAATACGA
62 AAAAAATT-TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
* * * *
50400713 AAAAAAT-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAAAAAA
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
* * *
50400777 ATTCTTTTTTTTTCGTTTCAGAATCAGATATCAATATACGA
66 AAT-TTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
50400818 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
1 AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCC
50400859 AGCTCCACCT
Statistics
Matches: 221, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
105 48 0.22
106 79 0.36
109 53 0.24
110 41 0.19
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (105 bp):
AAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
AATTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGA
Found at i:50401206 original size:108 final size:109
Alignment explanation
Indices: 50401066--50401440 Score: 473
Period size: 107 Copynumber: 3.4 Consensus size: 109
50401056 ATTACAAGGT
* * *
50401066 GGTGCCCGCCATTGACAAGCCAGCA-TCAAAAATTTTTTTTTACTTTTTT-GTATACTGATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTTTTCGTATACTGATATCT
50401129 GATTCTGACGCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
66 GATTCTGAC-CGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
* * *
50401174 GATGCTGGCCATTGACAGGCCAGCACCC-AAAA-TTTTTTTTA-TTTTGTTCGTATACTAATATC
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTT-TTCGTATACTGATATC
*
50401236 TGATTCTGACACGAAAAAAAAAAGAA--TTTTTTTTAATTTGTACTG
65 TGATTCTGAC-CG-AAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
*
50401281 GGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTACTTTTTTCGTATACTGATA
1 GGTGCCGGCCATTGACAGGCCAGCACCC--AAAAA-TTTTTTTTTACTTTTTTCGTATACTGATA
* * *
50401346 TCTGATTTTGA-C--ACAAAAAATAATTTTTTTTTTAAAATTGTACTG
63 TCTGATTCTGACCGAAAAAAAAAGAATTTTTTTTTT-AAATTGTACTG
* * *
50401391 GGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAGTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCC-AAAAATTTTTTTTTACTTTTT
50401441 CTTTTTTTTT
Statistics
Matches: 234, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
106 4 0.02
107 63 0.27
108 63 0.27
109 27 0.12
110 41 0.18
112 32 0.14
113 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (109 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTACTTTTTTCGTATACTGATATCT
GATTCTGACCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
Found at i:50401293 original size:107 final size:107
Alignment explanation
Indices: 50401066--50401440 Score: 463
Period size: 108 Copynumber: 3.4 Consensus size: 107
50401056 ATTACAAGGT
* * * *
50401066 GGTGCCCGCCATTGACAAGCCAGCATCAAAAATTTTTTTTTACTTTTTT-GTATACTGATATCTG
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTTTTCGTATACTGATATCTG
*
50401130 ATTCTGACGCGAAAAAAAAAGAATTTTTTTTTTAAATTGTACTG
66 ATTCTGACACGAAAAAAAAAGAA--TTTTTTTTAAATTGTACTG
* * *
50401174 GATGCTGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTA-TTTTGTTCGTATACTAATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTT-TTCGTATACTGATATCT
*
50401237 GATTCTGACACGAAAAAAAAAAGAATTTTTTTTAATTTGTACTG
65 GATTCTGACACG-AAAAAAAAAGAATTTTTTTTAAATTGTACTG
*
50401281 GGTGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTTACTTTTTTCGTATACTGATA
1 GGTGCCGGCCATTGACAGGCCAGCACCC---AAAA-TTTTTTTTTACTTTTTTCGTATACTGATA
* * **
50401346 TCTGATTTTGACAC-AAAAAATAA-TTTTTTTTTTAAAATTGTACTG
62 TCTGATTCTGACACGAAAAAAAAAGAATTTTTTTT-AAATTGTACTG
* * *
50401391 GGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAGTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTTTACTTTTT
50401441 CTTTTTTTTT
Statistics
Matches: 235, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
106 4 0.02
107 54 0.23
108 64 0.27
109 26 0.11
110 48 0.20
112 35 0.15
113 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (107 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTACTTTTTTCGTATACTGATATCTG
ATTCTGACACGAAAAAAAAAGAATTTTTTTTAAATTGTACTG
Found at i:50401448 original size:17 final size:17
Alignment explanation
Indices: 50401426--50401458 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50401416 CCCAAAAAAG
50401426 TTTTTTTTCCTTTTTCT
1 TTTTTTTTCCTTTTTCT
50401443 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
50401459 GTATATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCCTTTTTCT
Found at i:50403486 original size:19 final size:17
Alignment explanation
Indices: 50403462--50403513 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
50403452 AAATAATTTA
50403462 AAAATTATAAAAATATTC
1 AAAA-TATAAAAATATTC
50403480 TAAAAT-TAAAAATAATTC
1 -AAAATATAAAAAT-ATTC
50403498 AAAAATATAAAAATAT
1 -AAAATATAAAAATAT
50403514 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAAAAATATTC
Found at i:50403521 original size:36 final size:37
Alignment explanation
Indices: 50403452--50403527 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
50403442 TCATGCCAAC
* ***
50403452 AAATAATTTAAAAATTATAAAAATATTCTAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
50403489 AAATAATTCAAAAA-TATAAAAATATAAAAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
50403525 AAA
1 AAA
50403528 GATAGCATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 22 0.63
37 13 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (37 bp):
AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
Found at i:50405046 original size:106 final size:106
Alignment explanation
Indices: 50404857--50405181 Score: 508
Period size: 106 Copynumber: 3.1 Consensus size: 106
50404847 CATATATCAA
* *
50404857 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCTCTTTATATTTACTAGAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
*
50404922 CTATCACACGCGTAGGTATGTGAAAATCACATATTTATAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
*
50404963 ATTGCACATTGAAACAAAGTTCATGTATGAATTTGATATTTATCCCTTTATATTTATTAGAAATT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
* *
50405028 CTATCACACACGTCGGTATGTGAAAATCACATATTTAGAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
* * *
50405069 ATTGCACATTGAAACAAAATTCATGTATAAATTTGAGATTTATCCCTTTATATTTGTTAGAAAAT
1 ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAG-AAAT
* * * *
50405134 T-TATTACACGCGTATGTATATGAAAATCGCATATTTAGAAT
65 TCTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
50405175 ATGTGCA
1 AT-TGCA
50405182 TGCATTTAAA
Statistics
Matches: 201, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
106 192 0.96
107 9 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (106 bp):
ATTGCACATTGAAACAAAGTTCATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
Found at i:50406473 original size:11 final size:11
Alignment explanation
Indices: 50406432--50406472 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
50406422 TGTTTTTTTC
50406432 ACTATTTTACT
1 ACTATTTTACT
*
50406443 ACCATTTTACT
1 ACTATTTTACT
*
50406454 ACTATTTTGCT
1 ACTATTTTACT
50406465 ACTATTTT
1 ACTATTTT
50406473 GTTGTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (11 bp):
ACTATTTTACT
Found at i:50409380 original size:62 final size:62
Alignment explanation
Indices: 50409299--50409422 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
50409289 CAATCCCACC
* *
50409299 AATTTAGTCTTGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATAGCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
*
50409361 AATTTAGTCATGTAAATTAACTACCAAATTTACCATTCAAGTGACATCTATACCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
50409423 GACTACCACT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (62 bp):
AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
Found at i:50415338 original size:12 final size:12
Alignment explanation
Indices: 50415321--50415345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50415311 TTCATCATAT
50415321 TCAATTTATCAA
1 TCAATTTATCAA
50415333 TCAATTTATCAA
1 TCAATTTATCAA
50415345 T
1 T
50415346 TCTTCATGAT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAATTTATCAA
Found at i:50416164 original size:21 final size:20
Alignment explanation
Indices: 50416136--50416186 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
50416126 CATTTGATTG
*
50416136 TTTTATTTTAT-ATATTTTA
1 TTTTATTTTATAAAATTTTA
*
50416155 TATTTCATTTGATAAAATTTTA
1 T-TTT-ATTTTATAAAATTTTA
50416177 TTTTATTTTA
1 TTTTATTTTA
50416187 ATTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 9 0.35
22 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATAAAATTTTA
Found at i:50416987 original size:71 final size:71
Alignment explanation
Indices: 50416890--50417032 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
50416880 TGAACAAGGG
* ** * *
50416890 GAAATTGTTATAGCCCTACCTTAAGGATGACACGTGGCAGAACGAATGACAACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
*
50416955 TAGGTA
66 CAGGTA
* *
50416961 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCGGAACAAATGACGACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
50417026 CAGGTA
66 CAGGTA
50417032 G
1 G
50417033 GCCCCCTTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (71 bp):
GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
CAGGTA
Found at i:50419787 original size:18 final size:19
Alignment explanation
Indices: 50419766--50419806 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
50419756 TATGTATCTA
*
50419766 TATTGTTTTAGTT-TTTTT-
1 TATTATTTTA-TTATTTTTC
50419784 TATTATTTTATTATTTTTC
1 TATTATTTTATTATTTTTC
50419803 TATT
1 TATT
50419807 TCGTTTCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTATTTTATTATTTTTC
Found at i:50421668 original size:16 final size:17
Alignment explanation
Indices: 50421637--50421672 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
50421627 AATAAATGCT
50421637 TTAAAATTATAAAAAAA
1 TTAAAATTATAAAAAAA
50421654 TTAAAATTA-AAAAAAA
1 TTAAAATTATAAAAAAA
