Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 134 of 135
Found at i:47934024 original size:124 final size:124
Alignment explanation
Indices: 47933756--47934686 Score: 1416
Period size: 124 Copynumber: 7.5 Consensus size: 124
47933746 NNNNNAGGCT
* * *
47933756 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
47933821 GAAGTG-TTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCT
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * * *
47933879 ACTGTAGAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
47933944 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
*
47934003 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
47934068 GAAGCGTCTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTTTTTTTTAGGACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * *
47934127 ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
*
47934192 GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTT-AGGACCA
* * * * *
47934252 ACTGTAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
** * *
47934317 GAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCT
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * * *
47934376 ACTGTAGAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
* * *
47934441 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
* * *
47934500 A-TGTAGCAAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCT
1 ACTGTAGC-AAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACT
*
47934564 TGAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCA
65 TGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTT-AGGACCA
* * * *
47934625 ACTGTAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
47934687 TTTTGATTTT
Statistics
Matches: 736, Mismatches: 67, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
123 70 0.10
124 488 0.66
125 172 0.23
126 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAGGACCA
Found at i:47934382 original size:249 final size:248
Alignment explanation
Indices: 47933756--47934686 Score: 1470
Period size: 249 Copynumber: 3.8 Consensus size: 248
47933746 NNNNNAGGCT
* * * *
47933756 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
* *
47933821 GAAGTG-TTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCTACTGTA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCAACTGTA
47933885 GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
131 GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
47933950 TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
196 TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
47934003 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
* * * *
47934068 GAAGCGTCTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTTTTTTTTAGGACCAACTGTA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCAACTGTA
* * * * * * *
47934133 GCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTTGAAGCG
131 GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
* * * *
47934198 TTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCA
196 TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTT-AGAACCA
* * * *
47934252 ACTGTAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
** *
47934317 GAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCTACTGTA
66 GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCAACTGTA
47934382 GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
131 GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
47934447 TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
196 TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
* *
47934500 A-TGTAGCAAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCT
1 ACTGTAGC-AAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCT
*
47934564 TGAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTG
65 TGAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAGGACCAACTG
* ** * * * * *
47934629 TAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
129 TAGAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTA
47934687 TTTTGATTTT
Statistics
Matches: 623, Mismatches: 57, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
247 72 0.12
248 257 0.41
249 294 0.47
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (248 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
GAAGCGTTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCAACTGTA
GAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCG
TTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
Found at i:47934444 original size:373 final size:373
Alignment explanation
Indices: 47933756--47934686 Score: 1526
Period size: 373 Copynumber: 2.5 Consensus size: 373
47933746 NNNNNAGGCT
* * * * * *
47933756 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
* * *
47933821 GAAGTG-TTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAGGACCTACTGT
66 GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTGT
* ** * * * * *
47933884 AGAAAAAACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGC
131 AGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTTGAAGC
* * *
47933949 GTTTTTTATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCAACTGTAGCAAA
196 GTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTCAGAACCAACTGTAGAAAA
* * * *
47934014 AGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTCTTT
261 AACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCGTCTTT
** * *
47934079 TATACTATTTGCTCAGAAACGTCAACTCGAAATTTTTTTTTAGGACCA
326 TATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTAGAACCA
47934127 ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
47934192 GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTGT
66 GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTGT
*
47934257 AGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTTGAAGC
131 AGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTTGAAGC
* * *
47934322 GTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCAGGACCTACTGTAGAAAA
196 GTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTCAGAACCAACTGTAGAAAA
*
47934387 AACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCGTTTTT
261 AACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCGTCTTT
*
47934452 TATACTATTCACTCAGAAACGTCAACTTGAAATTATTTTTTAGAACCA
326 TATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTAGAACCA
47934500 A-TGTAGCAAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCT
1 ACTGTAGC-AAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCT
47934564 TGAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTG
65 TGAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTG
47934629 TAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
130 TAGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTA
47934687 TTTTGATTTT
Statistics
Matches: 522, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
371 64 0.12
372 44 0.08
373 414 0.79
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (373 bp):
ACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCTTGCTT
GAAGCGTTTTTTATACTATTCGCTCAAAAACGTCAACTCGAAATTATTTTTTCAGGACCAACTGT
AGCAAAAGTGCGTCTATGTGGGCTCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTTGAAGC
GTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTCAGAACCAACTGTAGAAAA
AACGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTACTTGAAGCGTCTTT
TATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTAGAACCA
Found at i:47934846 original size:22 final size:21
Alignment explanation
Indices: 47934806--47934851 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
47934796 TTTTCTCTAA
**
47934806 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACCCCAAA-CCT
47934828 AACCCTAAAAACCCCAAACCT
1 AACCCTAAAAACCCCAAACCT
47934849 AAC
1 AAC
47934852 GTGGAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (21 bp):
AACCCTAAAAACCCCAAACCT
Found at i:47935293 original size:19 final size:19
Alignment explanation
Indices: 47935268--47935313 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
47935258 TTTTTTAAAT
47935268 ATTAAAAGTT-TAAAAAAA
1 ATTAAAAGTTCTAAAAAAA
*
47935286 AGTTAAAAATTCTAAAAAAA
1 A-TTAAAAGTTCTAAAAAAA
47935306 ATTAAAAG
1 ATTAAAAG
47935314 AATATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
ATTAAAAGTTCTAAAAAAA
Found at i:47938418 original size:47 final size:46
Alignment explanation
Indices: 47938296--47938473 Score: 257
Period size: 46 Copynumber: 3.8 Consensus size: 46
47938286 ACAAGGCTAT
* *
47938296 AACTCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * * *
47938342 AACTCATTATGGTTTTCTTTACCGAAATACCATACATACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
47938388 AACATCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AAC-TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
47938435 AACTTAGTATGGTTTTCTTCAATGGAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
47938474 ATTACACACT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 77 0.65
47 41 0.35
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:47938464 original size:93 final size:93
Alignment explanation
Indices: 47938299--47938469 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
47938289 AGGCTATAAC
* * *
47938299 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCATTATGGTTTTCTTTAC
1 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
47938364 CGAAATACCATACATACTTTTCACAACA
66 CGAAATACCATACATACTTTTCACAACA
* ** *
47938392 TCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCACAACTTAGTATGGTTTTCTTCAA
1 TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
* *
47938457 TGGAATACCATAC
66 CGAAATACCATAC
47938470 CTACATTACA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (93 bp):
TCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCAA
CGAAATACCATACATACTTTTCACAACA
Found at i:47939754 original size:16 final size:17
Alignment explanation
Indices: 47939708--47939755 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
47939698 AAATTCTTTT
47939708 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
47939725 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
47939742 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
47939756 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:47950770 original size:16 final size:16
Alignment explanation
Indices: 47950735--47950781 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47950725 AAAATCATGA
*
47950735 TTATTGATA-AAAATAT
1 TTATTGATATAAAA-AG
47950751 TTATAT-ATATAAAAAG
1 TTAT-TGATATAAAAAG
47950767 TTATTGATATAAAAA
1 TTATTGATATAAAAA
47950782 AATTGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
TTATTGATATAAAAAG
Found at i:47957989 original size:22 final size:20
Alignment explanation
Indices: 47957957--47957999 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
47957947 ATATGAGAAA
47957957 ATTTATA-TTTTAATATAATT
1 ATTTATATTTTTAA-ATAATT
47957977 ATTTATAACTTTTTAAATAATT
1 ATTTAT-A-TTTTTAAATAATT
47957999 A
1 A
47958000 ATGCAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 7 0.35
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATATTTTTAAATAATT
Found at i:47958367 original size:21 final size:20
Alignment explanation
Indices: 47958329--47958367 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47958319 GTTCAAATTG
