Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 7 of 290
Found at i:1982597 original size:19 final size:19
Alignment explanation
Indices: 1982569--1982617 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1982559 ACTGATTCTG
*
1982569 ATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
* *
1982588 ATTCTGATTCTGTCACTTG
1 ATTCTGATTCTGTCACCTA
1982607 ATTCTGATTCT
1 ATTCTGATTCT
1982618 AATTCTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:1984600 original size:6 final size:6
Alignment explanation
Indices: 1984569--1984668 Score: 107
Period size: 6 Copynumber: 16.3 Consensus size: 6
1984559 TTGCATTCAC
* *
1984569 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
1984618 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
1984667 AT
1 AT
1984669 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.05
6 67 0.84
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:1984630 original size:43 final size:43
Alignment explanation
Indices: 1984569--1984668 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
1984559 TTGCATTCAC
* *
1984569 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTG
*
1984612 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTG
1984655 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
1984669 AATGTTTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (43 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTG
Found at i:1988536 original size:16 final size:16
Alignment explanation
Indices: 1988515--1988569 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
1988505 ATCTATGACA
*
1988515 AGCTTCTACCCGATCG
1 AGCTTCCACCCGATCG
* *
1988531 AGCTTCCATCCAATCG
1 AGCTTCCACCCGATCG
1988547 AGCTTCCACCCGATCG
1 AGCTTCCACCCGATCG
1988563 AGCTTCC
1 AGCTTCC
1988570 GATAATCTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (16 bp):
AGCTTCCACCCGATCG
Found at i:1991300 original size:40 final size:40
Alignment explanation
Indices: 1991202--1991464 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
1991192 TCCTCGTTCA
* * * ** *
1991202 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
1991241 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1991281 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
1991321 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
1991361 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
1991401 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
1991441 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1991465 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:1999150 original size:27 final size:27
Alignment explanation
Indices: 1999120--1999297 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1999110 ATATTGAGTC
* * * *
1999120 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
1999147 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1999174 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
1999202 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
1999229 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
1999256 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1999283 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1999298 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:1999259 original size:82 final size:81
Alignment explanation
Indices: 1999141--1999296 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1999131 TGCTATATAA
* *
1999141 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1999206 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
1999223 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1999287 CACTTAGTGC
65 CACTTAGTGC
1999297 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2001473 original size:48 final size:48
Alignment explanation
Indices: 2001418--2001512 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
2001408 ATCATTGAAT
* *
2001418 TTCCATCGCCTTTTTACTCGATAAATTGTATAATAATATAAATATATA
1 TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATATA
* *
2001466 TTCCATCGTCTTTTTACTCGATAAATTCTATAATAACATATATATAT
1 TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATAT
2001513 TGATTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (48 bp):
TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATATA
Found at i:2003317 original size:21 final size:21
Alignment explanation
Indices: 2003299--2003338 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2003289 CCGTCATCAT
2003299 TGAGCTACTGTTGACCATCTC
1 TGAGCTACTGTTGACCATCTC
*
2003320 TGAGCTATTGTTGACCATC
1 TGAGCTACTGTTGACCATC
2003339 GTCGCTAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (21 bp):
TGAGCTACTGTTGACCATCTC
Found at i:2003548 original size:216 final size:216
Alignment explanation
Indices: 2003174--2003607 Score: 789
Period size: 216 Copynumber: 2.0 Consensus size: 216
2003164 TTCATCCTAG
*
2003174 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
1 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTATGCCACCATGAACTTAC
* *
2003239 TTTGTGATATCAGTTCACGTCGTCGTCGTTTTTCTATTGTCATCATCGCGCCGTCATCATTGAGC
66 TTTGTGATATCAGTTCACGTCGCCGTCATTTTTCTATTGTCATCATCGCGCCGTCATCATTGAGC
*
2003304 TACTGTTGACCATCTCTGAGCTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGGC
131 TACTGTTGACCATCTCAGAGCTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGGC
*
2003369 TACCGTCGAGCCATCATCGAC
196 TACCATCGAGCCATCATCGAC
2003390 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTATGCCACCATGAACTTAC
1 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTATGCCACCATGAACTTAC
*
2003455 TTTGTGATATCA-TCTCACGTCGCCGTCATTTTTCTATTGTCATCATCGTGCCGTCATCATTGAG
66 TTTGTGATATCAGT-TCACGTCGCCGTCATTTTTCTATTGTCATCATCGCGCCGTCATCATTGAG
2003519 CTACTGTTGACCATCTCAGAGCTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGG
130 CTACTGTTGACCATCTCAGAGCTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGG
*
2003584 CTATCATCGAGCCATCATCGAC
195 CTACCATCGAGCCATCATCGAC
2003606 AA
1 AA
2003608 TCGCCGGATC
Statistics
Matches: 210, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
215 1 0.00
216 209 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (216 bp):
AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTATGCCACCATGAACTTAC
TTTGTGATATCAGTTCACGTCGCCGTCATTTTTCTATTGTCATCATCGCGCCGTCATCATTGAGC
TACTGTTGACCATCTCAGAGCTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGGC
TACCATCGAGCCATCATCGAC
Found at i:2004820 original size:16 final size:16
Alignment explanation
Indices: 2004799--2004829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2004789 AATTTAAATT
*
2004799 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
2004815 AATTAAATAATTTTC
1 AATTAAATAATTTTC
2004830 TCAACTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:2004897 original size:17 final size:18
Alignment explanation
Indices: 2004872--2004911 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2004862 AATTTTGTGG
*
2004872 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
2004889 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
2004907 AAAAT
1 AAAAT
2004912 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:2005088 original size:15 final size:15
Alignment explanation
Indices: 2005068--2005098 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2005058 AAAACAATAT
2005068 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
2005083 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
2005098 A
1 A
2005099 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:2008470 original size:15 final size:15
Alignment explanation
Indices: 2008460--2008489 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2008450 TCCCTTCTTG
2008460 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
2008475 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
2008490 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:2009257 original size:17 final size:18
Alignment explanation
Indices: 2009232--2009271 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2009222 AAAATTGTGG
*
2009232 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
2009249 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
2009267 AAAAT
1 AAAAT
2009272 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:2009448 original size:15 final size:15
Alignment explanation
Indices: 2009428--2009458 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2009418 AAAACAATAT
2009428 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
2009443 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
2009458 A
1 A
2009459 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:2013707 original size:65 final size:65
Alignment explanation
Indices: 2013634--2013785 Score: 304
Period size: 65 Copynumber: 2.3 Consensus size: 65
2013624 ATTTAAGGTT
2013634 TTAGGGTTAATTCATTAAATTAACTATTAATTTTAAATACTAAATACTAAATTAGAGATTATGTA
1 TTAGGGTTAATTCATTAAATTAACTATTAATTTTAAATACTAAATACTAAATTAGAGATTATGTA
2013699 TTAGGGTTAATTCATTAAATTAACTATTAATTTTAAATACTAAATACTAAATTAGAGATTATGTA
1 TTAGGGTTAATTCATTAAATTAACTATTAATTTTAAATACTAAATACTAAATTAGAGATTATGTA
2013764 TTAGGGTTAATTCATTAAATTA
1 TTAGGGTTAATTCATTAAATTA
2013786 GGGATTATGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 87 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (65 bp):
TTAGGGTTAATTCATTAAATTAACTATTAATTTTAAATACTAAATACTAAATTAGAGATTATGTA
Found at i:2014124 original size:126 final size:126
Alignment explanation
Indices: 2013898--2014279 Score: 622
Period size: 126 Copynumber: 3.0 Consensus size: 126
2013888 TTTCTGCAAG
* *
2013898 AATAATTCTGAGCAGACATTTCT-AGACAAATAGTGTCGAAAAATGCTTCAAGCAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCTGA-ACAAATAGTGTC-AAAAATGCTTCAAGCAGGATGCACTG
* * *
2013962 TTAGTAAAATTTCTAGAAAAAGCTCCCATGGGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
64 TCAGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * **
2014025 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACAATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
*
2014090 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
2014151 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
* *
2014216 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTGGTTCGTAGAAA
66 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
2014277 AAT
1 AAT
2014280 GAGTCTATAA
Statistics
Matches: 236, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 202 0.86
127 33 0.14
128 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGTC
AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:2017733 original size:18 final size:18
Alignment explanation
Indices: 2017707--2017749 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2017697 GACTAGGAAA
* * *
2017707 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
2017725 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
2017743 AGGATAC
1 AGGATAC
2017750 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:2019402 original size:48 final size:47
Alignment explanation
Indices: 2019315--2019448 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 47
2019305 ATGCAAACAT
* ***
2019315 CATAAATGAAAAAAAAAT-AAGCGGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
2019362 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
2019410 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
2019449 AATTATCACT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 18 0.24
48 52 0.69
49 5 0.07
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.32
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:2019599 original size:11 final size:11
Alignment explanation
Indices: 2019583--2019646 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
2019573 TTTTAAACAA
2019583 AGAATTTTGAT
1 AGAATTTTGAT
2019594 AGAATTTTGAT
1 AGAATTTTGAT
*
2019605 AGAATTTTGAA
1 AGAATTTTGAT
* **
2019616 AAAATTTCAAT
1 AGAATTTTGAT
*
2019627 -GAAATTTGAT
1 AGAATTTTGAT
*
2019637 AGATTTTTGA
1 AGAATTTTGA
2019647 AGGGAATATT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 6 0.15
11 35 0.85
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.42
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:2034156 original size:26 final size:26
Alignment explanation