50421670 TTA
1 TTA
50421673 GCGTAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATTATAAAAAAA
Found at i:50423464 original size:19 final size:19
Alignment explanation
Indices: 50423431--50423469 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
50423421 TAAAATATTG
*
50423431 AAAAATTAAATTTAACTAAA
1 AAAAATCAAATTTAAC-AAA
50423451 AAAAATCAAA-TTAACAAA
1 AAAAATCAAATTTAACAAA
50423469 A
1 A
50423470 TATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATCAAATTTAACAAA
Found at i:50424730 original size:15 final size:15
Alignment explanation
Indices: 50424692--50424742 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
50424682 TTAAATTAAG
**
50424692 TTAATTAA-TAAAAA
1 TTAATTAATTAAACC
* *
50424706 TTATTTAATTAAGCC
1 TTAATTAATTAAACC
*
50424721 TTAATTAATTAAATC
1 TTAATTAATTAAACC
50424736 TTAATTA
1 TTAATTA
50424743 CAATTAACCA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (15 bp):
TTAATTAATTAAACC
Found at i:50430491 original size:20 final size:21
Alignment explanation
Indices: 50430466--50430511 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
50430456 AGCTATATCG
**
50430466 ATTAAATCCCTAATTATCT-A
1 ATTAAATAACTAATTATCTCA
*
50430486 ATTAAATAATTAATTATCTCA
1 ATTAAATAACTAATTATCTCA
50430507 ATTAA
1 ATTAA
50430512 GTTATTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAAATAACTAATTATCTCA
Found at i:50431666 original size:42 final size:42
Alignment explanation
Indices: 50431573--50431666 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
50431563 TTCCTATAAA
50431573 CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
1 CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
** * ** *
50431615 CACCACTAAAGATCATGTT-TTTAGTGGCGTTTGTAGGAAAAG
1 CACTGCTAAAGATCATATTCTTTAG-CACGTTTGTAGCAAAAG
*
50431657 CGCTGCTAAA
1 CACTGCTAAA
50431667 TACCATGACT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 5 0.12
42 37 0.88
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (42 bp):
CACTGCTAAAGATCATATTCTTTAGCACGTTTGTAGCAAAAG
Found at i:50434838 original size:36 final size:37
Alignment explanation
Indices: 50434798--50434872 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
50434788 TGCCCTAACC
50434798 ATTCATGAAAAGATTCTATGAATAACTTATGAA-AAG
1 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
50434834 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
1 ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
50434871 AT
1 AT
50434873 CTCAAGACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (37 bp):
ATTCATGAAAAGATTCTATGAATAACTTATGAACAAG
Found at i:50434843 original size:12 final size:12
Alignment explanation
Indices: 50434798--50434855 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
50434788 TGCCCTAACC
50434798 ATTCATGAAAAG
1 ATTCATGAAAAG
50434810 ATTCTATGAATAA-
1 ATTC-ATGAA-AAG
*
50434823 CTT-ATGAAAAG
1 ATTCATGAAAAG
50434834 ATTCATGAAAAG
1 ATTCATGAAAAG
50434846 ATTCTATGAA
1 ATTC-ATGAA
50434856 TAACTTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 16 0.41
13 12 0.31
14 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (12 bp):
ATTCATGAAAAG
Found at i:50436126 original size:195 final size:194
Alignment explanation
Indices: 50435794--50436185 Score: 676
Period size: 195 Copynumber: 2.0 Consensus size: 194
50435784 GGGGATGAAG
50435794 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
1 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
*
50435859 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAGCATTCTTTTCAATATGCATGACATCAAGA
66 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
**
50435924 TTGTGTCGCAAAATGTGATGCTTTTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTTCCACAA
131 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTC-TTTTTTTCCACAA
* * * *
50435989 GTCACGTCGAATTCCCATGTCAACTAGATCAAGTCAACTCTGAAGATTGTCTTTCAATTTTCTAT
1 GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
* *
50436054 TGACATTTAGAATTGTCCCGATGATGTTCTTGCAAACATTCTTTTCAATATGCATGACATCAAGA
66 CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
* *
50436119 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAGATACTTCTTTTTTTCCACAA
131 TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTCCACAA
50436183 GTC
1 GTC
50436186 CGCCTCATTA
Statistics
Matches: 186, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
194 16 0.09
195 170 0.91
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (194 bp):
GTCACGTCGAATTCCCACGTCAACTAGATCAAGTCAAATCTAAAGATTGTCTTCCAATTTTCTAT
CGACATTTAGAATTGTCCCGATGATGTTCTCGCAAACATTCTTTTCAATATGCATGACATCAAGA
TTGTGTCGCAAAATGTGATGCTCCTAATAAGGTAACTAAAAAAAAAACTTCTTTTTTTCCACAA
Found at i:50440258 original size:6 final size:7
Alignment explanation
Indices: 50440236--50440288 Score: 81
Period size: 7 Copynumber: 7.4 Consensus size: 7
50440226 CCATTTTTAC
50440236 TTTCATT
1 TTTCATT
50440243 TTTCATT
1 TTTCATT
50440250 TTTCATT
1 TTTCATT
50440257 TTTCA-T
1 TTTCATT
50440263 TTTCATTT
1 TTTCA-TT
50440271 TTTCATT
1 TTTCATT
50440278 TTTCACTT
1 TTTCA-TT
50440286 TTT
1 TTT
50440289 TTTGAGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.14
7 26 0.60
8 11 0.26
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCATT
Found at i:50441184 original size:6 final size:6
Alignment explanation
Indices: 50441173--50441248 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
50441163 TCTTCTCTCT
* * * ** *
50441173 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTC TTCTT-T
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA
* * *
50441221 TTTTGT TTTTGA TCTTGA TTTTGC TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
50441249 TTTTTTGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
5 2 0.03
6 54 0.93
7 2 0.03
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:50441231 original size:30 final size:30
Alignment explanation
Indices: 50441192--50441255 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
50441182 TCATTTTGAC
* *
50441192 TTTGATTTTGATTTTGATTTTTCTTCTTTT
1 TTTGATTTTGATCTTGATTTTGCTTCTTTT
* *
50441222 TTTGTTTTTGATCTTGATTTTGCTTTTTTT
1 TTTGATTTTGATCTTGATTTTGCTTCTTTT
50441252 TTTG
1 TTTG
50441256 CTTGAATCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.08, C:0.06, G:0.12, T:0.73
Consensus pattern (30 bp):
TTTGATTTTGATCTTGATTTTGCTTCTTTT
Found at i:50449513 original size:19 final size:20
Alignment explanation
Indices: 50449489--50449526 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50449479 GATTATTTAT
50449489 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
50449508 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
50449527 TTATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:50449527 original size:59 final size:59
Alignment explanation
Indices: 50449464--50449598 Score: 243
Period size: 59 Copynumber: 2.3 Consensus size: 59
50449454 TATGATTATC
50449464 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
* * *
50449523 ATTATTATGAAATATGATTATTTATTTAATTAATCAGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
50449582 ATTATTATGAAATATGA
1 ATTATTATGAAATATGA
50449599 CCCAGCTTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 73 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATAAA
Found at i:50453295 original size:18 final size:18
Alignment explanation
Indices: 50453268--50453360 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
50453258 TACGACCGTT
50453268 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
50453286 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
50453304 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
50453322 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
50453340 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
50453358 TAC
1 TAC
50453361 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:50453318 original size:36 final size:36
Alignment explanation
Indices: 50453268--50453360 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
50453258 TACGACCGTT
50453268 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
50453304 TATGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
50453340 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
50453361 AGTAGTTGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:50458454 original size:41 final size:41
Alignment explanation
Indices: 50458378--50458495 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
50458368 GTTTATGGGG
* * * *
50458378 AAAACACTGCTATTGCTTTACC-TTTGCGGTGTTTATCAAA
1 AAAACACCGTTATTCCTCTACCTTTTGCGGTGTTTATCAAA
50458418 AAAACACCGTTATTCCTCTACCTTTTGCGGTGTTTATCAAA
1 AAAACACCGTTATTCCTCTACCTTTTGCGGTGTTTATCAAA
* *
50458459 AAAACACCGTTATTTCTCTACCTTTTGCGGCGTTTAT
1 AAAACACCGTTATTCCTCTACCTTTTGCGGTGTTTAT
50458496 GTGAAAAACG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 18 0.25
41 53 0.75
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (41 bp):
AAAACACCGTTATTCCTCTACCTTTTGCGGTGTTTATCAAA
Found at i:50458563 original size:41 final size:41
Alignment explanation
Indices: 50458481--50458565 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
50458471 TTTCTCTACC
* * *
50458481 TTTTGCGGCGTTTATGTGAAAAACGTCACTATTGCTTTATA
1 TTTTGCGGCGTTTATGTGAAAAACGCCACTAGTGCTGTATA
* *
50458522 TTTTGCGGCGTTTATAG-GAAAAATGCCACTAGTGGTGTATA
1 TTTTGCGGCGTTTAT-GTGAAAAACGCCACTAGTGCTGTATA
50458563 TTT
1 TTT
50458566 GAGACATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (41 bp):
TTTTGCGGCGTTTATGTGAAAAACGCCACTAGTGCTGTATA
Found at i:50464986 original size:14 final size:13
Alignment explanation
Indices: 50464963--50464994 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50464953 TTTCTAAATT
50464963 ATACAAAAATATG
1 ATACAAAAATATG
50464976 ATACAAAAA-AT-
1 ATACAAAAATATG
50464987 ATACAAAA
1 ATACAAAA
50464995 TAACATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (13 bp):