*
47958329 AATTAAATTTTAACCATTCA
1 AATTAAATTTTAAACATTCA
*
47958349 AATTTAATTTTAGAACATT
1 AATTAAATTTTA-AACATT
47958368 GATTTTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
AATTAAATTTTAAACATTCA
Found at i:47958554 original size:20 final size:18
Alignment explanation
Indices: 47958531--47958570 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
47958521 AAAACAAAGC
47958531 ATAAAAATTATAATAAAATA
1 ATAAAAATT-TAA-AAAATA
47958551 ATAAAAATTTAAAAAATA
1 ATAAAAATTTAAAAAATA
47958569 AT
1 AT
47958571 TCATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAATTTAAAAAATA
Found at i:47975452 original size:107 final size:107
Alignment explanation
Indices: 47975266--47975485 Score: 404
Period size: 107 Copynumber: 2.1 Consensus size: 107
47975256 TATGGCTGAA
* * *
47975266 TCTGGAGAAGTTACATTAGTTTGTTTAAAAAGCCCAGAAGTTAAATCCTAACTTTAGAAATCGAG
1 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
47975331 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
66 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
47975373 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
1 TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
47975438 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
66 AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
*
47975480 TTTGGA
1 TCTGGA
47975486 AATTTCGCAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (107 bp):
TCTGGAGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACCGAG
AATTTCGAAAATAATATTTTTAGCAAAATACTTACTTGTTAT
Found at i:47975929 original size:38 final size:38
Alignment explanation
Indices: 47975878--47976035 Score: 298
Period size: 38 Copynumber: 4.2 Consensus size: 38
47975868 GGTCCTAAGT
47975878 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
47975916 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
47975954 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
* *
47975992 TAGAAGATTACCTGAAACATATTAATAAACAAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
47976030 TAGAAG
1 TAGAAG
47976036 CTCAGTGTGT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 118 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.22
Consensus pattern (38 bp):
TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
Found at i:47979959 original size:1 final size:1
Alignment explanation
Indices: 47979901--47979942 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
47979891 AACAGTGGCT
**
47979901 GGGGGGGGGTTGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
47979943 AGCAAAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.95, T:0.05
Consensus pattern (1 bp):
G
Found at i:47992639 original size:30 final size:31
Alignment explanation
Indices: 47992604--47992671 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
47992594 TTTTTTTTGT
* *
47992604 CTAATTTGATACTTAAACTTATAC-TTT-CTC
1 CTAATTTGAAACCTAAACTT-TACATTTACTC
*
47992634 CTAATTTGAAACCTAAACTTTACATTTATTC
1 CTAATTTGAAACCTAAACTTTACATTTACTC
47992665 CTAATTT
1 CTAATTT
47992672 AGTATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 21 0.64
31 9 0.27
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (31 bp):
CTAATTTGAAACCTAAACTTTACATTTACTC
Found at i:47993887 original size:11 final size:11
Alignment explanation
Indices: 47993871--47993895 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47993861 ATGTTGTTTT
47993871 AAAAAATTTGC
1 AAAAAATTTGC
47993882 AAAAAATTTGC
1 AAAAAATTTGC
47993893 AAA
1 AAA
47993896 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAAAATTTGC
Found at i:48002717 original size:25 final size:25
Alignment explanation
Indices: 48002675--48002737 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
48002665 TTAAGTGTTT
* *
48002675 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
48002700 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
48002725 TCAGGATATACTA
1 TCAGTATATACTA
48002738 TCAAAGATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:48007537 original size:16 final size:16
Alignment explanation
Indices: 48007516--48007547 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48007506 ATTTGTTACT
48007516 TAGATTTTTTTTTGTC
1 TAGATTTTTTTTTGTC
48007532 TAGATTTTTTTTTGTC
1 TAGATTTTTTTTTGTC
48007548 CAATTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (16 bp):
TAGATTTTTTTTTGTC
Found at i:48007553 original size:15 final size:16
Alignment explanation
Indices: 48007517--48007553 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48007507 TTTGTTACTT
*
48007517 AGATTTTTTTTTGTCT
1 AGATTTTTTTTTGTCC
48007533 AGATTTTTTTTTGTCC
1 AGATTTTTTTTTGTCC
48007549 A-ATTT
1 AGATTT
48007554 GATACTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.16, C:0.08, G:0.11, T:0.65
Consensus pattern (16 bp):
AGATTTTTTTTTGTCC
Found at i:48012346 original size:44 final size:44
Alignment explanation
Indices: 48012258--48012347 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
48012248 CGAAAAAAAT
* * *
48012258 AATAATAAATAATTTATAATACAAATGAAATATATTATGCATAA
1 AATAATAAATAATATATAACACAAAAGAAATATATTATGCATAA
* *
48012302 AATAATAAATGATATATAACATAAAAGCAAATAT-TTGATG-ATAA
1 AATAATAAATAATATATAACACAAAAG-AAATATATT-ATGCATAA
48012346 AA
1 AA
48012348 GATAATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 30 0.77
45 9 0.23
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (44 bp):
AATAATAAATAATATATAACACAAAAGAAATATATTATGCATAA
Found at i:48024241 original size:16 final size:16
Alignment explanation
Indices: 48024222--48024265 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
48024212 ACAAAAATGG
*
48024222 AAGGGTAGAAAATTGA
1 AAGGGTAGAAAATTAA
*
48024238 AAGGGTATAAAATTAA
1 AAGGGTAGAAAATTAA
*
48024254 AAGGATAGAAAA
1 AAGGGTAGAAAA
48024266 CATAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (16 bp):
AAGGGTAGAAAATTAA
Found at i:48027097 original size:70 final size:70
Alignment explanation
Indices: 48026984--48027121 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 70
48026974 CAAACAGCAC
48026984 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
48027049 ATTGG
66 ATTGG
* *
48027054 AAGACCTGATATAGCTTTTGTTGTAAACTTGTTATCAAGATTTAGTTTTTCTCCAACACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
48027119 ATT
66 ATT
48027122 AGAATGGAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (70 bp):
AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
ATTGG
Found at i:48035811 original size:16 final size:18
Alignment explanation
Indices: 48035785--48035818 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
48035775 TTTAATTAGA
48035785 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
48035802 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
48035819 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:48036072 original size:10 final size:10
Alignment explanation
Indices: 48036057--48036092 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
48036047 TCTAATTTCA
48036057 TCATTTATAT
1 TCATTTATAT
48036067 TCATTTATAT
1 TCATTTATAT
48036077 TCATTTATAT
1 TCATTTATAT
*
48036087 TTATTT
1 TCATTT
48036093 GTTTCTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
TCATTTATAT
Found at i:48040000 original size:17 final size:17
Alignment explanation
Indices: 48039978--48040012 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48039968 CACCAAAGTA
48039978 TATATATTATGGAACTG
1 TATATATTATGGAACTG
48039995 TATATATTATGGAACTG
1 TATATATTATGGAACTG
48040012 T
1 T
48040013 TTGGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (17 bp):
TATATATTATGGAACTG
Found at i:48042858 original size:3 final size:3
Alignment explanation
Indices: 48042845--48042902 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
48042835 ATTACTTAAC
* * * * * * *
48042845 TAT TTT TAT TAT TAT TGT TAT TAT TAT TAA TGT TAC TAT AAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48042893 TAT TAT TAT T
1 TAT TAT TAT T
48042903 TGTATTAGTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:48044892 original size:17 final size:17
Alignment explanation
Indices: 48044867--48044931 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
48044857 GCATAACCCT
48044867 TAACCCCTAAATCCCCC
1 TAACCCCTAAATCCCCC
* **
48044884 TAACACCTAAAGCATAACCC
1 TAACCCCT-AA--ATCCCCC
*
48044904 TAACCCCTAAATCCCCT
1 TAACCCCTAAATCCCCC
*
48044921 TAACTCCTAAA
1 TAACCCCTAAA
48044932 GCATAACCCC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 21 0.57
18 2 0.05
19 2 0.05
20 12 0.32
ACGTcount: A:0.37, C:0.42, G:0.02, T:0.20
Consensus pattern (17 bp):
TAACCCCTAAATCCCCC
Found at i:48044908 original size:37 final size:37
Alignment explanation
Indices: 48044838--48044940 Score: 154
Period size: 37 Copynumber: 2.7 Consensus size: 37
48044828 CCATAACCCT
48044838 ATCCCCCTTAACCCTTAAAGCATAACCCTTAACCCCTAA
1 ATCCCCC-TAACCC-TAAAGCATAACCCTTAACCCCTAA
48044877 ATCCCCCTAACACCTAAAGCATAACCC-TAACCCCTAA
1 ATCCCCCTAAC-CCTAAAGCATAACCCTTAACCCCTAA
*
48044914 ATCCCCTTAACTCCTAAAGCATAACCC
1 ATCCCCCTAAC-CCTAAAGCATAACCC
48044941 CTAAACCACA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
37 35 0.57
38 17 0.28
39 9 0.15
ACGTcount: A:0.35, C:0.42, G:0.03, T:0.20
Consensus pattern (37 bp):
ATCCCCCTAACCCTAAAGCATAACCCTTAACCCCTAA
Found at i:48045361 original size:114 final size:114
Alignment explanation
Indices: 48045155--48045422 Score: 430
Period size: 114 Copynumber: 2.4 Consensus size: 114
48045145 TATTTTGAAT
* *
48045155 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGGCGC
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
* *
48045220 CGTTGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAATGCCGCTAAAG
66 CGTTGGGCTTAGTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
* * * *
48045269 CCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGGAAACGACAT
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
*
48045334 CGTTGGGCTTAGGTTTTT-TTGCAGCGCTTTCTCAAAAACGCCGCTAAAG
66 CGTTGGGCTTA-GTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
*
48045383 CCATGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
48045423 GCCCTGATCA
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 136 0.96
115 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (114 bp):
CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
CGTTGGGCTTAGTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
Found at i:48045402 original size:41 final size:41
Alignment explanation
Indices: 48045357--48045463 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
48045347 TTTTTTTGCA
48045357 GCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCG
1 GCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCG
* * * *
48045398 GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGATCATTAGTG
1 GCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCG
* * *
48045439 GCACTTCCTGAAAAACGCCGCTAAA
1 GCGCTTTCTCAAAAACGCCGCTAAA
48045464 TCCCCAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (41 bp):
GCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCG
Found at i:48045457 original size:155 final size:156
Alignment explanation
Indices: 48045240--48045578 Score: 491
Period size: 156 Copynumber: 2.2 Consensus size: 156
48045230 AGTTTTTCTT
** * * *
48045240 GCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
* ** * **
