Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 14 of 16
Found at i:1999064 original size:21 final size:20
Alignment explanation
Indices: 1999025--1999064 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1999015 TTTTTTTTTG
*
1999025 ATTTTTTAATTTTTATTATC
1 ATTTTTTAATTTCTATTATC
*
1999045 ATTTTTTTATTTCTACTTAT
1 ATTTTTTAATTTCTA-TTAT
1999065 TATTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTTAATTTCTATTATC
Found at i:1999584 original size:42 final size:42
Alignment explanation
Indices: 1999532--2000626 Score: 1083
Period size: 42 Copynumber: 26.1 Consensus size: 42
1999522 TAAATGAGGC
* * * * *
1999532 AGTCTTCAGGGTCAAAGCCAATAGGCAGACTGAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * **
1999574 AGTCTCCAGGGTC-AAGACTGACAAGCAGACTAAAGGTCGAAA
1 AGTCTCCAGGGTCAAAG-CCGACAGGCAGACTAAGGGAAGAAA
* * *
1999616 AGTCTCCAGGGTCAAAGCTGATAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * *
1999658 AGTCTCTAGGGTCAAAGCCAATAGGCAGACTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
*
1999700 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGAATG-AA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA-GAAA
* * ** *
1999742 AGTCTCTAGGGTTAAAGCTAACAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * * *
1999784 AGTCTCCAAGGTCAAAGCTGACAAGCGGAGTAAGGG--TAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* **
1999824 AGTTTGTAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * **
1999866 AGTCTCCAGGATCAAAGCCAAC-GGCAGATTGGGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
1999907 AGTCTCCAAGGTCAAAGCCGACAGGCAGATTGAGGGAATAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * *
1999949 AGTCTCCAGGGTCAAAGCCGATAGGCAGACTGAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
1999991 AGTCTCCA-GGTCCAAAGTCGACATGCAGATTGAGGGTAGAAA
1 AGTCTCCAGGGT-CAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2000033 AGTCTCCAAGGTCAAAGCCAATAGGCAGACTGAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2000075 AGTCTCTAGGGTTAAAGCCGATAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2000117 AGTCTCTAGGGTCAAAGTCAACAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * *
2000159 AGTCTCTAGGGTCAAAGTCGACAGGCAGATTAAGGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2000201 AGTCTCCAAGGTCAAAGTCGACAGGCAGATTGAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2000243 AGTCTCCAAGGTCAAAGCTGACAAGCAGATTGAGGGAATG-AA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA-GAAA
* * * *
2000285 AGTCTCCAAGGTCAAAGCTGACAGGCAGACTGAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2000327 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2000369 AGTCTCCAAGGTCAAAGCCAACAAGCAGACTAAGAGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * *
2000411 AGTCTCTAGGGTTAAAGTCGATAGGCAGACTAAGGGAA-AGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AA
* ** * * *
2000453 AGTCTCTAGGGTCAAAGCAAACAGGCAGATTGAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* *
2000495 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGAAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAA
* * ** * *
2000538 A-TCTCCAAGGTCAAAACTAATAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
* * * * *
2000579 TGTCTCTAGGGTCAAAGCCGATAGGAAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
2000621 AGTCTC
1 AGTCTC
2000627 TAGAAGTTTA
Statistics
Matches: 888, Mismatches: 150, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
40 30 0.03
41 48 0.05
42 795 0.90
43 15 0.02
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.15
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAA
Found at i:2008836 original size:22 final size:23
Alignment explanation
Indices: 2008811--2008855 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2008801 ATTCTTATTA
*
2008811 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
2008833 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
2008856 CCATGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Found at i:2010496 original size:14 final size:14
Alignment explanation
Indices: 2010477--2010505 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2010467 ATAACATTAG
2010477 TATTGCCTTTCTGC
1 TATTGCCTTTCTGC
2010491 TATTGCCTTTCTGC
1 TATTGCCTTTCTGC
2010505 T
1 T
2010506 CTATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.28, G:0.14, T:0.52
Consensus pattern (14 bp):
TATTGCCTTTCTGC
Found at i:2011218 original size:34 final size:35
Alignment explanation
Indices: 2011180--2011246 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
2011170 CCTTACAACA
*
2011180 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAAGCTAAGATAG-AACCTCTCTCT
2011214 CTATCTTTTTCAAAAGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAAGCTAAGATAGAACCTCTC
2011247 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAAGCTAAGATAGAACCTCTCTCT
Found at i:2013558 original size:13 final size:13
Alignment explanation
Indices: 2013540--2013564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2013530 ACTGAAGCAA
2013540 TGTATCGATACAT
1 TGTATCGATACAT
2013553 TGTATCGATACA
1 TGTATCGATACA
2013565 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2016801 original size:34 final size:35
Alignment explanation
Indices: 2016763--2016829 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2016753 CCTTACAACA
2016763 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2016797 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2016830 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2017598 original size:21 final size:21
Alignment explanation
Indices: 2017558--2017598 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2017548 GTCAACCTTG
*
2017558 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
2017579 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
2017599 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:2019605 original size:21 final size:20
Alignment explanation
Indices: 2019572--2019610 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2019562 CACATTTTTG
*
2019572 TCTAAATGTATCGATACATT
1 TCTAAATGGATCGATACATT
2019592 TCTAGAATGGATCGATACA
1 TCTA-AATGGATCGATACA
2019611 AGGTTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TCTAAATGGATCGATACATT
Found at i:2019769 original size:13 final size:13
Alignment explanation
Indices: 2019751--2019778 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2019741 CATTACTCAA
2019751 TGTATCGATACAT
1 TGTATCGATACAT
2019764 TGTATCGATACAT
1 TGTATCGATACAT
2019777 TG
1 TG
2019779 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2019773 original size:33 final size:33
Alignment explanation
Indices: 2019731--2019796 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2019721 GCCAAGGAAA
2019731 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
2019764 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
2019797 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:2024184 original size:22 final size:22
Alignment explanation
Indices: 2024153--2024203 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2024143 GTTGCTGCCG
* * *
2024153 TGCTCATAGAGTTGCTACTGGT
1 TGCTCGTAGAATTGCTACCGGT
2024175 TGCTCGTAGAATTGCTACCGGT
1 TGCTCGTAGAATTGCTACCGGT
2024197 TGCTCGT
1 TGCTCGT
2024204 GGAAGCTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (22 bp):
TGCTCGTAGAATTGCTACCGGT
Found at i:2024250 original size:21 final size:23
Alignment explanation
Indices: 2024225--2024282 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
2024215 TTACTGCCGG
*
2024225 TTGCTCATGGAAGCTGCT-ACTA
1 TTGCTCATGGAAGCTGCTGACGA
* *
2024247 -TGCTCATGG-AGTTGCTGCCGA
1 TTGCTCATGGAAGCTGCTGACGA
2024268 TTGCTCATGGAAGCT
1 TTGCTCATGGAAGCT
2024283 ACTGCTACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 9 0.31
23 3 0.10
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (23 bp):
TTGCTCATGGAAGCTGCTGACGA
Found at i:2024275 original size:22 final size:22
Alignment explanation
Indices: 2024210--2024278 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
2024200 TCGTGGAAGC
* *
2024210 TGGAGTTACTGCCGGTTGCTCA
1 TGGAGTTGCTGCCGATTGCTCA
* * *
2024232 TGGAAGCTGCT-ACTA-TGCTCA
1 TGG-AGTTGCTGCCGATTGCTCA
2024253 TGGAGTTGCTGCCGATTGCTCA
1 TGGAGTTGCTGCCGATTGCTCA
2024275 TGGA
1 TGGA
2024279 AGCTACTGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 6 0.17
21 11 0.31
22 14 0.39
23 5 0.14
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (22 bp):
TGGAGTTGCTGCCGATTGCTCA
Found at i:2024312 original size:90 final size:90
Alignment explanation
Indices: 2024201--2024509 Score: 447
Period size: 90 Copynumber: 3.4 Consensus size: 90
2024191 ACCGGTTGCT
* *
2024201 CGTGGAAGCTGGAGTTACTGCCGGTTGCTCATGGAAGCTGCTACTATGCTCATGGAGTTGCTGCC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTGCTACTATGCTCATGGAGTTGCTGCC
*
2024266 GATTGCTCATGGAAGCTACTGCTAC
66 GATTGCTCATGGAAGCTGCTGCTAC
* * *
2024291 CGTGGAAGCTGGAGTTCCTGCCGGTTGCTCGTGGAAGCTGGTACTATGCTCATGGAGTTGCTGTC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTGCTACTATGCTCATGGAGTTGCTGCC
* *
2024356 GGTTACTCATGGAAGCTGCTGCTAC
66 GATTGCTCATGGAAGCTGCTGCTAC
** * * * * *
2024381 CGTGGAAGCTGGAGTTGCTGCCAATTGCTCGTGGAAGCTACTGCTGTGTTCGTGGAGTTGCTGCC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTGCTACTATGCTCATGGAGTTGCTGCC
* *
2024446 GATTGCTCGTGGAAGCTGCTGCTGC
66 GATTGCTCATGGAAGCTGCTGCTAC
* *
2024471 CGTGGAAGCTGGAGTTGCTGTCGGTTGCTCGTGAAAGCT
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCT
2024510 ACTGCTACCG
Statistics
Matches: 194, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 194 1.00
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (90 bp):
CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTGCTACTATGCTCATGGAGTTGCTGCC
GATTGCTCATGGAAGCTGCTGCTAC
Found at i:2024319 original size:47 final size:47
Alignment explanation
Indices: 2024201--2024531 Score: 294
Period size: 47 Copynumber: 7.3 Consensus size: 47
2024191 ACCGGTTGCT
* *
2024201 CGTGGAAGCTGGAGTTACTGCCGGTTGCTCATGGAAG---CTGCTAC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
** ** * *
2024245 TAT-G-CTCATGGAGTTGCTGCCGATTGCTCATGGAAGCTACTGCTAC
1 CGTGGAAGC-TGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
* *
2024291 CGTGGAAGCTGGAGTTCCTGCCGGTTGCTCGTGGAAG---CTGGTAC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
** ** * * * *
2024335 TAT-G-CTCATGGAGTTGCTGTCGGTTACTCATGGAAGCTGCTGCTAC
1 CGTGGAAGC-TGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
**
2024381 CGTGGAAGCTGGAGTTGCTGCCAATTGCTCGTGGAAGCTACTGCT--
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
*** * * *
2024426 -GTGTTCG-TGGAGTTGCTGCCGATTGCTCGTGGAAGCTGCTGCTGC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
* *
2024471 CGTGGAAGCTGGAGTTGCTGTCGGTTGCTCGTGAAAGCTACTGCTAC
1 CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
2024518 CGTGGAAGCTGGAG
1 CGTGGAAGCTGGAG
2024532 GAGGCTCGAG
Statistics
Matches: 225, Mismatches: 46, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.01
43 86 0.38
44 12 0.05
46 19 0.08
47 104 0.46
48 2 0.01
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (47 bp):
CGTGGAAGCTGGAGTTGCTGCCGGTTGCTCGTGGAAGCTACTGCTAC
Found at i:2024418 original size:137 final size:135
Alignment explanation
Indices: 2024253--2024531 Score: 332
Period size: 137 Copynumber: 2.0 Consensus size: 135
2024243 ACTATGCTCA
* *
2024253 TGGAGTTGCTGCCGATTGCTCATGGAAGCTACTGCTACCGTGGAAGCTGGAGTTCCTGCCGGTTG
1 TGGAGTTGCTGCCAATTGCTCATGGAAGCTACTGCT---GTGGAAG-TGGAGTTCCTGCCGATTG
* * * *
2024318 CTCGTGGAAGCTGGTACTATG-C-T-CA-TGGAGTTGCTGTCGGTTACTCATGGAAGCTGCTGCT
62 CTCGTGGAAGCTGCTAC--TGCCGTGAACTGGAGTTGCTGTCGGTTACTCATGAAAGCTACTGCT
2024379 ACCGTGGAAGC
125 ACCGTGGAAGC
* *** *
2024390 TGGAGTTGCTGCCAATTGCTCGTGGAAGCTACTGCTGTGTTCGTGGAGTTGCTGCCGATTGCTCG
1 TGGAGTTGCTGCCAATTGCTCATGGAAGCTACTGCTGTGGAAGTGGAGTTCCTGCCGATTGCTCG
* * *
2024455 TGGAAGCTGCTGCTGCCGTGGAAGCTGGAGTTGCTGTCGGTTGCTCGTGAAAGCTACTGCTACCG
66 TGGAAGCTGCTACTGCCGT-GAA-CTGGAGTTGCTGTCGGTTACTCATGAAAGCTACTGCTACCG
2024520 TGGAAGC
129 TGGAAGC
2024527 TGGAG
1 TGGAG
2024532 GAGGCTCGAG
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
131 2 0.02
132 1 0.01
133 32 0.26
134 4 0.03
135 1 0.01
137 82 0.67
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (135 bp):
TGGAGTTGCTGCCAATTGCTCATGGAAGCTACTGCTGTGGAAGTGGAGTTCCTGCCGATTGCTCG
TGGAAGCTGCTACTGCCGTGAACTGGAGTTGCTGTCGGTTACTCATGAAAGCTACTGCTACCGTG
GAAGC
Found at i:2024468 original size:43 final size:43
Alignment explanation
Indices: 2024210--2024469 Score: 205
Period size: 43 Copynumber: 5.9 Consensus size: 43
2024200 TCGTGGAAGC
* * * * *
2024210 TGGAGTTACTGCCGGTTGCTCATGGAAGCTGCTACTATGCTCA
1 TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCTGTGCTCG
* ***
2024253 TGGAGTTGCTGCCGATTGCTCATGGAAGCTACTGCTACCGTGGAAG
1 TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCT---GTGCTCG
* * * * * * *
2024299 CTGGAGTTCCTGCCGGTTGCTCGTGGAAGCTGGTACTATGCTCA
1 -TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCTGTGCTCG
* * * ***
2024343 TGGAGTTGCTGTCGGTTACTCATGGAAGCTGCTGCTACCGTGGAAG
1 TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCT---GTGCTCG
* * * *
2024389 CTGGAGTTGCTGCCAATTGCTCGTGGAAGCTACTGCTGTGTTCG
1 -TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCTGTGCTCG
*
2024433 TGGAGTTGCTGCCGATTGCTCGTGGAAGCTGCTGCTG
1 TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCTG
2024470 CCGTGGAAGC
Statistics
Matches: 167, Mismatches: 42, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
43 97 0.58
44 6 0.04
46 4 0.02
47 60 0.36
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (43 bp):
TGGAGTTGCTGCCGATTGCTCATGGAAGCTGCTGCTGTGCTCG
Found at i:2024545 original size:47 final size:46
Alignment explanation
Indices: 2024448--2024546 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 46
2024438 TTGCTGCCGA
* * * **
2024448 TTGCTCGTGGAAGCTGCTGCTGCCGTGGAAGCTGGAGTTGCTGTCGG
1 TTGCTCGTGAAAGCTACTGCTACCGTGGAAGCTGGAGAGGC-GTCGG
2024495 TTGCTCGTGAAAGCTACTGCTACCGTGGAAGCTGGAGGAGGC-TCGAG
1 TTGCTCGTGAAAGCTACTGCTACCGTGGAAGCTGGA-GAGGCGTCG-G
2024542 TTGCT
1 TTGCT
2024547 GGTTTGGTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 3 0.07
47 39 0.87
48 3 0.07
ACGTcount: A:0.15, C:0.21, G:0.37, T:0.26
Consensus pattern (46 bp):