Indices: 2034097--2034147 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2034087 CATTAAGGCG
** *
2034097 TAGCAGGCTTTGTTTTGGTGTATATT
1 TAGCAGGCTTTGTGGTGATGTATATT
2034123 TAGCAGGCTTTGTGGTGATGTATAT
1 TAGCAGGCTTTGTGGTGATGTATAT
2034148 CTTGTAGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.08, G:0.29, T:0.45
Consensus pattern (26 bp):
TAGCAGGCTTTGTGGTGATGTATATT
Found at i:2039187 original size:26 final size:26
Alignment explanation
Indices: 2039151--2039202 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2039141 ATGTCATATC
2039151 TTTACTAATCATAAGAGTTTGAAGTA
1 TTTACTAATCATAAGAGTTTGAAGTA
*
2039177 TTTACTAATCATAAGATTTTGAAGTA
1 TTTACTAATCATAAGAGTTTGAAGTA
2039203 CATAATGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (26 bp):
TTTACTAATCATAAGAGTTTGAAGTA
Found at i:2039338 original size:8 final size:8
Alignment explanation
Indices: 2039325--2039353 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2039315 ACAACATAAA
2039325 TCATACAT
1 TCATACAT
2039333 TCATACAT
1 TCATACAT
2039341 TCATACAT
1 TCATACAT
2039349 TCATA
1 TCATA
2039354 ATCAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
TCATACAT
Found at i:2041449 original size:39 final size:39
Alignment explanation
Indices: 2041404--2041680 Score: 518
Period size: 39 Copynumber: 7.1 Consensus size: 39
2041394 AATTATATTA
*
2041404 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2041443 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2041482 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2041521 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2041560 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
2041599 CTAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
2041638 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2041677 CCAG
1 CCAG
2041681 TGTCTTGCAT
Statistics
Matches: 232, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 232 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:2047707 original size:43 final size:43
Alignment explanation
Indices: 2047660--2047761 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 43
2047650 GCCACTATCT
* *
2047660 CAGACAGGGTTTTACACGAAAT-TGAATA-ATGATGCCAATGTCC
1 CAGACAGGGTCTTACACGAAATCTCAATACA--ATGCCAATGTCC
* * *
2047703 CAGACATGGTCTTATACGTAATCTCAATACAATGCCAATGTCC
1 CAGACAGGGTCTTACACGAAATCTCAATACAATGCCAATGTCC
* * *
2047746 TAGACATGGTCATACA
1 CAGACAGGGTCTTACA
2047762 TGTAATCACA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 43 0.88
44 5 0.10
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (43 bp):
CAGACAGGGTCTTACACGAAATCTCAATACAATGCCAATGTCC
Found at i:2050144 original size:40 final size:44
Alignment explanation
Indices: 2050088--2050187 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 44
2050078 CAATTGTATT
* *
2050088 TGGCACTAAGTGTGCGATTC-AAAATAGCTTCGGCT-A-TATGA
1 TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
* * *
2050129 -GGCACTAAGTGTGCGATACTGAGATAGCTTCGGTTAATTAAGA
1 TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
2050172 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
2050188 GAATCATTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 18 0.36
41 12 0.24
42 1 0.02
43 4 0.08
44 15 0.30
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
Found at i:2058123 original size:39 final size:39
Alignment explanation
Indices: 2058079--2059039 Score: 1769
Period size: 39 Copynumber: 24.6 Consensus size: 39
2058069 TGTGTGAGAT
2058079 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* *
2058118 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* * * *
2058157 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058196 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058235 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058274 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058313 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058352 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058391 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058430 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058469 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058508 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058547 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058586 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058625 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058664 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058703 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058742 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058781 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
2058820 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* *
2058859 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* *
2058898 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* * *
2058937 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* *
2058976 GTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
* *
2059015 TTATATCCGAGCCAAGTCCCGAAGG
1 TTATATCCGGGCTAAGTCCCGAAGG
2059040 CATTTGTGTT
Statistics
Matches: 905, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 905 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGTATTCGTTCTGGTG
Found at i:2065730 original size:43 final size:42
Alignment explanation
Indices: 2065682--2065796 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
2065672 TGTGAATACA
2065682 TGTAAGACCATGTCTGGGACATTGGCA--TTATATTGAGGTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCTTA-ATTGA--TTATG
*
2065725 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATC-TTAATTGATTATG
* * *
2065768 TGTAAAACCTTGTCTGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
2065797 GATATGTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 57 0.88
45 5 0.08
46 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCTTAATTGATTATG
Found at i:2072401 original size:16 final size:16
Alignment explanation
Indices: 2072380--2072450 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
2072370 CTTTGGTTCA
*
2072380 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
2072396 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