ATACAAAAATATG
Found at i:50464990 original size:11 final size:12
Alignment explanation
Indices: 50464958--50464994 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
50464948 TTTATTTTCT
50464958 AAAT-TATACAA
1 AAATATATACAA
50464969 AAATATGATACAA
1 AAATAT-ATACAA
50464982 AAA-ATATACAA
1 AAATATATACAA
50464993 AA
1 AA
50464995 TAACATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 3 0.12
13 9 0.38
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (12 bp):
AAATATATACAA
Found at i:50469809 original size:3 final size:3
Alignment explanation
Indices: 50469784--50469826 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
50469774 TGTTATTTTG
*
50469784 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50469827 ACATATATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:50470018 original size:26 final size:26
Alignment explanation
Indices: 50469970--50470019 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
50469960 TATAAATTTA
*
50469970 CATTTTATAATACATATACATTTTTC
1 CATTTTATAATACATACACATTTTTC
* *
50469996 CATTTTATAATTCATACATATTTT
1 CATTTTATAATACATACACATTTT
50470020 CACATACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (26 bp):
CATTTTATAATACATACACATTTTTC
Found at i:50470407 original size:19 final size:20
Alignment explanation
Indices: 50470366--50470407 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
50470356 ACCATTCATC
* *
50470366 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
*
50470386 AAGGTT-TTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
50470405 AAG
1 AAG
50470408 CATTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:50472063 original size:19 final size:20
Alignment explanation
Indices: 50472019--50472063 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
50472009 AACGTCTCTT
*
50472019 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
50472038 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
50472057 TATGCAT
1 TATGCAT
50472064 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:50474857 original size:7 final size:7
Alignment explanation
Indices: 50474845--50474874 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50474835 GAGTCTCAAA
50474845 AAAAAAG
1 AAAAAAG
50474852 AAAAAAG
1 AAAAAAG
50474859 AAAAAAG
1 AAAAAAG
50474866 AAAAAAG
1 AAAAAAG
50474873 AA
1 AA
50474875 GTGATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:50476419 original size:89 final size:89
Alignment explanation
Indices: 50476179--50476981 Score: 1139
Period size: 89 Copynumber: 9.0 Consensus size: 89
50476169 GCAGGCTGAA
*
50476179 AAGAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
1 AAGAAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
*
50476244 CCCATACTGGTGGTGAAGTAGATCG
65 CCCATACTGGTGGCGAAGTAGATCG
** *
50476269 AA-AAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
** * *
50476333 CCATACTAATGGCGAAGCAAATCGG
66 CCATACTGGTGGCGAAGTAGATC-G
* *
50476358 AA-AAAGCGGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
50476422 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
* *
50476446 AAGAAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
50476511 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
* *
50476535 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATTTTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
*
50476600 CCATATTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
* *
50476624 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTG-CTTT
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTC-TT
* *
50476688 CCCATACTGGCGGCGAAGCAGATCG
65 CCCATACTGGTGGCGAAGTAGATCG
*
50476713 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT-ACTAGATCTTGTCTT
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC-AGATCTTGTCTT
* *
50476777 CCCATATTGGTGGCGAAGCAGATCG
65 CCCATACTGGTGGCGAAGTAGATCG
* * * * * *
50476802 AAGAAAACAAATCTTGTCTCCATGTA-TCGGCGTGAAGTAGATCAAATACAACAGATATTGTCTC
1 AAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* * *
50476866 CCCATACTGGTGGTGGAGTAGGTCG
65 CCCATACTGGTGGCGAAGTAGATCG
* * ** * * *
50476891 AAGAAAACAGATCGTGTCTTCATGTACTGACGTGAAGTAGATCAAAGATAGTAGGTCCTGTCCTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
* * * *
50476956 CTATATTGGTAGCGAAGTGGATCG
66 CCATACTGGTGGCGAAGTAGATCG
50476980 AA
1 AA
50476982 TATACATATT
Statistics
Matches: 642, Mismatches: 63, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
88 81 0.13
89 555 0.86
90 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCG
Found at i:50477395 original size:44 final size:44
Alignment explanation
Indices: 50477215--50477406 Score: 104
Period size: 44 Copynumber: 4.4 Consensus size: 44
50477205 TTGAAGTTTA
*
50477215 CAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* * * * * * * ***
50477259 CGGATTTTACCTCCCTGAG--GTTACAGTGGAGTACATTGAAGCCAG
1 CAGATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGATGG
* ** * * ** * * **
50477304 TA-AT-TCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAAATTA
1 CAGATCT-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
50477347 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* *
50477391 CAGATTTTACCTCCCT
1 CAGATCTTATCTCCCT
50477407 GAAGTTGCAT
Statistics
Matches: 104, Mismatches: 36, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
42 1 0.01
43 17 0.16
44 69 0.66
45 16 0.15
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
Found at i:50477482 original size:132 final size:132
Alignment explanation
Indices: 50477214--50477491 Score: 351
Period size: 132 Copynumber: 2.1 Consensus size: 132
50477204 ATTGAAGTTT
* *
50477214 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * * * *
50477279 TTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAAA
66 TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
**
50477344 TT
131 CC
*
50477346 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
* * * * * * * *
50477411 TTGCATTGGAGCAGATTAAAATCAATAATCCTATCTCCTTGAAGTTGCAATGGAGTGGATT-AAA
66 TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTG-AGTAGCAATGGAATAGATTGAAA
50477475 ACC
130 ACC
*
50477478 ACAGATCTCATCTC
1 ACAGATCTTATCTC
50477492 TTTGAAGTTG
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
132 110 0.89
133 14 0.11
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAAG
TTACAGTGGAGCACATTAAAACCAATAATCCTATCTCCCTGAGTAGCAATGGAATAGATTGAAAA
CC
Found at i:50479478 original size:19 final size:20
Alignment explanation
Indices: 50479437--50479478 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
50479427 ACCATTCATC
* *
50479437 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
*
50479457 AAGGTT-TTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
50479476 AAG
1 AAG
50479479 CATTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:50480879 original size:31 final size:32
Alignment explanation
Indices: 50480844--50480908 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
50480834 CTTAGATAAT
50480844 TTTAAAGAG-TTATATTAGGATTCAATTACTC
1 TTTAAAGAGTTTATATTAGGATTCAATTACTC
*
50480875 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTATATTAGGATTCAATTACTC
50480907 TT
1 TT
50480909 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTATATTAGGATTCAATTACTC
Found at i:50484926 original size:31 final size:32
Alignment explanation
Indices: 50484890--50484954 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
50484880 CTTAGATAAT
50484890 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
50484921 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
50484953 TT
1 TT
50484955 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:50490555 original size:15 final size:15
Alignment explanation
Indices: 50490535--50490569 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
50490525 CGTCTTTCTC
50490535 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
50490550 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
50490565 -TCTTT
1 CTCTTT
50490570 CCTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:50492092 original size:6 final size:6
Alignment explanation
Indices: 50492081--50492108 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50492071 AACTGGGCTG
50492081 TCAGGT TCAGGT TCAGGT TCAGGT TCAG
1 TCAGGT TCAGGT TCAGGT TCAGGT TCAG
50492109 TTTTAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (6 bp):
TCAGGT
Found at i:50503702 original size:16 final size:16
Alignment explanation
Indices: 50503681--50503713 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50503671 TTCGTTGTAT
*
50503681 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
50503697 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
50503713 T
1 T
50503714 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:50503964 original size:16 final size:16
Alignment explanation
Indices: 50503927--50503968 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50503917 TTAATCATAT
*
50503927 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50503943 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50503958 TTAAAATATAT
1 TTAAAATATAT
50503969 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50503975 original size:14 final size:15
Alignment explanation
Indices: 50503936--50503977 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50503926 TTTAAACATA
*
50503936 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50503951 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50503965 A-TATAATTTAATA
1 ATTATAATTAAATA
50503978 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50504086 original size:16 final size:16
Alignment explanation
Indices: 50504042--50504088 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
50504032 TACTATAAAA
*