48045305 TAAATCCCC-GAAAGCTCAGGAAACGACATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAA
66 TAAATCCCCAAAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAA
*
48045369 AAACGCCGCTAAAGCCATGAGCATTA
131 AAACGCCACTAAAGCCATGAGCATTA
* *
48045395 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGATCATTAGTGGCACTTCCTGAAAAACGCCGC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
* * *
48045460 TAAATCCCCAAAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
66 TAAATCCCCAAAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAA
*
48045525 AAACGCCACTAAAGCCCTGAGCATTA
131 AAACGCCACTAAAGCCATGAGCATTA
* *
48045551 GCGACACTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
48045579 TCCACGAAAG
Statistics
Matches: 163, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
155 67 0.41
156 96 0.59
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (156 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
TAAATCCCCAAAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAA
AAACGCCACTAAAGCCATGAGCATTA
Found at i:48045723 original size:73 final size:70
Alignment explanation
Indices: 48045557--48045724 Score: 189
Period size: 73 Copynumber: 2.3 Consensus size: 70
48045547 ATTAGCGACA
*
48045557 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTTAGGCATCGTTGGGCTTAGGTTTTTTTAGCA
1 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTAAGGCATCGTTGGGCTTAGGTTTTTTTAGC-
48045622 TTAGAGCG
65 --AGAGCG
* **
48045630 CGTTCTTAAAAACGTTGCTAAATCCACGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCT-----AA-GGCATCGTTGGGCTTAGGTTTTT
48045695 TT-GC-G-GCG
60 TTAGCAGAGCG
*
48045703 CTTTCTCAAAAACGCCGCTAAA
1 CTTTCTTAAAAACGCCGCTAAA
48045725 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
73 52 0.64
74 1 0.01
78 3 0.04
79 25 0.31
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (70 bp):
CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTAAGGCATCGTTGGGCTTAGGTTTTTTTAGCA
GAGCG
Found at i:48045867 original size:114 final size:112
Alignment explanation
Indices: 48045618--48045947 Score: 507
Period size: 113 Copynumber: 2.9 Consensus size: 112
48045608 AGGTTTTTTT
* ** *
48045618 AGCATTAGAGCGCGTTCTTAAAAACGTTGCTAAATCCACGAAAGCTCAGAAAACGGCATCGTTGG
1 AGCATTAGAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTGG
*
48045683 GCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTG
66 GCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
* * * *
48045731 AGCATTAGCAGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAGCATCGTTA
1 AGCATTAG-AGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTG
48045796 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
65 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
* *
48045844 AGCATTAGATGCGCTTTCTTAAAAATGCCGCTAAATCCACGAAAGCTCAGAAAACATCATCGTTG
1 AGCATTAGA-GCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTG
* *
48045909 GGCTTAGGTTTTTCTGCGGCGCTTTCTTAAAAACACTGC
65 GGCTTAGGTTTTT-TGCGGCGCTTTCTCAAAAACGCTGC
48045948 GAAATCCCCG
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 117 0.59
114 79 0.40
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (112 bp):
AGCATTAGAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTGG
GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
Found at i:48045939 original size:300 final size:299
Alignment explanation
Indices: 48045395--48045982 Score: 774
Period size: 300 Copynumber: 2.0 Consensus size: 299
48045385 ATGAGCATTA
* * ** *
48045395 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGATCATTAGTGGCACTTCCTGAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTAAAAAACGCCGC
* * *
48045460 TAAATCCCCAAAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
66 TAAATCCCCAAAAAGCTCAAAAAACAGCATCGTTAGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
48045525 AAACGCCACTAAAGCCCTGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAATCCACGAAAGC
131 AAACGCCACTAAAGCCCTGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAATCCACGAAAGC
* * ** *
48045590 TTAGGCATCGTTGGGCTTAGGTTTTTTTAGCATTAGAGCGCGTTCTTAAAAACGTTGCTAAATCC
196 TCAGGCATCGTTGGGCTTAGGTTTTTCTAGC---AGAGCGCGTTCTTAAAAACACTGCGAAATCC
48045655 ACGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
258 ACGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
* *
48045697 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTTCTAAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTAAAAAACGCCGC
* * **
48045762 TAAATCCCC-GAAAGCTCACAAAACAGCATCGTTAGGCTTAGGTTT-TTTGCGGCGCTTTCTCAA
66 TAAATCCCCAAAAAGCTCAAAAAACAGCATCGTTAGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
** * * *
48045825 AAACGCTGCTAAAGCCCTGAGCATTAGATG-CGCTTTCTTAAAAATGCCGCTAAATCCACGAAAG
131 AAACGCCACTAAAGCCCTGAGCATTAG-CGACACTTTCTTAAAAACGCCGCTAAATCCACGAAAG
* *
48045889 CTCAGAAAACATCATCGTTGGGCTTAGGTTTTTCT-GC-G-GCGCTTTCTTAAAAACACTGCGAA
195 CTCAG------GCATCGTTGGGCTTAGGTTTTTCTAGCAGAGCGCGTTCTTAAAAACACTGCGAA
* * * *
48045951 ATCCCCGAAAGCTCGGTAAACGGCATTGTTGG
254 ATCCACGAAAGCTCAGAAAACGGCATCGTTGG
48045983 TGATACGAGT
Statistics
Matches: 249, Mismatches: 30, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
300 125 0.50
301 33 0.13
302 67 0.27
305 2 0.01
306 22 0.09
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (299 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTAAAAAACGCCGC
TAAATCCCCAAAAAGCTCAAAAAACAGCATCGTTAGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
AAACGCCACTAAAGCCCTGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAATCCACGAAAGC
TCAGGCATCGTTGGGCTTAGGTTTTTCTAGCAGAGCGCGTTCTTAAAAACACTGCGAAATCCACG
AAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
Found at i:48049000 original size:43 final size:42
Alignment explanation
Indices: 48048920--48049007 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 42
48048910 GAATAACCAA
*
48048920 AAAAAAATTGAAAATGAAAATCTAATTAAAAACTTTAAAATAT
1 AAAAAAATTGAAAATGAAAATCT-ATTAAAAACTTTAAAAGAT
48048963 AAAAAAATGTGAAAATATGAAAAT-T-TTAGAAAA-TTTAAAAGAT
1 AAAAAAAT-TG-AAA-ATGAAAATCTATTA-AAAACTTTAAAAGAT
48049006 AA
1 AA
48049008 TTTTATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
43 22 0.55
44 6 0.15
45 4 0.10
46 8 0.20
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (42 bp):
AAAAAAATTGAAAATGAAAATCTATTAAAAACTTTAAAAGAT
Found at i:48051352 original size:34 final size:34
Alignment explanation
Indices: 48051314--48051382 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
48051304 TAAAATCATC
*
48051314 AATTAAGTGAAACAGTGAATCACCATGTATTTTT
1 AATTAAGTGAAACAGTGAACCACCATGTATTTTT
* *
48051348 AATTAGGTGAAATAGTGAACCACCATGTATTTTT
1 AATTAAGTGAAACAGTGAACCACCATGTATTTTT
48051382 A
1 A
48051383 GTTTCTATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (34 bp):
AATTAAGTGAAACAGTGAACCACCATGTATTTTT
Found at i:48056790 original size:13 final size:13
Alignment explanation
Indices: 48056772--48056798 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48056762 TGAATTGATA
48056772 TGTGTGAAAATTT
1 TGTGTGAAAATTT
48056785 TGTGTGAAAATTT
1 TGTGTGAAAATTT
48056798 T
1 T
48056799 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:48059860 original size:13 final size:13
Alignment explanation
Indices: 48059842--48059866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48059832 ACAAACGATA
48059842 AAATTTTCACACG
1 AAATTTTCACACG
48059855 AAATTTTCACAC
1 AAATTTTCACAC
48059867 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:48063198 original size:21 final size:20
Alignment explanation
Indices: 48063173--48063214 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48063163 TTATAATCAG
*
48063173 AGAGTGTCACATCAAGTTTTA
1 AGAGTGTCAC-TAAAGTTTTA
*
48063194 AGAGTTTCACTAAAGTTTTA
1 AGAGTGTCACTAAAGTTTTA
48063214 A
1 A
48063215 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (20 bp):
AGAGTGTCACTAAAGTTTTA
Found at i:48068145 original size:49 final size:49
Alignment explanation
Indices: 48068038--48068221 Score: 174
Period size: 49 Copynumber: 3.8 Consensus size: 49
48068028 AACTTAGGCT
* * * * * * * * *
48068038 CCCAGTTCACAGTGGTTATACGGTCAC-AGGTTGAAGCATAAATAGAGCG
1 CCCAGTTGACGGTGGTTATGCAGTCACGA-GTTCAAGTATAACTCGAGCC
* *
48068087 CCCAATTGACGGTGGTTATGCAGTCACGAGTTCAGGTATAACTCGAGCC
1 CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
* * * *
48068136 CCCAGTTGACAGTGGTTATGCAATCATGGGTTCAAGTATAACTCG-GCC
1 CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
* * *
48068184 CCCCGATTGACGGTGGTTATGCGGTCGCGAGTTCAAGT
1 CCCAG-TTGACGGTGGTTATGCAGTCACGAGTTCAAGT
48068222 TTCATGCTAC
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
48 7 0.06
49 101 0.93
50 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (49 bp):
CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
Found at i:48068814 original size:49 final size:49
Alignment explanation
Indices: 48068735--48068879 Score: 164
Period size: 49 Copynumber: 3.0 Consensus size: 49
48068725 GTGGCATGAA
* *
48068735 ACTTGAACTCGTGACCACATAATCACCGTCAACTGGGGGCCCGAGTTAT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
* * * * * *
48068784 ACTTGAACCCGTGACTGCATAACCATCGTCAACTGGGTGTCCTAGTTAT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
* * * * * *
48068833 ACTTCAACTCGTGACTATATAATCACCGTGAATTGGGGGCTCGAGTT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTT
48068880 GCAATGCAAC
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (49 bp):
ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
Found at i:48099288 original size:29 final size:29
Alignment explanation
Indices: 48099232--48099292 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
48099222 CATATTCTAT
* *
48099232 TATGAAAAGTTACAAAATGATCACCCAAC
1 TATGAAAAGTCACAAAATGACCACCCAAC
* * *
48099261 TATGAAAAGTCATAAAATGGCCATCCAAC
1 TATGAAAAGTCACAAAATGACCACCCAAC
48099290 TAT
1 TAT
48099293 TCAATTTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (29 bp):
TATGAAAAGTCACAAAATGACCACCCAAC
Found at i:48100087 original size:17 final size:18
Alignment explanation
Indices: 48100065--48100102 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48100055 ATGCATCAAA
*
48100065 TTTTCTC-CATCAATTCT
1 TTTTCTCTCATAAATTCT
48100082 TTTTCTCTCATAAATTCT
1 TTTTCTCTCATAAATTCT
48100100 TTT
1 TTT
48100103 CTAGTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTCTCTCATAAATTCT
Found at i:48112891 original size:13 final size:13
Alignment explanation
Indices: 48112873--48112908 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
48112863 TTTAAAACCC
*
48112873 TAAATATTTTTAT
1 TAAATATTTATAT
48112886 TAAATATTTATAT
1 TAAATATTTATAT
48112899 TAAATATTTA
1 TAAATATTTA
48112909 CAGAGTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:48116330 original size:23 final size:23
Alignment explanation
Indices: 48116298--48116348 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
48116288 TTTTGTAAAT
48116298 TAAAT-CACCAAGGTTAAAATTG
1 TAAATGCACCAAGGTTAAAATTG
48116320 TAAATGCACCAAGGTTAAAATTG
1 TAAATGCACCAAGGTTAAAATTG
48116343 TAAATG
1 TAAATG
48116349 ATGTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (23 bp):
TAAATGCACCAAGGTTAAAATTG
Found at i:48118003 original size:43 final size:43
Alignment explanation
Indices: 48117933--48118077 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
48117923 ATTGATTTGA
* * *