TTGCTCGTGAAAGCTACTGCTACCGTGGAAGCTGGAGAGGCGTCGG
Found at i:2024703 original size:18 final size:18
Alignment explanation
Indices: 2024666--2024727 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
2024656 GCTGGCTATT
*
2024666 TTCACGTTG-C-TGCTCT
1 TTCACGTTGCCGTGCTCC
*
2024682 TTCATGTTGCCGTGCTCC
1 TTCACGTTGCCGTGCTCC
*
2024700 TTCACGTTGCCGTCCTCTCC
1 TTCACGTTGCCGT--GCTCC
2024720 TTCACGTT
1 TTCACGTT
2024728 CGCTTCCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 8 0.21
17 1 0.03
18 17 0.45
20 12 0.32
ACGTcount: A:0.06, C:0.35, G:0.18, T:0.40
Consensus pattern (18 bp):
TTCACGTTGCCGTGCTCC
Found at i:2025302 original size:9 final size:9
Alignment explanation
Indices: 2025290--2025331 Score: 75
Period size: 9 Copynumber: 4.6 Consensus size: 9
2025280 ATTTCATGAT
2025290 TTTTTTTAA
1 TTTTTTTAA
2025299 TTTTTTTTAA
1 -TTTTTTTAA
2025309 TTTTTTTAA
1 TTTTTTTAA
2025318 TTTTTTTAA
1 TTTTTTTAA
2025327 TTTTT
1 TTTTT
2025332 ATTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:2025359 original size:23 final size:22
Alignment explanation
Indices: 2025320--2025371 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2025310 TTTTTTAATT
*
2025320 TTTTTAATTTTTATTATTATTA
1 TTTTTAATTTCTATTATTATTA
*
2025342 TTTTTGATTTCTACTTATTATTA
1 TTTTTAATTTCTA-TTATTATTA
2025365 TATTTTA
1 T-TTTTA
2025372 TATTGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 10 0.40
24 4 0.16
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTAATTTCTATTATTATTA
Found at i:2026650 original size:25 final size:25
Alignment explanation
Indices: 2026616--2026664 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2026606 ACTATATATT
2026616 GATGTCC-AAAATTCAAATTTTCTTC
1 GATGTCCAAAAATT-AAATTTTCTTC
2026641 GATGTCCAAAAATTAAATTTTCTT
1 GATGTCCAAAAATTAAATTTTCTT
2026665 ACTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (25 bp):
GATGTCCAAAAATTAAATTTTCTTC
Found at i:2027080 original size:14 final size:14
Alignment explanation
Indices: 2027061--2027107 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
2027051 TTTTAAATAA
2027061 ATTATTAAAATACT
1 ATTATTAAAATACT
*
2027075 ATTATTTTAAAATA-A
1 ATTA--TTAAAATACT
*
2027090 ATTATTAGAATACT
1 ATTATTAAAATACT
2027104 ATTA
1 ATTA
2027108 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 4 0.15
16 8 0.30
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAAAATACT
Found at i:2027086 original size:16 final size:16
Alignment explanation
Indices: 2027035--2027088 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
2027025 GACACATTGA
*
2027035 TTAAATTACTATTAATT
1 TTAAAATACTATT-ATT
* *
2027052 TTTAAATA-AATTA--
1 TTAAAATACTATTATT
2027065 TTAAAATACTATTATT
1 TTAAAATACTATTATT
2027081 TTAAAATA
1 TTAAAATA
2027089 AATTATTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATACTATTATT
Found at i:2027091 original size:29 final size:29
Alignment explanation
Indices: 2027034--2027112 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
2027024 TGACACATTG
* *
2027034 ATTAAATTACTATTAATTTTTAAATAAATT
1 ATTAAAATACTATT-ATTTTAAAATAAATT
2027064 ATTAAAATACTATTATTTTAAAATAAATT
1 ATTAAAATACTATTATTTTAAAATAAATT
* *
2027093 ATTAGAATACTATTAATTTA
1 ATTAAAATACTATTATTTTA
2027113 TTTATTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 32 0.71
30 13 0.29
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTAAAATACTATTATTTTAAAATAAATT
Found at i:2027095 original size:15 final size:15
Alignment explanation
Indices: 2027049--2027095 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
2027039 ATTACTATTA
*
2027049 ATTTTTAAATAAATT
1 ATTTTAAAATAAATT
*
2027064 A--TTAAAATACTATT
1 ATTTTAAAATA-AATT
2027078 ATTTTAAAATAAATT
1 ATTTTAAAATAAATT
2027093 ATT
1 ATT
2027096 AGAATACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
15 7 0.27
16 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTTAAAATAAATT
Found at i:2027309 original size:32 final size:32
Alignment explanation
Indices: 2027267--2027353 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
2027257 GCAAGACTTG
* * *
2027267 CTAAAACCTTTAGCAATTCTTACGTTGATTCA
1 CTAAAGCCTTTAGCAATTCTTACGTAGACTCA
*
2027299 CTAAAGCCTTTAGCGATTCTTACGTAGACTCA
1 CTAAAGCCTTTAGCAATTCTTACGTAGACTCA
* ** *
2027331 TTAAAGGTTTTAGCAAGTCTTAC
1 CTAAAGCCTTTAGCAATTCTTAC
2027354 TCGACAATCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (32 bp):
CTAAAGCCTTTAGCAATTCTTACGTAGACTCA
Found at i:2027418 original size:32 final size:35
Alignment explanation
Indices: 2027378--2027452 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 35
2027368 TGCCAAGTGT
* *
2027378 TATTATTATAATATTATAT-AATTAATATAAGATTA
1 TATTATAAT-ATATTATATAAATTAATAAAAGATTA
*
2027413 TATTATAAGTTATATTATTTAAATTAATAAAAGATTA
1 TATTATAA--TATATTATATAAATTAATAAAAGATTA
2027450 TAT
1 TAT
2027453 AATTAAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 7 0.21
36 8 0.24
37 19 0.56
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (35 bp):
TATTATAATATATTATATAAATTAATAAAAGATTA
Found at i:2027768 original size:29 final size:30
Alignment explanation
Indices: 2027735--2027804 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
2027725 CAATCAAAAC
* *
2027735 AATAGTATTTTAGTAATTTGTTT-TAAATT
1 AATAGTATTTTAATAATTTGTTTAAAAATT
2027764 AATAGTATTTTAATAATTTGTTTAAAAATT
1 AATAGTATTTTAATAATTTGTTTAAAAATT
* *
2027794 AACAATATTTT
1 AATAGTATTTT
2027805 GGTCAATGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (30 bp):
AATAGTATTTTAATAATTTGTTTAAAAATT
Found at i:2032548 original size:2 final size:2
Alignment explanation
Indices: 2032541--2032590 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
2032531 TTCATGTATT
* * *
2032541 TA TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2032583 TA TA TA TA
1 TA TA TA TA
2032591 CATACAATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2039521 original size:17 final size:18
Alignment explanation
Indices: 2039499--2039533 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2039489 AGGAGGGTGA
2039499 ATGAAG-CGTAAAAAAAT
1 ATGAAGACGTAAAAAAAT
*
2039516 ATGAAGAGGTAAAAAAAT
1 ATGAAGACGTAAAAAAAT
2039534 GTATGGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (18 bp):
ATGAAGACGTAAAAAAAT
Found at i:2042499 original size:267 final size:267
Alignment explanation
Indices: 2042024--2042558 Score: 1025
Period size: 267 Copynumber: 2.0 Consensus size: 267
2042014 ATCCACATCC
2042024 TTTAGAGAGCATTCATCTCCAATTTAAAACCACAAAATAAAAAAAAAAAAAACAAAGCATGTATC
1 TTTAGAGAGCATTCATCTCCAATTTAAAACCACAAAATAAAAAAAAAAAAAACAAAGCATGTATC
2042089 TATTCTTGATGTAGCACTGCCAGCAGCCTCTAAATTTGTTTAAGAGGAATGCTCAGGTTCGTTGC
66 TATTCTTGATGTAGCACTGCCAGCAGCCTCTAAATTTGTTTAAGAGGAATGCTCAGGTTCGTTGC
2042154 AATGCCCATGCCTAAATTTGGCTCACAGCCATGATGTTGTGAGCTGGGAGCTTGGGCAGGCTACA
131 AATGCCCATGCCTAAATTTGGCTCACAGCCATGATGTTGTGAGCTGGGAGCTTGGGCAGGCTACA
2042219 ATAGCTGCTTTTGAGTCTTAGATTTGTGCTTCTTTATGTGAAACTCAATGGCTCTCATTTCATTT
196 ATAGCTGCTTTTGAGTCTTAGATTTGTGCTTCTTTATGTGAAACTCAATGGCTCTCATTTCATTT
2042284 TCTCATT
261 TCTCATT
* *
2042291 TTTAGAGAGCATTCATCTCCAATTTAAAACCACAAAGTAAAAAAAAAAAAAACAAAGCATGTTTC
1 TTTAGAGAGCATTCATCTCCAATTTAAAACCACAAAATAAAAAAAAAAAAAACAAAGCATGTATC
*
2042356 TATTCTTGATGTAGCACTGCCAGCGGCCTCTAAATTTGTTTAAGAGGAATGCTCAGGTTCGTTGC
66 TATTCTTGATGTAGCACTGCCAGCAGCCTCTAAATTTGTTTAAGAGGAATGCTCAGGTTCGTTGC
* *
2042421 AATGGCCATGCCTAAATTTGGCTCACGGCCATGATGTTGTGAGCTGGGAGCTTGGGCAGGCTACA
131 AATGCCCATGCCTAAATTTGGCTCACAGCCATGATGTTGTGAGCTGGGAGCTTGGGCAGGCTACA
2042486 ATAGCTGCTTTTGAGTCTTAGATTTGTGCTTCTTTATGTGAAACTCAATGGCTCTCATTTCATTT
196 ATAGCTGCTTTTGAGTCTTAGATTTGTGCTTCTTTATGTGAAACTCAATGGCTCTCATTTCATTT
2042551 TCTCATT
261 TCTCATT
2042558 T
1 T
2042559 CTTGAGTTTT
Statistics
Matches: 263, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
267 263 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (267 bp):
TTTAGAGAGCATTCATCTCCAATTTAAAACCACAAAATAAAAAAAAAAAAAACAAAGCATGTATC
TATTCTTGATGTAGCACTGCCAGCAGCCTCTAAATTTGTTTAAGAGGAATGCTCAGGTTCGTTGC
AATGCCCATGCCTAAATTTGGCTCACAGCCATGATGTTGTGAGCTGGGAGCTTGGGCAGGCTACA
ATAGCTGCTTTTGAGTCTTAGATTTGTGCTTCTTTATGTGAAACTCAATGGCTCTCATTTCATTT
TCTCATT
Found at i:2044774 original size:27 final size:27
Alignment explanation
Indices: 2044724--2044775 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2044714 TATCATAATA
* *
2044724 TAAATATTTATTTTAATAAAAATATTT
1 TAAATATTTATATTAAAAAAAATATTT
2044751 TAAATATTTA-ATTAAAAAATAATAT
1 TAAATATTTATATTAAAAAA-AATAT
2044776 AATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAATATTTATATTAAAAAAAATATTT
Found at i:2044966 original size:27 final size:27
Alignment explanation
Indices: 2044936--2044991 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2044926 ATAAAAGATG
* * *
2044936 TAAATTTTTTAAA-AATTTTTATTTATT
1 TAAA-TTTTAAAATAATTTTTAATTTTT
2044963 TAAATTTTAAAATAATTTTTAATTTTT
1 TAAATTTTAAAATAATTTTTAATTTTT
2044990 TA
1 TA
2044992 TCTTTATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAAATTTTAAAATAATTTTTAATTTTT
Found at i:2045092 original size:25 final size:25
Alignment explanation
Indices: 2045030--2045129 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 25
2045020 TTTAAAATTC
*
2045030 AAATATGTT-TATTATTA-ATTTTAT
1 AAATATTTTATATTATTATATTTT-T
* *
2045054 AAATA-ATCAT-TTATTATATTTTT
1 AAATATTTTATATTATTATATTTTT
2045077 AAATATTTTATATTATT-TAATTTTT
1 AAATATTTTATATTATTAT-ATTTTT
** * *
2045102 AAATATTAAATATTAATATTTTTTT
1 AAATATTTTATATTATTATATTTTT
2045127 AAA
1 AAA
2045130 AAATCTACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
23 13 0.21
24 15 0.24
25 33 0.53
26 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
AAATATTTTATATTATTATATTTTT
Found at i:2045121 original size:48 final size:47
Alignment explanation
Indices: 2045030--2045124 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 47
2045020 TTTAAAATTC
**
2045030 AAATATGTTTATTATTAATTTTATAAATAATCATTTATTATATTTTT
1 AAATATGTTTATTATTAATTTTATAAATAATCAAATATTATATTTTT
* *
2045077 AAATATTTTATATTATTTAATTTT-TAAAT-ATTAAATATTAATATTTTT
1 AAATATGTT-TATTA-TTAATTTTATAAATAATCAAATATT-ATATTTTT
2045125 TTAAAAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 15 0.37
48 18 0.44
49 8 0.20
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (47 bp):
AAATATGTTTATTATTAATTTTATAAATAATCAAATATTATATTTTT
Found at i:2049815 original size:58 final size:58
Alignment explanation
Indices: 2049700--2049818 Score: 166
Period size: 58 Copynumber: 2.1 Consensus size: 58
2049690 TCATATGTTT
* * ** *
2049700 CAAATAATAATGATCGTGTTATGGAGAACAATTTTCTAGTGACTATATTTCAACTTTG
1 CAAATAATAACGATCGTGTTATGGAGAACAATTTTCCAACGACTATACTTCAACTTTG
* * *
2049758 CAAATGATAACGATCGTGTTATGGAGAACAATTTTCCAACGACTCTACTTCAGCTTTG
1 CAAATAATAACGATCGTGTTATGGAGAACAATTTTCCAACGACTATACTTCAACTTTG
2049816 CAA
1 CAA
2049819 TGGTAGCTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (58 bp):
CAAATAATAACGATCGTGTTATGGAGAACAATTTTCCAACGACTATACTTCAACTTTG
Found at i:2050253 original size:42 final size:42
Alignment explanation
Indices: 2050207--2050294 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
2050197 ATTAACGACG
* * **
2050207 TTTACAGGATTAAACGCCATTAAATTTTTAAATTTAGTGGCA
1 TTTACAAGATAAAACGCCATTAAATTTGAAAATTTAGTGGCA
**
2050249 TTTACAAGATAAAACGCTGTTAAATTTGAAAATTTAGTGGCA
1 TTTACAAGATAAAACGCCATTAAATTTGAAAATTTAGTGGCA
2050291 TTTA
1 TTTA
2050295 ATAATAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (42 bp):
TTTACAAGATAAAACGCCATTAAATTTGAAAATTTAGTGGCA
Found at i:2053350 original size:20 final size:20
Alignment explanation
Indices: 2053325--2053378 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
2053315 GTTTAAGACA
2053325 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATATGC--C
*
2053345 ATGTATTGATACAATATGCC
1 ATGTATCGATACAATATGCC
2053365 ATGTATCGATACAA
1 ATGTATCGATACAA
2053379 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATATGCC
Found at i:2053454 original size:19 final size:20
Alignment explanation
Indices: 2053405--2053460 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
2053395 TACTGTCAGT
*
2053405 TTCATATATCGATACAATTG
1 TTCATGTATCGATACAATTG
*
2053425 TGT-AAGTATCGATACAA-TG
1 T-TCATGTATCGATACAATTG
2053444 TTCATGTATCGATACAA
1 TTCATGTATCGATACAA
2053461 GGTATCGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 13 0.42
21 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:2053467 original size:13 final size:13
Alignment explanation
Indices: 2053449--2053473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2053439 CAATGTTCAT
2053449 GTATCGATACAAG
1 GTATCGATACAAG
2053462 GTATCGATACAA
1 GTATCGATACAA
2053474 AGCATAATGT
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:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAG
Found at i:2054105 original size:13 final size:14
Alignment explanation
Indices: 2054089--2054127 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
2054079 GCTTTCTTTT
*
2054089 AAAAAGATTTTCAA
1 AAAAAAATTTTCAA
*
2054103 AAAAAAAATTTC-A
1 AAAAAAATTTTCAA
2054116 AAAAAAATTTTC
1 AAAAAAATTTTC
2054128 TCCCCCTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAAAAATTTTCAA
Found at i:2056047 original size:151 final size:152
Alignment explanation
Indices: 2055772--2056048 Score: 538
Period size: 151 Copynumber: 1.8 Consensus size: 152
2055762 AAATTCAAAA
2055772 TGCATGAAACATAGCAAAAAAAATGCATAAATAGGGACTATACAAGTGATGGAGATACACTATGG
1 TGCATGAAACATAGCAAAAAAAATGCATAAATAGGGACTATACAAGTGATGGAGATACACTATGG
2055837 CATTTTGATAGAATGCACACCACAAGGACCACATCAACCTAATTTCTACCATAACCAAAGTGATG
66 CATTTTGATAGAATGCACACCACAAGGACCACATCAACCTAATTTCTACCATAACCAAAGTGATG
2055902 GAGATACACTATGGCATTTTTT
131 GAGATACACTATGGCATTTTTT
*
2055924 TGCATGAAACATAGC-AAAAAAATGCATGAATAGGGACTATACAAGTGATGGAGATACACTATGG
1 TGCATGAAACATAGCAAAAAAAATGCATAAATAGGGACTATACAAGTGATGGAGATACACTATGG
2055988 CATTTTGATAGAATGCACACCACAAGGACCACATCAACCTAATTTCTACCATAACCAAAGT
66 CATTTTGATAGAATGCACACCACAAGGACCACATCAACCTAATTTCTACCATAACCAAAGT
2056049 CACAAATATG
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
151 109 0.88
152 15 0.12
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (152 bp):
TGCATGAAACATAGCAAAAAAAATGCATAAATAGGGACTATACAAGTGATGGAGATACACTATGG
CATTTTGATAGAATGCACACCACAAGGACCACATCAACCTAATTTCTACCATAACCAAAGTGATG
GAGATACACTATGGCATTTTTT
Found at i:2058253 original size:442 final size:442