2072412 CTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
2072428 CTTTAATGGAATAGAA
1 CTGTAATGGAATAGAG
2072444 CTGTAAT
1 CTGTAAT
2072451 CAGTAAGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:2072525 original size:44 final size:46
Alignment explanation
Indices: 2072432--2072525 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
2072422 ATAGAGCTTT
2072432 AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
* *
2072478 AATGGAATAGAACTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAAGTC-AGCTGTTTGGTTGAATGG
2072522 AATG
1 AATG
2072526 ATATTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAAGTCAGCTGTTTGGTTGAATGG
Found at i:2072692 original size:59 final size:61
Alignment explanation
Indices: 2072628--2072796 Score: 202
Period size: 63 Copynumber: 2.8 Consensus size: 61
2072618 TTATAATAGG
*
2072628 ATTATTATTAAATATAATTTAAT-AATA-AATAATAAATAATTTAAT-CATACTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAATACATAC-TTAATATA
* *
2072687 ATTATTATTAAATATAATTTAATAAAGATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAAT-ACATACTTAATATA
* * * *
2072749 ATTATTATTAAAATATGAA-TGAATAAAAATCATAATATATAATATTAA
1 ATTATTATT-AAATAT-AATTTAATAAAGATAATAATAAATAAT-TTAA
2072797 AAAATAGTAT
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 23 0.24
60 3 0.03
61 17 0.18
62 17 0.18
63 31 0.32
64 6 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (61 bp):
ATTATTATTAAATATAATTTAATAAAGATAATAATAAATAATTTAATACATACTTAATATA
Found at i:2073559 original size:25 final size:25
Alignment explanation
Indices: 2073502--2073559 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
2073492 ATTTATTGAG
2073502 TTTGC-GAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
* *
2073526 TCTGTTGAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
2073551 TTTGCTGAA
1 TTTGCTGAA
2073560 ATATCAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (25 bp):
TTTGCTGAATCTCAACAATGCCTTC
Found at i:2077876 original size:50 final size:50
Alignment explanation
Indices: 2077758--2078035 Score: 308
Period size: 50 Copynumber: 5.5 Consensus size: 50
2077748 CTGGTATGCA
* * *
2077758 TAGTAGCCTGCACTTAGTACTACACA-TTCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGT-GACCTAACCATCTGGTACACG
*
2077807 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
* * *** * * *
2077857 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGGTACACG
* * *
2077908 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
*** *
2077958 TAGTAGCCTGCACTTAGTACTACACACGTGACCTACAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGGTACACG
* * *
2078010 TATTAGCCTGCACATAGTACTTCACA
1 TAGTAGCCTGCACTTAGTACTACACA
2078036 TGTGTTCTCA
Statistics
Matches: 192, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 30 0.16
50 89 0.46
51 39 0.20
52 34 0.18
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
Found at i:2077933 original size:101 final size:101
Alignment explanation
Indices: 2077807--2077988 Score: 328
Period size: 101 Copynumber: 1.8 Consensus size: 101
2077797 CCGGTACACG
*
2077807 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
2077872 AGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
66 AGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
* * *
2077908 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
2077973 AGTACTACACACGTGA
66 AGTACTACACACGTGA
2077989 CCTACAACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
Found at i:2081884 original size:28 final size:27
Alignment explanation
Indices: 2081827--2081923 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
2081817 TAAATTGTGC
*
2081827 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
2081854 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
2081882 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
2081909 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
2081924 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:2090888 original size:28 final size:28
Alignment explanation
Indices: 2090831--2090982 Score: 229
Period size: 27 Copynumber: 5.5 Consensus size: 28
2090821 TAAATTGTGC
*
2090831 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
2090858 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
2090886 AGCACTAAGTGTGC-AATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
2090913 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
2090941 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
2090968 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
2090983 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:2090896 original size:55 final size:55
Alignment explanation
Indices: 2090831--2090982 Score: 243
Period size: 55 Copynumber: 2.8 Consensus size: 55
2090821 TAAATTGTGC
2090831 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
2090886 AGCACTAAGTGTGC-AATTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAA-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
2090941 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
2090983 GACTTAATAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
54 2 0.02
55 87 0.97
56 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:2093152 original size:61 final size:61
Alignment explanation
Indices: 2093057--2093179 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
2093047 GCAGATTCAC
*
2093057 AAGCAATCCAGGAGAAAACCACTGGAAAGTAATTGTGAGGATACTGAGATATCTCAGATAT
1 AAGCAATCCAGGAGAAAACCACTGGAAAGTAATTGTGAGGATACTGAGATATCTAAGATAT
*
2093118 AAGCAATCCATGG-GAAAACCACTGGAAATTAATTGTGAGGATACTGAGATATCTAAGATAT
1 AAGCAATCCA-GGAGAAAACCACTGGAAAGTAATTGTGAGGATACTGAGATATCTAAGATAT
2093179 A
1 A
2093180 CTCGAAATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (61 bp):
AAGCAATCCAGGAGAAAACCACTGGAAAGTAATTGTGAGGATACTGAGATATCTAAGATAT
Found at i:2093587 original size:13 final size:13
Alignment explanation
Indices: 2093569--2093596 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2093559 GCAACTGATC
2093569 TCAAACGGAGTTA
1 TCAAACGGAGTTA
2093582 TCAAACGGAGTTA
1 TCAAACGGAGTTA
2093595 TC
1 TC
2093597 TCTATTGATT