48117933 GATTTACGTGTAA-ACCATGTCTGGGACATTGGCGTCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* * *
48117975 GATTAACGTGTAAGACCATGCCTAGGACACTGGCATCATATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* * * *
48118018 GATTTACGTGTAAGATTC-TGTCTAGGACAGTGACATCGATATTT
1 GATTTACGTGTAAGA-CCATGTCTAGGACACTGGCATCG-TATAT
48118062 GA-TTACGTGTAAGACC
1 GATTTACGTGTAAGACC
48118078 TCGTTTGGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 13 0.15
43 66 0.77
44 7 0.08
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
Found at i:48124101 original size:31 final size:30
Alignment explanation
Indices: 48124045--48124115 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
48124035 AAATATGGAC
*
48124045 TTAAATT-TAAAAATTTTAAAAATAGAGAG
1 TTAAATTCTAAAAATTTAAAAAATAGAGAG
*
48124074 ATTAAATTCTTAAAA-TTAAAAATATAGAGAG
1 -TTAAATTCTAAAAATTTAAAAA-ATAGAGAG
48124105 -TAAATTCTAAA
1 TTAAATTCTAAA
48124116 TTTTGGCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 10 0.28
30 13 0.36
31 13 0.36
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (30 bp):
TTAAATTCTAAAAATTTAAAAAATAGAGAG
Found at i:48131558 original size:21 final size:20
Alignment explanation
Indices: 48131530--48131570 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
48131520 ATTATTATTA
48131530 AATAAATTTTAT-AATTTTTT
1 AATAAATTTT-TGAATTTTTT
48131550 AATATAATTTTTGAATTTTTT
1 AATA-AATTTTTGAATTTTTT
48131571 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
AATAAATTTTTGAATTTTTT
Found at i:48135309 original size:43 final size:43
Alignment explanation
Indices: 48135261--48135390 Score: 103
Period size: 43 Copynumber: 3.2 Consensus size: 43
48135251 TATTTTTTAT
48135261 ATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACA
1 ATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACA
*** * **** **
48135304 ATATTAA----AAAAAATAATCAA-TCAAATCCTATT--TTTTA
1 ATATTAATGTTAAATTCTAA-AAATTCAAAAAAAATTAATTACA
*
48135341 TTATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACA
1 ATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACA
48135384 ATATTAA
1 ATATTAA
48135391 AAAAAATAAT
Statistics
Matches: 57, Mismatches: 22, Indels: 16
0.60 0.23 0.17
Matches are distributed among these distances:
37 9 0.16
39 14 0.25
40 4 0.07
41 14 0.25
43 16 0.28
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (43 bp):
ATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACA
Found at i:48135347 original size:80 final size:81
Alignment explanation
Indices: 48135251--48135411 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 81
48135241 ATTATAATAA
48135251 TATTTTTTATATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACAATATTAAAAAAA
1 TATTTTTTATATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACAATATTAAAAAAA
48135316 ATAATCAATCAAATCC
66 ATAATCAATCAAATCC
48135332 TATTTTTTAT-TATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACAATATTAAAAAAA
1 TATTTTTTATATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACAATATTAAAAAAA
48135396 ATAATCAATCAAATCC
66 ATAATCAATCAAATCC
48135412 CAAAATAAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 70 0.88
81 10 0.12
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (81 bp):
TATTTTTTATATATTAATGTTAAATTCTAAAAATTCAAAAAAAATTAATTACAATATTAAAAAAA
ATAATCAATCAAATCC
Found at i:48148359 original size:155 final size:154
Alignment explanation
Indices: 48148013--48148641 Score: 693
Period size: 155 Copynumber: 4.1 Consensus size: 154
48148003 GGATGTTCCA
* * * **
48148013 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGA-T-T
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTT-TTTAATAAGTCAAGATTAT
* * * *
48148076 -ACTGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAG-TTAGGGTTT
65 AATTGAATTTCAACCCTTCCAAG-AAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTT
* *
48148139 ACCCTAATTTGTATAGCTATGTGGTG
129 ACCCTAATTTGTATAACTATGTTGTG
* * * *
48148165 GAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATCATA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
* *
48148230 ATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCATTGCCAAATAGTTTAGAGTTTA
66 ATTGAATTTCAACCCTTCCAAGAAA-ATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTA
* **
48148295 CCCTTATTTGTATAACTACATTGTG
130 CCCTAATTTGTATAACTATGTTGTG
* **
48148320 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAA-ACATGTCAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATA-A-GTCAAGATTA
* * * *
48148384 TAATTGAA-TTCTGACCCTT--AAAAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGAT
64 TAATTGAATTTC-AACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGT
* * * *
48148446 TTACTC-AATTTTTATAGCTATGTTATG
127 TTACCCTAATTTGTATAACTATGTTGTG
* ** * * *
48148473 AAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGTAATATAATTTAATACG-CTAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGT-TTTTAATAAGTC-AAGATTA
* * * ** *
48148537 TAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATTCACCCATGGCCAAATAGTTTAGGGTT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* *
48148602 TACCCTAATTTGTATAATTGTGTTGTG
128 TACCCTAATTTGTATAACTATGTTGTG
48148629 AAAATTGTATAAG
1 AAAATTGTATAAG
48148642 TTTGATTAAA
Statistics
Matches: 402, Mismatches: 59, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
151 13 0.03
152 42 0.10
153 81 0.20
154 95 0.24
155 120 0.30
156 51 0.13
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (154 bp):
AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
ATTGAATTTCAACCCTTCCAAGAAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTAC
CCTAATTTGTATAACTATGTTGTG
Found at i:48148606 original size:309 final size:306
Alignment explanation
Indices: 48148013--48148641 Score: 764
Period size: 309 Copynumber: 2.0 Consensus size: 306
48148003 GGATGTTCCA
* * * * *
48148013 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGATTAC
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
* *
48148078 TGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAGTTAGGGTTTACCC
66 TGAATTTCAACCCTT-CAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCC
* * * ** *
48148143 TAATTTGTATAGCTATGTGGTGGAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATG
130 TAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATA
* * * **
48148208 TTTTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCA
195 TATTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCA
* *
48148273 TTGCCAAATAGTTTAGAGTTTACCCTTATTTGTATAACTACATTGTG
260 TGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
* * *
48148320 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAAACATGTCAAGATTAT
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGA-T-T
* * * * *
48148385 AATTGAA-TTCTGACCCTT-AA-AAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATT
64 -ACTGAATTTC-AACCCTTCAAGAAAAA-TTATGAAATTTGCCCATTGCCAAATAG-TTAGGATT
* * * *
48148447 TACTC-AATTTTTATAGCTATGTTATGAAAATTGTATATGAAGTAAATTTACAAGTTTGATTATG
125 TACCCTAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATG
* * * * *
48148511 TAATATAATTTAATACG-CTAAGATTATAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAAT
190 TAATAT-ATTTAATAAGTC-AAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAAT
* * ***
48148575 TCACCCATGGCCAAATAGTTTAGGGTTTACCCTAATTTGTATAATTGTGTTGTG
253 TCACCCATGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
48148629 AAAATTGTATAAG
1 AAAATTGTATAAG
48148642 TTTGATTAAA
Statistics
Matches: 271, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
307 58 0.21
308 83 0.31
309 119 0.44
310 11 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (306 bp):
AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
TGAATTTCAACCCTTCAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCCT
AATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATAT
ATTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCAT
GGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
Found at i:48149235 original size:13 final size:13
Alignment explanation
Indices: 48149217--48149262 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
48149207 GACCTCCTTG
48149217 AATTAAATTATTA
1 AATTAAATTATTA
48149230 AATTAAA--ATT-
1 AATTAAATTATTA
48149240 AATTAAAATTATTA
1 AATT-AAATTATTA
48149254 AA-TAAATTA
1 AATTAAATTA
48149263 AATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 6 0.21
13 11 0.38
14 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Found at i:48149243 original size:23 final size:22
Alignment explanation
Indices: 48149217--48149269 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
48149207 GACCTCCTTG
48149217 AATTAAATTATTAAATTAAAATT-
1 AATTAAATTATTAAA-T-AAATTA
48149240 AATTAAAATTATTAAATAAATTA
1 AATT-AAATTATTAAATAAATTA
48149263 AATTAAA
1 AATTAAA
48149270 ATTAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.29
23 9 0.32
24 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAATTATTAAATAAATTA
Found at i:48149245 original size:10 final size:9
Alignment explanation
Indices: 48149217--48149268 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
48149207 GACCTCCTTG
48149217 AATTAAATT
1 AATTAAATT
48149226 -ATTAAATT
1 AATTAAATT
48149234 -A--AAATT
1 AATTAAATT
48149240 AATTAAAATT
1 AATT-AAATT
*
48149250 -ATTAAATA
1 AATTAAATT
48149258 AATTAAATT
1 AATTAAATT
48149267 AA
1 AA
48149269 AATTAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 5 0.14
7 1 0.03
8 13 0.36
9 12 0.33
10 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:48149256 original size:18 final size:18
Alignment explanation
Indices: 48149218--48149264 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
48149208 ACCTCCTTGA
48149218 ATTAAATT-ATT-AAATT
1 ATTAAATTAATTAAAATT
48149234 A--AAATTAATTAAAATT
1 ATTAAATTAATTAAAATT
*
48149250 ATTAAATAAATTAAA
1 ATTAAATTAATTAAA
48149265 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 7 0.27
18 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATTAAAATT
Found at i:48149270 original size:23 final size:24
Alignment explanation
Indices: 48149217--48149273 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
48149207 GACCTCCTTG
48149217 AATT-AAATTATTAAATTAAAATT
1 AATTAAAATTATTAAATTAAAATT
48149240 AATTAAAATTATTAAA-T-AAATT
1 AATTAAAATTATTAAATTAAAATT
48149262 AAATTAAAATTA
1 -AATTAAAATTA
48149274 AAGAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 16 0.50
24 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTAAAATTATTAAATTAAAATT
Found at i:48151522 original size:20 final size:21
Alignment explanation
Indices: 48151484--48151522 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48151474 CCAGGTCAAA
*
48151484 AAGTATCGATACCTTTTGGCC
1 AAGTATCGATACATTTTGGCC
48151505 AAGTATCGATA-ATTTTGG
1 AAGTATCGATACATTTTGG
48151523 AATTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
AAGTATCGATACATTTTGGCC
Found at i:48153027 original size:29 final size:29
Alignment explanation
Indices: 48152993--48153050 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48152983 TAACATTATT
* *
48152993 TTATATTTATATAT-TACATATATAAATAA
1 TTATATATATATATCTA-ATATAAAAATAA
*
48153022 TTATATATATTTATCTAATATAAAAATAA
1 TTATATATATATATCTAATATAAAAATAA
48153051 ATTGATCTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATATATATATATCTAATATAAAAATAA
Found at i:48166376 original size:147 final size:147
Alignment explanation