50504042 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
50504058 TATTATT-AAATATAT
1 TATAATTAAAATATAT
50504073 TATAATTAAAATATAT
1 TATAATTAAAATATAT
50504089 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:50504206 original size:16 final size:16
Alignment explanation
Indices: 50504163--50504208 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
50504153 ACTATAAAAG
*
50504163 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
50504179 ATTATT-AAATATATT
1 ATAATTAAAATATATT
50504194 ATAATTAAAATATAT
1 ATAATTAAAATATAT
50504209 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:50504215 original size:14 final size:15
Alignment explanation
Indices: 50504163--50504217 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
50504153 ACTATAAAAG
50504163 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
50504179 ATTATTAAATATATT
1 ATAATTAAATATATT
50504194 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
50504207 ATAATTTAATA
1 ATAATTAAATA
50504218 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:50504336 original size:120 final size:120
Alignment explanation
Indices: 50503925--50504321 Score: 706
Period size: 120 Copynumber: 3.3 Consensus size: 120
50503915 ATTTAATCAT
50503925 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
50503990 ATCAATATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
50504046 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
50504111 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
50504166 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
50504231 TCAATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
50504286 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAA
50504322 TATTAAATAA
Statistics
Matches: 266, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 260 0.98
121 6 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:50509115 original size:49 final size:49
Alignment explanation
Indices: 50508970--50509119 Score: 167
Period size: 49 Copynumber: 3.0 Consensus size: 49
50508960 TCGTCCATTC
* * * * *
50508970 GAAACACCATTTATGGGCAAGCCACCACTGGTTTGTAGATAAACTGCCACT
1 GAAACA-C-TTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
* * *
50509021 GATAACACTTTGTGGACAAGCCACCAT-TGATATGCAGATATACTACCACT
1 GA-AACACTTTATGGACAAGCCACC-TCTGATTTGCAGATAAACTACCACT
* *
50509071 GAAACACTTTATGGACAAGCCACCTCTAATTTGCAAATAAACTACCACT
1 GAAACACTTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
50509120 TACTTCCACC
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 40 0.48
50 35 0.42
51 3 0.04
52 4 0.05
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (49 bp):
GAAACACTTTATGGACAAGCCACCTCTGATTTGCAGATAAACTACCACT
Found at i:50510745 original size:8 final size:8
Alignment explanation
Indices: 50510732--50510760 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50510722 TTTTAAATGA
50510732 TATTTTAT
1 TATTTTAT
50510740 TATTTTAT
1 TATTTTAT
50510748 TATTTTAT
1 TATTTTAT
50510756 TATTT
1 TATTT
50510761 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:50519447 original size:45 final size:45
Alignment explanation
Indices: 50519396--50519488 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
50519386 GAATTATAGA
50519396 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
1 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
50519441 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
1 TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
50519486 TTA
1 TTA
50519489 GTAGTGGACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (45 bp):
TTAAAATTAATTAAAAGGATTAAAATAGCAAATATATATTTATTC
Found at i:50527495 original size:6 final size:6
Alignment explanation
Indices: 50527486--50527513 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50527476 GATGAATACG
50527486 AAGACC AAGACC AAGACC AAGACC AAGA
1 AAGACC AAGACC AAGACC AAGACC AAGA
50527514 TCAACACGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.29, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGACC
Found at i:50529051 original size:21 final size:20
Alignment explanation
Indices: 50529018--50529061 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
50529008 GCTTCAGTTG
* *
50529018 AAAACCCCGAACCCTTTTACA
1 AAAACCCCAAACCCTATTA-A
*
50529039 AAAACCCTAAACCCTATTAA
1 AAAACCCCAAACCCTATTAA
50529059 AAA
1 AAA
50529062 CACTAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAACCCCAAACCCTATTAA
Found at i:50529088 original size:11 final size:11
Alignment explanation
Indices: 50529066--50529095 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
50529056 TAAAAACACT
50529066 AATATT-AAAA
1 AATATTAAAAA
50529076 AATATTAAAAA
1 AATATTAAAAA
50529087 AATATTAAA
1 AATATTAAA
50529096 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATTAAAAA
Found at i:50529105 original size:9 final size:9
Alignment explanation
Indices: 50529066--50529111 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
50529056 TAAAAACACT
50529066 AATATTAAAA
1 AATATT-AAA
50529076 AATATTAAAAA
1 AATATT--AAA
50529087 AATATT--A
1 AATATTAAA
50529094 AATATTAAA
1 AATATTAAA
50529103 AATATTAAA
1 AATATTAAA
50529112 TCCCAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 7 0.21
9 10 0.30
10 6 0.18
11 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATATTAAA
Found at i:50548758 original size:49 final size:49
Alignment explanation
Indices: 50548685--50548788 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
50548675 TCATGTGTTA
* * *
50548685 TAATTTTATAAAGTGTTGAGCTTTT-AGTTTATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGCTGAGCTTTTGA-CTCATGATATTGAACTTAATTT
* * *
50548734 TAATTTTGTAAAGTGCTGATCTTTTGACTCATGATATTGAATTTAATTT
1 TAATTTTATAAAGTGCTGAGCTTTTGACTCATGATATTGAACTTAATTT
50548783 TAATTT
1 TAATTT
50548789 GTTTTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 47 0.98
50 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGCTGAGCTTTTGACTCATGATATTGAACTTAATTT
Found at i:50550193 original size:21 final size:21
Alignment explanation
Indices: 50550152--50550194 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
50550142 AATAAAGTAG
*
50550152 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
50550173 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
50550194 A
1 A
50550195 AATTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:50550270 original size:101 final size:107
Alignment explanation
Indices: 50550159--50550377 Score: 271
Period size: 101 Copynumber: 2.1 Consensus size: 107
50550149 TAGATTATAT
* *
50550159 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCAAATAAGAATAATT-ATATTAAG
1 ATTATATTTTATAGTATTATATATTAT-ATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
50550222 AATTTTATTAAATTATAT-TTA-A-TAAT-A--ATTATTTTAA
65 AATTTTATTAAATTATATATTATATTAATAATTATTATTTTAA
*
50550259 ATTATATTTTATAATATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTA-TATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
50550324 AATTTTATTAAATTATATATT-T-TTATTAAATTA-TATTTAATA
65 AATTTTATTAAATTATATATTATATTAAT-AATTATTATTTTA-A
50550366 ATTATTATTTTA
1 ATTA-TATTTTA
50550378 AATTATATTT
Statistics
Matches: 102, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
100 5 0.05
101 45 0.44
102 27 0.26
103 5 0.05
105 1 0.01
106 6 0.06
107 6 0.06
108 7 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (107 bp):
ATTATATTTTATAGTATTATATATTATATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTATATTAATAATTATTATTTTAA
Found at i:50550368 original size:13 final size:13
Alignment explanation
Indices: 50550352--50550409 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
50550342 ATTTTTATTA
*
50550352 AATTATATTTAAT
1 AATTATATTTTAT
50550365 AATTATTATTTTA-
1 AATTA-TATTTTAT
50550378 AATTATATTTTAT
1 AATTATATTTTAT
*
50550391 AGTATTATATATTAT
1 A--ATTATATTTTAT
50550406 AATT
1 AATT
50550410 TAATAAATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:50550523 original size:22 final size:24
Alignment explanation
Indices: 50550498--50550544 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
50550488 ATTATTTTAA
50550498 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATAATTTTAGTAA-ATTCATAT
50550520 ATTATAATTTTAGTAAATTCATAT
1 ATTATAATTTTAGTAAATTCATAT
50550544 A
1 A
50550545 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTATAATTTTAGTAAATTCATAT
Found at i:50550677 original size:120 final size:120
Alignment explanation
Indices: 50550224--50550618 Score: 729
Period size: 120 Copynumber: 3.3 Consensus size: 120
50550214 ATATTAAGAA
*
50550224 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATTAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATAAT
*
50550289 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
50550344 TTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATAA-
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATAAT
50550408 TTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
50550463 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATAAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATAAT
*
50550528 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
50550583 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
50550619 CTATGATTAA
Statistics
Matches: 266, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 116 0.44
120 150 0.56
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAATATTATATATTATAAT
TTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:50551477 original size:13 final size:13
Alignment explanation
Indices: 50551459--50551488 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50551449 AGCCCAAACT
50551459 CAATTACCCAACC
1 CAATTACCCAACC
50551472 CAATTACCCAACC
1 CAATTACCCAACC
50551485 CAAT
1 CAAT
50551489 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:50551514 original size:39 final size:39