Alignment explanation
Indices: 2057429--2058292 Score: 1505
Period size: 442 Copynumber: 2.0 Consensus size: 442
2057419 CTCATGCTCC
* * *
2057429 ACTAGATGATTAAAGCCAGTAGCAAGAGATCTTTCATCAAATCTCTCTATTAGCATTACTTTTGC
1 ACTAGATAATTAAAGCCAATAGCAACAGATCTTTCATCAAATCTCTCTATTAGCATTACTTTTGC
*
2057494 ATAAAGGTGTGATGTGAAAATTTGATCTTCAATGAATTTTTTATGGCATTTGTAATCTTACCAAG
66 ATAAAGGTGTGATGTGAAAATTTGATCTTCAATGAATTTTTTATGGCATTTGTAATCTCACCAAG
*
2057559 TTGTTCTACCATATTCTTAAATTTGTTATCTTTGCCATTTTCTTGGATATTCATCCTTTTATTAT
131 TTGTTCTACCATATTCTTAAATTTGTTATCTTTGCCACTTTCTTGGATATTCATCCTTTTATTAT
*
2057624 TTGACCATAGTTTTGAAGTTCCTATTGATGAAGATGTTTTTGGTTTAACCTCATCATTACCTTTA
196 TTGACCATAGTTTTGAAGTTCCAATTGATGAAGATGTTTTTGGTTTAACCTCATCATTACCTTTA
*
2057689 ATCTCAAAGTTAACAAGCATTAAGTCATCCTTAGTAGTATTCTCTAAATTAATATCAATAAATGT
261 ATCTCAAAGTTAACAAGCATTAAGTCATCCTTAGTAGTATCCTCTAAATTAATATCAATAAATGT
* *
2057754 TCTAGCAAAACTTTCTAATGCCATATCACCAACAATCGAAGCCATCTCATCATATGTCTCAAGTT
326 TCTAGCAAAACTTCCTAATGCCATATCACCAACAATCAAAGCCATCTCATCATATGTCTCAAGTT
2057819 TTTGGTTCAAAAATTGTTCATACTTTAGATATTATAAACACATTCAAAATTA
391 TTTGGTTCAAAAATTGTTCATACTTTAGATATTATAAACACATTCAAAATTA
* * *
2057871 ACTAGATAATTAAAGGCAATAGCTACAGATTTTTCATCAAATCTCTCTATTAGCATTACTTTTGC
1 ACTAGATAATTAAAGCCAATAGCAACAGATCTTTCATCAAATCTCTCTATTAGCATTACTTTTGC
2057936 ATAAAGGTGTGATGTGAAAATTTGATCTTCAATGAATTTTTTATGGCATTTGTAATCTCACCAAG
66 ATAAAGGTGTGATGTGAAAATTTGATCTTCAATGAATTTTTTATGGCATTTGTAATCTCACCAAG
* * *
2058001 TTGTTGTACCATGTTCTTAAATTTGTTATTTTTGCCACTTTCTTGGATATTCATCCTTTTATTAT
131 TTGTTCTACCATATTCTTAAATTTGTTATCTTTGCCACTTTCTTGGATATTCATCCTTTTATTAT
2058066 TTGA-CATTAGTTTTGAAGTTCCAATTGATGAAGATGTTTTTGGTTTAACCTCATCATTACCTTT
196 TTGACCA-TAGTTTTGAAGTTCCAATTGATGAAGATGTTTTTGGTTTAACCTCATCATTACCTTT
* * * * *
2058130 AATCTCTAAGTTAATAAGCATTGAGTCATCCTTAGTAGTATCCTCTAAATTAATATTAGTAAATG
260 AATCTCAAAGTTAACAAGCATTAAGTCATCCTTAGTAGTATCCTCTAAATTAATATCAATAAATG
*
2058195 TTCTAGCAAAACTTCCTAATGCTATATCACCAACAATCAAAGCCATCTCATCATATGTCTCAAGT
325 TTCTAGCAAAACTTCCTAATGCCATATCACCAACAATCAAAGCCATCTCATCATATGTCTCAAGT
* *
2058260 TTTTGGTTTAAAAATTGTTCGTACTTTAGATAT
390 TTTTGGTTCAAAAATTGTTCATACTTTAGATAT
2058293 GCCTGTTTGG
Statistics
Matches: 398, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
441 2 0.01
442 396 0.99
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (442 bp):
ACTAGATAATTAAAGCCAATAGCAACAGATCTTTCATCAAATCTCTCTATTAGCATTACTTTTGC
ATAAAGGTGTGATGTGAAAATTTGATCTTCAATGAATTTTTTATGGCATTTGTAATCTCACCAAG
TTGTTCTACCATATTCTTAAATTTGTTATCTTTGCCACTTTCTTGGATATTCATCCTTTTATTAT
TTGACCATAGTTTTGAAGTTCCAATTGATGAAGATGTTTTTGGTTTAACCTCATCATTACCTTTA
ATCTCAAAGTTAACAAGCATTAAGTCATCCTTAGTAGTATCCTCTAAATTAATATCAATAAATGT
TCTAGCAAAACTTCCTAATGCCATATCACCAACAATCAAAGCCATCTCATCATATGTCTCAAGTT
TTTGGTTCAAAAATTGTTCATACTTTAGATATTATAAACACATTCAAAATTA
Found at i:2061690 original size:16 final size:16
Alignment explanation
Indices: 2061625--2061690 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 16
2061615 GACCAACCCG
*
2061625 AACCCAAAAATTACCTA
1 AACCC-AAAATAACCTA
* *
2061642 AACCC-GAATAACCCA
1 AACCCAAAATAACCTA
*
2061657 AACCAAAAAT-A-CTCA
1 AACCCAAAATAACCT-A
2061672 AACCCAAAATAACCTA
1 AACCCAAAATAACCTA
2061688 AAC
1 AAC
2061691 TTAAAATAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
14 1 0.03
15 22 0.58
16 8 0.21
17 7 0.18
ACGTcount: A:0.55, C:0.32, G:0.02, T:0.12
Consensus pattern (16 bp):
AACCCAAAATAACCTA
Found at i:2062023 original size:17 final size:18
Alignment explanation
Indices: 2062001--2062040 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
2061991 ACTTAAAAAC
2062001 AAAATGACCT-AAATTAA
1 AAAATGACCTAAAATTAA
2062018 AAAATGACCTAAAAATTAA
1 AAAATGACCT-AAAATTAA
2062037 AAAA
1 AAAA
2062041 CTCAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAATGACCTAAAATTAA
Found at i:2062944 original size:14 final size:14
Alignment explanation
Indices: 2062901--2062947 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
2062891 AAGCAATCCT
*
2062901 TCTTTTTTTTTCTC
1 TCTTTTTTTCTCTC
*
2062915 T-TTTTTTTCT-TA
1 TCTTTTTTTCTCTC
*
2062927 TCTTTTTTGCTCTC
1 TCTTTTTTTCTCTC
2062941 TCTTTTT
1 TCTTTTT
2062948 GCTATTGCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 16 0.59
14 9 0.33
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTTTTCTCTC
Found at i:2068953 original size:27 final size:27
Alignment explanation
Indices: 2068923--2068985 Score: 110
Period size: 27 Copynumber: 2.3 Consensus size: 27
2068913 ATGGGATTAG
2068923 AGTATCCCCTCAAAGGAAT-ATGGTTGA
1 AGTATCCCCTCAAAGGAATGA-GGTTGA
2068950 AGTATCCCCTCAAAGGAATGAGGTTGA
1 AGTATCCCCTCAAAGGAATGAGGTTGA
2068977 AGTATCCCC
1 AGTATCCCC
2068986 GATGGATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGTATCCCCTCAAAGGAATGAGGTTGA
Found at i:2072271 original size:35 final size:35
Alignment explanation
Indices: 2072225--2072409 Score: 295
Period size: 35 Copynumber: 5.4 Consensus size: 35
2072215 AAATAAAAAA
2072225 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
* **
2072260 CATGGAATGATGGGCATGAAATATAAAAA--AAAA
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2072293 CATGGGATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2072328 CATGGAATGATGGGCATGGAATAAAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2072363 CATAGAATGATGGGCATGGAATA-AAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
2072397 CATGGAATGATGG
1 CATGGAATGATGG
2072410 ATAAAAATGA
Statistics
Matches: 137, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
33 29 0.21
34 23 0.17
35 85 0.62
ACGTcount: A:0.45, C:0.06, G:0.30, T:0.19
Consensus pattern (35 bp):
CATGGAATGATGGGCATGGAATATAAAAATGAAGG
Found at i:2072316 original size:68 final size:67
Alignment explanation
Indices: 2072219--2072409 Score: 303
Period size: 68 Copynumber: 2.8 Consensus size: 67
2072209 ATGAAGAAAT
2072219 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAT
1 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATA-
2072284 AAA
65 AAA
* *
2072287 AAAAAACATGGGATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAA
1 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAA
2072352 AA
66 AA
* *
2072354 AAATGAAGGCATAGAATGATGGGCATGGAATA-AAAAATGAAGGCATGGAATGATGG
1 AAA--AA-ACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGG
2072410 ATAAAAATGA
Statistics
Matches: 115, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
67 6 0.05
68 62 0.54
69 26 0.23
70 21 0.18
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (67 bp):
AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAA
AA
Found at i:2073710 original size:79 final size:79
Alignment explanation
Indices: 2073621--2073968 Score: 543
Period size: 79 Copynumber: 4.4 Consensus size: 79
2073611 GTTAAGTTTC
* * *
2073621 TCAATTTTTCACAATCGGGGATACTTCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
2073686 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* *
2073700 TCAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
2073765 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* *
2073779 TTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
2073844 TTATTTCTAAAAAA
66 TTATTTCTAAAACA
* * * * *
2073858 TTAATTTTTCACAATCGGGGATACCCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
2073923 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
2073937 TCAATTTTTCATAATTGGGGATACTCTAACCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCC
2073969 TGATTTTTTT
Statistics
Matches: 248, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 248 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:2074888 original size:13 final size:13
Alignment explanation
Indices: 2074870--2074895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2074860 CAATTTTTTG
2074870 TGTATCGATACAT
1 TGTATCGATACAT
2074883 TGTATCGATACAT
1 TGTATCGATACAT
2074896 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2074982 original size:20 final size:20
Alignment explanation
Indices: 2074957--2075029 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2074947 TCTTTTTTTT
2074957 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2074977 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2074998 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2075018 ATGTATCGATAC
1 ATGTATCGATAC
2075030 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2075008 original size:41 final size:42
Alignment explanation
Indices: 2074934--2075029 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 42
2074924 CTGCCAAGAA
*
2074934 ATGTATCGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
2074977 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
2075018 ATGTATCGATAC
1 ATGTATCGATAC
2075030 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
41 37 0.71
43 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:2075666 original size:16 final size:16
Alignment explanation
Indices: 2075635--2075680 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
2075625 CTCTCCTTTG
2075635 TCTCCCCCTTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
2075653 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
2075669 TCTCCCCCTTAA
1 TCTCCCCCTTAA
2075681 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.30
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:2077504 original size:13 final size:13
Alignment explanation
Indices: 2077486--2077524 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2077476 ATAATCACCC
*
2077486 TGTATCGATACAG
1 TGTATCGATACAA
2077499 TGTATCGATACAA
1 TGTATCGATACAA
2077512 TGTATCGATACAA
1 TGTATCGATACAA
2077525 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2079576 original size:15 final size:15
Alignment explanation
Indices: 2079556--2079586 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2079546 ATTTCGTTTG
*
2079556 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2079571 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2079586 G
1 G
2079587 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2082935 original size:13 final size:13
Alignment explanation
Indices: 2082917--2082942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2082907 CAATTTTTTG
2082917 TGTATCGATACAT
1 TGTATCGATACAT
2082930 TGTATCGATACAT
1 TGTATCGATACAT
2082943 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2083029 original size:20 final size:20
Alignment explanation
Indices: 2083004--2083076 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2082994 TCTTTTTTTT
2083004 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2083024 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2083045 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2083065 ATGTATCGATAC
1 ATGTATCGATAC
2083077 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2083055 original size:41 final size:42
Alignment explanation
Indices: 2082981--2083076 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 42
2082971 CTGCCAAGAA
*
2082981 ATGTATCGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
2083024 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
2083065 ATGTATCGATAC
1 ATGTATCGATAC
2083077 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
41 37 0.71
43 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:2089474 original size:55 final size:54
Alignment explanation
Indices: 2089383--2089667 Score: 347
Period size: 55 Copynumber: 5.0 Consensus size: 54
2089373 CGCCTTTTCC
2089383 TTTTAAAGCCCACACAAGTTGGTGGCACCATTCAGTCCTCAAAGAGCAGGACGCT
1 TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCT
** * * *
2089438 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGTAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCT
* *
2089493 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA--C--GC-T
2089552 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 TTTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG-C---T
*
2089611 CCTTTTAAAGCCCACACAAGTTGGTGGTA-CTTCCTAGTCCTCAAAGAGCAGGACGCT
1 --TTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCT
2089668 CTCTCCTTTC
Statistics
Matches: 201, Mismatches: 15, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
54 19 0.09
55 75 0.37
56 1 0.00
57 2 0.01
58 2 0.01
59 8 0.04
60 70 0.35
61 24 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (54 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCT
Found at i:2089586 original size:60 final size:59
Alignment explanation
Indices: 2089350--2089672 Score: 375
Period size: 60 Copynumber: 5.5 Consensus size: 59
2089340 CTCTTTTAGC
* *
2089350 CCTTCAGTCCTCAAAGAGTATGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACG-CTTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCA
2089410 CCATTCAGTCCTCAAAGAGCAGGACG----CT-TTTTAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
2089465 TTTTCCAGTCCTCAAAAAGTAGGACG----C-CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2089520 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCA
*
2089580 CCTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTCAGTCCTCAAAGAGCAGGACG-CTTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCA
*
2089640 -CTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTC
1 CCTT-C-AGTCCTCAAAGAGCAGGACGCTTTCTC
2089673 CTTTCACCCT
Statistics
Matches: 230, Mismatches: 18, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
54 20 0.09
55 75 0.33
57 1 0.00
58 1 0.00
59 6 0.03
60 77 0.33
61 50 0.22
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2089758 original size:100 final size:100
Alignment explanation
Indices: 2089580--2089764 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 100
2089570 GTTGGTGGCA
* *
2089580 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACTTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
2089645 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
66 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
* * * * *
2089680 CCTTTAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCTAGACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
*
2089745 C-AGTCTTCAAAGAGCAGGAC
65 CTAGTCCTCAAAGAGCAGGAC
2089765 TCCTTTTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
100 72 0.95
101 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (100 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