Indices: 48166192--48166484 Score: 577
Period size: 147 Copynumber: 2.0 Consensus size: 147
48166182 TTAAGGGCAC
48166192 AATCCTTTAAAGAAAACAATTATTTGACAAACAACAAATAAACATACAGGCTCAAACCAACAACA
1 AATCCTTTAAAGAAAACAATTATTTGACAAACAACAAATAAACATACAGGCTCAAACCAACAACA
48166257 CAATGACCAATACACAGCAATTTGATAAGAAAAGCAATTGCCAAATTCCTCCCCCCCCAAAAAAA
66 CAATGACCAATACACAGCAATTTGATAAGAAAAGCAATTGCCAAATTCCTCCCCCCCCAAAAAAA
48166322 AAAAAAAAAACAAAAAA
131 AAAAAAAAAACAAAAAA
48166339 AATCCTTTAAAGAAAACAATTATTTGACAAACAACAAATAAACATACAGGCTCAAACCAACAACA
1 AATCCTTTAAAGAAAACAATTATTTGACAAACAACAAATAAACATACAGGCTCAAACCAACAACA
48166404 CAATGACCAATACACAGCAATTTGATAAGAAAAGCAATTGCCAAATTCCTCCCCCCCCAAAAAAA
66 CAATGACCAATACACAGCAATTTGATAAGAAAAGCAATTGCCAAATTCCTCCCCCCCCAAAAAAA
*
48166469 AAAAAAGAAACAAAAA
131 AAAAAAAAAACAAAAA
48166485 GAAACCCAGA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.54, C:0.23, G:0.07, T:0.16
Consensus pattern (147 bp):
AATCCTTTAAAGAAAACAATTATTTGACAAACAACAAATAAACATACAGGCTCAAACCAACAACA
CAATGACCAATACACAGCAATTTGATAAGAAAAGCAATTGCCAAATTCCTCCCCCCCCAAAAAAA
AAAAAAAAAACAAAAAA
Found at i:48167911 original size:20 final size:20
Alignment explanation
Indices: 48167886--48167925 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48167876 CGTAAAATGA
*
48167886 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48167906 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
48167926 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48167915 original size:34 final size:35
Alignment explanation
Indices: 48167871--48167937 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
48167861 CAGTAAAATA
* *
48167871 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
48167905 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
48167938 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:48169265 original size:12 final size:12
Alignment explanation
Indices: 48169250--48169296 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
48169240 AAACAGCAAA
48169250 AACAACAAAAAT
1 AACAACAAAAAT
*
48169262 AACAGCAAAAAGT
1 AACAACAAAAA-T
*
48169275 -GCAACAAAAAT
1 AACAACAAAAAT
*
48169286 AACAGCAAAAA
1 AACAACAAAAA
48169297 CAACTCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.68, C:0.17, G:0.09, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:48169284 original size:24 final size:21
Alignment explanation
Indices: 48169241--48169300 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 21
48169231 TAATAGTACA
48169241 AACAGCAAAAACAACAAAAAT
1 AACAGCAAAAACAACAAAAAT
48169262 AACAGCAAAAAGTGCAACAAAAAT
1 AACAGCAAAAA---CAACAAAAAT
48169286 AACAGCAAAAACAAC
1 AACAGCAAAAACAAC
48169301 TCCAAAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.42
24 21 0.58
ACGTcount: A:0.67, C:0.20, G:0.08, T:0.05
Consensus pattern (21 bp):
AACAGCAAAAACAACAAAAAT
Found at i:48172506 original size:24 final size:24
Alignment explanation
Indices: 48172477--48172525 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48172467 AAGATAATTT
48172477 TATAAAGAACCGAACATAGACTAA
1 TATAAAGAACCGAACATAGACTAA
48172501 TATAAAGAACCGAACATAGACTAA
1 TATAAAGAACCGAACATAGACTAA
48172525 T
1 T
48172526 GGGTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.18
Consensus pattern (24 bp):
TATAAAGAACCGAACATAGACTAA
Found at i:48187796 original size:19 final size:19
Alignment explanation
Indices: 48187772--48187837 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
48187762 AAGCTCTTAT
*
48187772 GAGCTTCTGTTCAACTTTC
1 GAGCTTCTGTTCAGCTTTC
* *
48187791 GAGCTTCTGTTTAGCTTTT
1 GAGCTTCTGTTCAGCTTTC
*
48187810 GAGCTTATGTTCAGCTTTC
1 GAGCTTCTGTTCAGCTTTC
*
48187829 AAGCTTCTG
1 GAGCTTCTG
48187838 GTGGCGTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (19 bp):
GAGCTTCTGTTCAGCTTTC
Found at i:48192967 original size:7 final size:7
Alignment explanation
Indices: 48192955--48192981 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48192945 GCCTCAATAA
48192955 TTCAAAT
1 TTCAAAT
48192962 TTCAAAT
1 TTCAAAT
48192969 TTCAAAT
1 TTCAAAT
48192976 TTCAAA
1 TTCAAA
48192982 AATAGATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TTCAAAT
Found at i:48194915 original size:13 final size:13
Alignment explanation
Indices: 48194882--48194915 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48194872 CAATTCAAAC
*
48194882 TAAAAAAAACAAT
1 TAAAAAATACAAT
*
48194895 TAAAAAATACAGT
1 TAAAAAATACAAT
48194908 TAAAAAAT
1 TAAAAAAT
48194916 CATATTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (13 bp):
TAAAAAATACAAT
Found at i:48195023 original size:20 final size:18
Alignment explanation
Indices: 48194998--48195039 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
48194988 ATAATTTCTC
*
48194998 ATAATTTCTTTATTTTTTAT
1 ATAATTT-TTAATTTTTT-T
48195018 ATAATTTTTAATTTTTTT
1 ATAATTTTTAATTTTTTT
48195036 ATAA
1 ATAA
48195040 AAATTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATAATTTTTAATTTTTTT
Found at i:48195050 original size:22 final size:21
Alignment explanation
Indices: 48195000--48195052 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
48194990 AATTTCTCAT
* *
48195000 AATTTCTTTA-TTTTTTATAT
1 AATTTCTTAATTTTTTTATAA
48195020 AATTT-TTAATTTTTTTATAAA
1 AATTTCTTAATTTTTTTAT-AA
48195041 AATTTCTTAATT
1 AATTTCTTAATT
48195053 GTTATTAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 13 0.46
21 6 0.21
22 6 0.21
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTCTTAATTTTTTTATAA
Found at i:48196956 original size:23 final size:23
Alignment explanation
Indices: 48196929--48196981 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
48196919 CTTCGATGGC
* *
48196929 CTTCTTCGAGTGTTCTTTTCA-AT
1 CTTCTTCGAGTGCTCTCTT-AGAT
*
48196952 CTTCTTTGAGTGCTCTCTTAGAT
1 CTTCTTCGAGTGCTCTCTTAGAT
48196975 CTTCTTC
1 CTTCTTC
48196982 TAATTGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.11, C:0.25, G:0.13, T:0.51
Consensus pattern (23 bp):
CTTCTTCGAGTGCTCTCTTAGAT
Found at i:48207133 original size:25 final size:27
Alignment explanation
Indices: 48207079--48207138 Score: 90
Period size: 25 Copynumber: 2.3 Consensus size: 27
48207069 ATTTTCTCAA
*
48207079 AATTTTA-CCAAGGTTAAAATCGTCAT
1 AATTTTATCCAAGGGTAAAATCGTCAT
48207105 AATTTTATCC-AGGGTAAAA-CGTCAT
1 AATTTTATCCAAGGGTAAAATCGTCAT
48207130 AATTTTATC
1 AATTTTATC
48207139 GTAGGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 15 0.47
26 15 0.47
27 2 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (27 bp):
AATTTTATCCAAGGGTAAAATCGTCAT
Found at i:48212876 original size:42 final size:43
Alignment explanation
Indices: 48212769--48212884 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
48212759 CTCGTACAAT
* * * *
48212769 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTAACCAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACCAC
* * *
48212812 GCCACTGTCCCAGACAGGGTCTTACACGTAATC-A-TATACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTA-ACCAC
*
48212854 GCCAATGTCCCAGACATCGTCTTACACGTAA
1 GCCAATGTCCCAGACATGGTCTTACACGTAA
48212885 ATCTCAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 28 0.45
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACCAC
Found at i:48214762 original size:14 final size:14
Alignment explanation
Indices: 48214743--48214778 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
48214733 GTTTGTTTAC
48214743 ATGTAAAAGGTTTT
1 ATGTAAAAGGTTTT
48214757 ATGTAAAAGGTTTT
1 ATGTAAAAGGTTTT
*
48214771 ATGGAAAA
1 ATGTAAAA
48214779 TATTTTCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (14 bp):
ATGTAAAAGGTTTT
Found at i:48216212 original size:21 final size:21
Alignment explanation
Indices: 48216155--48216221 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
48216145 TCACAAAAGT
* * * *
48216155 GTGTCTCTCAACCACTCGGTA
1 GTGTCTTTCAGCCACACGGTC
48216176 GTGTCTTTCAGCCACACGGTC
1 GTGTCTTTCAGCCACACGGTC
*
48216197 GTGTCTCTT-AGTCACACGGTC
1 GTGTCT-TTCAGCCACACGGTC
48216218 GTGT
1 GTGT
48216222 GAACTTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.95
22 2 0.05
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (21 bp):
GTGTCTTTCAGCCACACGGTC
Found at i:48218237 original size:4 final size:4
Alignment explanation
Indices: 48218228--48218252 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
48218218 GGTAAATTGG
48218228 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
48218253 GTCTAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:48219238 original size:42 final size:42
Alignment explanation
Indices: 48219176--48219262 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
48219166 TGCAGATTCT
* * *
48219176 CCACAGTTCATGTGAGCAGCATCGTGTAGCTAACATCTCGAC
1 CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
* *
48219218 CCACAGCTCATGTTAACAGCATCATGTAGCTAACATCTCGGC
1 CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
48219260 CCA
1 CCA
48219263 TTTCACAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (42 bp):
CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
Found at i:48220426 original size:53 final size:53
Alignment explanation
Indices: 48220333--48220436 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
48220323 AAGTGAAAGA
* *
48220333 TGAACCACACAGTCACAGAGAGTTACATGGCCTGGCGACACGG-CTGTGTGACC
1 TGAACCACACAGTCACAGAGAGTTACACGACCTGGCGACACGGTC-GTGTGACC
* * * *
48220386 TGAACCACAC-GATCACAGAGGGTTACACGACTTTGTGACACGGTCGTGTGA
1 TGAACCACACAG-TCACAGAGAGTTACACGACCTGGCGACACGGTCGTGTGA
48220437 ACCTATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 41 0.95
54 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (53 bp):
TGAACCACACAGTCACAGAGAGTTACACGACCTGGCGACACGGTCGTGTGACC
Found at i:48226391 original size:27 final size:27
Alignment explanation
Indices: 48226333--48226399 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
48226323 GGACCACCCC
*
48226333 GTGTTTAATGTTCCAACAGACTATCCT
1 GTGTTTAATGTCCCAACAGACTATCCT
* * * * *
48226360 ATGTTTAATGTCCCATCGGGCTATCTT
1 GTGTTTAATGTCCCAACAGACTATCCT
*
48226387 GTGTTTATTGTCC
1 GTGTTTAATGTCC
48226400 TGTTAGACTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
GTGTTTAATGTCCCAACAGACTATCCT
Found at i:48226678 original size:45 final size:44
Alignment explanation
Indices: 48226610--48226738 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 44
48226600 CTATCACCTA
* *
48226610 ATGTCATAGCATATTTCATCTATGGTCTTACTCATTTCTATCATG
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTT-TATCATG
* * * *
48226655 ATGTCATAACATCTTTTAGCTATGGTCTTACTCATCTTTGTCATG
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCAT-TTTATCATG
* * *
48226700 ACGTCATAGTATCTTTCAACTATGGTTTTACTCATTTTA
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTA
48226739 GGCGTATAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.04
45 66 0.93
46 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (44 bp):
ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTATCATG
Found at i:48229007 original size:18 final size:18
Alignment explanation
Indices: 48228963--48228999 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48228953 TGATTTTAAG
48228963 CCATCAAAACTCCTTGCT
1 CCATCAAAACTCCTTGCT
48228981 CCATCAAAACTCCTTGCT
1 CCATCAAAACTCCTTGCT
48228999 C
1 C
48229000 TTTCAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.05, T:0.27
Consensus pattern (18 bp):