Alignment explanation
Indices: 50551469--50551543 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
50551459 CAATTACCCA
50551469 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAATTT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAATTT
* *
50551508 ACCCAATTACCCAATCCAATAAAACTAAAATTAAAA
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAA
50551544 GACAACTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAATTT
Found at i:50554221 original size:34 final size:34
Alignment explanation
Indices: 50554153--50554248 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
50554143 ATGTTTTTTT
* *
50554153 AATTAATTAAATTAGGG-TAAG-G-CTTTAAATA
1 AATTAATTAAATTAGGGTTTAGTGTTTTTAAATA
50554184 AATTAATTAAATTAGGGTTTAGTGTTTTTAAGA-A
1 AATTAATTAAATTAGGGTTTAGTGTTTTTAA-ATA
*
50554218 AATTAATTAAATTAAGGTTTAGT-TTTTTAAA
1 AATTAATTAAATTAGGGTTTAGTGTTTTTAAA
50554249 AATAATATTG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
31 17 0.29
32 4 0.07
33 8 0.14
34 28 0.48
35 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.43
Consensus pattern (34 bp):
AATTAATTAAATTAGGGTTTAGTGTTTTTAAATA
Found at i:50554485 original size:125 final size:126
Alignment explanation
Indices: 50554313--50554945 Score: 661
Period size: 125 Copynumber: 5.1 Consensus size: 126
50554303 TTTTGTTTTC
* * * * * *
50554313 TTCTACAGTAGTTC-C--AAAAAATAATTTTAACAATACGGTTCTGAACAAATAGTGTGAAAAAC
1 TTCTACAGTAGTTCTCTGAAAAAATAAATTTGAGAAGA-GGTTCTGAACAAATAATGTCAAAAAC
* * *
50554375 GCTTCAAGTAGGATGCACTATCAGTAAAATTACTGAAAAAA-CTCTCACGTGGACGCTCTTT
65 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
* * *
50554436 TTCTGCAGTAGTTCT-TGAAAAAATAATTTTGAGAAGAGGTTTCTAAACAAATAATGTCAAAAAC
1 TTCTACAGTAGTTCTCTGAAAAAATAAATTTGAGAAGAGG-TTCTGAACAAATAATGTCAAAAAC
* *
50554500 GCTTCAAGCAGGATGCACTATCAG-AAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
65 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
* * *
50554561 TTCTACAGTAGTT-TCT-AATAAATAAATTTGAAAAGATAGTTCTGAACAAATAATGTCAAAAAC
1 TTCTACAGTAGTTCTCTGAAAAAATAAATTTGAGAAGA-GGTTCTGAACAAATAATGTCAAAAAC
* * * * * *
50554624 ACTTTAAGCAAGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCTCACGAGGACGCTCTTT
65 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
* ******* ** * * *
50554686 TTCTACAGTAGTTCATGTTTGGCCTTAGGCTAT-A-AATAAG-TC-G----AATAATGTCAAAAA
1 TTCTACAGTAGTTC-TCTGAAAAAATA-AATTTGAGAAGAGGTTCTGAACAAATAATGTCAAAAA
* *
50554743 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGATGCTCTTT
64 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
* * *
50554806 TTCTACAGTAATT-TCTGAAAAAATAAATTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAAC
1 TTCTACAGTAGTTCTCTGAAAAAATAAATTTGAGAAGA-GGTTCTGAACAAATAATGTCAAAAAC
** * * ** *
50554870 GCTTCAAGCAATATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCACAAGAACGCTCTTT
65 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
50554932 TTCTACAGTAGTTC
1 TTCTACAGTAGTTC
50554946 ATGTTTGGCC
Statistics
Matches: 420, Mismatches: 68, Indels: 40
0.80 0.13 0.08
Matches are distributed among these distances:
117 2 0.00
118 5 0.01
119 3 0.01
120 81 0.19
121 2 0.00
122 1 0.00
123 13 0.03
124 79 0.19
125 143 0.34
126 81 0.19
127 5 0.01
128 3 0.01
129 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
TTCTACAGTAGTTCTCTGAAAAAATAAATTTGAGAAGAGGTTCTGAACAAATAATGTCAAAAACG
CTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTT
Found at i:50554781 original size:120 final size:120
Alignment explanation
Indices: 50554607--50554977 Score: 390
Period size: 120 Copynumber: 3.0 Consensus size: 120
50554597 TAGTTCTGAA
* * *
50554607 CAAATAATGTCAAAAACACTTTAAGCAAGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCTCA
1 CAAATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAGCTCTCA
50554672 CGAGGACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGCTATAAATAAGT
66 CGAGGACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGCTATAAATAAGT
* * * *
50554727 CGAATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACA
1 CAAATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAGCTCTCA
* * * ** **** * **
50554792 CGTGGATGCTCTTTTTCTACAGTAATTTC-TGAAAAAATAAATTTGAGAAGACGAT-TCTGAA--
66 CGAGGACGCTCTTTTTCTACAGT-AGTTCATG----TTTGGCCTT-AG--G-CTATAAAT-AAGT
* * *
50554853 CAAATAGTGTCAAAAACGCTTCAAGCAATATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCA
1 CAAATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAGCTCTCA
* * * *
50554918 CAAGAACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGATATAAATGAGT
66 CGAGGACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGCTATAAATAAGT
50554973 CAAAT
1 CAAAT
50554978 TTTATTCTTA
Statistics
Matches: 195, Mismatches: 42, Indels: 28
0.74 0.16 0.11
Matches are distributed among these distances:
118 3 0.02
119 2 0.01
120 86 0.44
121 6 0.03
122 3 0.02
124 3 0.02
125 6 0.03
126 79 0.41
127 2 0.01
128 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (120 bp):
CAAATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAGCTCTCA
CGAGGACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGCTATAAATAAGT
Found at i:50554898 original size:246 final size:244
Alignment explanation
Indices: 50554485--50554973 Score: 791
Period size: 246 Copynumber: 2.0 Consensus size: 244
50554475 TTTCTAAACA
*
50554485 AATAATGTCAAAAACGCTTCAAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGT
1 AATAATGTCAAAAACGCTTCAAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCACACGT
* * *
50554550 GGACGCTCTTTTTCTACAGTAGTTTCTAATAAATAAATTTGAAAAGATAGTTCTGAACAAATAAT
66 GGACGCTCTTTTTCTACAGTAATTTCTAAAAAATAAATTTGAAAAGAGAGTTCTGAACAAATAAT
* * * * *
50554615 GTCAAAAACACTTTAAGCAAGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCTCACGAGGACG
131 GTCAAAAACACTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCACAAGAACG
*
50554680 CTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGCTATAAATAAGTCG
196 CTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGATATAAATAAGTCG
*
50554729 AATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACG
1 AATAATGTCAAAAACGCTTCAAGCAGGATGCACTATCAG-AAAATTACTGAAAAAAGCTCACACG
* *
50554794 TGGATGCTCTTTTTCTACAGTAATTTCTGAAAAAATAAATTTGAGAAGACGA-TTCTGAACAAAT
65 TGGACGCTCTTTTTCTACAGTAATTTCT-AAAAAATAAATTTGAAAAGA-GAGTTCTGAACAAAT
* * *
50554858 AGTGTCAAAAACGCTTCAAGCAATATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCACAAGA
128 AATGTCAAAAACACTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCACAAGA
*
50554923 ACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGATATAAATGAGTC
193 ACGCTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGATATAAATAAGTC
50554974 AAATTTTATT
Statistics
Matches: 225, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
244 38 0.17
245 50 0.22
246 136 0.60
247 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (244 bp):
AATAATGTCAAAAACGCTTCAAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCACACGT
GGACGCTCTTTTTCTACAGTAATTTCTAAAAAATAAATTTGAAAAGAGAGTTCTGAACAAATAAT
GTCAAAAACACTTCAAGCAAGATGCACTGTCAGCAAAATTAATGAAAAAAACTCTCACAAGAACG
CTCTTTTTCTACAGTAGTTCATGTTTGGCCTTAGGATATAAATAAGTCG
Found at i:50558670 original size:139 final size:139
Alignment explanation
Indices: 50558420--50558692 Score: 395
Period size: 139 Copynumber: 2.0 Consensus size: 139
50558410 AATCGAGTGA
* *
50558420 AAGTGGTAAAATGAATACTTACTGAATCGAGCGAGTTCAATCGTCGAGCACGATAGAGGCATAAA
1 AAGTGGTAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGAGCACGATAGAGGCATAAA
* * * * * *
50558485 AGAAATCAAAAGAAAAGAGAGAGGAAACAATGAAAGTTCGGTAGAAAAGATGTAAATAGATGTCA
66 AGAAATCAAAACAAAAGAGAGAGGAAACAATAAAAATTCGGCAGAAAAGAGGTAAATAAATGTCA
50558550 GAACGATAG
131 GAACGATAG
* * * *
50558559 AAGTGGTAAAACGAATACTTACCGAATCGAGCGAGTTCCATTGTCGAGCTCGATGGAGGCATAAA
1 AAGTGGTAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGAGCACGATAGAGGCATAAA
* * *
50558624 AGAAATCAAAACAAAATG-GAGAGGAAACAATAAAAATTTGGCAGAAAAGGGGTGAATAAATGTC
66 AGAAATCAAAACAAAA-GAGAGAGGAAACAATAAAAATTCGGCAGAAAAGAGGTAAATAAATGTC
50558688 AGAAC
130 AGAAC
50558693 AATGGAAGAA
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
139 117 0.99
140 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (139 bp):
AAGTGGTAAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGAGCACGATAGAGGCATAAA
AGAAATCAAAACAAAAGAGAGAGGAAACAATAAAAATTCGGCAGAAAAGAGGTAAATAAATGTCA
GAACGATAG
Found at i:50560856 original size:30 final size:30
Alignment explanation
Indices: 50560822--50560886 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
50560812 ATTAATTAAA
*
50560822 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATTT
50560852 GAGAGCTTTGAGAAATTTAAAGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATTT
50560882 GAGAG
1 GAGAG
50560887 TTTTTTACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAAGAGAAATTT
Found at i:50565843 original size:18 final size:20
Alignment explanation
Indices: 50565820--50565858 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
50565810 GCATAACGAC
50565820 TGTTGA-TTGAGAAC-TCCA
1 TGTTGACTTGAGAACATCCA
*
50565838 TGTTGACTTGGGAACATCCA
1 TGTTGACTTGAGAACATCCA
50565858 T
1 T
50565859 ACTACGCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (20 bp):
TGTTGACTTGAGAACATCCA
Found at i:50569326 original size:28 final size:29
Alignment explanation
Indices: 50569277--50569332 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
50569267 TATAACTTTT
50569277 TTTTATTTACCAAAATATTATAAAAAAAA
1 TTTTATTTACCAAAATATTATAAAAAAAA
50569306 TTTTATTTACCAAAATA-TATAAAAAAA
1 TTTTATTTACCAAAATATTATAAAAAAA
50569333 CAAAAAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTTATTTACCAAAATATTATAAAAAAAA
Found at i:50569410 original size:27 final size:27
Alignment explanation
Indices: 50569380--50569458 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