Found at i:2089793 original size:54 final size:55
Alignment explanation
Indices: 2089709--2089818 Score: 170
Period size: 54 Copynumber: 2.0 Consensus size: 55
2089699 AGGACGCCTT
* * *
2089709 CTCCTTTTAAAGCCTAGACAAGTTGGTGGCACCTTTC-AGTCTTCAAAGAGCAGGA
1 CTCCTTTTAAAGCCTACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
2089764 CTCCTTTTAAAGCC-ACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
2089818 C
1 C
2089819 ACTCTCTTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 4 0.08
54 33 0.65
55 14 0.27
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (55 bp):
CTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
Found at i:2089857 original size:93 final size:94
Alignment explanation
Indices: 2089740--2090220 Score: 402
Period size: 108 Copynumber: 4.8 Consensus size: 94
2089730 GTTGGTGGCA
* *
2089740 CCTTTCAGTCTTCAAAGAGCAGGAC-TCCTTTTAAAG-CCACACAAGTTGGTGGCA-CTTCCTAG
1 CCTTTCAGTCCTCAAAGAGCAGGACGT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AG
2089802 TCCTCAAAGAGCAGGACACTCTCTTCTCTCAC
63 TCCTCAAAGAGCAGGACACTCTCTTCTCTCAC
2089834 CCTTT-AGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
** * *
2089898 TCAAAGAGCAGGA-TGTCTTTTAAAGCCCATACAAGC
66 TCAAAGAGCAGGACACTCTCTT----CTC-T-C-A-C
* * *
2089934 TGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA-CT
1 ------C-CTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
2089998 TCCTAGTCCTCAAAGAGTAGGACACTCTCTTCTTTCAC
59 T-C-AGTCCTCAAAGAGCAGGACACTCTCTTCTCTCAC
* * *
2090036 CCTTT-AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCAGTCC
1 CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * * *
2090100 TCAAAGAGCAGGACGC-CTTTTAAAGCCCACAC
66 TCAAAGAGCAGGACACTCTCTT----CTCTCAC
* * *
2090132 AAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ----------C-CTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGC
2090197 ACCTTCAGTCCTCAAAGAGCAGGA
55 ACCTTCAGTCCTCAAAGAGCAGGA
2090221 TGCCTTTCAA
Statistics
Matches: 321, Mismatches: 27, Indels: 64
0.78 0.07 0.16
Matches are distributed among these distances:
92 9 0.03
93 63 0.20
94 74 0.23
95 9 0.03
96 7 0.02
97 1 0.00
98 1 0.00
99 1 0.00
100 1 0.00
102 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
106 3 0.01
107 9 0.03
108 117 0.36
109 17 0.05
110 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (94 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCAGGACACTCTCTTCTCTCAC
Found at i:2089990 original size:202 final size:202
Alignment explanation
Indices: 2089711--2090578 Score: 1057
Period size: 202 Copynumber: 4.3 Consensus size: 202
2089701 GACGCCTTCT
* * * * *
2089711 CCTTTTAAAGCCTAGACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACTCCTTTTAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
*
2089776 -CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTCTCACCCTTTA
65 CCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTA
2089840 GTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGA
130 GTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGA
*
2089905 GCAGGATG
195 GCAGGACG
* * *
2089913 TCTTTTAAAGCCCATACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* *
2089978 CCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACACTCTCTTCTTTCACCCTTTAG
66 CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAG
* * *
2090043 TCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
131 TCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
2090108 CAGGACG
196 CAGGACG
*
2090115 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* *
2090180 CCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGG--A-T-GC--CTTTCA-----AA
66 CCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTA
* * * ** * ** * ** ** ** *
2090232 GCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCATCCTTT
130 GTCCTCA-AAG-AGCAGG-ACGT-CT--T--TCAAAGCCCA-CACA-AGT-TGGTGGCA-CCTTC
2090297 AGTCCTCAAAGAGCAGGACG
183 AGTCCTCAAAGAGCAGGACG
*
2090317 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCATAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* *
2090382 CCACATAAGTTGGTGGCACTTCCTAGTCCGCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAG
66 CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAG
*
2090447 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
131 TCCTCAAAGAGCAGGACG-----T-CTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCT
*
2090512 CAAAGAGCAGGACT
189 CAAAGAGCAGGACG
*
2090526 CCTTTTAAAG-CCACACAAGTTGGTGGCA-ATTCCTAGTCCTCAAAGAGCAGGAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGAC
2090579 ACTCTCTTCT
Statistics
Matches: 566, Mismatches: 65, Indels: 63
0.82 0.09 0.09
Matches are distributed among these distances:
190 6 0.01
191 3 0.01
192 3 0.01
193 2 0.00
194 2 0.00
195 6 0.01
196 1 0.00
197 1 0.00
198 9 0.02
199 3 0.01
200 1 0.00
201 53 0.09
202 341 0.60
203 19 0.03
205 1 0.00
206 1 0.00
207 3 0.01
208 21 0.04
209 60 0.11
210 1 0.00
211 5 0.01
212 10 0.02
213 3 0.01
214 7 0.01
216 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (202 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTTCTTTCACCCTTTAG
TCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
CAGGACG
Found at i:2090020 original size:55 final size:54
Alignment explanation
Indices: 2089834--2090020 Score: 277
Period size: 54 Copynumber: 3.4 Consensus size: 54
2089824 CTTCTCTCAC
*
2089834 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
2089888 CCTTCAGTCCTCAAAGAGCAGGATGTCTTTTAAAGCCCATACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2089942 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2089996 -CTTCCTAGTCCTCAAAGAGTAGGAC
1 CCTT-C-AGTCCTCAAAGAGCAGGAC
2090021 ACTCTCTTCT
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.03
54 98 0.82
55 18 0.15
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (54 bp):
CCTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2090089 original size:148 final size:147
Alignment explanation
Indices: 2089888--2090167 Score: 436
Period size: 148 Copynumber: 1.9 Consensus size: 147
2089878 GTTGGTGGCA
* * * *
2089888 CCTTCAGTCCTCAAAGAGCAGGATGTCTTTTAAAGCCCATACAAGCTGGTGGCACCTTCAGTCCT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCT
* *
2089953 CAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGTA
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCA
2090017 GGACACTCTCTTCTTTCAC
129 GGACACTCTCTTCTTTCAC
* * * *
2090036 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCT
*
2090101 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
2090166 AC
131 AC
2090168 GCCTTTTAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
147 18 0.15
148 99 0.82
149 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (147 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
ACACTCTCTTCTTTCAC
Found at i:2090101 original size:256 final size:256
Alignment explanation
Indices: 2089834--2090424 Score: 1013
Period size: 256 Copynumber: 2.3 Consensus size: 256
2089824 CTTCTCTCAC
* *
2089834 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
2089899 CAAAGAGCAGGATGTCTTTTAAAGCCCATACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
66 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
*
2089964 ACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACACTCTCTT
131 ACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTT
* *
2090029 CTTTCACCCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
196 CTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2090090 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
*
2090155 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
66 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
*
2090220 ATGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTT
131 ACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTT
* *
2090285 CTTTCATCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
196 CTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2090346 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCATAGCCCACATAAGTTGGTGGCA-CTTCCTAGTC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTC
*
2090410 CGCAAAGAGCAGGAC
64 CTCAAAGAGCAGGAC
2090425 ACTCTCTTCT
Statistics
Matches: 316, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
255 3 0.01
256 295 0.93
257 18 0.06
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (256 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
ACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACTCTCTT
CTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2090104 original size:54 final size:54
Alignment explanation
Indices: 2090036--2090276 Score: 394
Period size: 54 Copynumber: 4.4 Consensus size: 54
2090026 CTTCTTTCAC
* * *
2090036 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2090090 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2090144 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2090198 CCTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
2090252 -CTTCCTAGTCCTCAAAGAGCAGGAC
1 CCTT-C-AGTCCTCAAAGAGCAGGAC
2090277 ACTCTCTTCT
Statistics
Matches: 177, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
53 3 0.02
54 156 0.88
55 18 0.10
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (54 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2090383 original size:54 final size:54
Alignment explanation
Indices: 2090292--2090424 Score: 196
Period size: 54 Copynumber: 2.4 Consensus size: 54
2090282 CTTCTTTCAT
* *
2090292 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2090346 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCATAGCCCACATAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2090400 -CTTCCTAGTCCGCAAAGAGCAGGAC
1 CCTT-C-AGTCCTCAAAGAGCAGGAC
2090425 ACTCTCTTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.04
54 51 0.71
55 18 0.25
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (54 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2090417 original size:148 final size:148
Alignment explanation
Indices: 2090144--2090732 Score: 903
Period size: 148 Copynumber: 3.9 Consensus size: 148
2090134 GTTGGTGGCA
*
2090144 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
*
2090209 CAAAGAGCAGGATGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
*
2090274 GACACTCTCTTCTTTCAT
131 GACACTCTCTTCTTTCAC
2090292 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* *
2090357 CAAAGAGCAGGACGCCTTTCATAGCCCACATAAGTTGGTGGCACTTCCTAGTCCGCAAAGAGCAG
66 CAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
2090422 GACACTCTCTTCTTTCAC
131 GACACTCTCTTCTTTCAC
2090440 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TT
* * * *
2090505 CAGTCCTCAAAGAGCAGGACTCCTTTTAAAG-CCACACAAGTTGGTGGCAATTCCTAGTCCTCAA
59 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAA
*
2090569 AGAGCAGGACACTCTCTTCTCTCAC
124 AGAGCAGGACACTCTCTTCTTTCAC
*
2090594 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
2090659 CAAAGAGCAGGACGCCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCATCA
66 CAAAGAGCAGGACG------CC-TTTCAAAGCCCACATAAGTTGGTGGCACTTCCT-AGTCCTCA
2090723 AAGAGCAGGA
123 AAGAGCAGGA
2090733 TGCTTTCTTT
Statistics
Matches: 407, Mismatches: 18, Indels: 25
0.90 0.04 0.06
Matches are distributed among these distances:
147 22 0.05
148 198 0.49
153 2 0.00
154 118 0.29
155 67 0.16
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (148 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
GACACTCTCTTCTTTCAC
Found at i:2090518 original size:100 final size:94
Alignment explanation
Indices: 2090346--2090524 Score: 243
Period size: 100 Copynumber: 1.8 Consensus size: 94
2090336 GTTGGTGGCA
* *
2090346 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCATAGCCCACATAAGTTGGTGGCACTTCCTAGTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
2090411 GCAAAGAGCAGGACACTCTCTTCTTTCAC
66 GCAAAGAGCAGGACACTCTCTTCTTTCAC
* *
2090440 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA-CTTC
*
2090505 C-AGTCCTCAAAGAGCAGGAC
59 CTAGTCCGCAAAGAGCAGGAC
2090525 TCCTTTTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
94 28 0.38
95 1 0.01
96 1 0.01
100 39 0.53
101 4 0.05
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (94 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
GCAAAGAGCAGGACACTCTCTTCTTTCAC
Found at i:2090552 original size:54 final size:55
Alignment explanation
Indices: 2090469--2090578 Score: 179
Period size: 54 Copynumber: 2.0 Consensus size: 55
2090459 AGGACGCCTT
* *
2090469 CTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA
1 CTCCTTTTAAAGCCCACACAAGTTGGTGGCA-ATTCCTAGTCCTCAAAGAGCAGGA
2090524 CTCCTTTTAAAG-CCACACAAGTTGGTGGCAATTCCTAGTCCTCAAAGAGCAGGA
1 CTCCTTTTAAAGCCCACACAAGTTGGTGGCAATTCCTAGTCCTCAAAGAGCAGGA
2090578 C
1 C
2090579 ACTCTCTTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 3 0.06
54 37 0.71
55 12 0.23
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CTCCTTTTAAAGCCCACACAAGTTGGTGGCAATTCCTAGTCCTCAAAGAGCAGGA
Found at i:2090615 original size:93 final size:94
Alignment explanation
Indices: 2090500--2090671 Score: 278
Period size: 93 Copynumber: 1.8 Consensus size: 94
2090490 GTTGGTGGCA
* *
2090500 CCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAG-CCACACAAGTTGGTGGCA-ATTCCTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACATT-C-AGT
2090563 CCTCAAAGAGCAGGACACTCTCTTCTCTCAC
64 CCTCAAAGAGCAGGACACTCTCTTCTCTCAC
*
2090594 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACATTCAGTCC
2090658 TCAAAGAGCAGGAC
66 TCAAAGAGCAGGAC
2090672 GCCTTTTCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
93 47 0.64
94 24 0.33
95 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (94 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACATTCAGTCC
TCAAAGAGCAGGACACTCTCTTCTCTCAC
Found at i:2090751 original size:61 final size:61
Alignment explanation
Indices: 2090599--2090916 Score: 388
Period size: 61 Copynumber: 5.3 Consensus size: 61
2090589 CTCACCCTTT
*
2090599 AGTCCTCAAAGAGCAGGACG-C---C--TTTCAAAGCCCACACAAGTTGGTGGCAC-CTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
**
2090653 AGTCCTCAAAGAGCAGGACGCCTTTTCCATTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCC-TTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