CCATCAAAACTCCTTGCT
Found at i:48229743 original size:22 final size:22
Alignment explanation
Indices: 48229696--48229740 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
48229686 ATGCAATCTT
*
48229696 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
48229718 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
48229741 GATTAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:48230476 original size:3 final size:3
Alignment explanation
Indices: 48230468--48230497 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48230458 TTATCTTTTC
48230468 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48230498 GTTCTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48233971 original size:11 final size:10
Alignment explanation
Indices: 48233957--48234000 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 10
48233947 AAAATATTTA
48233957 AAAAAAAAAG
1 AAAAAAAAAG
48233967 TAAAAAAAAAG
1 -AAAAAAAAAG
48233978 AGAAAAGAAAAG
1 A-AAAA-AAAAG
48233990 AAAAGAAAAAG
1 AAAA-AAAAAG
48234001 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 22 0.73
12 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:48235363 original size:88 final size:88
Alignment explanation
Indices: 48235245--48235430 Score: 255
Period size: 88 Copynumber: 2.1 Consensus size: 88
48235235 GGTGAAACTT
* * *
48235245 CAGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
* * *
48235310 GCAGTGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGACAC
* * * ** *
48235333 CAGCCTTGTCTCTCTGAGCAGCAGTAGAGTAGGTTGAAGTTGGCAGATCTTGTCTTCCTGTACTG
1 CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
48235398 GCAGCGAAGCAGATCGAAGACAC
66 GCAGCGAAGCAGATCGAAGACAC
*
48235421 CAGTCTTATC
1 CAGCCTTATC
48235431 ACCTTGACAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
GCAGCGAAGCAGATCGAAGACAC
Found at i:48235758 original size:101 final size:101
Alignment explanation
Indices: 48235634--48235827 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 101
48235624 GAACCACAAC
* * * *
48235634 GGCGAATCTTACTCTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGATGGCGGATCTTG-TTT
1 GGCGAATCTTACTCTCCTAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAAT-TTGATTT
*
48235698 CCCCGACATTGCAATTAAAAAGATTGAAGCCATAAAT
65 CCCCGACATTGCAATTAAAAAGACTGAAGCCATAAAT
*
48235735 GGCGAATCTTACT-TCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGAATTTGATTT
1 GGCGAATCTTACTCTCC-TAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAATTTGATTT
*
48235799 CCCCGACATTGTAATTAAAAAGACTGAAG
65 CCCCGACATTGCAATTAAAAAGACTGAAG
48235828 ATGACAAATC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
100 6 0.07
101 78 0.93
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (101 bp):
GGCGAATCTTACTCTCCTAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAATTTGATTTC
CCCGACATTGCAATTAAAAAGACTGAAGCCATAAAT
Found at i:48235773 original size:51 final size:49
Alignment explanation
Indices: 48235610--48235778 Score: 142
Period size: 50 Copynumber: 3.4 Consensus size: 49
48235600 TTTGGCATTA
* * *
48235610 CAGTGGAATAGATTGAA-CCACAACGGCGAATCTTACTCTCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACT-TCCTAGCGGTG
* * * ** ** **
48235659 TAGTGGAACAGATTGAAGCCACGATGGCGGATCTTGTTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACTTCCTAG-CGGTG
* ** * *
48235709 CAATTAAAAAGATTGAAGCCATAAATGGCGAATCTTACTTCCTTAGCGGTG
1 CAGTGGAACAGATTGAAGCCA-CAATGGCGAATCTTACTTCC-TAGCGGTG
48235760 CAGTGGAACAGATTGAAGC
1 CAGTGGAACAGATTGAAGC
48235779 TACGACGGCG
Statistics
Matches: 87, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
49 19 0.22
50 34 0.39
51 33 0.38
52 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (49 bp):
CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGCGGTG
Found at i:48235904 original size:44 final size:44
Alignment explanation
Indices: 48235834--48236160 Score: 248
Period size: 44 Copynumber: 7.5 Consensus size: 44
48235824 GAAGATGACA
48235834 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
48235878 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAATC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCAAT
* * * *
48235921 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T--AG-CATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * *
48235962 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *
48236005 AAGTCTTATCTTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGTGGC-A-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAA--AGCCAAT
* *
48236051 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * *
48236095 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAATCCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
48236139 AATCTTATCTCTCTGAATTTGC
1 AATCTTATCTCCCTGAAGTTGC
48236161 TGTAGAGTAG
Statistics
Matches: 221, Mismatches: 42, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 21 0.10
41 9 0.04
42 3 0.01
43 16 0.07
44 138 0.62
45 26 0.12
46 5 0.02
48 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:48236012 original size:84 final size:88
Alignment explanation
Indices: 48235878--48236081 Score: 201
Period size: 84 Copynumber: 2.4 Consensus size: 88
48235868 TAAAGCCAAT
* * * *
48235878 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAATCATAGATCTTATC-TCTCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAAAAGCATAGATCTTATCTTC-CTAAAGT
*
48235941 TGCAGAGA-GCAGA-T-AGCAT-CT
65 TGCAGAGAGGCAGACTAAG-ATGCA
* *
48235962 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGTAAGCA-AG-TCTTATCTTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAA--AAGCATAGATCTTATCTTCCTAAAG
* * *
48236024 TTGTAGTGAGGCAGACTGAAGGTGGCA
64 TTGCAGAGAGGCAGACT-AAGAT-GCA
48236051 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
48236082 AATTAAAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
84 50 0.51
85 10 0.10
86 5 0.05
87 1 0.01
88 2 0.02
89 31 0.31
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAAAAGCATAGATCTTATCTTCCTAAAGTT
GCAGAGAGGCAGACTAAGATGCA
Found at i:48236349 original size:174 final size:172
Alignment explanation
Indices: 48236007--48236352 Score: 380
Period size: 174 Copynumber: 2.0 Consensus size: 172
48235997 AAGTAAGCAA
* *** * *
48236007 GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTGAAGGTGGCAAATCTTATCTCCCTGAAGTTG
1 GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAATTG
* * *
48236072 CAGTGGAGCAAATTAAAGCTAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAATCCA
66 CAGTGGAGCAAACTAAA-CTAAAAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATCCA
* * **
48236137 CAAATCTTATCTCTCTGAATTTGCTGTAGAGTAGATCACATCGG
130 CAAATCTTATCTCGCTGAATTTGC-GCAGAACAGATCACATCGG
*
48236181 GTCTTATC-TCCTTGAAGTTGTAGTG-GAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAAT
1 GTCTTATCTTCC-TGAAGTTGTAGTGAG-GCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAAT
* *
48236244 TGCAGTGG-GCCAGACTAAA-TAAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGA
64 TGCAGTGGAG-CAAACTAAACT-AA-AAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTA-A
* ***
48236307 AT-GATGGATCTTATCTCGCTGAGATTGTG-GCAGAACAGATCACATC
125 ATCCACAAATCTTATCTCGCTGA-ATT-TGCGCAGAACAGATCACATC
48236353 AAATTCATCT
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
172 1 0.01
173 7 0.05
174 128 0.89
175 6 0.04
176 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (172 bp):
GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAATTG
CAGTGGAGCAAACTAAACTAAAAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATCCAC
AAATCTTATCTCGCTGAATTTGCGCAGAACAGATCACATCGG
Found at i:48236435 original size:44 final size:44
Alignment explanation
Indices: 48236382--48236651 Score: 436
Period size: 44 Copynumber: 6.1 Consensus size: 44
48236372 AGCAGATCAA
*
48236382 GTTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
48236426 GTTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
48236470 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAACAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
48236514 GTTGAATATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
48236558 GTTGAAGATTGTGAA-TCCTATCTCCCTGGTCAGTAGTGGAATAG
1 GTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
48236602 ATTGAAGATTGTGAA-TCCTATCTCCCTGGTCAACAGTGGAATAG
1 GTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
48236646 GTTGAA
1 GTTGAA
48236652 AATTACATAT
Statistics
Matches: 211, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 209 0.99
45 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:48236680 original size:88 final size:87
Alignment explanation
Indices: 48236400--48236861 Score: 338
Period size: 88 Copynumber: 5.3 Consensus size: 87
48236390 TTGTAAGTCC
* * *
48236400 TATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTAGTCAGTAGTGGAATAGATTGAAGATTGTAA-TCCTATCTCCCTGGTCAGCAGTGG
* * *
48236465 AATAGGTTGAAGATT--GTGAGTCC
65 AATAGGTTGAAAATTACAT-A-TCT
* ** * *
48236488 TATCTCCCTGGTCAACAGTGGAATAGGTTGAATATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTAGTCAGTAGTGGAATAGATTGAAGATTGTAA-TCCTATCTCCCTGGTCAGCAGTGG
* ** *
48236553 AATAGGTTGAAGATTGTGA-ATCC
65 AATAGGTTGAAAATT-ACATATCT
* *
48236576 TATCTCCCTGGTCAGTAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGG
1 TATCTCCCTAGTCAGTAGTGGAATAGATTGAAGATTGT-AATCCTATCTCCCTGGTCAGCAGTGG
48236641 AATAGGTTGAAAATTACATATCT
65 AATAGGTTGAAAATTACATATCT
* ** * ** * * * *
48236664 TATCTCCCTAAG-CAGTAATGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCAAGGT-AGTAG
1 TATCTCCCT-AGTCAGTAGTGGAATAGATTGAAGATTG-TAATCCTATC-TCCC-TGGTCAGCAG
* ** * * * *
48236727 -GGAAGCAAATT-TAAGTCAC-TAGCCT
62 TGGAA-TAGGTTGAAAATTACATA-TCT
* *
48236752 TATCTCCCTAAG-CAGTAGTGGAGTA-AGTTGAAGATTGTAGA-CCTTATCTCTCTGAG-CAGCA
1 TATCTCCCT-AGTCAGTAGTGGAATAGA-TTGAAGATTGTA-ATCC-TATCTCCCTG-GTCAGCA
*
48236813 GTGGAGTAGGTTGAAAATTACATATCT
61 GTGGAATAGGTTGAAAATTACATATCT
48236840 TATCTCCCTAAG-CAGTAGTGGA
1 TATCTCCCT-AGTCAGTAGTGGA
48236862 GCAGATCGAA
Statistics
Matches: 304, Mismatches: 51, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
86 1 0.00
87 17 0.06
88 267 0.88
89 16 0.05
90 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (87 bp):
TATCTCCCTAGTCAGTAGTGGAATAGATTGAAGATTGTAATCCTATCTCCCTGGTCAGCAGTGGA
ATAGGTTGAAAATTACATATCT
Found at i:48236697 original size:132 final size:132
Alignment explanation
Indices: 48236394--48236697 Score: 389
Period size: 132 Copynumber: 2.3 Consensus size: 132
48236384 TGAAGATTGT
* * * **
48236394 AAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTCAG
1 AAGTCCTATCTCCCTAGTCAGCAATGGAACAGATCGAAGATTGTAAGTCCTATCTCCCTGGTCAG
* * *
48236459 CAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAATATT
66 CAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATT
**
48236524 GT
131 AC
* * * * *
48236526 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGGTCA
1 AAGTCCTATCTCCCTAGTCAGCAATGGAACAGATCGAAGATTGT-AAGTCCTATCTCCCTGGTCA
*
48236590 GTAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAAT
65 GCAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAAT
48236655 TAC
130 TAC
* * *
48236658 ATA-TCTTATCTCCCTAAG-CAGTAATGGAGCAGATCGAAGA
1 A-AGTCCTATCTCCCT-AGTCAGCAATGGAACAGATCGAAGA
48236698 CAGCGAATCT
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
132 149 0.97