50569370 GGCCAATCAC
*
50569380 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* * *
50569407 ATTGGCAGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
50569434 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
50569459 GACTAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.32, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:50569789 original size:19 final size:19
Alignment explanation
Indices: 50569765--50569830 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
50569755 ATTAAAATAG
50569765 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
50569784 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
50569802 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
50569821 TTTAATTTAA
1 TTTAATTTAA
50569831 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:50570095 original size:18 final size:19
Alignment explanation
Indices: 50570056--50570114 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
50570046 ATTTTATATT
50570056 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
50570075 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
50570093 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
50570112 TTA
1 TTA
50570115 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:50570221 original size:12 final size:12
Alignment explanation
Indices: 50570204--50570231 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50570194 TTAGAAGGGG
50570204 AATAAAAAAATT
1 AATAAAAAAATT
50570216 AATAAAAAAATT
1 AATAAAAAAATT
50570228 AATA
1 AATA
50570232 GAGTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAAAATT
Found at i:50570531 original size:27 final size:27
Alignment explanation
Indices: 50570419--50570522 Score: 181
Period size: 27 Copynumber: 3.9 Consensus size: 27
50570409 TTTTAGTCCT
50570419 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
50570446 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
* *
50570473 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCACA
*
50570500 TTGGCACCTTTGGTGCCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
50570523 GTGATTGGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.26
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:50572344 original size:108 final size:107
Alignment explanation
Indices: 50572172--50572449 Score: 418
Period size: 107 Copynumber: 2.6 Consensus size: 107
50572162 AAATTTATTT
* * *
50572172 GGTGGTGGC-GCCATTGGCAGGCCACCACCAATTTTTTTTTTACTTTTTTCGTATATTGATACCT
1 GGTGGTGCCGGCCATTGGCAGGCCACCACCAA-ATTTTTTTTACTTTTTTCGTATACTGATACCT
50572236 TCTTTTGACACGAAAAAAGT-AAAAAAAAATTCCCACAAAAAA
65 TCTTTTGACACGAAAAAAGTAAAAAAAAAATTCCCACAAAAAA
*
50572278 TGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTAACTTTTTTCGTATACTGATACC
1 GGTGGTGCCGGCCATTGGCAGGCCACCACC-AAATTTTTTTT-ACTTTTTTCGTATACTGATACC
* *
50572343 TTCTTTTGACACGGAAAAAGTAAAAAAAAAATTCTCACAAAAAA
64 TTCTTTTGACACGAAAAAAGTAAAAAAAAAATTCCCACAAAAAA
* * *
50572387 GGTGGTGCCGGCCTTTGGCAGGCCACCA-CAAATTTTTTTTACTTTTTCTCGTATTCTGGTACC
1 GGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTACTTTTT-TCGTATACTGATACC
50572450 GGTCATTGAC
Statistics
Matches: 157, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
106 14 0.09
107 52 0.33
108 44 0.28
109 47 0.30
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (107 bp):
GGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTACTTTTTTCGTATACTGATACCTT
CTTTTGACACGAAAAAAGTAAAAAAAAAATTCCCACAAAAAA
Found at i:50575305 original size:46 final size:46
Alignment explanation
Indices: 50575236--50575512 Score: 446
Period size: 46 Copynumber: 6.0 Consensus size: 46
50575226 CATGGCAAAG
50575236 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
50575282 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * *
50575328 TGTGAAAAGTAGGTATGATATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * *
50575374 TGTTAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
50575420 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
50575466 TGTGAAAAGTAGGTATGATGTTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
50575512 T
1 T
50575513 ATAGCAATGT
Statistics
Matches: 212, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 212 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:50579499 original size:92 final size:93
Alignment explanation
Indices: 50579395--50579673 Score: 299
Period size: 92 Copynumber: 2.8 Consensus size: 93
50579385 TTGTGAGAAT
* *
50579395 TTTTTTTTACTTTTTTCGTATACTGATACCTGCCATTGACACGAAAAAAGTAAAAAAAA-TTCTC
1 TTTTTTTTACTTTTTTCGTATACCGATACCTGCCATTGACACGAAAAAAGTAAAAAAAATTTCCC
50579459 ACAAAAAAGGTGGCAGGACACCACCAAA
66 ACAAAAAAGGTGGCAGGACACCACCAAA
* ** *
50579487 TTTTTTTTACTTTTTTCGTATACCGATACCTTCTTTTGACACGAAAAATGTAAAAAAAATTTCCC
1 TTTTTTTTACTTTTTTCGTATACCGATACCTGCCATTGACACGAAAAAAGTAAAAAAAATTTCCC
50579552 ACAAAAAAGGTGGTGCCGGCCATTGGTAGGCCACCACCAAAA
66 ACAAAAAA---GGT---GG-CA--GG-A---CACCACC-AAA
** * ** *
50579594 TTTTTTTTAACTTTTTTCGTATACTAATACCTTCTTTTGACACGAAAAAAATAAAAAAAAATTTC
1 TTTTTTTT-ACTTTTTTCGTATACCGATACCTGCCATTGACACGAAAAAAGT-AAAAAAAATTTC
50579659 CCACAAAAAAGGTGG
64 CCACAAAAAAGGTGG
50579674 TGCCGGCCAT
Statistics
Matches: 160, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
92 54 0.34
93 12 0.08
96 3 0.02
99 2 0.01
100 2 0.01
102 2 0.01
103 3 0.02
106 10 0.06
107 11 0.07
108 39 0.24
109 22 0.14
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (93 bp):
TTTTTTTTACTTTTTTCGTATACCGATACCTGCCATTGACACGAAAAAAGTAAAAAAAATTTCCC
ACAAAAAAGGTGGCAGGACACCACCAAA
Found at i:50579612 original size:108 final size:107
Alignment explanation
Indices: 50579469--50579722 Score: 404
Period size: 109 Copynumber: 2.4 Consensus size: 107
50579459 ACAAAAAAGG
* *
50579469 TGGCAGGACACCACCAAATTTTTTTTACTTTTTTCGTATACCGATACCTTCTTTTGACACGAAAA
1 TGGCAGGCCACCACCAAATTTTTTTTACTTTTTTCGTATACCAATACCTTCTTTTGACACGAAAA
**
50579534 ATGT-AAAAAAAATTTCCCACAAAAAAGGTGGTGCCGGCCAT
66 AAATAAAAAAAAATTTCCCACAAAAAAGGTGGTGCCGGCCAT
* *
50579575 TGGTAGGCCACCACCAAAATTTTTTTTAACTTTTTTCGTATACTAATACCTTCTTTTGACACGAA
1 TGGCAGGCCACCACC-AAATTTTTTTT-ACTTTTTTCGTATACCAATACCTTCTTTTGACACGAA
50579640 AAAAATAAAAAAAAATTTCCCACAAAAAAGGTGGTGCCGGCCAT
64 AAAAATAAAAAAAAATTTCCCACAAAAAAGGTGGTGCCGGCCAT
*
50579684 TGGCAGGCCACCA-CAATTTTTTTTTACTTTTTCTCGTAT
1 TGGCAGGCCACCACCAAATTTTTTTTACTTTTT-TCGTAT
50579723 TTTGGTATCA
Statistics
Matches: 136, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
106 20 0.15
107 27 0.20
108 40 0.29
109 49 0.36
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (107 bp):
TGGCAGGCCACCACCAAATTTTTTTTACTTTTTTCGTATACCAATACCTTCTTTTGACACGAAAA
AAATAAAAAAAAATTTCCCACAAAAAAGGTGGTGCCGGCCAT
Found at i:50580938 original size:22 final size:21
Alignment explanation
Indices: 50580890--50580938 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
50580880 AACTAAATCC
* **
50580890 TTTCTCTCAATTTCTCTTTAA
1 TTTCTCTCAATTCCTCTCAAA
50580911 TATTCTCTCAAATTCCTCTCAAA
1 T-TTCTCTC-AATTCCTCTCAAA
50580934 TTTCT
1 TTTCT
50580939 ATTTAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCTCTCAATTCCTCTCAAA
Found at i:50582681 original size:30 final size:30
Alignment explanation
Indices: 50582615--50582687 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
50582605 GACGACGACG
50582615 CAGGCCCATCAACGAGGCCCAGAAATTCAC
1 CAGGCCCATCAACGAGGCCCAGAAATTCAC
* * * * *
50582645 CCGGCCCATCATC-AGCGCCCATAACTTCAT
1 CAGGCCCATCAACGAG-GCCCAGAAATTCAC
*
50582675 CAGGCCCAACAAC
1 CAGGCCCATCAAC
50582688 AGCAACAGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.30, C:0.41, G:0.16, T:0.12
Consensus pattern (30 bp):
CAGGCCCATCAACGAGGCCCAGAAATTCAC
Found at i:50583291 original size:49 final size:49
Alignment explanation
Indices: 50583234--50583452 Score: 366
Period size: 49 Copynumber: 4.5 Consensus size: 49
50583224 GTTTATGTTA
50583234 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
* *
50583283 ATGTAATAAAATACAAAATAGTTTATTTTGAAGAATTTAATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
* *
50583332 ATATAATAAAATACAAAATAGTTTATTTTGAATAAATTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
* *
50583381 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
* *
50583430 ATTTAATAAAATATAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
50583453 AATATTCTTA
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 158 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
Found at i:50583309 original size:29 final size:29
Alignment explanation
Indices: 50583276--50583408 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 29
50583266 TAATTTGATA
50583276 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
* **
50583305 TTATTT--TG--A-AGAAT--TTAATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
*
50583325 TTATTTGATATAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
**
50583354 TTATTT--TG-AAT-AAAT---TGATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
50583374 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
50583403 TTATTT
1 TTATTT
50583409 TGAATATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 36
0.61 0.10 0.30
Matches are distributed among these distances:
20 12 0.16
22 10 0.14
23 3 0.04
24 9 0.12
25 9 0.12
26 3 0.04
27 10 0.14
29 18 0.24
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (29 bp):
TTATTTGATGTAATAAAATACAAAATAGT
Found at i:50586829 original size:124 final size:125
Alignment explanation
Indices: 50586675--50587061 Score: 573
Period size: 125 Copynumber: 3.1 Consensus size: 125
50586665 CGCTTCCTCA
* * * * *
50586675 TGGGAGCGATTTTAGAAAATT-TTCTTATAAAGCATCTTGCTTGAAGC-ATTTTTATACTATTTG
1 TGGGAGCGATTTCAG-AAATTCTTCTAATAAAGCATCCTGCTTCAAGCGTTTTTTATACTATTTG
* *
50586738 CACAGAAACGTCAACTCGAAATTATTTTTTCAAGACCTACTGTAGCAAAAGCGCGTCTACG