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:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (13 bp):
TCAAACGGAGTTA
Found at i:2100546 original size:41 final size:41
Alignment explanation
Indices: 2100501--2100578 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
2100491 ATCAATAGGC
*
2100501 CTGCTCACACAAGTTGTCAGTCAAGACGTAGCTACCCGGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACCCGGTG
2100542 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACCC
1 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACCC
2100579 CTTTCAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.21
Consensus pattern (41 bp):
CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACCCGGTG
Found at i:2102452 original size:46 final size:48
Alignment explanation
Indices: 2102382--2102510 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 48
2102372 TGATATGTGT
* * *
2102382 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-A-TTATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGAGGTATGCA-A
*
2102428 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGAGGTATGCAA
*
2102476 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGAC
2102511 TTAGATATGT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 34 0.46
47 1 0.01
48 30 0.41
49 9 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGAGGTATGCAA
Found at i:2102494 original size:48 final size:46
Alignment explanation
Indices: 2102382--2102555 Score: 172
Period size: 48 Copynumber: 3.7 Consensus size: 46
2102372 TGATATGTGT
* * *
2102382 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAGTATGAGA
*
2102428 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-A-GTATG-AGA
* ** *
2102476 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTAGATATGTGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCACAG-TATGAGA
* * *
2102523 GCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
2102556 AGCATTGTAC
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 35 0.32
47 18 0.16
48 49 0.45
49 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAGTATGAGA
Found at i:2123592 original size:16 final size:18
Alignment explanation
Indices: 2123571--2123677 Score: 55
Period size: 19 Copynumber: 5.8 Consensus size: 18
2123561 TTTTTATAAT
2123571 TTATTT-TAA-TTTTTTA
1 TTATTTATAAGTTTTTTA
2123587 TTATTTATAAGTTTTTTTGAA
1 TTATTTATAAG-TTTTTT--A
* * *
2123608 TT-TTAATATGTTTTTAA
1 TTATTTATAAGTTTTTTA
*
2123625 TAATTTATAA-TAATTTTTA
1 TTATTTATAAGT--TTTTTA
*
2123644 TAATATTTATAAGTTTTCATA
1 T--TATTTATAAGTTTT-TTA
2123665 TT-TTTATAA-TTTT
1 TTATTTATAAGTTTT
2123678 ATATAAAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 23
0.69 0.09 0.23
Matches are distributed among these distances:
16 6 0.09
17 10 0.14
18 12 0.17
19 18 0.26
20 9 0.13
21 14 0.20
22 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (18 bp):
TTATTTATAAGTTTTTTA
Found at i:2123601 original size:18 final size:17
Alignment explanation
Indices: 2123571--2123677 Score: 51
Period size: 18 Copynumber: 5.8 Consensus size: 17
2123561 TTTTTATAAT
2123571 TTATTT-TAATTTTTTA
1 TTATTTATAATTTTTTA
2123587 TTATTTATAAGTTTTTT-
1 TTATTTATAA-TTTTTTA
*
2123604 TGAATTT-TAATATGTTTTTAA
1 T-TATTTAT-A-AT-TTTTT-A
*
2123625 TAATTTATAATAATTTTTA
1 TTATTTATAAT--TTTTTA
*
2123644 TAATATTTATAAGTTTTCATA
1 T--TATTTATAA-TTTT-TTA
2123665 TT-TTTATAATTTT
1 TTATTTATAATTTT
2123678 ATATAAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 27
0.70 0.04 0.26
Matches are distributed among these distances:
16 6 0.08
17 9 0.12
18 19 0.26
19 11 0.15
20 14 0.19
21 13 0.18
22 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (17 bp):
TTATTTATAATTTTTTA
Found at i:2123635 original size:21 final size:22
Alignment explanation
Indices: 2123606--2123655 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2123596 AGTTTTTTTG
2123606 AATTT-TAAT-ATGTTTT-TAAT
1 AATTTATAATAAT-TTTTATAAT
2123626 AATTTATAATAATTTTTATAAT
1 AATTTATAATAATTTTTATAAT
2123648 -ATTTATAA
1 AATTTATAA
2123656 GTTTTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTATAATAATTTTTATAAT
Found at i:2123652 original size:9 final size:9
Alignment explanation
Indices: 2123561--2123700 Score: 97
Period size: 10 Copynumber: 14.8 Consensus size: 9
2123551 TCAAGTAATT
2123561 TTTTTATAA
1 TTTTTATAA
*
2123570 TTTATTTTAA
1 TTT-TTATAA
2123580 TTTTT-T-A
1 TTTTTATAA
2123587 TTATTTATAA
1 TT-TTTATAA
*
2123597 GTTTTTTTGAA
1 -TTTTTAT-AA
* *
2123608 TTTTAATATG
1 TTTTTATA-A
2123618 TTTTTAATAA
1 TTTTT-ATAA
*
2123628 TTTATAATAA
1 TTT-TTATAA
2123638 TTTTTATAA
1 TTTTTATAA
*
2123647 TATTTATAA
1 TTTTTATAA
*
2123656 GTTTTCAT-A
1 -TTTTTATAA
2123665 TTTTTATAA
1 TTTTTATAA
2123674 TTTTATATAAA
1 TTTT-TAT-AA
*
2123685 ATTTTATAA
1 TTTTTATAA
2123694 TTTTTAT
1 TTTTTAT
2123701 GAAAAAATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 34 0.33
10 43 0.42
11 13 0.13
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:2124389 original size:22 final size:22
Alignment explanation
Indices: 2124361--2124416 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
2124351 ATAATTTTAT
2124361 TTTTAATTACAAAATAATGAAA
1 TTTTAATTACAAAATAATGAAA
*
2124383 TTTTAATTATAAAATAATGAAA
1 TTTTAATTACAAAATAATGAAA
2124405 TTTTAATTACAA
1 TTTTAATTACAA
2124417 GGGCCGTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTTAATTACAAAATAATGAAA
Found at i:2125407 original size:17 final size:18
Alignment explanation
Indices: 2125385--2125425 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2125375 TTATTTTTCT
2125385 TTTATTTA-CGTTAAACA
1 TTTATTTACCGTTAAACA
* *
2125402 TTTATTTACCTTTTAACA
1 TTTATTTACCGTTAAACA
2125420 TTTATT
1 TTTATT
2125426 GATAATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTATTTACCGTTAAACA
Found at i:2127036 original size:14 final size:14
Alignment explanation
Indices: 2127017--2127045 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2127007 AATTTGGGCC
2127017 TCAGGTAAGACTAA
1 TCAGGTAAGACTAA
2127031 TCAGGTAAGACTAA
1 TCAGGTAAGACTAA
2127045 T
1 T
2127046 AGGCCATTTG
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:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (14 bp):