133 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AAGTCCTATCTCCCTAGTCAGCAATGGAACAGATCGAAGATTGTAAGTCCTATCTCCCTGGTCAG
CAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATT
AC
Found at i:48236797 original size:44 final size:44
Alignment explanation
Indices: 48236749--48237038 Score: 196
Period size: 44 Copynumber: 6.6 Consensus size: 44
48236739 AAGTCACTAG
*
48236749 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGTAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * * * * *
48236793 CCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTACATA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * ** *
48236837 TCTTATCTCCCTAAGCAGTAGTGGAG-CAGATCGAAGACGGCAAA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAG-TTGAAGATTGCAGA
* * * * * * *
48236881 TCTTATCTTACC-AAGGTAGTAG-GGAAGCAAATTTAAGCCACT--AG-
1 CCTTATC-TCCCTAA-GCAGTAGTGG-AGTAAGTTGAAG--ATTGCAGA
* * * *
48236925 CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGGAGATTGTAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * * * *
48236969 CCTTACCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
*
48237013 TCTTATCTCCCTAAGCAGTAGTGGAG
1 CCTTATCTCCCTAAGCAGTAGTGGAG
48237039 CAGATTGAAG
Statistics
Matches: 186, Mismatches: 48, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.01
43 19 0.10
44 146 0.78
45 16 0.09
46 1 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
Found at i:48237047 original size:44 final size:44
Alignment explanation
Indices: 48236647--48237047 Score: 169
Period size: 44 Copynumber: 9.1 Consensus size: 44
48236637 GTGGAATAGG
* *
48236647 TTGAAAATTACATATCTTATCTCCCTAAGCAGTAATGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * * *
48236691 TCGAAGA-CAGC-GAATCTTATCTTCCC-AAGGTAGTAG-GGAAGCAAA
1 TTGAAAATTA-CAG-ATCTTATC-TCCCTAA-GCAGTAGTGG-AGCAGA
* * * * *
48236736 TT-TAAGTCACTAG-CCTTATCTCCCTAAGCAGTAGTGGAGTA-A
1 TTGAAAATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** * * * * * *
48236778 GTTGAAGATTGTAGACCTTATCTCTCTGAGCAGCAGTGGAGTAGG
1 -TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
48236823 TTGAAAATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *** * * * *
48236867 TCGAAGACGGCAAATCTTATCTTACC-AAGGTAGTAG-GGAAGCAAA
1 TTGAAAATTACAGATCTTATC-TCCCTAA-GCAGTAGTGG-AGCAGA
* *** * * * *
48236912 TT-TAAGCCACTAG-CCTTATCTCCCTGAGCAGCAGTGGAGTA-A
1 TTGAAAATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** * * * * * *
48236954 GTTGGAGATTGTAGACCTTACCTCCCTGAGCAGCAGTGGAGTAGG
1 -TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
48236999 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
48237043 TTGAA
1 TTGAA
48237048 GACGACGAAT
Statistics
Matches: 258, Mismatches: 75, Indels: 48
0.68 0.20 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.13
44 189 0.73
45 33 0.13
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:48237106 original size:88 final size:88
Alignment explanation
Indices: 48236662--48237126 Score: 282
Period size: 88 Copynumber: 5.3 Consensus size: 88
48236652 AATTACATAT
* *
48236662 CTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAC-AGCGAATCTTATCTTCCCAAGGTAGTA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGAATCTTATCTTCCCAAGGTAGTA
* *
48236726 GGGAAGCAAATTTAAGTCACTAGC
65 GGGAATCAAATTTAAGCCACTAGC
* * * *
48236750 CTTATCTCCCTAAGCAGTAGTGGAGTA-AGTTGAAGATTGTA-G-ACCTTATCTCTCTGAGCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGA-CG-ACGAATCTTATCT-TC---CCA--
* * * * *
48236812 AGTGGAGTA-GG-TTGAAAATT-A--CA-TA-T
57 AG-GTAGTAGGGAATCAAATTTAAGCCACTAGC
* * * *
48236838 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTACCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
*
48236903 GGAAGCAAATTTAAGCCACTAGC
66 GGAATCAAATTTAAGCCACTAGC
* * * * * * * * *
48236926 CTTATCTCCCTGAGCAGCAGTGGAGTA-AGTTGGAGATTGTA-G-ACCTTA-CCTCCC-TGAGCA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGA-CG-ACGAATCTTATCTTCCCAAG-GTA
* * ** * *** *
48236986 GCAGTGGAGT-AGGTTGAAAATTAC-AGAT
62 GTAG-GGAATCAAATT-TAAGCCACTAG-C
48237014 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
48237079 GGAATCAAATTTAAGCCACTAGC
66 GGAATCAAATTTAAGCCACTAGC
* * * *
48237102 CTTATCTTCTTGAGCAGCAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAG
48237127 TAGGTTAAAA
Statistics
Matches: 271, Mismatches: 71, Indels: 70
0.66 0.17 0.17
Matches are distributed among these distances:
81 5 0.02
82 4 0.01
83 5 0.02
84 3 0.01
86 4 0.01
87 22 0.08
88 184 0.68
89 23 0.08
90 3 0.01
91 1 0.00
92 3 0.01
93 5 0.02
94 4 0.01
95 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
GGAATCAAATTTAAGCCACTAGC
Found at i:48237215 original size:176 final size:176
Alignment explanation
Indices: 48236576--48237156 Score: 832
Period size: 176 Copynumber: 3.3 Consensus size: 176
48236566 TTGTGAATCC
* * *
48236576 TATCTCCCTG-GTCAGTAGTGGAAT-AGATTGAAGATTGT-GAATCC-TATCTCCCTG-GTCAAC
1 TATCTCCCTGAG-CAGCAGTGGAGTAAG-TTGAAGATTGTAG-A-CCTTATCTCCCTGAG-CAGC
* * *
48236636 AGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAC-A
61 AGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
48236700 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGTCACTAGCCT
126 -CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* * *
48236752 TATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCTCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
* * *
48236817 AGTAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAAT
66 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
*
48236882 CTTATCTTACCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
131 CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* *
48236928 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGGAGATTGTAGACCTTACCTCCCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
*
48236993 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
66 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
*
48237058 CTTATCTTCCCAAGGTAGTAGGGAATCAAATTTAAGCCACTAGCCT
131 CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* * * * * * **
48237104 TATCTTCTTGAGCAGCAGTGGAGTAGGTTAAAAATTATAGATTTTATCTCCCT
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCT
48237157 AAGTTACAGT
Statistics
Matches: 368, Mismatches: 31, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
175 2 0.01
176 361 0.98
177 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
Found at i:48237241 original size:44 final size:45
Alignment explanation
Indices: 48237134--48237263 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 45
48237124 GAGTAGGTTA
* * * *
48237134 AAAATTATAGATTTTATCTCCCT-AAGTTACAGTAGAGCAGATTG
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
** * * * *
48237178 AAGCTAGTA-ATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATT-
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
*
48237221 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
48237264 CGTATCAGGT
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 16 0.24
44 51 0.76
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (45 bp):
AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
Found at i:48238089 original size:23 final size:23
Alignment explanation
Indices: 48238045--48238089 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
48238035 TCTTATTTTG
* *
48238045 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
48238068 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
48238090 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:48239970 original size:24 final size:24
Alignment explanation
Indices: 48239915--48239972 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
48239905 GGGTTTCAAT
* *
48239915 TTTGGGTTTTAGATTCAATTTTGG
1 TTTGGGATTTAGATTCAATTTTGA
*
48239939 TTTGGGGATTT-GATTTCAGTTTTGA
1 TTT-GGGATTTAGA-TTCAATTTTGA
48239964 TTTGGGATT
1 TTTGGGATT
48239973 GCGATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.16, C:0.03, G:0.28, T:0.53
Consensus pattern (24 bp):
TTTGGGATTTAGATTCAATTTTGA
Found at i:48239978 original size:25 final size:25
Alignment explanation
Indices: 48239928--48239979 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
48239918 GGGTTTTAGA
* *
48239928 TTCAATTTTGGTTTGGGGATTTGAT
1 TTCAATTTTGATTTGGGGATTCGAT
*
48239953 TTCAGTTTTGATTT-GGGATTGCGAT
1 TTCAATTTTGATTTGGGGATT-CGAT
48239978 TT
1 TT
48239980 TGGTTTGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (25 bp):
TTCAATTTTGATTTGGGGATTCGAT
Found at i:48242970 original size:25 final size:26
Alignment explanation
Indices: 48242929--48242978 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
48242919 ACTTGTTGAA
*
48242929 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTTAAGTTTAGGGTTTCAATTTT
*
48242955 AGTTTT-AGTTTAGGGTTTTAATTT
1 AGTTTTAAGTTTAGGGTTTCAATTT
48242979 GGGGTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (26 bp):
AGTTTTAAGTTTAGGGTTTCAATTTT
Found at i:48242985 original size:26 final size:25
Alignment explanation
Indices: 48242929--48242988 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
48242919 ACTTGTTGAA
* *
48242929 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTT-AGTTTAGGGTTTCAATTTG
*
48242955 AGTTTTAGTTTAGGGTTTTAATTTGG
1 AGTTTTAGTTTAGGGTTTCAATTT-G
*
48242981 GGTTTTAG
1 AGTTTTAG
48242989 ATTCAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (25 bp):
AGTTTTAGTTTAGGGTTTCAATTTG
Found at i:48243017 original size:63 final size:60
Alignment explanation
Indices: 48242937--48243052 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 60
48242927 AAAGTTTTAA
* * * *
48242937 GTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGGTTTTAATTTGGGGTTTTAGATTCAATTATG
1 GTTTGGGGTTTCAATTTTAATTTCAATTTA--GTTTCAATTTGGGGTTTT-GATTCAATTATG
**
48243000 GTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTC
1 GTTTGGGGTTTCAATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTC
48243053 CAAGAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 5 0.11
61 17 0.36
63 25 0.53
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (60 bp):
GTTTGGGGTTTCAATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTCAATTATG
Found at i:48243691 original size:704 final size:701
Alignment explanation
Indices: 48242385--48243691 Score: 1839
Period size: 704 Copynumber: 1.9 Consensus size: 701
48242375 ACCTCTCGAG
* *
48242385 TAACAAGTATGATAATTCTACAATTTTGTAATATATACAAATATACAAATTCAACATTTTTTAAA
1 TAACAAGTATGATAAATCTACAATTTTGTAATATATA-AAATATAAAAATTCAACATTTTTTAAA
* * * *
48242450 ATTAATTAAATATGATGTTTAACTTAATAAAACAAAATTTTGCTAATAATAATATTAAAATGAAA
65 ATTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAATGAAA
*
48242515 TAAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTGAGCCATCAA
130 TAAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTAAGCCATCAA
* *
48242580 AACTCTTTGCTTTTCAAAAATTTGATGGTTTTAAGAATGATAATTTAAAGTTCAAATGTAATTCA
195 AACTCTTTGCTTTTAAAAAATTTGATGGTTTTAAGAATGATAATTTAAAATTCAAATGTAATTCA
* * *
48242645 AAAACAATAAATTTTGTTTGACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAATA
260 AAAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAACA
*
48242710 TTGAAAATCGTCACAACTTGCCCAAACTTTTTAAGTTTTTTGTTTCAAGTAAGCTTTTTTAGGAG
325 TTGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTT-AAGT-A-CTTTTTTAGGAG
* * *
48242775 CCTAGTTCTTTTAACACATAAGTCAATTTATGTAGAAAACATACCGATGAGAAGATCACATTTCA