65 CTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCTACG
* * * *
50586799 TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTCAAGCTTTTTTTATACAATTTAC
1 TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGCTTCAAGCGTTTTTTATACTATTTGC
* *
50586864 TCAGAAATGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCCACG
66 TCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCTACG
*
50586924 TGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTCAAGCGTTTTTTATACTATTTGC
1 TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGCTTCAAGCGTTTTTTATACTATTTGC
** * *
50586989 TCAGAAACGTCAACTTAAAATTATTTTTTTAGGACCTATTGTAGCAAAAGCGCGTCCT-CG
66 TCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGT-CTACG
50587049 TGGGAGCGATTTC
1 TGGGAGCGATTTC
50587062 CTTAATAAAT
Statistics
Matches: 237, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
123 5 0.02
124 36 0.15
125 195 0.82
126 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (125 bp):
TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGCTTCAAGCGTTTTTTATACTATTTGC
TCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCTACG
Found at i:50589453 original size:40 final size:40
Alignment explanation
Indices: 50589396--50589480 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
50589386 ATAGCTGAGT
* *
50589396 TAAAAATCTATATTTCAATAATTTATATGAAATAAATTAA
1 TAAAAATCTATAATTCAATAAGTTATATGAAATAAATTAA
**
50589436 TAAAAAT-TAATAATTCAATAAGTTATATGCTATAAATTAA
1 TAAAAATCT-ATAATTCAATAAGTTATATGAAATAAATTAA
50589476 TAAAA
1 TAAAA
50589481 GGCAGTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAAATCTATAATTCAATAAGTTATATGAAATAAATTAA
Found at i:50603667 original size:31 final size:32
Alignment explanation
Indices: 50603631--50603695 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
50603621 CTTAGATAAT
*
50603631 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGCATTCAATTACTC
50603662 TTTAAAGAGTTTTTATTAGCATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGCATTCAATTACTC
50603694 TT
1 TT
50603696 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGCATTCAATTACTC
Found at i:50611535 original size:30 final size:30
Alignment explanation
Indices: 50611499--50611560 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50611489 ATAACAATTT
*
50611499 AAAATTGCTAAATAGTATTTAATATTTTGA
1 AAAATTGCTAAATAGTATTTAATATATTGA
*
50611529 AAAATTGCTAAATAGTATTTAATGTATTGA
1 AAAATTGCTAAATAGTATTTAATATATTGA
50611559 AA
1 AA
50611561 TTGAGTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.40
Consensus pattern (30 bp):
AAAATTGCTAAATAGTATTTAATATATTGA
Found at i:50629242 original size:5 final size:5
Alignment explanation
Indices: 50629224--50629277 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
50629214 ATGTTTTAAA
*
50629224 TATAT TA-A- TATAT TATAT TATAT TATAA TA-AT TATAT TATAT TAT-T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
50629270 ATATAT TA
1 -TATAT TA
50629278 AATAAACTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
3 2 0.05
4 6 0.14
5 33 0.79
6 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:50629259 original size:19 final size:20
Alignment explanation
Indices: 50629229--50629277 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
50629219 TTAAATATAT
50629229 TAATATATTATATTATATTA
1 TAATATATTATATTATATTA
50629249 TAATA-ATTATATTATATTA
1 TAATATATTATATTATATTA
*
50629268 TTATATATTA
1 TAATATATTA
50629278 AATAAACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATATATTATATTATATTA
Found at i:50629259 original size:24 final size:23
Alignment explanation
Indices: 50629224--50629268 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
50629214 ATGTTTTAAA
*
50629224 TATATTAATATATTATATTATAT
1 TATAATAATATATTATATTATAT
50629247 TATAATAATTATATTATATTAT
1 TATAATAA-TATATTATATTAT
50629269 TATATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATAATAATATATTATATTATAT
Found at i:50629902 original size:23 final size:24
Alignment explanation
Indices: 50629867--50629911 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
50629857 AATATGGCAA
50629867 GAAATTAAGTAGAAAAG-AAGTAT
1 GAAATTAAGTAGAAAAGTAAGTAT
50629890 GAAA-TAAGCTAGAAAAGTAAGT
1 GAAATTAAG-TAGAAAAGTAAGT
50629912 GAGCTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
GAAATTAAGTAGAAAAGTAAGTAT
Found at i:50632617 original size:23 final size:23
Alignment explanation
Indices: 50632528--50632618 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
50632518 CCACACTAAT
*
50632528 ATGTAGCCAAAGCTACCACT-AA
1 ATGTAGCCGAAGCTACCACTGAA
*
50632550 TATGTAGCCGAAGCTACCACTGTA
1 -ATGTAGCCGAAGCTACCACTGAA
*
50632574 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
*
50632597 ATGTAGTCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
50632619 TCAATAACAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 60 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:50632719 original size:8 final size:8
Alignment explanation
Indices: 50632706--50632734 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50632696 ACCCGGGACT
50632706 CACTGTAA
1 CACTGTAA
50632714 CACTGTAA
1 CACTGTAA
50632722 CACTGTAA
1 CACTGTAA
50632730 CACTG
1 CACTG
50632735 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:50635322 original size:23 final size:23
Alignment explanation
Indices: 50635293--50635348 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
50635283 GTATTCAAAG
*
50635293 CTCTCAAAGAAAAGATAGAGTTT
1 CTCTCAAAGAAAAGATAGACTTT
* **
50635316 CTCTCAAAGCATCGATAGACTTT
1 CTCTCAAAGAAAAGATAGACTTT
50635339 CTGCTCAAAG
1 CT-CTCAAAG
50635349 CATCAGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (23 bp):
CTCTCAAAGAAAAGATAGACTTT
Found at i:50635350 original size:24 final size:23
Alignment explanation
Indices: 50635306--50635352 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
50635296 TCAAAGAAAA
*
50635306 GATAGAGTTTCTCTCAAAGCATC
1 GATAGACTTTCTCTCAAAGCATC
50635329 GATAGACTTTCTGCTCAAAGCATC
1 GATAGACTTTCT-CTCAAAGCATC
50635353 AGCAACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (23 bp):
GATAGACTTTCTCTCAAAGCATC
Found at i:50639883 original size:23 final size:23
Alignment explanation
Indices: 50639794--50639884 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
50639784 CCACACTAAT
*
50639794 ATGTAGCCAAAGCTACCACT-AA
1 ATGTAGCCGAAGCTACCACTGAA
*
50639816 TATGTAGCCGAAGCTACCACTGTA
1 -ATGTAGCCGAAGCTACCACTGAA
*
50639840 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
*
50639863 ATGTAGTCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
50639885 TCAATAACAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 60 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:50647503 original size:21 final size:21
Alignment explanation
Indices: 50647479--50647530 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
50647469 TCCATATATT
50647479 TTATAATTTT-TAACATTTTAA
1 TTAT-ATTTTATAACATTTTAA
50647500 TTATATTTTAATAACATTTTAA
1 TTATATTTT-ATAACATTTTAA
*
50647522 TAAT-TTTTA
1 TTATATTTTA
50647531 CACGTAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 8 0.29
22 14 0.50
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATATTTTATAACATTTTAA
Found at i:50647509 original size:11 final size:11
Alignment explanation
Indices: 50647489--50647524 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
50647479 TTATAATTTT
50647489 TAACATTTTAA
1 TAACATTTTAA
* *
50647500 TTATATTTTAA
1 TAACATTTTAA
50647511 TAACATTTTAA
1 TAACATTTTAA
50647522 TAA
1 TAA
50647525 TTTTTACACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (11 bp):
TAACATTTTAA
Found at i:50647516 original size:22 final size:21
Alignment explanation
Indices: 50647489--50647530 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
50647479 TTATAATTTT
*
50647489 TAACATTTTAATTATATTTTAA
1 TAACATTTTAATAAT-TTTTAA
50647511 TAACATTTTAATAATTTTTA
1 TAACATTTTAATAATTTTTA
50647531 CACGTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TAACATTTTAATAATTTTTAA
Found at i:50648424 original size:228 final size:228
Alignment explanation
Indices: 50648013--50649349 Score: 1453
Period size: 228 Copynumber: 5.9 Consensus size: 228
50648003 CAGGTGCAAA
* * * ** * * * *
50648013 GTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCTTCAAGTTGCTTCCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTTCCAGCAAA
* * * * *
50648078 AATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
66 GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
* * * * * * * * * *
50648143 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
131 TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
* * * *
50648208 ATCCCACCACGGAGACGGAGAACCAAGTGGAGG
196 ATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * ** *
50648241 GTGGACTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCCTCTAGCTGCTTTCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTTCCAGCAAA
* * * * * * * *
50648306 TATCAGCCTCTGCTGGTCTGGAGGGATACCTTCCTTATCTTGAATTTTGGCCTTAACATTATCGA
66 GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
* * * * * * * * * *
50648371 TTGTGTCAGAGCTCTCAACTTCCAGGGTGATGGTCTTCCCGGTAAGTGTCTTCACAAAAATCTGC
131 TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
* * *
50648436 ATACCACCACGAAGACGAAGCACCAAGTGGAGG
196 ATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * * * *
50648469 GTGGACTCCTTCTGGATGTTATAGTCAGCCAGGGTACGGCCATCCTCCAGTTGCTTACCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTTCCAGCAAA
* * * * *
50648534 AATCAGCCTCTGTTGGTCTGGGGGGATTCCC-TCCTTGTCCTGAATTTTTGCCTTAACATTGTCA
66 GATCAGCCTCTGCTGGTCTGGTGGGA-TCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * ** * * ** *
50648598 ATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * * *
50648663 CATTCCTCCACGTAGGCGAAGCACCAAGTGGAGT
195 CATACCACCACGCAGACGGAGCACCAAGTGGAGT
* * * * * *