2090715 AGTCATCAAAGAGCAGGATG-CTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * *
2090776 AGTCCTCAAAGAGTAGGATG-CTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCA-TCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
2090836 TAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
2090898 AGTCCTCAAAGAGTAGGAC
1 AGTCCTCAAAGAGCAGGAC
2090917 ACACTTCTTT
Statistics
Matches: 232, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
54 20 0.09
55 1 0.00
59 1 0.00
60 11 0.05
61 166 0.72
62 33 0.14
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:2090946 original size:42 final size:41
Alignment explanation
Indices: 2090899--2091031 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 41
2090889 GCACTTTTCA
* *
2090899 GTCCTCAAAGAGTAGGACACACTTCTTTCCCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACACATTTCTTTCCCTTTTTC-CTTT
* *
2090941 GTCCTC-AAGAAGCAGGACAC-TTTCCTTTGCTTCTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACATTT-CTTTCCCT-TTTTCCTTT
* * *
2090983 GTCCTTAAGGAGCAGGAC-CTATTTCATTCCCTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCTTTCCCTTTTTCCTTT
2091023 GTCCTCAAA
1 GTCCTCAAA
2091032 AAAGTGGGAC
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
40 11 0.15
41 10 0.14
42 43 0.58
43 10 0.14
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.39
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACATTTCTTTCCCTTTTTCCTTT
Found at i:2091696 original size:35 final size:35
Alignment explanation
Indices: 2091650--2091835 Score: 295
Period size: 35 Copynumber: 5.4 Consensus size: 35
2091640 AAATAAAAAA
2091650 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
* * **
2091685 CATGGAATGATGGGCATGAAATATAAAAA-AAAAA
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2091719 CATGGGATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2091754 CATGGAATGATGGGCATGGAATAAAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
*
2091789 CATAGAATGATGGGCATGGAATA-AAAAATGAAGG
1 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
2091823 CATGGAATGATGG
1 CATGGAATGATGG
2091836 ATAAAAATGA
Statistics
Matches: 137, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
34 52 0.38
35 85 0.62
ACGTcount: A:0.45, C:0.06, G:0.30, T:0.19
Consensus pattern (35 bp):
CATGGAATGATGGGCATGGAATATAAAAATGAAGG
Found at i:2091742 original size:69 final size:68
Alignment explanation
Indices: 2091644--2091835 Score: 305
Period size: 69 Copynumber: 2.8 Consensus size: 68
2091634 ATGAAGAAAT
2091644 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAT
1 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATA-
2091709 AAAA
65 AAAA
* *
2091713 AAAAAACATGGGATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAA
1 AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAA
2091778 AAA
66 AAA
** *
2091781 AATGAAGGCATAGAATGATGGGCATGGAATA-AAAAATGAAGGCATGGAATGATGG
1 AA--AAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGG
2091836 ATAAAAATGA
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
68 6 0.05
69 86 0.75
70 23 0.20
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (68 bp):
AAAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAA
AAA
Found at i:2093485 original size:79 final size:79
Alignment explanation
Indices: 2093049--2093485 Score: 673
Period size: 79 Copynumber: 5.5 Consensus size: 79
2093039 GTTAAGTTTC
* * ** *
2093049 TCAATTTTTCATAATCGAGGATACTTCAATTCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTT
*
2093114 TTATCTCTAAAACA
66 TTATTTCTAAAACA
2093128 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGGT
*
2093192 TTTATTTCTAAAATA
65 TTTATTTCTAAAACA
* * * *
2093207 TTAAGTTTTCATAATCGGGGATACTCAAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTT
*
2093272 TTATCTCTAAAACA
66 TTATTTCTAAAACA
2093286 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGGT
*
2093350 TTTATTTCTAAAATA
65 TTTATTTCTAAAACA
* * *
2093365 TTAATTTTTCATAATCGGGGATACCCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTT
2093430 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
2093444 TCAATTTTTCATAATCGGGGATACTCTAACCCCGATT-TTTCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG-TTATTTCT
2093486 TTTAGAACAC
Statistics
Matches: 326, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.00
79 321 0.98
80 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:2095486 original size:21 final size:21
Alignment explanation
Indices: 2095468--2095509 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2095458 AGACTTAATT
2095468 TTAACATTGAAATACTTAACC
1 TTAACATTGAAATACTTAACC
*
2095489 TTAAGATTGAAATACTTAACC
1 TTAACATTGAAATACTTAACC
2095510 CTCAAGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAACATTGAAATACTTAACC
Found at i:2097600 original size:11 final size:11
Alignment explanation
Indices: 2097553--2097603 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
2097543 TAAATCTAAG
2097553 AAAAAAATAAT
1 AAAAAAATAAT
*
2097564 AATAACAATAAT
1 AA-AAAAATAAT
*
2097576 AATAAAATAAT
1 AAAAAAATAAT
*
2097587 AAAAAAATATT
1 AAAAAAATAAT
2097598 AAAAAA
1 AAAAAA
2097604 GTGAAATGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 24 0.71
12 10 0.29
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:2099117 original size:109 final size:107
Alignment explanation
Indices: 2098960--2099571 Score: 494
Period size: 109 Copynumber: 5.6 Consensus size: 107
2098950 AATTGACTCG
* * * * * * * * *
2098960 AAATAGATCATCGTCTAGAGTCATAAAATGGCATACGGACGTCTTTTATATAAGATAATTTATTT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATG-CCTTTATATAAGATAATTCATTT
* * *
2099025 TTTGCATTAATTACATAGATTCAAGTATCAAAGGATTGGCTCTA
65 TTTGCATTAATTACGTAGATTCAAGCA-CAAAGGATTGGCCCTA
* * * * * * * *
2099069 AAATAGGTCAATGTCTGGAGTCATAAAATAGTGTACAAATGTTCTTTATATAGGATAATTTATTT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATG-CCTTTATATAAGATAATTCATTT
* * * * * *
2099134 TTTGTATTAATTACGTAGATTTGGAAAC-CAACGAATTGGCCCCA
65 TTTGCATTAATTACGTAGA-TT-CAAGCACAAAGGATTGGCCCTA
* * * * *
2099178 AAATTGGTCATTGTCTAAAGTTATAAAGTGGCGTACGAATGCCCTTTATATAGGATAATTCATTT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATG-CCTTTATATAAGATAATTCATTT
* * *
2099243 TTTACATTAATTACGTAGATTCGAGCACTAAAGGATTGGCCCTG
65 TTTGCATTAATTACGTAGATTCAAGCAC-AAAGGATTGGCCCTA
* * * *
2099287 AAATAAGTTATTGTCTAGAGTCATAAAGTGGCGTACGAACGCCTTTTATATAAGATAATTCATTT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATGCC-TTTATATAAGATAATTCATTT
* * * ** * *
2099352 TTTGCATAAATTATGTAAATTCAAGCACAAAAAAATTAG-CCTCG
65 TTTGCATTAATTACGTAGATTCAAGCAC-AAAGGATTGGCCCT-A
* * * * * ** *
2099396 AAATAAGTTATTGTTTAGAGTCATAAAGTATCGTATGAACACCCTTTATAT-AGAATAATTTATT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAA-TGCCTTTATATAAG-ATAATTCATT
* *** * *
2099460 TTTTGCATTAATTACATAGATTTGGGCACCAAGGGATTGG-TCTCA
64 TTTTGCATTAATTACGTAGATTCAAGCA-CAAAGGATTGGCCCT-A
* * * *
2099505 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCATACAAATGCCTTCTACATAGGATAATTCATTT
1 AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATGCCTT-TATATAAGATAATTCATTT
2099570 TT
65 TT
2099572 CACATAAAGT
Statistics
Matches: 401, Mismatches: 91, Indels: 22
0.78 0.18 0.04
Matches are distributed among these distances:
107 2 0.00
108 14 0.03
109 377 0.94
110 6 0.01
111 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (107 bp):
AAATAGGTCATTGTCTAGAGTCATAAAGTAGCGTACGAATGCCTTTATATAAGATAATTCATTTT
TTGCATTAATTACGTAGATTCAAGCACAAAGGATTGGCCCTA
Found at i:2100177 original size:156 final size:154
Alignment explanation
Indices: 2099888--2100469 Score: 675
Period size: 156 Copynumber: 3.7 Consensus size: 154
2099878 GACTTAAAAA
* * * * *
2099888 GAACCTATCCTAAATACCCACCTTCGGTATAAAAGCAGACCAGTGATAATCTAGGACTTAGTTCT
1 GAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGTGATAACCTAGGACTCAATTCT
* * * * * * *
2099953 AAAAAATTACGAAAATGCCC-CAAGGAGATACCTTCGACGTGAAAGTATCTTGGTACCCTTAAAG
66 AAAAAATTACAAAAATACCCTTAAGG-GATACCTTCGACGTGAAAGTATCTCGATACTCTGAAA-
*
2100017 GACTTAGAAAGGACTATAAAAGGGAT
129 GACTTAAAAAGGACTATAAAAGGGAT
* * * *
2100043 GAACCTATCCTAAATATCCACATTCGGCATAAAAGCAAACCCGATGATAACCTAGGACTCAATTT
1 GAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCG-TGATAACCTAGGACTCAATTC
* * * **
2100108 TAAAAAATTACGAAAATACCCTTAACGGATACTTTCGATATGAAAGTATCTCGATACTTCTGAAA
65 TAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACGTGAAAGTATCTCGATAC-TCTGAAA
*
2100173 GACTTAAAAAGGACTATAAAAGGAAT
129 GACTTAAAAAGGACTATAAAAGGGAT
* * * ** * * ***
2100199 GAACCTATCCTAAATACTCACCTTCGGTATAAACGTGGACCCGGTCATAACTTAGGACTTGGTTC
1 GAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCC-GTGATAACCTAGGACTCAATTC
* *
2100264 TAAAAAATTACAAAAATACCTTTAAAGGATACCTTCGACGTGAAAGTATCTC-AGTACTCTTGAA
65 TAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACGTGAAAGTATCTCGA-TACTC-TGAA
* *
2100328 GGACTTAAAAAGGACTATACAAGGGAT
128 AGACTTAAAAAGGACTATAAAAGGGAT
** * *
2100355 GAACCTATCCTAAATACCCA-CTTACGGCATAAAAGCAGACTTGCTGATAACTTAGGACTCGATT
1 GAACCTATCCTAAATACCCACCTT-CGGCATAAAAGCAGACCCG-TGATAACCTAGGACTCAATT
* *
2100419 TTAAAAAATTACAAAAATACCCTTAAGGGATACCTTTGACGTGAAAGTATC
64 CTAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACGTGAAAGTATC
2100470 CCGGTAGCCT
Statistics
Matches: 361, Mismatches: 58, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
155 45 0.12
156 307 0.85
157 9 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (154 bp):
GAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGTGATAACCTAGGACTCAATTCT
AAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACGTGAAAGTATCTCGATACTCTGAAAGA
CTTAAAAAGGACTATAAAAGGGAT
Found at i:2100679 original size:21 final size:21
Alignment explanation
Indices: 2100655--2100694 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2100645 TACCCTTACG
2100655 GAAAGC-CATAGGAATAATAGT
1 GAAAGCTCA-AGGAATAATAGT
2100676 GAAAGCTCAAGGAATAATA
1 GAAAGCTCAAGGAATAATA
2100695 AACCAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.17
Consensus pattern (21 bp):
GAAAGCTCAAGGAATAATAGT
Found at i:2101442 original size:20 final size:20
Alignment explanation
Indices: 2101417--2101467 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2101407 AGAAGCAATG
*
2101417 TATCGATACAAT-TCATCATA
1 TATCGATACAATGT-ACCATA
*
2101437 TATCGATACAATGTACCATG
1 TATCGATACAATGTACCATA
2101457 TATCGATACAA
1 TATCGATACAA
2101468 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACAATGTACCATA
Found at i:2104092 original size:13 final size:13
Alignment explanation
Indices: 2104074--2104113 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2104064 ATAGTGACCC
2104074 ATGTATAGATACA
1 ATGTATAGATACA
*
2104087 ATGTATCGATACA
1 ATGTATAGATACA
* *
2104100 ATATATTGATACA
1 ATGTATAGATACA
2104113 A
1 A
2104114 GGAATATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATAGATACA
Found at i:2110294 original size:20 final size:20
Alignment explanation
Indices: 2110243--2110296 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
2110233 GTTAGAAGCA
* * *
2110243 ATGTATCGATACAATTTATC
1 ATGTATCGATATAATGTACC
*
2110263 ATGTATCAATATAATGTACC
1 ATGTATCGATATAATGTACC
2110283 ATGTATCGATATAA
1 ATGTATCGATATAA
2110297 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATATAATGTACC
Found at i:2112268 original size:17 final size:16
Alignment explanation
Indices: 2112235--2112274 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
2112225 GTTCCAAAAA
*
2112235 TCTTTTCTTTTCTTTT
1 TCTTCTCTTTTCTTTT
2112251 TCTTCTCTTTTCCTTTT
1 TCTTCTCTTTT-CTTTT
2112268 TCTTCTC
1 TCTTCTC
2112275 GTGAATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTTCTCTTTTCTTTT
Found at i:2112745 original size:29 final size:32
Alignment explanation
Indices: 2112677--2112749 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 32
2112667 TTATAGTAGT
*
2112677 TTTTTACTTGCTCTCATTTGTTGTTTGTTTGC
1 TTTTTACTTGCTCTCATTTGTTGTTTGTCTGC
**
2112709 TTGCTACTTG-T-TCATGTTGTT-TTTG-CTGC
1 TTTTTACTTGCTCTCAT-TTGTTGTTTGTCTGC
2112738 TTTTTACTTGCT
1 TTTTTACTTGCT
2112750 GTTTTCTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 11 0.32
30 9 0.26
31 6 0.18
32 8 0.24
ACGTcount: A:0.07, C:0.16, G:0.16, T:0.60
Consensus pattern (32 bp):
TTTTTACTTGCTCTCATTTGTTGTTTGTCTGC
Found at i:2112783 original size:23 final size:21
Alignment explanation
Indices: 2112731--2112784 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
2112721 CATGTTGTTT
*
2112731 TTGCTGCTTTTTACTTGCTGT
1 TTGCTGCTTTTTACTTGCTGC
* *
2112752 TTTCTTGCTTATTTATTTGCTGAC
1 TTGC-TGCTT-TTTACTTGCTG-C
2112776 TTGCTGCTT
1 TTGCTGCTT
2112785 GTTTGTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 15 0.58
24 3 0.12
ACGTcount: A:0.07, C:0.19, G:0.17, T:0.57
Consensus pattern (21 bp):
TTGCTGCTTTTTACTTGCTGC
Found at i:2113822 original size:163 final size:164
Alignment explanation
Indices: 2113526--2113882 Score: 372
Period size: 164 Copynumber: 2.2 Consensus size: 164
2113516 TGAAAAATAA
* * *
2113526 AAAATAAAATGAGTTTTGTAAAACTGATTTAATTGAATTTAATAATAATATTATATGAATTTTAA
1 AAAATAAAATGAATTTCGTAAAACTGATTTAATTGAATTAAATAATAATATTATATGAATTTTAA
** * * * * *
2113591 AAATTTTAAACCGAGAAAAGTCCCTCCCAAAAAATTTACAGAGAAAAAAACTTAGTTTTTTGAAA
66 AAATTAAAAACCAAGAAAAATCACTCCCAAAAAATTTACAGAGAAAAAAACTTAGTTATTTCAAA
**
2113656 AAATGAGACTCT-AAAAAAAATTCAA-AACTCAT
131 AAATGAGACTCTCAAAAAAAATTCAATAAAACAT
* * * *
2113688 GAAAAT-AAATGAATATT-TTCAAAACTGATTTACTATGAATTAAATGATGATATT-TGATGAAT
1 -AAAATAAAATGAAT-TTCGT-AAAACTGATTTAAT-TGAATTAAATAATAATATTAT-ATGAAT
** * *
2113750 TTTAAAAATTAAAAACCAAGAAAAAT-ACTTTCAAAAACATTTAC-GAAGTAGAAAATCTT-G-T
61 TTTAAAAATTAAAAACCAAGAAAAATCACTCCCAAAAA-ATTTACAG-AG-AAAAAAACTTAGTT
* * *
2113811 ATTTCAAAAAATGAGAGTTTCAATAAAAATTCAATAAAACAT
123 ATTTCAAAAAATGAGACTCTCAAAAAAAATTCAATAAAACAT
2113853 AAAATAAAATGAATTTCGTAAAACTGATTT
1 AAAATAAAATGAATTTCGTAAAACTGATTT
2113883 TATAATAACC
Statistics
Matches: 160, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
162 8 0.05
163 47 0.29
164 83 0.52
165 22 0.14
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (164 bp):
AAAATAAAATGAATTTCGTAAAACTGATTTAATTGAATTAAATAATAATATTATATGAATTTTAA
AAATTAAAAACCAAGAAAAATCACTCCCAAAAAATTTACAGAGAAAAAAACTTAGTTATTTCAAA
AAATGAGACTCTCAAAAAAAATTCAATAAAACAT
Found at i:2115434 original size:84 final size:84