TCAGGTAAGACTAA
Found at i:2134316 original size:40 final size:40
Alignment explanation
Indices: 2134261--2134409 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
2134251 TGAGCATTGG
2134261 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
2134301 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
2134341 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
2134381 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
2134410 ATGTGTTTGC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:2143117 original size:40 final size:40
Alignment explanation
Indices: 2142890--2143116 Score: 330
Period size: 40 Copynumber: 5.7 Consensus size: 40
2142880 AGCATTTGAA
* * *
2142890 ATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
2142929 ATTTTATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
2142970 ATATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
2143010 ATATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * *
2143050 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
2143090 ATATGTCCGGGTTAAGACCCGAAGGCA
1 ATATATCCGGGCTAAGACCCGAAGGCA
2143117 AATGTGTTTG
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 170 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:2145467 original size:25 final size:25
Alignment explanation
Indices: 2145434--2145492 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
2145424 TTCAGAAACA
* *
2145434 AAAT-GCCAAATC-ACAAGCCAAGAT
1 AAATGGCCAAAACAACAA-CCAAAAT
2145458 AAATGGCCAAAACAACAACCAAAAT
1 AAATGGCCAAAACAACAACCAAAAT
*
2145483 ATATGGCCAA
1 AAATGGCCAA
2145493 TGTTAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (25 bp):
AAATGGCCAAAACAACAACCAAAAT
Found at i:2146081 original size:25 final size:25
Alignment explanation
Indices: 2146053--2146144 Score: 166
Period size: 25 Copynumber: 3.7 Consensus size: 25
2146043 CTTGTACATA
2146053 TATGCTCACACGAGCTGTAAATTGG
1 TATGCTCACACGAGCTGTAAATTGG
2146078 TATGCTCACACGAGCTGTAAATTGG
1 TATGCTCACACGAGCTGTAAATTGG
*
2146103 TATGCTCTCACGAGCTGTAAATTGG
1 TATGCTCACACGAGCTGTAAATTGG
*
2146128 TATGCTCTCACGAGCTG
1 TATGCTCACACGAGCTG
2146145 AGGGTTAGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAAATTGG
Found at i:2151132 original size:40 final size:40
Alignment explanation
Indices: 2151068--2151204 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 40
2151058 ACTTGATATC
*** * *
2151068 TCACACACTAAGTGTTGTACATAGCCGAAGATATCTTAAA
1 TCACACACTAAGTGCCATATATAGCCGAAGATATCTCAAA
* * * * * * *
2151108 TCATACACTTAGTGTCATATATAGCCAAAGCTATGTCGAA
1 TCACACACTAAGTGCCATATATAGCCGAAGATATCTCAAA
* * * **
2151148 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGTA
1 TCACACACTAAGTGCCATATATAGCCGAAGATATCTCAAA
*
2151188 TCACGCACTAAGTGCCA
1 TCACACACTAAGTGCCA
2151205 CAAATAACCG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCCGAAGATATCTCAAA
Found at i:2156369 original size:18 final size:18
Alignment explanation
Indices: 2156346--2156387 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2156336 ATAGTCTACA
2156346 AAAATAAAA-AAAAATCCC
1 AAAATAAAACAAAAAT-CC
*
2156364 AAAATAAAACCAAAATCC
1 AAAATAAAACAAAAATCC
2156382 AAAATA
1 AAAATA
2156388 GTTTTTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAATAAAACAAAAATCC
Found at i:2157058 original size:35 final size:34
Alignment explanation
Indices: 2156982--2157058 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
2156972 TTATCATAGT
* *
2156982 TGCATGTTTAACATGCGAATCATAATTAGAATAA
1 TGCATGCTTAACATGCGAATCATAATCAGAATAA
*
2157016 TGACATGCTTAACATGCGAATCATAGTCAGAATAA
1 TG-CATGCTTAACATGCGAATCATAATCAGAATAA
2157051 TAGCATGC
1 T-GCATGC
2157059 GAAACAGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.05
35 35 0.92
36 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (34 bp):
TGCATGCTTAACATGCGAATCATAATCAGAATAA
Found at i:2162338 original size:55 final size:53
Alignment explanation
Indices: 2162151--2162350 Score: 187
Period size: 53 Copynumber: 3.8 Consensus size: 53
2162141 ACACGGGTAC
* * * *
2162151 CTTACCATTGCCAT-TACTTGTCATGGTCTTACGTGGTATCCTTT--TTA--AA
1 CTTACCAATGCCATGT-CTTGACATGGTCTTACATGGGATCCTTTCCTTATGAA
* * *
2162200 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTTCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTTCCTTATGAA
* * * * * *
2162253 CTCACCAATTCCATGACTTAACATGATCTTATATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTTCCTTAT-G-AA
* *
2162308 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
2162351 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
49 39 0.32
50 1 0.01
51 3 0.02
52 2 0.02
53 40 0.33
54 1 0.01
55 34 0.28
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTTCCTTATGAA
Found at i:2164530 original size:257 final size:257
Alignment explanation
Indices: 2164074--2164588 Score: 958
Period size: 257 Copynumber: 2.0 Consensus size: 257
2164064 CTCTTTTGTT
2164074 TTTTTAACTAAATCAACCTCGTAAATCTGATTTTCCTTAAGCTCTATCCAATACAAAGGTGTGCG
1 TTTTTAACTAAATCAACCTCGTAAATCTGATTTTCCTTAAGCTCTATCCAATACAAAGGTGTGCG
*
2164139 ACATTTACGTCCATACAAAGCTTCATAAGGTGCCATCTTCAAACTCCACTGAAAATTATTATTGT
66 ACATTTACGTCCATACAAAGCTTCATAAGGTGCCATCTTCAAACTCCACTGAAAACTATTATTGT
* *
2164204 AGGCAAACTCTACTAATGGTAAGTACTTTTCTCAACTGCCTTGAAATTCCAGTACACAACATCTA
131 AGGCAAACTCTACTAATGGTAAATACTTTTCCCAACTGCCTTGAAATTCCAGTACACAACATCTA
2164269 AGCATATCTTCAAGTACCTGAATAACTCTCTCTGACTGACCGTCGGTTTGAGGATGGAAAGC
196 AGCATATCTTCAAGTACCTGAATAACTCTCTCTGACTGACCGTCGGTTTGAGGATGGAAAGC
2164331 TTTTTAACTAAATCAACCTCGTAAATCTGATTTTCCTTAAGCTCTATCCAATACAAAGGTGTGCG
1 TTTTTAACTAAATCAACCTCGTAAATCTGATTTTCCTTAAGCTCTATCCAATACAAAGGTGTGCG
* *
2164396 ACATTTACGTCCATACAAAGCTTCATAAGGTGCCATCTTCAAACTCGACTGATAACTATTATTGT
66 ACATTTACGTCCATACAAAGCTTCATAAGGTGCCATCTTCAAACTCCACTGAAAACTATTATTGT
*
2164461 AGGCAAACTCTACTAATGGTAAATATTTTTCCCAACTGCCTTGAAATTCCAGTACACAACATCTA
131 AGGCAAACTCTACTAATGGTAAATACTTTTCCCAACTGCCTTGAAATTCCAGTACACAACATCTA
* *
2164526 AGCATATCTTCAAGTACCTGAATAACTCTCTCTGACTGACTGTCGGTTTGGGGATGGAAAGC
196 AGCATATCTTCAAGTACCTGAATAACTCTCTCTGACTGACCGTCGGTTTGAGGATGGAAAGC