50648697 GTGGACTCCTTCTGGATGTTGTAATCAGCCAA-TGTGCGGCCATCCTCAAGTTGCTTACCAGCGA
1 GTGGACTCCTTCTGGATGTTGTAATCAG-CAAGGGTACGGCCATCCTCCAGCTGCTTTCCAGCAA
* * * *
50648761 AGATCAGCCTTTGCTGGTCTGGGGGGATGCCTTCCTTGTCCTGAATCTTGGCCTTGACATTGTCA
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* ** * *
50648826 ATCGTATCAGAACTCTCCACCTCCAATGTGATGGTCTTTCCGGTGAGGGTCTTGACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * *
50648891 CATACCACCCCTCA-ATCGGAGGACCAAATGGAGT
195 CATACCACCACGCAGA-CGGAGCACCAAGTGGAGT
* *
50648925 GTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGCTG-TTTACCAGCAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTT-CCAGCAA
* * * * * *
50648989 AGATAAGCCTCTGCTGGTCTGGTGGGATCCCTTCTTTGTCTTGGATCTTGGCCTTTACATTGTCG
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * *
50649054 ATGGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTCCCGGTGAGGGTCTTGACAAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
* * * *
50649119 CATACCACCCCTCA-ATCGGAGGACCAAATGGAGT
195 CATACCACCACGCAGA-CGGAGCACCAAGTGGAGT
* *
50649153 GTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGCTG-TTTACCAGCAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTT-CCAGCAA
* * * * * * *
50649217 AGATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGTCTTTACATTGTCG
65 AGATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * * *
50649282 ATGGTATCAGAACTTTCCACCTCAAGGGTGATGGTCTTGCCAGTGAGGGTCTTGACGAAAATTTG
130 ATGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTG
50649347 CAT
195 CAT
50649350 CTATTTAGAA
Statistics
Matches: 978, Mismatches: 125, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
227 8 0.01
228 965 0.99
229 5 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (228 bp):
GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTACGGCCATCCTCCAGCTGCTTTCCAGCAAA
GATCAGCCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGAATCTTGGCCTTAACATTGTCAA
TGGTATCAGAACTCTCCACCTCCAGGGTGATGGTCTTCCCAGTGAGGGTCTTGACAAAAATTTGC
ATACCACCACGCAGACGGAGCACCAAGTGGAGT
Found at i:50649318 original size:684 final size:684
Alignment explanation
Indices: 50648013--50649349 Score: 1714
Period size: 684 Copynumber: 2.0 Consensus size: 684
50648003 CAGGTGCAAA
* * * * *
50648013 GTGGATTCCTTCTGGATGTTGTAATCTGCAAGGGTCCTCCCATCTTCAAGTTGCTTCCCAGCAAA
1 GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTCCGCCCATCCTCAAGTTGCTTACCAGCAAA
* * *
50648078 AATCAGCCTCTGCTGGTCTGGTGGGATTCCTTCCTTATCCTGGATCTTGGCCTTAACATTATCAA
66 AATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAA
* * * * * *
50648143 TCGTGTCTGAGCTCTCAACTTCCAGGGTGATGGTCTTTCCAGTCAGGGTCTTCACGAAAATTTGC
131 TCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCCAGTCAGGGTCTTCACAAAAATTTGC
* * * *
50648208 ATCCCACCACGGAGACGGAGAACCAAGTGGAGGGTGGACTCCTTCTGGATGTTGTAATCTGCAAG
196 ATACCACCACGCAGACGGAGAACCAAATGGAGGGTGGACTCCTTCTGGATGTTGTAATCAGCAAG
* * * * *
50648273 GGTCCTCCCATCCTCTAGCTGCTTTCCAGCAAATATCAGCCTCTGCTGGTCTGGAGGGATACCTT
261 GGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAGATAAGCCTCTGCTGGTCTGGAGGGATACCTT
* * * * * *
50648338 CCTTATCTTGAATTTTGGCCTTAACATTATCGATTGTGTCAGAGCTCTCAACTTCCAGGGTGATG
326 CCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTATCAGAACTCTCAACCTCAAGGGTGATG
* * *
50648403 GTCTTCCCGGTAAGTGTCTTCACAAAAATCTGCATACCACCACGAAGACGAAGCACCAAGTGGAG
391 GTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACCACCACCAAGACGAAGCACCAAATGGAG
* *
50648468 GGTGGACTCCTTCTGGATGTTATAGTCAGCCAGGGTACGGCCATCCTCCAGTTGCTTACCAGCAA
456 GGTGGACTCCTTCTGGATGTTATAGTCAGCAAGGGTACGGCCATCCTCCAGCTGCTTACCAGCAA
* * *
50648533 AAATCAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCCTGAATTTTTGCCTTAACATTGTCA
521 AAATAAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
* * *
50648598 ATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
586 ATGGTATCAGAACTCTCCACCTCCAAGGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
50648663 CATTCCTCCACGTAGGCGAAGCACCAAGTGGAGT
651 CATTCCTCCACGTAGGCGAAGCACCAAGTGGAGT
* * * *
50648697 GTGGACTCCTTCTGGATGTTGTAATCAGCCAA-TGTGCGGCCATCCTCAAGTTGCTTACCAGCGA
1 GTGGACTCCTTCTGGATGTTGTAATCAG-CAAGGGTCCGCCCATCCTCAAGTTGCTTACCAGCAA
* * * * *
50648761 AGATCAGCCTTTGCTGGTCTGGGGGGATGCCTTCCTTGTCCTGAATCTTGGCCTTGACATTGTCA
65 AAATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCA
* * * * *
50648826 ATCGTATCAGAACTCTCCACCTCCAATGTGATGGTCTTTCCGGTGAGGGTCTTGACAAAAATTTG
130 ATCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCCAGTCAGGGTCTTCACAAAAATTTG
* * * * * *
50648891 CATACCACCCCTCA-ATCGGAGGACCAAATGGAGTGTGGATTCCTTCTGGATGTTGTAGTCAGCA
195 CATACCACCACGCAGA-CGGAGAACCAAATGGAGGGTGGACTCCTTCTGGATGTTGTAATCAGCA
* * *
50648955 AGGGTACGGCCATCCTCCAGCTG-TTTACCAGCAAAGATAAGCCTCTGCTGGTCTGGTGGGATCC
259 AGGGTACGCCCATCCTCCAGCTGCTTT-CCAGCAAAGATAAGCCTCTGCTGGTCTGGAGGGATAC
* * * * * * *
50649019 CTTCTTTGTCTTGGATCTTGGCCTTTACATTGTCGATGGTATCAGAACTTTCCACCTCAAGGGTG
323 CTTCCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTATCAGAACTCTCAACCTCAAGGGTG
* * * * * * *
50649084 ATGGTCTTCCCGGTGAGGGTCTTGACAAAAATTTGCATACCACCCCTCAA-TCGGAGGACCAAAT
388 ATGGTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACCACCAC-CAAGACGAAGCACCAAAT
* * * *
50649148 GGAGTGTGGATTCCTTCTGGATGTTGTAGTCAGCAAGGGTACGGCCATCCTCCAGCTGTTTACCA
452 GGAGGGTGGACTCCTTCTGGATGTTATAGTCAGCAAGGGTACGGCCATCCTCCAGCTGCTTACCA
* * * * * *
50649213 GCAAAGATAAGCCTCTGTTGGTCTGGTGGGA-TCCCTTCCTTGTCTTGGATCTTGGTCTTTACAT
517 GCAAAAATAAGCCTCTGTTGGTCTGGGGGGATTCCC-TCCTTGTCCTGAATCTTGGCCTTAACAT
* * * * * ** * *
50649277 TGTCGATGGTATCAGAACTTTCCACCT-CAAGGGTGATGGTCTTGCCAGTGAGGGTCTTGACGAA
581 TGTCAATGGTATCAGAACTCTCCACCTCCAA-GGTAATGGTCTTCCCAGTCAAAGTCTTAACAAA
50649341 AATTTGCAT
645 AATTTGCAT
50649350 CTATTTAGAA
Statistics
Matches: 551, Mismatches: 96, Indels: 12
0.84 0.15 0.02
Matches are distributed among these distances:
683 11 0.02
684 535 0.97
685 5 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (684 bp):
GTGGACTCCTTCTGGATGTTGTAATCAGCAAGGGTCCGCCCATCCTCAAGTTGCTTACCAGCAAA
AATCAGCCTCTGCTGGTCTGGGGGGATGCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAA
TCGTATCAGAACTCTCAACCTCCAAGGTGATGGTCTTTCCAGTCAGGGTCTTCACAAAAATTTGC
ATACCACCACGCAGACGGAGAACCAAATGGAGGGTGGACTCCTTCTGGATGTTGTAATCAGCAAG
GGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAGATAAGCCTCTGCTGGTCTGGAGGGATACCTT
CCTTATCTTGAATCTTGGCCTTAACATTATCGATGGTATCAGAACTCTCAACCTCAAGGGTGATG
GTCTTCCCGGTAAGGGTCTTCACAAAAATCTGCATACCACCACCAAGACGAAGCACCAAATGGAG
GGTGGACTCCTTCTGGATGTTATAGTCAGCAAGGGTACGGCCATCCTCCAGCTGCTTACCAGCAA
AAATAAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCCTGAATCTTGGCCTTAACATTGTCA
ATGGTATCAGAACTCTCCACCTCCAAGGTAATGGTCTTCCCAGTCAAAGTCTTAACAAAAATTTG
CATTCCTCCACGTAGGCGAAGCACCAAGTGGAGT
Found at i:50652599 original size:27 final size:27
Alignment explanation
Indices: 50652569--50652664 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 27
50652559 GCCTGATCAG
*
50652569 GCCAATCACATTGGCGGCACCAAAGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*** *
50652596 GCCAAAGTGATTGGCGGCAGCAAAGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*** *
50652623 GCCAAAGTGATTGGCATG-ACCAAAGGT
1 GCCAAACACATTGGC-GGCACCAAAGGT
* *
50652650 GCCAAAGAGATTGGC
1 GCCAAACACATTGGC
50652665 CTGACCGGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (27 bp):
GCCAAACACATTGGCGGCACCAAAGGT
Found at i:50652669 original size:27 final size:27
Alignment explanation
Indices: 50652587--50652670 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
50652577 CATTGGCGGC
*
50652587 ACCAAAGGTGCCAAAGTGATTGG-CGG
1 ACCAAAGGTGCCAAAGTGATTGGCCTG
* *
50652613 CAGCAAAGGTGCCAAAGTGATTGGCATG
1 -ACCAAAGGTGCCAAAGTGATTGGCCTG
*
50652641 ACCAAAGGTGCCAAAGAGATTGGCCTG
1 ACCAAAGGTGCCAAAGTGATTGGCCTG
50652668 ACC
1 ACC
50652671 GGACTAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.15
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGTGATTGGCCTG
Found at i:50653118 original size:19 final size:19
Alignment explanation
Indices: 50653094--50653156 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
50653084 AAGCAATAGT
50653094 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
50653113 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
50653132 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
50653151 TTATTA
1 TTATTA
50653157 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:50654665 original size:23 final size:23
Alignment explanation
Indices: 50654639--50654736 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
50654629 ATAAGTGCCA
50654639 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50654662 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
50654685 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
50654707 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50654730 CACTGAT
1 CACTGAT
50654737 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:50654704 original size:45 final size:45
Alignment explanation
Indices: 50654646--50654734 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
50654636 CCACACTGAT
* *
50654646 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
50654691 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
50654735 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:50662034 original size:23 final size:23
Alignment explanation
Indices: 50662008--50662105 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
50661998 ATAAGTGCCA
50662008 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50662031 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
50662054 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
50662076 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50662099 CACTGAT
1 CACTGAT
50662106 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Done.