Alignment explanation
Indices: 2115106--2116096 Score: 460
Period size: 84 Copynumber: 11.8 Consensus size: 84
2115096 ATAAAAGATT
* * * * * * * * *
2115106 TACCTGGGACCAAGCCAACAAGT-AATCAAGGGATAAAAGGTTAATCGAGACTGAACCGACGAGT
1 TACCTAGGACCAAGCCGACAAGTGAAT-AAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGT
** **
2115170 CAACAATGGAT-AAAAGATT
65 CAACAAAAGATAAAAAGAAG
* * * * * * * ** * *
2115189 TACCTAGGACTAAGCCGA-TAGCTAAACAAAGAATAAAGAGGTTGACCAAGATTAGACCTACAAG
1 TACCTAGGACCAAGCCGACAAG-TGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCGACAAG
* * * *
2115253 TCAATAAAATACAAAAGGAAG
64 TCAACAAAAGATAAAAAGAAG
* * * ** *
2115274 TACCTGGGACCAAGCCGACAGGTGAATAAAGGATAAAAAGTTGACCAAGATTAAACGGACAAGTC
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTC
2115339 AACAAAAGATAAAAAGAAG
66 AACAAAAGATAAAAAGAAG
* * * * * *
2115358 TACCTGGGACCAAGCCAACAAGTGAATGAAGGATAAAAAATTGATTGGGATTAAACCGACAAGTA
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTC
** * **
2115423 AACAAGGGAT-AAAGGATT
66 AACAAAAGATAAAAAGAAG
**** * * * * * ** *
2115441 TA-CTCAGGATTGGGTCGACGAGTAAACAAAAGATAAAGAAGTTGATCGGGATTGGACCGATAAG
1 TACCT-AGGACCAAGCCGACAAGTGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCGACAAG
2115505 TCAACAAAAGATAAAATA-AAG
64 TCAACAAAAGATAAAA-AGAAG
* * * * *
2115526 TACCTAGGACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTAATGGGGATTAAACCGATAAGTC
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTC
* ** **
2115591 AACGAGGGAT-AAAAGATT
66 AACAAAAGATAAAAAGAAG
** **** * * * * * ** **
2115609 TACCCGGGATTGGGTCGATAAGTAAACAAAGGATAAAGAAGTTGACCGGGATTGGATTGACAAGT
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCGACAAGT
*
2115674 CAACAAAAGATAAAAGGAAG
65 CAACAAAAGATAAAAAGAAG
* * * * * *
2115694 TAGCT-GGAACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACTGATAAGT
1 TACCTAGG-ACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGT
** ** **
2115758 CAATGAGGGAT-AAAAGATT
65 CAACAAAAGATAAAAAGAAG
* * **** ** ** * * * * * ****
2115777 TACCCAAGATTGGGCTAACGGGTAAAAAAAAGATAAAGAAATTGATCGAGATTGGGTCGACAAGT
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCGACAAGT
* *
2115842 CAATAAAAGATGAAAAGAAG
65 CAACAAAAGATAAAAAGAAG
* * * * *
2115862 TACCTGGGACCAAGCTGATAGGTGAATGAAA-GATAAAAAGTTGATCGGGATTAAACCAACAAGT
1 TACCTAGGACCAAGCCGACAAGTGAAT-AAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGT
** * **
2115926 CAA-TGAGGAATAAAAA-ATT
65 CAACAAAAG-ATAAAAAGAAG
*** * ** * * * * ** * *
2115945 TACCT-GAGACTGGGTCGACGGGTAAATAAAGGATAAATAAGTTAACCAGGATTGGATCGATAAG
1 TACCTAG-GACCAAGCCGACAAGTGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCGACAAG
* *
2116009 TCAACAAAAGATAAAAGGAAA
64 TCAACAAAAGATAAAAAGAAG
* * * *
2116030 TACCTAGGACCAAGCTGATAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTC
1 TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTC
2116095 AA
66 AA
2116097 TGAGGGATAA
Statistics
Matches: 645, Mismatches: 238, Indels: 49
0.69 0.26 0.05
Matches are distributed among these distances:
82 9 0.01
83 132 0.20
84 355 0.55
85 142 0.22
86 7 0.01
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (84 bp):
TACCTAGGACCAAGCCGACAAGTGAATAAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTC
AACAAAAGATAAAAAGAAG
Found at i:2115560 original size:252 final size:252
Alignment explanation
Indices: 2115106--2115567 Score: 563
Period size: 252 Copynumber: 1.8 Consensus size: 252
2115096 ATAAAAGATT
** * * *
2115106 TACCTGGGACCAAGCCAACAAGTAATCAAGGGATAAAAGGTTAATCGAGACTGAACCGACGAGTC
1 TACCTGGGACCAAGCCAACAAGTAATCAAGGGATAAAAAATTAATCGAGACTAAACCGACAAGTA
* * *
2115171 AACAATGGATAAAAGATTTACCTAGGACTAAGCCGATAGCTAAACAAAGAATAAAGAGGTTGACC
66 AACAAGGGATAAAAGATTTACCTAGGACTAAGCCGAGAGCTAAACAAAGAATAAAGAAGTTGACC
* * * * * *
2115236 AAGATTAGACCTACAAGTCAATAAAATACAAAAGGAAGTACCTGGGACCAAGCCGACAGGTGAAT
131 AAGATTAGACCGACAAGTCAACAAAAGACAAAAGAAAGTACCTAGGACCAAGCCGACAAGTGAAT
2115301 AAAGGATAAAAAGTTGACCAAGATTAAACGGACAAGTCAACAAAAGATAAAAAGAAG
196 AAAGGATAAAAAGTTGACCAAGATTAAACGGACAAGTCAACAAAAGATAAAAAGAAG
* * * * *
2115358 TACCTGGGACCAAGCCAACAAGTGAATGAA-GGATAAAAAATTGATTGGGATTAAACCGACAAGT
1 TACCTGGGACCAAGCCAACAAGT-AATCAAGGGATAAAAAATTAATCGAGACTAAACCGACAAGT
* * ** *
2115422 AAACAAGGGATAAAGGATTTA-CTCAGGATTGGGTCGACGAG-TAAACAAA-AGATAAAGAAGTT
65 AAACAAGGGATAAAAGATTTACCT-AGGACTAAGCCGA-GAGCTAAACAAAGA-ATAAAGAAGTT
* ** * * * * *
2115484 GATCGGGATTGGACCGATAAGTCAACAAAAGATAAAATAAAGTACCTAGGACCAAGCTGACAAGT
127 GACCAAGATTAGACCGACAAGTCAACAAAAGACAAAAGAAAGTACCTAGGACCAAGCCGACAAGT
*
2115549 GAATGAAGGATAAAAAGTT
192 GAATAAAGGATAAAAAGTT
2115568 AATGGGGATT
Statistics
Matches: 173, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
251 3 0.02
252 163 0.94
253 7 0.04
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (252 bp):
TACCTGGGACCAAGCCAACAAGTAATCAAGGGATAAAAAATTAATCGAGACTAAACCGACAAGTA
AACAAGGGATAAAAGATTTACCTAGGACTAAGCCGAGAGCTAAACAAAGAATAAAGAAGTTGACC
AAGATTAGACCGACAAGTCAACAAAAGACAAAAGAAAGTACCTAGGACCAAGCCGACAAGTGAAT
AAAGGATAAAAAGTTGACCAAGATTAAACGGACAAGTCAACAAAAGATAAAAAGAAG
Found at i:2115601 original size:168 final size:166
Alignment explanation
Indices: 2115301--2116160 Score: 940
Period size: 168 Copynumber: 5.1 Consensus size: 166
2115291 ACAGGTGAAT
** * * *
2115301 AAAGGATAAA-AAGTTGACCAAGATT-AAACGGACAAGTCAACAAAAGATAAAAAGAAGTACCTG
1 AAAGGATAAAGAAGTTGACCGGGATTGGATC-GACAAGTCAACAAAAGATAAAAA-AAGTACCTA
** * * * **
2115364 GGACCAAGCCAACAAGTGAATGAAGGATAAAAAATTGATTGGGATTAAACCGACAAGTAAACAAG
64 GGACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAG
*
2115429 GGATAAAGGATTTACTCAGGATTGGGTCGACGAGTAAAC
129 GGATAAAAGATTTAC-CAGGATTGGGTCGACGAGTAAAC
* * * *
2115468 AAAAGATAAAGAAGTTGATCGGGATTGGACCGATAAGTCAACAAAAGATAAAATAAAGTACCTAG
1 AAAGGATAAAGAAGTTGACCGGGATTGGATCGACAAGTCAACAAAAGATAAAA-AAAGTACCTAG
* * * *
2115533 GACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTAATGGGGATTAAACCGATAAGTCAACGAGG
65 GACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAGG
* **
2115598 GATAAAAGATTTACCCGGGATTGGGTCGATAAGTAAAC
130 GATAAAAGATTTA-CCAGGATTGGGTCGACGAGTAAAC
* * *
2115636 AAAGGATAAAGAAGTTGACCGGGATTGGATTGACAAGTCAACAAAAGATAAAAGGAAGTAGCT-G
1 AAAGGATAAAGAAGTTGACCGGGATTGGATCGACAAGTCAACAAAAGATAAAA-AAAGTACCTAG
* * * * *
2115700 GAACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACTGATAAGTCAATGAG
65 G-ACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAG
* * * *
2115765 GGATAAAAGATTTACCCAAGATTGGG-CTAACGGGTAAAA
129 GGATAAAAGATTTA-CCAGGATTGGGTC-GACGAGTAAAC
* * * * * * * *
2115804 AAAAGATAAAGAAATTGATCGAGATTGGGTCGACAAGTCAATAAAAGATGAAAAGAAGTACCTGG
1 AAAGGATAAAGAAGTTGACCGGGATTGGATCGACAAGTCAACAAAAGAT-AAAAAAAGTACCTAG
* * * *
2115869 GACCAAGCTGATAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAACCAACAAGTCAATGAGG
65 GACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAGG
* * * * * *
2115934 AATAAAAAATTTACCTGAGACTGGGTCGACGGGTAAAT
130 GATAAAAGATTTACCAG-GATTGGGTCGACGAGTAAAC
* * * *
2115972 AAAGGATAAATAAGTTAACCAGGATTGGATCGATAAGTCAACAAAAGATAAAAGGAAA-TACCTA
1 AAAGGATAAAGAAGTTGACCGGGATTGGATCGACAAGTCAACAAAAGATAAAA--AAAGTACCTA
* *
2116036 GGACCAAGCTGATAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAG
64 GGACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAG
* * * * * *
2116101 GGATAAAGGTTTTACCCGAGACTGGATCGA-TAGGTAAAC
129 GGATAAAAGATTTACCAG-GATTGGGTCGACGA-GTAAAC
*
2116140 AAAGGATAAAGAAGTTAACCG
1 AAAGGATAAAGAAGTTGACCG
2116161 AAGACTGAGC
Statistics
Matches: 589, Mismatches: 91, Indels: 25
0.84 0.13 0.04
Matches are distributed among these distances:
167 18 0.03
168 558 0.95
169 13 0.02
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.19
Consensus pattern (166 bp):
AAAGGATAAAGAAGTTGACCGGGATTGGATCGACAAGTCAACAAAAGATAAAAAAAGTACCTAGG
ACCAAGCTGACAAGTGAATGAAGGATAAAAAGTTGATCGGGATTAAACCGACAAGTCAATGAGGG
ATAAAAGATTTACCAGGATTGGGTCGACGAGTAAAC
Found at i:2115721 original size:336 final size:334
Alignment explanation
Indices: 2115301--2116155 Score: 1045
Period size: 336 Copynumber: 2.5 Consensus size: 334
2115291 ACAGGTGAAT
* * * * *
2115301 AAAGGATAAA-AAGTTGACCAAGATT-AAACGGACAAGTCAACAAAAGATAAAAAGAAGTACCTG
1 AAAGGATAAAGAAGTTAACCAGGATTGGATC-GACAAGTCAACAAAAGATAAAAGGAAGTACCT-
* * * **
2115364 GGACCAAGCCAACAAGTGAATGAAGGATAAAAAATTGATTGGGATTAAACCGACAAGTAAACAAG
64 GGACCAAGCCGACAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAG
*
2115429 GGATAAAGGATTTACTCAGGATTGGGTCGACGAGTAAACAAAAGATAAAGAAGTTGATCGGGATT
129 GGATAAAGGATTTAC-CAGGATTGGGTCGACGAGTAAACAAAAGATAAAGAAGTTGATCGAGATT
* *
2115494 GGACCGATAAGTCAACAAAAGAT-AAAATAAAGTACCTAGGACCAAGCTGACAAGTGAATGAAGG
193 GGACCGACAAGTCAACAAAAGATGAAAA-AAAGTACCTAGGACCAAGCTGACAAGTGAATGAAAG
* * * * * * *
2115558 ATAAAAAGTTAATGGGGATTAAACCGATAAGTCAACGAGGGATAAAAGATTTACCCGGGATTGGG
257 ATAAAAAGTTAATCGGGATTAAACCAACAAGTCAACGAGGAATAAAAAATTTACCCGAGACTGGG
*
2115623 TCGATAAGTAAAC
322 TCGACAAGTAAAC
* * * *
2115636 AAAGGATAAAGAAGTTGACCGGGATTGGATTGACAAGTCAACAAAAGATAAAAGGAAGTAGCTGG
1 AAAGGATAAAGAAGTTAACCAGGATTGGATCGACAAGTCAACAAAAGATAAAAGGAAGTACCTGG
* * * * *
2115701 AACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACTGATAAGTCAATGAGG
66 -ACCAAGCCGACAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAGG
* * * * * *
2115766 GATAAAAGATTTACCCAAGATTGGG-CTAACGGGTAAAAAAAAGATAAAGAAATTGATCGAGATT
130 GATAAAGGATTTA-CCAGGATTGGGTC-GACGAGTAAACAAAAGATAAAGAAGTTGATCGAGATT
** * * * * *
2115830 GGGTCGACAAGTCAATAAAAGATGAAAAGAAGTACCTGGGACCAAGCTGATAGGTGAATGAAAGA
193 GGACCGACAAGTCAACAAAAGATGAAAAAAAGTACCTAGGACCAAGCTGACAAGTGAATGAAAGA
* * *
2115895 TAAAAAGTTGATCGGGATTAAACCAACAAGTCAATGAGGAATAAAAAATTTACCTGAGACTGGGT
258 TAAAAAGTTAATCGGGATTAAACCAACAAGTCAACGAGGAATAAAAAATTTACCCGAGACTGGGT
** *
2115960 CGACGGGTAAAT
323 CGACAAGTAAAC
* * *
2115972 AAAGGATAAATAAGTTAACCAGGATTGGATCGATAAGTCAACAAAAGATAAAAGGAAATACCTAG
1 AAAGGATAAAGAAGTTAACCAGGATTGGATCGACAAGTCAACAAAAGATAAAAGGAAGTACCT-G
* *
2116037 GACCAAGCTGATAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAGG
65 GACCAAGCCGACAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAGG
* * * * * *
2116102 GATAAAGGTTTTACCCGAGACTGGATCGA-TAGGTAAACAAAGGATAAAGAAGTT
130 GATAAAGGATTTACCAG-GATTGGGTCGACGA-GTAAACAAAAGATAAAGAAGTT
2116156 AACCGAAGAC
Statistics
Matches: 437, Mismatches: 73, Indels: 19
0.83 0.14 0.04
Matches are distributed among these distances:
335 15 0.03
336 413 0.95
337 9 0.02
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.19
Consensus pattern (334 bp):
AAAGGATAAAGAAGTTAACCAGGATTGGATCGACAAGTCAACAAAAGATAAAAGGAAGTACCTGG
ACCAAGCCGACAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACCGACAAGTCAATGAGGG
ATAAAGGATTTACCAGGATTGGGTCGACGAGTAAACAAAAGATAAAGAAGTTGATCGAGATTGGA
CCGACAAGTCAACAAAAGATGAAAAAAAGTACCTAGGACCAAGCTGACAAGTGAATGAAAGATAA
AAAGTTAATCGGGATTAAACCAACAAGTCAACGAGGAATAAAAAATTTACCCGAGACTGGGTCGA
CAAGTAAAC
Found at i:2116377 original size:41 final size:41
Alignment explanation
Indices: 2116206--2116550 Score: 217
Period size: 41 Copynumber: 8.4 Consensus size: 41
2116196 TTTACTGAGA
* * ** *
2116206 ACTGAGCCGATAGGTAAATAATGGATGAAGGTTGACCAAAA
1 ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
* * * * *
2116247 ACTGAACTAACAGGTCACCATAA-GGGT-AATGGGCTT-ACCGGGG
1 ACTGAGCTGACAGGT-A-AATAATGGATGAA--GG-TTGACCGGAG
* * * ** **
2116290 ACTAAGCCGATAGGTAAATAATGGATGAAGGTTGGTCAAAG
1 ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
* *
2116331 GCTGAGCTGACAAGTAAATAATGGATGAAGGTTGACCGGAG
1 ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
* * *
2116372 ACTGAGCTGACAGGTCACCATAA-GGGTAATAGGCTT-ACCGGAG
1 ACTGAGCTGACAGGT-A-AATAATGGATGA-AGG-TTGACCGGAG
* * * *
2116415 ACTAAGCCGACATGTAAATAATGGATGAAGGTTGACCGAAG
1 ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
* * *
2116456 ACTAAGCTGACAGGTCACTAA-GGA--AAGGGCTT-ACC-GAGG
1 ACTGAGCTGACAGGTAAATAATGGATGAA-GG-TTGACCGGA-G
* *
2116495 ACTGAGCCGATAGGTAAATAATGGATGAAGGTTGACCGGAG
1 ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
2116536 ACTGAG-TAGACAGGT
1 ACTGAGCT-GACAGGT
2116551 CACTATAAGG
Statistics
Matches: 226, Mismatches: 55, Indels: 46
0.69 0.17 0.14
Matches are distributed among these distances:
38 3 0.01
39 22 0.10
40 14 0.06
41 114 0.50
42 22 0.10
43 47 0.21
44 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.19
Consensus pattern (41 bp):
ACTGAGCTGACAGGTAAATAATGGATGAAGGTTGACCGGAG
Found at i:2116432 original size:125 final size:125
Alignment explanation
Indices: 2116219--2116448 Score: 379
Period size: 125 Copynumber: 1.8 Consensus size: 125
2116209 GAGCCGATAG
*
2116219 GTAAATAATGGATGAAGGTTGACCAAAAACTGAACTAACAGGTCACCATAAGGGTAATGGGCTTA
1 GTAAATAATGGATGAAGGTTGACCAAAAACTGAACTAACAGGTCACCATAAGGGTAATAGGCTTA
* *
2116284 CCGGGGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGGTCAAAGGCTGAGCTGACAA
66 CCGGAGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGGTCAAAGGCTGAGCTGACAA
** * * *
2116344 GTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGACAGGTCACCATAAGGGTAATAGGCTTA
1 GTAAATAATGGATGAAGGTTGACCAAAAACTGAACTAACAGGTCACCATAAGGGTAATAGGCTTA
*
2116409 CCGGAGACTAAGCCGACATGTAAATAATGGATGAAGGTTG
66 CCGGAGACTAAGCCGACAGGTAAATAATGGATGAAGGTTG
2116449 ACCGAAGACT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 96 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (125 bp):
GTAAATAATGGATGAAGGTTGACCAAAAACTGAACTAACAGGTCACCATAAGGGTAATAGGCTTA
CCGGAGACTAAGCCGACAGGTAAATAATGGATGAAGGTTGGTCAAAGGCTGAGCTGACAA
Found at i:2116612 original size:84 final size:83
Alignment explanation
Indices: 2116332--2116612 Score: 365
Period size: 84 Copynumber: 3.4 Consensus size: 83
2116322 TGGTCAAAGG
* *
2116332 CTGAGCTGACAAGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGACAGGTCACCATAAGG
1 CTGAGCCGACAGGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGACAGGTCA-CATAAGG
* *
2116397 GTAATAGGCTTACCG-GAGA
65 ATAATGGGCTTACCGAG-GA
* * * *
2116416 CTAAGCCGACATGTAAATAATGGATGAAGGTTGACCGAAGACTAAGCTGACAGGTCAC-TAAGGA
1 CTGAGCCGACAGGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGACAGGTCACATAAGGA
2116480 -AA-GGGCTTACCGAGGA
66 TAATGGGCTTACCGAGGA
*
2116496 CTGAGCCGATAGGTAAATAATGGATGAAGGTTGACCGGAGACTGAG-TAGACAGGTCACTATAAG
1 CTGAGCCGACAGGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCT-GACAGGTCAC-ATAAG
*
2116560 GATAATGGGCTTACTGAGGA
64 GATAATGGGCTTACCGAGGA