2164588 T
1 T
2164589 GTACTAAAAC
Statistics
Matches: 250, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
257 250 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (257 bp):
TTTTTAACTAAATCAACCTCGTAAATCTGATTTTCCTTAAGCTCTATCCAATACAAAGGTGTGCG
ACATTTACGTCCATACAAAGCTTCATAAGGTGCCATCTTCAAACTCCACTGAAAACTATTATTGT
AGGCAAACTCTACTAATGGTAAATACTTTTCCCAACTGCCTTGAAATTCCAGTACACAACATCTA
AGCATATCTTCAAGTACCTGAATAACTCTCTCTGACTGACCGTCGGTTTGAGGATGGAAAGC
Found at i:2170146 original size:53 final size:54
Alignment explanation
Indices: 2170035--2170269 Score: 245
Period size: 55 Copynumber: 4.4 Consensus size: 54
2170025 CATTACCTGT
* * *
2170035 CATGGTCTTACGTGGTATCCTT---TT-T-AAACTTACCACTGCCATGTCTCGA
1 CATGGTCTTACATGGTATCCTTACCTTATGAAACTTACCAATGCCATGTCTTGA
*
2170084 CATGGTCTTACATGGTATCCTTACCTTATG-AACTCACCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTACCTTATGAAACTTACCAATGCCATGTCTTGA
* * * *
2170137 CATGATCTTACATGGGA-CCTTTGA-CTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TT-ACCTTAT-GAAACTTACCAATGCCATGTCTTGA
* * * * *
2170192 CATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTGTCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTATGAAA-CTTACCAA-TGCCATGTCTTGA
2170247 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
2170270 AACCCTAATG
Statistics
Matches: 154, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 21 0.14
52 4 0.03
53 46 0.30
54 9 0.06
55 72 0.47
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTACCTTATGAAACTTACCAATGCCATGTCTTGA
Found at i:2170205 original size:108 final size:110
Alignment explanation
Indices: 2170061--2170261 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
2170051 ATCCTTTTTA
* *
2170061 AACTTACCACTGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
*
2170124 -TGCCATGTCTTGACATGATCTTACATGGGACCTTTGACTTATAGT
65 TTGCCATGCCTTGACATGATCTTACATGGGACCTTTGACTTATAGT
* * * *
2170169 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
* * *
2170234 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGACATGATCTTACATGG
2170262 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGACATGATCTTACATGGGACCTTTGACTTATAGT
Found at i:2171521 original size:14 final size:14
Alignment explanation
Indices: 2171502--2171528 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2171492 TCATTAGGTC
2171502 CATAAAGGTTACCG
1 CATAAAGGTTACCG
2171516 CATAAAGGTTACC
1 CATAAAGGTTACC
2171529 AGAGCGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
CATAAAGGTTACCG
Found at i:2175902 original size:42 final size:42
Alignment explanation
Indices: 2175791--2175944 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
2175781 TACCACACCA
* * *
2175791 ATGCCATATCCCAGATATGGTCTTATATGGAATCTCGTTTCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* * *
2175833 ATGCCAACAGCCCAGCTATGGTCTTACATGGAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* ***
2175876 ATGCCCTATCCCAGATATGGTCTTACACAAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCAT-ATCG
*
2175918 ATGCCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
2175945 CATAGTCTCG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 57 0.60
43 38 0.40
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
Found at i:2177883 original size:22 final size:22
Alignment explanation
Indices: 2177841--2177884 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2177831 AATTATTTAC
* *
2177841 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
2177863 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
2177885 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:2181259 original size:20 final size:21
Alignment explanation
Indices: 2181217--2181261 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
2181207 ATTATTCTGT
*
2181217 AACGGTAGGGGTTGTCCTTGC
1 AACGGTAGGGGTTGTCCTAGC
* *
2181238 AACGGT-GGGTTTTTCCTAGC
1 AACGGTAGGGGTTGTCCTAGC
2181258 AACG
1 AACG
2181262 CCATTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (21 bp):
AACGGTAGGGGTTGTCCTAGC
Found at i:2186989 original size:23 final size:23
Alignment explanation
Indices: 2186945--2186989 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2186935 TACTAAAACA
* **
2186945 TGTAGGTTGTGGATAAGTCACCT
1 TGTAGGTTATGGATAAACCACCT
2186968 TGTAGGTTATGGATAAACCACC
1 TGTAGGTTATGGATAAACCACC
2186990 AAATTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (23 bp):
TGTAGGTTATGGATAAACCACCT
Found at i:2187888 original size:30 final size:30
Alignment explanation
Indices: 2187852--2187913 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
2187842 AGAACAAGTA
*
2187852 AAGAAATGTTTTTTTGTATAGTGAAATTTG
1 AAGAAATGTGTTTTTGTATAGTGAAATTTG
2187882 AAGAAATGTGTTTTTGTATAGTGAAATTTG
1 AAGAAATGTGTTTTTGTATAGTGAAATTTG
2187912 AA
1 AA
2187914 TATTGGTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (30 bp):
AAGAAATGTGTTTTTGTATAGTGAAATTTG
Found at i:2187983 original size:44 final size:44
Alignment explanation
Indices: 2187934--2188018 Score: 104
Period size: 44 Copynumber: 1.9 Consensus size: 44
2187924 GTTTAATGTG
*
2187934 GTGGT-GTTACGGTGGTTGA-ATGGTGGTGGA-GTGGTGGTTGTATT
1 GTGGTGGTT-CGGTGG-TGATAGGGTGGT-GATGTGGTGGTTGTATT
*
2187978 GTGGTGGTTCGGTGGTGATAGGGTGGTGATTTGGTGGTTGT
1 GTGGTGGTTCGGTGGTGATAGGGTGGTGATGTGGTGGTTGT
2188019 TGGGTGGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
43 5 0.14
44 28 0.78
45 3 0.08
ACGTcount: A:0.09, C:0.02, G:0.49, T:0.39
Consensus pattern (44 bp):
GTGGTGGTTCGGTGGTGATAGGGTGGTGATGTGGTGGTTGTATT
Found at i:2187991 original size:22 final size:22
Alignment explanation
Indices: 2187932--2188017 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 22
2187922 CGGTTTAATG
2187932 TGGTGGT-GTTACGGTGGTTGAA
1 TGGTGGTGGTT-CGGTGGTTGAA
* *
2187954 TGGTGGTGGAGT-GGTGGTTGTA
1 TGGTGGTGG-TTCGGTGGTTGAA
*
2187976 TTGTGGTGGTTCGGTGG-TGATA
1 TGGTGGTGGTTCGGTGGTTGA-A
* * *
2187998 GGGTGGTGATTTGGTGGTTG
1 TGGTGGTGGTTCGGTGGTTG
2188018 TTGGGTGGTG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.06
22 43 0.86
23 3 0.06
24 1 0.02
ACGTcount: A:0.09, C:0.02, G:0.50, T:0.38
Consensus pattern (22 bp):
TGGTGGTGGTTCGGTGGTTGAA