387 CCTAGTTCTTTTAACACAGAAGTCAATTTATCTAGAAAACATACCAATGAGAAGATCACATTTCA
* *
48242840 TACAATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTGTTTTAAAAATCCTTAC
452 TACAATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTATTTTAAAAATCCTTAA
** *
48242905 ATTGAGTTACCCAAACTTGTTGAAAGTTTTAAGTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGG
517 ATTGAGTTACCCAAACTTGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGG
48242970 TTTTAATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTC
582 TTTTAATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTC
48243035 AATTTGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
647 AATTTGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
48243090 TAACAAGTATTG-TAAATCTACAATTTTGTAATATAT-AAATATAAAAATTCAACAAAATTTTTT
1 TAACAAGTA-TGATAAATCTACAATTTTGTAATATATAAAATATAAAAATTCAAC---ATTTTTT
* * **
48243153 GAAAATTAATTAAATATGATGTTTAACTTAATAAAATATAATGTGGCCAACAATAATATTGTAAT
62 -AAAATTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAAT
* * * * *
48243218 GAAATAAAAAAAAATTGTATTCTACA-TTTAGGAGTTTGCTTGACTTTTTGGA-TTATTTTAAGC
126 GAAATAAAAAAAAATTGCATTCTACATTTTA-GAATTTCCATGACTTTTT-GACTCATTTTAAGC
* *
48243281 CATCAAAACTCTTTGTTCTTTAAAAAATTTGATGTTTTTAAGAAT-ATGAATTTAAAATTCAAAT
189 CATCAAAACTCTTTGCT-TTTAAAAAATTTGATGGTTTTAAGAATGAT-AATTTAAAATTCAAAT
* * *
48243345 GTAATTCTAAAATAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTCAA-AT-TTTGGA
252 GTAATTCAAAAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCT-AAGATGTTAGG-
* * * *
48243408 GCTCAAGACATTGAAAATCGTTACAACTTGCCCAAACTTTCTAAGTTTTTT-TTT-TGT-TTTGT
315 GCTCAAAACATTGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTTAAGTACTT-T
* * * * * * *
48243470 TTTGGGAGCTTTGTTCTTTTAACATAGAATTCAATTTTTCTAGAAAAGCATGCCAATG-GAAAGA
379 TTTAGGAGCCTAGTTCTTTTAACACAGAAGTCAATTTATCTAGAAAA-CATACCAATGAG-AAGA
* * * **
48243534 TCACATTTCATACAATATAAATCATTTAAATTTAT-ACTAGAATGAGCATTAATAGATTATTTTA
442 TCACATTTCATACAATAGAAATCATCTAAATTT-TGAATAGAATGAGCAAAAATAGATTATTTTA
*** *
48243598 AAAATCCTTAAATTGAGTTACCCAAA-TCTGTTGAAAGCCTTAACTTTGGGGTTTTGGTTTTTGT
506 AAAATCCTTAAATTGAGTTACCCAAACT-TGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGT
*
48243662 TTTAGTTTAGGGTTTTGATTTGGGGTTTTA
570 TTTAGTTTAGGGTTTTAATTTGGGGTTTTA
48243692 TATTTGGTTT
Statistics
Matches: 530, Mismatches: 56, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
702 2 0.00
703 58 0.11
704 151 0.28
705 35 0.07
706 13 0.02
707 130 0.25
708 139 0.26
709 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (701 bp):
TAACAAGTATGATAAATCTACAATTTTGTAATATATAAAATATAAAAATTCAACATTTTTTAAAA
TTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAATGAAAT
AAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTAAGCCATCAAA
ACTCTTTGCTTTTAAAAAATTTGATGGTTTTAAGAATGATAATTTAAAATTCAAATGTAATTCAA
AAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAACAT
TGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTTAAGTACTTTTTTAGGAGCCTA
GTTCTTTTAACACAGAAGTCAATTTATCTAGAAAACATACCAATGAGAAGATCACATTTCATACA
ATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTATTTTAAAAATCCTTAAATTG
AGTTACCCAAACTTGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGGTTTT
AATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTCAATT
TGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
Found at i:48243763 original size:12 final size:13
Alignment explanation
Indices: 48243736--48243769 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
48243726 TCAATTTTGG
48243736 TTTGGGGTTACAA
1 TTTGGGGTTACAA
*
48243749 TTTTGGGTT-CAA
1 TTTGGGGTTACAA
48243761 TTTGGGGTT
1 TTTGGGGTT
48243770 TTGATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.06, G:0.32, T:0.47
Consensus pattern (13 bp):
TTTGGGGTTACAA
Found at i:48244811 original size:16 final size:16
Alignment explanation
Indices: 48244790--48244825 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48244780 TTTGGTTCGC
48244790 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48244806 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48244822 TGTA
1 TGTA
48244826 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48249368 original size:18 final size:19
Alignment explanation
Indices: 48249322--48249368 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
48249312 GAAATTATAA
48249322 ATAATTGTTGGTGTATGTGT
1 ATAATTGTTGGTGTA-GTGT
48249342 ATTTAATTGTTGGTGTA-TGT
1 A--TAATTGTTGGTGTAGTGT
48249362 ATAATTG
1 ATAATTG
48249369 AACCTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
20 5 0.20
22 14 0.56
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (19 bp):
ATAATTGTTGGTGTAGTGT
Found at i:48249999 original size:77 final size:77
Alignment explanation
Indices: 48249867--48250019 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
48249857 TTTCTCTATC
*
48249867 TTCTTAACCTTTGCCGCATGAAGATATTTTTTGATAGATTAGGTCACAAGCCCAAATTTTTGGTT
1 TTCTCAACCTTTGCCGCATGAAGATATTTTTTGATAGATTAGGTCACAAGCCCAAATTTTTGGTT
48249932 TAATTATTCTTA
66 TAATTATTCTTA
* *
48249944 TTCTCAACCTTTGCCGCATGAAGATATTTTTTGATAGATTAGGTCAGAAGCCCAAATTTTTTGTT
1 TTCTCAACCTTTGCCGCATGAAGATATTTTTTGATAGATTAGGTCACAAGCCCAAATTTTTGGTT
48250009 TAATTATTCTT
66 TAATTATTCTT
48250020 TCGTCTCTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (77 bp):
TTCTCAACCTTTGCCGCATGAAGATATTTTTTGATAGATTAGGTCACAAGCCCAAATTTTTGGTT
TAATTATTCTTA
Found at i:48266115 original size:27 final size:27
Alignment explanation
Indices: 48266085--48266142 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
48266075 TAGGTCTGGT
*
48266085 GAGTAGGTATGCGCCAGTAGGCTTAGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
* * * * *
48266112 GAGTTGGTGTTCGCCGGAAGGCTTGGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
48266139 GAGT
1 GAGT
48266143 TGATGTACAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.41, T:0.24
Consensus pattern (27 bp):
GAGTAGGTATGCGCCAGAAGGCTTAGC
Found at i:48267271 original size:23 final size:23
Alignment explanation
Indices: 48267241--48267288 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
48267231 CATTTTGAGA
* *
48267241 CGTTATAAGGATATACGTTTATC
1 CGTTATAAGGAGATACGCTTATC
*
48267264 CGTTATAAGGAGATTCGCTTATC
1 CGTTATAAGGAGATACGCTTATC
48267287 CG
1 CG
48267289 CTTTATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (23 bp):
CGTTATAAGGAGATACGCTTATC
Found at i:48267897 original size:25 final size:25
Alignment explanation
Indices: 48267863--48267915 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
48267853 AAAAGATTTA
48267863 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
48267888 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
48267913 GAA
1 GAA
48267916 CCCTAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.19
Consensus pattern (25 bp):
GAATGTACGAGCTATGCAGGGGTGC
Found at i:48269539 original size:17 final size:17
Alignment explanation
Indices: 48269517--48269549 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48269507 AGGTTAAGTG
48269517 TTAAAATGTT-ATAAATT
1 TTAAAAT-TTAATAAATT
48269534 TTAAAATTTAATAAAT
1 TTAAAATTTAATAAAT
48269550 AAAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAATTTAATAAATT
Found at i:48270347 original size:16 final size:15
Alignment explanation
Indices: 48270303--48270350 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
48270293 TTAGTCTTGC
48270303 AATACTCAATTCATG
1 AATACTCAATTCATG
*
48270318 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
48270333 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
48270350 A
1 A
48270351 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:48274861 original size:3 final size:3
Alignment explanation
Indices: 48274853--48274929 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
48274843 GCTTTGCTAT
48274853 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
48274901 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
48274930 ATGCTCTCCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:48282548 original size:60 final size:60
Alignment explanation
Indices: 48282476--48282609 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 60
48282466 AAAAAAATAC
* ** * *
48282476 TTATT-AATTTTTTAGAGTTAGGACTAAATTGACAGA-TTTTGTAAATATTGAGGGCCAAAT
1 TTATTGAA-TTTTTAGAATTACAACTAAAATGACA-ATTTTTGTAAACATTGAGGGCCAAAT
* **
48282536 TTATTGAATTTTTAGAATTACAACTAAAATGACAATTTTTTGTCAACATTGAGGGTTAAAT
1 TTATTGAATTTTTAGAATTACAACTAAAATGACAA-TTTTTGTAAACATTGAGGGCCAAAT
*
48282597 TTGTTGAATTTTT
1 TTATTGAATTTTT
48282610 TTATATTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 27 0.44
61 34 0.55
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (60 bp):
TTATTGAATTTTTAGAATTACAACTAAAATGACAATTTTTGTAAACATTGAGGGCCAAAT
Found at i:48284077 original size:20 final size:19
Alignment explanation
Indices: 48284049--48284090 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
48284039 AAGAAGTACT
*
48284049 AAAATTTATAAAAAAATTCA
1 AAAAATTATAAAAAAATT-A
48284069 AAAAATTATAAAAAAATTA
1 AAAAATTATAAAAAAATTA
48284088 AAA
1 AAA
48284091 TTTAATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAAAATTA
Found at i:48288306 original size:270 final size:270
Alignment explanation
Indices: 48287825--48288365 Score: 1010
Period size: 270 Copynumber: 2.0 Consensus size: 270
48287815 AAGCAAGGGG
48287825 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
1 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
48287890 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
66 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
48287955 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
131 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
* *
48288020 GTTCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGTAATATTTTCGTGTCAAAGGCATCA
196 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
48288085 CAGATGATGT
261 CAGATGATGT
* * * *
48288095 TGCTCAATTCCACTGTGTATAAGTTGACAATAAGGGATAATGCTCTCGAGGTTATGGTGTCGACC
1 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
48288160 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
66 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
48288225 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
131 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
*
48288290 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTTGTGTCAAAGGCATCA
196 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
*
48288355 CGGATGATGT
261 CAGATGATGT
48288365 T
1 T
48288366 ACTAAGGTAA
Statistics
Matches: 263, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 263 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (270 bp):
TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
CAGATGATGT
Found at i:48291578 original size:37 final size:37
Alignment explanation
Indices: 48291513--48291587 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
48291503 GTTATAACCC
* *
48291513 ATTTTATAATATGTAAATTAAGTCAAAAATAATT-TAA
1 ATTTTATAATATATAAATTAAGT-AAAAAAAATTATAA
*
48291550 ATTTTATAATATATAATATTTA-TAAAAAAAATTATAA
1 ATTTTATAATATATAA-ATTAAGTAAAAAAAATTATAA
48291587 A
1 A
48291588 GTGTTCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 9 0.27
37 20 0.61
38 4 0.12
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTTTATAATATATAAATTAAGTAAAAAAAATTATAA
Done.