* ** *
2116580 TTGAGTTGGCAGGTAAATAATGGATGAAGGTTG
1 CTGAGCCGACAGGTAAATAATGGATGAAGGTTG
2116613 TTTCTCGGGA
Statistics
Matches: 173, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 62 0.36
81 3 0.02
82 11 0.06
83 3 0.02
84 93 0.54
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (83 bp):
CTGAGCCGACAGGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGACAGGTCACATAAGGA
TAATGGGCTTACCGAGGA
Found at i:2117178 original size:78 final size:78
Alignment explanation
Indices: 2117096--2117442 Score: 342
Period size: 78 Copynumber: 4.4 Consensus size: 78
2117086 AACATATGGG
* * * * * *
2117096 AAGTGCCCTTCATGGCCAAGTGATACATCAATACCA-CTTAGTATTTGAGAAGGAAGGATATGAT
1 AAGTGCCCTTCATGGCCATGTGATGCATCAATATCATC-TAGTGTTTGAGAATGAGGGATATGAT
* *
2117160 TGGAAGTGTGTGGA
65 TAGAAGTGAGTGGA
* * * * * *
2117174 AAGTGCCCCTCTTGGCCTTGTGATGCATCAATATCATCTAATGTCTAAGAATGAGGGATATGATT
1 AAGTGCCCTTCATGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAATGAGGGATATGATT
2117239 AGAAGTGAGTGGGA
66 AGAAGTGAGT-GGA
* * ** ** **
2117253 AA-TGCCCCTCTTAACCATGTGATGCATCAATATTGTCTAGTGTTT-AGGAATGAGGGATATGCC
1 AAGTGCCCTTCATGGCCATGTGATGCATCAATATCATCTAGTGTTTGA-GAATGAGGGATATGAT
*
2117316 TAGAAGTGAGTGGG
65 TAGAAGTGAGTGGA
* * * * *
2117330 AGGTGCCCTT-ATTGGCTATGTGATGCATCAATATCATTTAGTGTGTGAGAATGAGGGATACGAT
1 AAGTGCCCTTCA-TGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAATGAGGGATATGAT
* *
2117394 TGGAAGTGAGTGGG
65 TAGAAGTGAGTGGA
* *
2117408 AAGTGCCCTTTATGGCCAAGTGATGCATCAATATC
1 AAGTGCCCTTCATGGCCATGTGATGCATCAATATC
2117443 CTCGAGGGAT
Statistics
Matches: 221, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
77 4 0.02
78 209 0.95
79 8 0.04
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (78 bp):
AAGTGCCCTTCATGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAATGAGGGATATGATT
AGAAGTGAGTGGA
Found at i:2119090 original size:28 final size:27
Alignment explanation
Indices: 2119059--2119124 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
2119049 TCTTCAATGA
* *
2119059 AATCAAGAAAAATGCCAATCCCTAGTGG
1 AATCAAGAAAAATG-CAATCCCCAGTAG
*
2119087 AATCAAGACAAATTGCAATCCCCAGTAG
1 AATCAAGA-AAAATGCAATCCCCAGTAG
2119115 AATCAAGAAA
1 AATCAAGAAA
2119125 CTTGCAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 27 0.79
29 5 0.15
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (27 bp):
AATCAAGAAAAATGCAATCCCCAGTAG
Found at i:2119502 original size:55 final size:54
Alignment explanation
Indices: 2119435--2119634 Score: 174
Period size: 55 Copynumber: 3.7 Consensus size: 54
2119425 ATTAGCACCT
* * * *
2119435 TTATCATTTTTAAGTCCAATATCGCTAGCTTTAAATCAGCATATCGACACTTCTA
1 TTATCATGTTTAAGTCCAATATCACTAGCCTTGAATCAGCATAT-GACACTTCTA
* * * * * * * *
2119490 TTATCATGTTTAAGTCTAATGTCGA-TGGCCTTGAATCAGCACATTAGTACTTTTG
1 TTATCATGTTTAAGTCCAATATC-ACTAGCCTTGAATCAGCATATGA-CACTTCTA
** *
2119545 TTATC---TTTAAGTCTGATATCACTAGCCTTGAATCAGCATATTGGCACTTCTA
1 TTATCATGTTTAAGTCCAATATCACTAGCCTTGAATCAGCATA-TGACACTTCTA
* * *
2119597 TAATCATGTTTAAGTCCAATGTCACTAGCGTTGAATCA
1 TTATCATGTTTAAGTCCAATATCACTAGCCTTGAATCA
2119635 ACACATTGGC
Statistics
Matches: 112, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
51 1 0.01
52 38 0.34
53 1 0.01
54 1 0.01
55 71 0.63
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (54 bp):
TTATCATGTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATGACACTTCTA
Found at i:2119593 original size:107 final size:107
Alignment explanation
Indices: 2119443--2119686 Score: 276
Period size: 107 Copynumber: 2.3 Consensus size: 107
2119433 CTTTATCATT
* * * *
2119443 TTTAAGTCCAATATCGCTAGCTTTAAATCAGCATATCGACACTTCTATTATCATGTTTAAGTCTA
1 TTTAAGTCCAATATCACTAGCCTTAAATCAGCATATCGACACTTCTATAATCATGTTTAAGTCCA
* *
2119508 ATGTCGA-TGGCCTTGAATCAGCACATTAGTACTTTTGTTATC
66 ATGTC-ACTAGCCTTGAATCAACACATTAGTACTTTTGTTATC
** * * *
2119550 TTTAAGTCTGATATCACTAGCCTTGAATCAGCATATTGGCACTTCTATAATCATGTTTAAGTCCA
1 TTTAAGTCCAATATCACTAGCCTTAAATCAGCATATCGACACTTCTATAATCATGTTTAAGTCCA
* * * *
2119615 ATGTCACTAGCGTTGAATCAACACATTGGCA-TTCTTCTTATC
66 ATGTCACTAGCCTTGAATCAACACATTAGTACTT-TTGTTATC
* * * * *
2119657 TTCAATTCCAATGTCATTAGCCTTGAATCA
1 TTTAAGTCCAATATCACTAGCCTTAAATCA
2119687 ACTCATTGGC
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
106 3 0.03
107 111 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (107 bp):
TTTAAGTCCAATATCACTAGCCTTAAATCAGCATATCGACACTTCTATAATCATGTTTAAGTCCA
ATGTCACTAGCCTTGAATCAACACATTAGTACTTTTGTTATC
Found at i:2119643 original size:55 final size:53
Alignment explanation
Indices: 2119386--2119697 Score: 200
Period size: 52 Copynumber: 5.9 Consensus size: 53
2119376 CCAAAATTTG
* * ** * * * * * *
2119386 TCATCTTTCATTCCAATGTTGCTAACCTTGGATTAGTACATTAGCACCT-TTA
1 TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTCTTA
* * * * * * * *
2119438 TCATTTTTAAGTCCAATATCGCTAGCTTTAAATCAGCATATCGACACTTCTATTA
1 TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTC--TTA
* * * * * *
2119493 TCATGTTTAAGTCTAATGTCGA-TGGCCTTGAATCAGCACATTAGTACTT-TTG
1 TCATCTTTAAGTCCAATGTC-ACTAGCCTTGAATCAGCACATTGGCACTTCTTA
* ** * *
2119545 TTATCTTTAAGTCTGATATCACTAGCCTTGAATCAGCATATTGGCACTTCTATAA
1 TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTCT-T-A
* * * *
2119600 TCATGTTTAAGTCCAATGTCACTAGCGTTGAATCAACACATTGGCA-TTCTTC
1 TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTCTTA
* * * * * *
2119652 TTATCTTCAATTCCAATGTCATTAGCCTTGAATCAACTCATTGGCA
1 TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCA
2119698 TCCTTCTCAT
Statistics
Matches: 198, Mismatches: 54, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
51 1 0.01
52 113 0.57
53 2 0.01
54 5 0.03
55 77 0.39
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (53 bp):
TCATCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCACTTCTTA
Found at i:2119695 original size:107 final size:107
Alignment explanation
Indices: 2119423--2119697 Score: 268
Period size: 107 Copynumber: 2.6 Consensus size: 107
2119413 TTGGATTAGT
* * * * * * * * * * *
2119423 ACATTAGCACCTTTATCATTTTTAAGTCCAATATCGCTAGCTTTAAATCAGCATATCGACACTTC
1 ACATTAGCACTTTTCTTATCTTCAAGTCCAATATCACTAGCCTTGAATCAACATATTGGCACTTC
* * * *
2119488 TATTATCATGTTTAAGTCTAATGTCGATGGCCTTGAATCAGC
66 TATAATCATGTTTAAGTCCAATGTCGATAGCCTTGAATCAAC
* * * ** *
2119530 ACATTAGTACTTTTGTTATCTTTAAGTCTGATATCACTAGCCTTGAATCAGCATATTGGCACTTC
1 ACATTAGCACTTTTCTTATCTTCAAGTCCAATATCACTAGCCTTGAATCAACATATTGGCACTTC
*
2119595 TATAATCATGTTTAAGTCCAATGTC-ACTAGCGTTGAATCAAC
66 TATAATCATGTTTAAGTCCAATGTCGA-TAGCCTTGAATCAAC
* * * *
2119637 ACATTGGCA-TTCTTCTTATCTTCAATTCCAATGTCATTAGCCTTGAATCAAC-TCATTGGCA
1 ACATTAGCACTT-TTCTTATCTTCAAGTCCAATATCACTAGCCTTGAATCAACAT-ATTGGCA
2119698 TCCTTCTCAT
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
106 4 0.03
107 134 0.97
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (107 bp):
ACATTAGCACTTTTCTTATCTTCAAGTCCAATATCACTAGCCTTGAATCAACATATTGGCACTTC
TATAATCATGTTTAAGTCCAATGTCGATAGCCTTGAATCAAC
Found at i:2120381 original size:20 final size:21
Alignment explanation
Indices: 2120333--2120386 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2120323 TTCTACAATT
* *
2120333 TGTATCGATATAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
2120354 TATATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
2120374 TGTATCGATACAT
1 TGTATCGATACAT
2120387 GCTTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:2128633 original size:18 final size:19
Alignment explanation
Indices: 2128606--2128664 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
2128596 AGTTCCCTTC
*
2128606 AAAAATGATGAAAAAGT-A
1 AAAAAAGATGAAAAAGTCA
2128624 AAAAAAGATGAAAAAGTCA
1 AAAAAAGATGAAAAAGTCA
* *
2128643 GAAAAAGA-AAAAAAGTGCA
1 AAAAAAGATGAAAAAGT-CA
2128662 AAA
1 AAA
2128665 GAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.66
19 12 0.34
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAAAAGATGAAAAAGTCA
Found at i:2130663 original size:18 final size:19
Alignment explanation
Indices: 2130636--2130694 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
2130626 AGTTCCCTTC
*
2130636 AAAAATGATGAAAAAGT-A
1 AAAAAAGATGAAAAAGTCA
2130654 AAAAAAGATGAAAAAGTCA
1 AAAAAAGATGAAAAAGTCA
* *
2130673 GAAAAAGA-AAAAAAGTGCA
1 AAAAAAGATGAAAAAGT-CA
2130692 AAA
1 AAA
2130695 GAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.66
19 12 0.34
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAAAAGATGAAAAAGTCA
Found at i:2131960 original size:30 final size:30
Alignment explanation
Indices: 2131895--2132909 Score: 507
Period size: 30 Copynumber: 32.5 Consensus size: 30
2131885 TTTCAAAAGC
* *
2131895 CCACGACTCTGTGGCA-CCCTTC-CTAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCT-AAGT
* *
2131924 CCACGACTCAATGGCATCTCTTCTCTAAGC
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
*
2131954 CCACGACTCAGTGGCATCTCTTTTCTAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * * * **
2131984 CCGCAACTTAGTGGCATCTTTTCGTTCCAAAAAC
1 CCACGACTCAGTGGCATCTCTTC--T-C-TAAGT
* *
2132018 CCACGACTCTGTGGCA-CCCTTC-CTAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCT-AAGT
*
2132047 CCATGACTCAGTGGCATCTCTTCTCTAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* *
2132077 CCACGACTTAGTGGCATCCTTTTCCTTCCTAAAGT
1 CCACGACTCAGTGGCAT-CTCTT-C-T-CT-AAGT
* * *
2132112 CCACGACTTAGTGGCATCTTTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * *
2132142 CCACAACTTAGTGGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * * * *
2132172 CCACAACTTAGTGGCATAATTTTTCTTCCAAAAGC
1 CCACGACTCAGTGGCAT--CTCTTC-T-C-TAAGT
2132207 CCACGACTCAAGTGGCATC-CTTC-CTAAAGT
1 CCACGACTC-AGTGGCATCTCTTCTCT-AAGT
* * * *
2132237 CTATGACTCAGTGGCATCTTTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * *
2132267 CCACGACTCAATGGCATCTTTTTTCTTCCAAAAG-
1 CCACGACTCAGTGGCATC--TCTTC-T-C-TAAGT
* *
2132301 CTCATGACTTC-GTGGCATCTCTTCTCCAAGT
1 C-CACGAC-TCAGTGGCATCTCTTCTCTAAGT
* * *
2132332 CCACGACTCAATGGCATCTTTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* *
2132362 CCACAACTCAGTGGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * * **
2132392 CCACAACTCAGTAGCATCATTTTCTTTCCAAAAAC
1 CCACGACTCAGTGGCATC-TCTTC--T-C-TAAGT
* *
2132427 CCACGACTCTGTGGCA-CTATTC-CTAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCT-AAGT
*
2132456 CCATGACTCAGTGGCATCTCTTCTCTAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * *
2132486 CCATGACTTAATGGCATCCTTTTGCTTCCTAAAGT
1 CCACGACTCAGTGGCAT-CTCTT-C-T-CT-AAGT
* * * *
2132521 CCATGACTTAGTGGCATCTTTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * *
2132551 CCACAACTTAGTGGTATCTCTTCTCAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * * * *
2132581 CCATGACTTAGTGGCATAATTTTTCTTCCAAAAGC
1 CCACGACTCAGTGGCAT--CTCTTC-T-C-TAAGT
*
2132616 CCACGACTCCGTGGCATC-CTT-TCTAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCT-AAGT
* *
2132645 CCACGACTCAGTAGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * ** * *
2132675 CCACAACTCAATACCATCCTTTTTCTTGCAAAAG-
1 CCACGACTCAGTGGCAT-C-TCTTC-T-C-TAAGT
* *
2132709 CTCATGACTTCA-TGGCATATCTTCTCTAAGT
1 C-CACGAC-TCAGTGGCATCTCTTCTCTAAGT
* * *
2132740 CCATGACTTAGTGGCATCTATTCTCTAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * *
2132770 CCATGACTTAGT-GCATCTATTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* * * *
2132799 CCATGACTTAGTGGCATCCTTTTTCTTTCTAAAAGC
1 CCACGACTCAGTGGCAT-C-TCTTC--TCT--AAGT
* * *
2132835 CCACGACTCTGTGGTACCTC-TC-CTAAAGT
1 CCACGACTCAGTGGCATCTCTTCTCT-AAGT
* * *
2132864 CCATGGCTCAGTGGCATCTCTTCTCCAAGT
1 CCACGACTCAGTGGCATCTCTTCTCTAAGT
* *
2132894 CCACAACTCTGTGGCA
1 CCACGACTCAGTGGCA
2132910 CCCATTTAAG
Statistics
Matches: 777, Mismatches: 138, Indels: 141
0.74 0.13 0.13
Matches are distributed among these distances:
29 128 0.16
30 380 0.49
31 30 0.04
32 30 0.04
33 31 0.04
34 39 0.05
35 111 0.14
36 28 0.04
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (30 bp):
CCACGACTCAGTGGCATCTCTTCTCTAAGT
Found at i:2132111 original size:65 final size:63
Alignment explanation
Indices: 2131913--2132684 Score: 510
Period size: 65 Copynumber: 12.3 Consensus size: 63
2131903 CTGTGGCACC
* * * *
2131913 CTTCCTAAAGTCCACGACTCAATGGCATCTCTTCTCTAAGCCCACGACTCAGTGGCATCTCTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATCTTTT
* * * * ** *
2131976 -TT-CT-AAGTCCGCAACTTAGTGGCATCTTTTCGTTCCAAAAACCCACGACTCTGTGGCA-C--
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTC--TCC--AAGTCCACGACTCAGTGGCATCTT
*
2132035 -C
62 TT
* * *
2132036 CTTCCTAAAGTCCATGACTCAGTGGCATCTCTTCTCTAAGTCCACGACTTAGTGGCATCCTTTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCAT-CTTTT
* * * * *
2132100 CCTTCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTT
1 -CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATCTTTT
* * * * *
2132164 C-TCC--AAGTCCACAACTTAGTGGCATAATTTTTCTTCCAAAAGCCCACGACTCAAGTGGCATC
1 CTTCCTAAAGTCCACGACTCAGTGGCAT--CTCTTC-TCC--AAGTCCACGACTC-AGTGGCATC
2132226 ----
60 TTTT
* * * *
2132226 CTTCCTAAAGTCTATGACTCAGTGGCATCTTTTCTCCAAGTCCACGACTCAATGGCATCTTTTTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATC--TTTT
* * *
2132291 CTTCCAAAAG-CTCATGACTTC-GTGGCATCTCTTCTCCAAGTCCACGACTCAATGGCATCTTTT
1 CTTCCTAAAGTC-CACGAC-TCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATCTTTT
* * *
2132354 C-TCC--AAGTCCACAACTCAGTGGCATCTCTTCTCCAAGTCCACAACTCAGTAGCATCATTTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATC-TTTT
* ** * * * * *
2132415 CTTTCCAAAAACCCACGACTCTGTGGCA-CTATTC-CTAAAGTCCATGACTCAGTGGCATCTCTT
1 C-TTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTC-CAAGTCCACGACTCAGTGGCATCTTTT
* * * * * *
2132478 C-T-CT-AAGTCCATGACTTAATGGCATCCTTTTGCTTCCTAAAGTCCATGACTTAGTGGCATCT
1 CTTCCTAAAGTCCACGACTCAGTGGCAT-CTCTT-C-TCC--AAGTCCACGACTCAGTGGCATCT
2132540 TTT
61 TTT
* * * * * * *
2132543 C-TCC--AAGTCCACAACTTAGTGGTATCTCTTCTCAAAGTCCATGACTTAGTGGCATAATTTTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCAT--CTTTT
* * * * * *
2132605 CTTCCAAAAGCCCACGACTCCGTGGCATC-CTT-TCTAAAGTCCACGACTCAGTAGCATCTCTT
1 CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTC-CAAGTCCACGACTCAGTGGCATCTTTT
*
2132667 C-TCC--AAGTCCACAACTCA
1 CTTCCTAAAGTCCACGACTCA
2132685 ATACCATCCT
Statistics
Matches: 570, Mismatches: 87, Indels: 108
0.75 0.11 0.14
Matches are distributed among these distances:
59 51 0.09
60 118 0.21
61 21 0.04
62 33 0.06
63 54 0.09
64 74 0.13
65 207 0.36
66 12 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (63 bp):
CTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCACGACTCAGTGGCATCTTTT
Found at i:2132165 original size:95 final size:92
Alignment explanation
Indices: 2131915--2132909 Score: 582
Period size: 95 Copynumber: 10.6 Consensus size: 92
2131905 GTGGCACCCT
* * * * * *
2131915 TCCTAAAGTCCACGACTCAATGGCATCTCTTCTCTAAGCCCACGACTCAGTGGCATCTCTTTTCT
1 TCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTCTCT
* * *
2131980 AAGTCCGCAACTTAGTGGCATCTTTTC
66 AAGTCCACGACTTAGTGGCATCTCTTC
* ** * * * * *
2132007 GTTCCAAAAACCCACGACTCT-GTGGCACCCTTCCT-AAAGTCCATGACTCAGTGGCATCTCTTC
1 --TCCTAAAGTCCACGACT-TAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTC
*
2132070 TCTAAGTCCACGACTTAGTGGCATCCTTTTCC
63 TCTAAGTCCACGACTTAGTGGCAT-CTCTT-C
* *
2132102 TTCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTTCTC
1 -TCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTCTC
* * * *
2132167 CAAGTCCACAACTTAGTGGCATAATTTTTC
65 TAAGTCCACGACTTAGTGGCAT--CTCTTC
* * * * * * * * *
2132197 TTCCAAAAGCCCACGACTCAAGTGGCATCCTTCCT-AAAGTCTATGACTCAGTGGCATCTTTTCT
1 -TCCTAAAGTCCACGACT-TAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTCT
* * * *
2132261 CCAAGTCCACGACTCAATGGCATCTTTTTTC
64 CTAAGTCCACGACTTAGTGGCATC--TCTTC
* * * * * *
2132292 TTCCAAAAG-CTCATGACTTCGTGGCATCTCTTCTCCAAGTCCACGACTCAATGGCATCTTTTCT
1 -TCCTAAAGTC-CACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTCT
* * *
2132356 CCAAGTCCACAACTCAGTGGCATCTCTTC
64 CTAAGTCCACGACTTAGTGGCATCTCTTC
* * * ** * *
2132385 TCC--AAGTCCACAACTCAGTAGCATCATTTTCTTTCCAAAAACCCACGACTCTGTGGCA-CTAT
1 TCCTAAAGTCCACGACTTAGTGGCATC-TTTTC--TCC--AAGTCCACGACTCAGTGGCATCTCT
* *
2132447 TC-CTAAAGTCCATGACTCAGTGGCATCTCTTC
61 TCTCT-AAGTCCACGACTTAGTGGCATCTCTTC
* * * * *
2132479 T-CT-AAGTCCATGACTTAATGGCATCCTTTTGCTTCCTAAAGTCCATGACTTAGTGGCATCTTT
1 TCCTAAAGTCCACGACTTAGTGGCAT-CTTTT-C-TCC--AAGTCCACGACTCAGTGGCATCTCT
* * *
2132542 TCTCCAAGTCCACAACTTAGTGGTATCTCTTC
61 TCTCTAAGTCCACGACTTAGTGGCATCTCTTC
* * * *
2132574 T-C-AAAGTCCATGACTTAGTGGCATAATTTTTCTTCCAAAAGCCCACGACTCCGTGGCATC-CT
1 TCCTAAAGTCCACGACTTAGTGGCAT--CTTTTC-TCC--AAGTCCACGACTCAGTGGCATCTCT
* *
2132636 T-TCTAAAGTCCACGACTCAGTAGCATCTCTTC
61 TCTCT-AAGTCCACGACTTAGTGGCATCTCTTC
* * * ** * * *
2132668 TCC--AAGTCCACAACTCAATACCATCCTTTTTCTTGCAAAAG-CTCATGACTTCA-TGGCATAT
1 TCCTAAAGTCCACGACTTAGTGGCAT-C-TTTTC-T-C-CAAGTC-CACGAC-TCAGTGGCATCT
* *
2132729 CTTCTCTAAGTCCATGACTTAGTGGCATCTATTC
59 CTTCTCTAAGTCCACGACTTAGTGGCATCTCTTC
* * * * *
2132763 T-CT-AAGTCCATGACTTAGT-GCATCTATTCTCCAAGTCCATGACTTAGTGGCATCCTTTTTCT
1 TCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCAT-C-TCTTC-
* *
2132825 TTCTAAAAGCCCACGACTCT-GTGGTA-C-C-TC
63 -TCT--AAGTCCACGACT-TAGTGGCATCTCTTC
* * * * * *
2132855 TCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTCCACAACTCTGTGGCA
1 TCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCA
2132910 CCCATTTAAG
Statistics
Matches: 715, Mismatches: 139, Indels: 93
0.76 0.15 0.10
Matches are distributed among these distances:
88 2 0.00
89 15 0.02
90 17 0.02
91 10 0.01
92 10 0.01
93 65 0.09
94 218 0.30
95 352 0.49
96 26 0.04
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (92 bp):
TCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCAAGTCCACGACTCAGTGGCATCTCTTCTCT
AAGTCCACGACTTAGTGGCATCTCTTC
Found at i:2132503 original size:94 final size:94
Alignment explanation
Indices: 2132332--2132779 Score: 386
Period size: 94 Copynumber: 4.7 Consensus size: 94
2132322 TTCTCCAAGT
* * * * * **
2132332 CCACGACTCAATGGCATCTTTTCTCCAAGTCCACAACTCAGTGGCATCTCTTCTCCAAGTCCACA
1 CCACGACTTAGTGGCATCTTTCCT-AAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCATG
* * *
2132397 ACTCAGTAGCATCA-TTTTCTTTCCAAAAAC
65 ACTTAATAGCATCATTTTTC-TTCCAAAAGC
* *
2132427 CCACGACTCT-GTGGCA-CTATTCCTAAAGTCCATGACTCAGTGGCATCTCTTCTCTAAGTCCAT
1 CCACGACT-TAGTGGCATCT-TTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCAT
* * * * *
2132490 GACTTAATGGCATCCTTTTGCTTCCTAAAGT
64 GACTTAATAGCATCATTTTTCTTCCAAAAGC
* * * * * * *
2132521 CCATGACTTAGTGGCATCTTTTCTCCAAGTCCACAACTTAGTGGTATCTCTTCTCAAAGTCCATG
1 CCACGACTTAGTGGCATCTTTCCT-AAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCATG
* * *
2132586 ACTTAGTGGCATAATTTTTCTTCCAAAAGC
65 ACTTAATAGCATCATTTTTCTTCCAAAAGC
** * **
2132616 CCACGACTCCGTGGCATCCTTT-CTAAAGTCCACGACTCAGTAGCATCTCTTCTCCAAGTCCACA
1 CCACGACTTAGTGGCAT-CTTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCATG
* * * *
2132680 ACTCAATACCATCCTTTTTCTTGCAAAAGC
65 ACTTAATAGCATCATTTTTCTTCCAAAAGC
* * * * * * *
2132710 TCATGACTTCA-TGGCATATCTTCTCT-AAGTCCATGACTTAGTGGCATCTATTCTCTAAGTCCA
1 CCACGACTT-AGTGGCATCT-TTC-CTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCA
2132773 TGACTTA
63 TGACTTA
2132780 GTGCATCTAT
Statistics
Matches: 280, Mismatches: 62, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
93 2 0.01
94 139 0.50
95 133 0.47
96 6 0.02
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (94 bp):
CCACGACTTAGTGGCATCTTTCCTAAAGTCCACGACTCAGTGGCATCTCTTCTCCAAGTCCATGA
CTTAATAGCATCATTTTTCTTCCAAAAGC
Found at i:2132677 original size:219 final size:216
Alignment explanation
Indices: 2131950--2132886 Score: 651
Period size: 219 Copynumber: 4.3 Consensus size: 216
2131940 TCTCTTCTCT
* * * * *
2131950 AAGCCCACGACTCAGTGGCATCTCTTTTCT-AAGTCCGCAACTTAGTGGCATCTTTTCGTTCCAA
1 AAGCCCACGACTCAGTGGCATC-C-TTTCTAAAGCCCACGACTCAGTGGCATC---TC-TTCCTA
** * * * * * * * *
2132014 AAACCCACGACTCTGTGGCACCCTTCCT-AAAGTCCATGACTCAGTGGCATC-TCTTC-T-CT-A
60 AAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCATGACTTAATGGCATCATTTTCTTCCTAA
* * *
2132074 AGTCCACGACTTAGTGGCATCCTTTTCCTTCCTAAAGTCCACGACTTAGTGGCATCTTTTCTCCA
125 AGTCCATGACTTAGTGGCAT-CTATT-C-TCC--AAGTCCACGACTTAGTGGCATCTATTCTCCA
** * *
2132139 AGTCCACAACTTAGTGGCATCTCTTC-TCC--
185 AGTCCATGACTTAGTGGCATTTTTTCTTCCAA
* * * **
2132168 AAGTCCACAACTTAGTGGCATAATTTTTCTTCCAAAAGCCCACGACTCAAGTGGCATC-CTTCCT
1 AAGCCCACGACTCAGTGGCAT--CCTTTC-T---AAAGCCCACGACTC-AGTGGCATCTCTTCCT
* * * * * *
2132232 AAAGTCTATGACTCAGTGGCATCTTTTCTCCAAGTCCACGACTCAATGGCATCTTTTTTCTTCCA
59 AAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCATGACTTAATGGCATC-ATTTTCTTCCT
* * * * *
2132297 AAAG-CTCATGACTTCGTGGCATCTCTTCTCCAAGTCCACGACTCAATGGCATCTTTTCTCCAAG
123 AAAGTC-CATGACTTAGTGGCATCTATTCTCCAAGTCCACGACTTAGTGGCATCTATTCTCCAAG
** * * *
2132361 TCCACAACTCAGTGGCATCTCTTC-TCC--
187 TCCATGACTTAGTGGCATTTTTTCTTCCAA
* * * * * * *
2132388 AAGTCCACAACTCAGTAGCATCATTTTCTTTCCAAAAACCCACGACTCTGTGGCA-CTATTCCTA
1 AAGCCCACGACTCAGTGGCATC-----CTTT-CTAAAGCCCACGACTCAGTGGCATCTCTTCCTA
* * *
2132452 AAGTCCATGACTCAGTGGCATCTCTTCTCTAAGTCCATGACTTAATGGCATCCTTTTGCTTCCTA
60 AAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCATGACTTAATGGCATCATTTT-CTTCCTA
* * * * *
2132517 AAGTCCATGACTTAGTGGCATCTTTTCTCCAAGTCCACAACTTAGTGGTATCTCTTCTCAAAGTC
124 AAGTCCATGACTTAGTGGCATCTATTCTCCAAGTCCACGACTTAGTGGCATCTATTCTCCAAGTC
2132582 CATGACTTAGTGGCATAATTTTTCTTCCAA
189 CATGACTTAGTGGCAT--TTTTTCTTCCAA
* * * *
2132612 AAGCCCACGACTCCGTGGCATCCTTTCTAAAGTCCACGACTCAGTAGCATCTCTT-CTCCAAGTC
1 AAGCCCACGACTCAGTGGCATCCTTTCTAAAGCCCACGACTCAGTGGCATCTCTTCCT-AAAGTC
** * ** * *
2132676 CACAACTCAATACCATCCTTTTTCTTGCAAAAG-CTCATGACTTCATGGCAT-ATCTTC-T-CT-
65 CATGACTCAGTGGCAT-C-TTTTC-T-C-AAAGTC-CATGACTTAATGGCATCATTTTCTTCCTA
* *
2132736 AAGTCCATGACTTAGTGGCATCTATTCTCTAAGTCCATGACTTAGT-GCATCTATTCTCCAAGTC
124 AAGTCCATGACTTAGTGGCATCTATTCTCCAAGTCCACGACTTAGTGGCATCTATTCTCCAAGTC
*
2132800 CATGACTTAGTGGCATCCTTTTTCTTTCTAA
189 CATGACTTAGTGGCAT--TTTTTC-TTCCAA
* * * * * *
2132831 AAGCCCACGACTCTGTGGTA-CCTCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTC
1 AAGCCCACGACTCAGTGGCATCCT-TTCTAAAGCCCACGACTCAGTGGCATCTCTTC
2132887 TCCAAGTCCA
Statistics
Matches: 585, Mismatches: 94, Indels: 78
0.77 0.12 0.10
Matches are distributed among these distances:
218 87 0.15
219 275 0.47
220 114 0.19
221 9 0.02
222 12 0.02
223 19 0.03
224 52 0.09
225 17 0.03
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (216 bp):
AAGCCCACGACTCAGTGGCATCCTTTCTAAAGCCCACGACTCAGTGGCATCTCTTCCTAAAGTCC
ATGACTCAGTGGCATCTTTTCTCAAAGTCCATGACTTAATGGCATCATTTTCTTCCTAAAGTCCA
TGACTTAGTGGCATCTATTCTCCAAGTCCACGACTTAGTGGCATCTATTCTCCAAGTCCATGACT
TAGTGGCATTTTTTCTTCCAA
Found at i:2132773 original size:189 final size:188
Alignment explanation
Indices: 2132328--2132782 Score: 549
Period size: 189 Copynumber: 2.4 Consensus size: 188
2132318 TCTCTTCTCC
* * * *
2132328 AAGTCCACGACTCAATGGCATCTTTTCTCCAAGTCCACAACTCAGTGGCATCTCTTCTCCAAGTC
1 AAGTCCATGACT-TATGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTTCTCAAAGTC
** * * * *
2132393 CACAACTCAGTAGCATCATTTTCTTTCCAAAAACCCACGACTCTGTGGCACTATTCCTAAAGTCC
65 CATGACTTAGTGGCATAATTTTCTTTCCAAAAACCCACGACTCCGTGGCACTATTCCTAAAGTCC
* * * ** * ** *
2132458 ATGACTCAGTGGCATCTCTTCTCTAAGTCCATGACTTAATGGCATCCTTTTGCTTCCTA
130 ACGACTCAGTAGCATCTCTTCTCCAAGTCCACAACTCAATACCATCCTTTTGCTTCCAA
*
2132517 AAGTCCATGACTTAGTGGCATCTTTTCTCCAAGTCCACAACTTAGTGGTATCTCTTCTCAAAGTC
1 AAGTCCATGACTTA-TGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTTCTCAAAGTC
*
2132582 CATGACTTAGTGGCATAATTTT-TCTTCCAAAAGCCCACGACTCCGTGGCATCCT-TT-CTAAAG
65 CATGACTTAGTGGCATAATTTTCT-TTCCAAAAACCCACGACTCCGTGGCA--CTATTCCTAAAG
* *
2132644 TCCACGACTCAGTAGCATCTCTTCTCCAAGTCCACAACTCAATACCATCCTTTTTCTTGCAA
127 TCCACGACTCAGTAGCATCTCTTCTCCAAGTCCACAACTCAATACCATCCTTTTGCTTCCAA
* * * ** * *
2132706 AAG-CTCATGACTTCATGGCATATCTTCTCTAAGTCCATGACTTAGTGGCATCTATTCTCTAAGT
1 AAGTC-CATGACTT-ATGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTTCTCAAAGT
2132770 CCATGACTTAGTG
64 CCATGACTTAGTG
2132783 CATCTATTCT
Statistics
Matches: 229, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
188 3 0.01
189 221 0.97
190 3 0.01
191 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (188 bp):
AAGTCCATGACTTATGGCATCTTTTCTCCAAGTCCACAACTTAGTGGCATCTCTTCTCAAAGTCC
ATGACTTAGTGGCATAATTTTCTTTCCAAAAACCCACGACTCCGTGGCACTATTCCTAAAGTCCA
CGACTCAGTAGCATCTCTTCTCCAAGTCCACAACTCAATACCATCCTTTTGCTTCCAA
Found at i:2132989 original size:35 final size:35
Alignment explanation
Indices: 2132939--2133019 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
2132929 CCGTGGCACA
2132939 TTTCAAAGCCAACAACTTCGTGGCACCCTTTTTCC
1 TTTCAAAGCCAACAACTTCGTGGCACCCTTTTTCC
* * *
2132974 TTTCAAAGCCCACAACTTCGTGGCACTCTTTTTCT
1 TTTCAAAGCCAACAACTTCGTGGCACCCTTTTTCC
2133009 TTTCAAAGCCA
1 TTTCAAAGCCA
2133020 CTACCCCTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTCAAAGCCAACAACTTCGTGGCACCCTTTTTCC
Found at i:2133097 original size:27 final size:27
Alignment explanation
Indices: 2133062--2133140 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
2133052 TCTCTTCTCC
* *
2133062 AAGTTCACAACTCTGTGGCACCTATT-T
1 AAGTCCACAACTCTGTGGCACCT-TTCA
2133089 AAGTCCACAACTCTGTGGCACCTTTCA
1 AAGTCCACAACTCTGTGGCACCTTTCA
*
2133116 AAGCCCACAAC-CTCGTGGCACCTTT
1 AAGTCCACAACTCT-GTGGCACCTTT
2133141 TTTCCTTTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCTTTCA
Found at i:2133145 original size:172 final size:172
Alignment explanation
Indices: 2132849--2133171 Score: 565
Period size: 172 Copynumber: 1.9 Consensus size: 172
2132839 GACTCTGTGG
*
2132849 TACCTCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTCCACAACTCTGTGGCACCCA
1 TACCCCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTCCACAACTCTGTGGCACCCA
*
2132914 TTTAAGTCCACAACTCCGTGGCACATTTCAAAGCCAACAACTTCGTGGCACCCTTTTTCCTTTCA
66 TTTAAGTCCACAACTCCGTGGCACATTTCAAAGCCAACAACCTCGTGGCACCCTTTTTCCTTTCA
*
2132979 AAGCCCACAACTTCGTGGCACTCTTTTTCTTTTCAAAGCCAC
131 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCAC
* *
2133021 TACCCCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTTCACAACTCTGTGGCACCTA
1 TACCCCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTCCACAACTCTGTGGCACCCA
* * * *
2133086 TTTAAGTCCACAACTCTGTGGCACCTTTCAAAGCCCACAACCTCGTGGCACCTTTTTTCCTTTCA
66 TTTAAGTCCACAACTCCGTGGCACATTTCAAAGCCAACAACCTCGTGGCACCCTTTTTCCTTTCA
2133151 AAGCCCACAACTCCGTGGCAC
131 AAGCCCACAACTCCGTGGCAC
2133172 ATTTTAAGTC
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 142 1.00
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (172 bp):
TACCCCTCCTAAAGTCCATGGCTCAGTGGCATCTCTTCTCCAAGTCCACAACTCTGTGGCACCCA
TTTAAGTCCACAACTCCGTGGCACATTTCAAAGCCAACAACCTCGTGGCACCCTTTTTCCTTTCA
AAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCAC
Found at i:2133155 original size:35 final size:35
Alignment explanation
Indices: 2133109--2133176 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
2133099 CTCTGTGGCA
*
2133109 CCTTTCAAAGCCCACAAC-CTCGTGGCACCTTTTTT
1 CCTTTCAAAGCCCACAACTC-CGTGGCACATTTTTT
2133144 CCTTTCAAAGCCCACAACTCCGTGGCACATTTT
1 CCTTTCAAAGCCCACAACTCCGTGGCACATTTT
2133177 AAGTCTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (35 bp):
CCTTTCAAAGCCCACAACTCCGTGGCACATTTTTT
Found at i:2133202 original size:62 final size:59
Alignment explanation
Indices: 2133093--2133374 Score: 167
Period size: 60 Copynumber: 4.6 Consensus size: 59
2133083 CTATTTAAGT
* * *
2133093 CCACAACTCTGTGGCACCTTTCAAAGCCCACAACCTCGTGGCACCTTTTTTCCTTTCAAAGC
1 CCACAACTCCGTGGCACATTT-TAAGCCCACAACCTCGTGGCACC-TTTTT-CTTTCAAAGC
* * * * *** *
2133155 CCACAACTCCGTGGCACATTTTAAGTCTACAACTTGGTGGCACCCTTTTTCTTTTTGAGT
1 CCACAACTCCGTGGCACATTTTAAGCCCACAACCTCGTGGCA-CCTTTTTCTTTCAAAGC
* *
2133215 TCACAACTCCGTGGCACATTTTTGTTTTCAAAGCCCACAA-CTCCGTGACACTCTTTTTCCTTT-
1 CCACAACTCCGTGGCACA------TTTT--AAGCCCACAACCT-CGTGGCAC-CTTTTT-CTTTC
* *
2133278 TAAGT
55 AAAGC
* ** * * *
2133283 CCATAACTATGTGGCACCTTTTTAGTCCACAA-CTCAGTGGCACCTTTTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACATTTTAAGCCCACAACCTC-GTGGCACCTTTTTC-TTTCAAAGC
* * *
2133343 CCATAACTCCGTGGCAC-CTTTAAGTCCACAAC
1 CCACAACTCCGTGGCACATTTTAAGCCCACAAC
2133375 TCCATGGCAC
Statistics
Matches: 172, Mismatches: 32, Indels: 34
0.72 0.13 0.14
Matches are distributed among these distances:
58 1 0.01
59 22 0.13
60 57 0.33
61 21 0.12
62 25 0.15
66 4 0.02
67 2 0.01
68 36 0.21
69 4 0.02
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (59 bp):
CCACAACTCCGTGGCACATTTTAAGCCCACAACCTCGTGGCACCTTTTTCTTTCAAAGC
Done.