Found at i:2195222 original size:35 final size:35
Alignment explanation
Indices: 2195176--2195270 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
2195166 TATCTCAATG
* *
2195176 GCATGTTTAACATGCGAATTAGAATCAAAATAATC
1 GCATGCTTAACATGCGAATTAGAATCAAAATAATA
* * ** *
2195211 GCATGCTTAACATGCGAATCATAGCCAAAATGATA
1 GCATGCTTAACATGCGAATTAGAATCAAAATAATA
* *
2195246 GCATGCTCAACATGCAAATTAGAAT
1 GCATGCTTAACATGCGAATTAGAAT
2195271 ATCAATAAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATTAGAATCAAAATAATA
Found at i:2206897 original size:38 final size:38
Alignment explanation
Indices: 2206846--2206923 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
2206836 CTAATGCTTG
2206846 TATTGGGCCTTGAGGGTCCATTTAGGGGACAATATGAA
1 TATTGGGCCTTGAGGGTCCATTTAGGGGACAATATGAA
2206884 TATTGGGCCTTGAGGGTCCATTTAGGGGACAATATGAA
1 TATTGGGCCTTGAGGGTCCATTTAGGGGACAATATGAA
2206922 TA
1 TA
2206924 ATCTCGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (38 bp):
TATTGGGCCTTGAGGGTCCATTTAGGGGACAATATGAA
Found at i:2208190 original size:16 final size:16
Alignment explanation
Indices: 2208169--2208199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2208159 GATTGGGTTG
*
2208169 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
2208185 AGAAAATTAATTAAT
1 AGAAAATTAATTAAT
2208200 ATAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:2209846 original size:22 final size:20
Alignment explanation
Indices: 2209820--2209867 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
2209810 AACCTACGTG
2209820 TATTTCATACTAATTTTTTTA
1 TATTTCATA-TAATTTTTTTA
**
2209841 TGATTTTTTTATAATTTTTTTA
1 T-A-TTTCATATAATTTTTTTA
2209863 TATTT
1 TATTT
2209868 TGAGTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 3 0.13
21 2 0.09
22 13 0.57
23 5 0.22
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTCATATAATTTTTTTA
Found at i:2209850 original size:12 final size:11
Alignment explanation
Indices: 2209830--2209868 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
2209820 TATTTCATAC
2209830 TAATTTTTTTA
1 TAATTTTTTTA
*
2209841 TGATTTTTTTA
1 TAATTTTTTTA
2209852 TAATTTTTTTA
1 TAATTTTTTTA
2209863 T-ATTTT
1 TAATTTT
2209869 GAGTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:2211536 original size:20 final size:20
Alignment explanation
Indices: 2211511--2211550 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2211501 ACTTTTATCG
*
2211511 ATTCTAATTTTTTATAAAAA
1 ATTCTAATTTTTAATAAAAA
2211531 ATTCTAATTTTTAATAAAAA
1 ATTCTAATTTTTAATAAAAA
2211551 CAGTGACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTCTAATTTTTAATAAAAA
Found at i:2232898 original size:42 final size:42
Alignment explanation
Indices: 2232834--2232918 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
2232824 TTTTGGAGAG
*
2232834 TCACATTCCTGTGTGGGTAGGCCATGTGGTCAAACACACCCA
1 TCACATTCCTGTGTGGGCAGGCCATGTGGTCAAACACACCCA
*
2232876 TCACATTCCTGTGTGGGCAGGCCGTGTGGTCAAACACACCCA
1 TCACATTCCTGTGTGGGCAGGCCATGTGGTCAAACACACCCA
2232918 T
1 T
2232919 GTGACTTGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (42 bp):
TCACATTCCTGTGTGGGCAGGCCATGTGGTCAAACACACCCA
Found at i:2234324 original size:42 final size:42
Alignment explanation
Indices: 2234203--2234324 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
2234193 CTTACTTGGG
* *
2234203 ATCTCATATTGATGCCATATCCCAAATATGGTCTTATACAAA
1 ATCTCATATCGATGCCATATCCCAAATATGGTCTTACACAAA
* * * **
2234245 TTCTCATTTCGATGCCATGTCCCAAACGTGGTCTTACACAAA
1 ATCTCATATCGATGCCATATCCCAAATATGGTCTTACACAAA
* *
2234287 ATCTCATATCAATGCCATATCCCAGATATGGTCTTACA
1 ATCTCATATCGATGCCATATCCCAAATATGGTCTTACA
2234325 TGATAACTCA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (42 bp):
ATCTCATATCGATGCCATATCCCAAATATGGTCTTACACAAA
Found at i:2234335 original size:42 final size:41
Alignment explanation
Indices: 2234205--2234344 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 41
2234195 TACTTGGGAT
* *
2234205 CTCATATTGATGCCATATCCCAAATATGGTCTTATACAAAT-T
1 CTCATATCGATGCCATATCCCAAATATGGTC-T-TACAAATAA
* * **
2234247 CTCATTTCGATGCCATGTCCCAAACGTGGTCTTACACAA-AA
1 CTCATATCGATGCCATATCCCAAATATGGTCTTACA-AATAA
* * *
2234288 TCTCATATCAATGCCATATCCCAGATATGGTCTTACATGATAA
1 -CTCATATCGATGCCATATCCCAAATATGGTCTTACA-AATAA
2234331 CTCATA-CTGATGCC
1 CTCATATC-GATGCC
2234345 GATGCCATAT
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
40 4 0.05
41 4 0.05
42 68 0.87
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (41 bp):
CTCATATCGATGCCATATCCCAAATATGGTCTTACAAATAA
Found at i:2236020 original size:3 final size:3
Alignment explanation
Indices: 2236012--2236053 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2236002 TTGAACTATT
2236012 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2236054 TCTCACGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2237371 original size:25 final size:25
Alignment explanation
Indices: 2237323--2237371 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2237313 TTAAATAGAA
* * *
2237323 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
2237348 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
2237372 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:2239824 original size:352 final size:352
Alignment explanation
Indices: 2239180--2239883 Score: 1246
Period size: 352 Copynumber: 2.0 Consensus size: 352
2239170 ATTGAGGTAA
* ** * *
2239180 CATTGGCTACGTATGTGGCACTTAGTGTGCAAAAATCTTGAGTATTCGACATTATTATAATGAGT
1 CATTGGCTACGTATGTGGAACTTAGTGTAAAAAAATCTCGAGTATCCGACATTATTATAATGAGT
2239245 GGTTCACGGGTATGTCAAAGATGAGAAGATGTGTAAAGTCATTTCGAGATGGTTCAGGTATGTAC
66 GGTTCACGGGTATGTCAAAGATGAGAAGATGTGTAAAGTCATTTCGAGATGGTTCAGGTATGTAC
2239310 ATAAAGCCCATGTTTGTTAAATGCTTGAAACGATGAATATGAGGTAAGTTTTGTAGTAGAATGAG
131 ATAAAGCCCATGTTTGTTAAATGCTTGAAACGATGAATATGAGGTAAGTTTTGTAGTAGAATGAG
2239375 TTATGATCATGAGACTATGGTAAATTTACATTTATTTGAATGTTATATGTATGGTAAGATTTACT
196 TTATGATCATGAGACTATGGTAAATTTACATTTATTTGAATGTTATATGTATGGTAAGATTTACT
*
2239440 TATTTCTTGCATACGAGCTTACTAAGCTATATATCTTACTCCATTTATTTTCCATGTTTTATAGT
261 TATTTCTTGCATACGAGCTTACTAAGCTATATAGCTTACTCCATTTATTTTCCATGTTTTATAGT
2239505 GTCGCCAAGCTAACTCAGATCGGAGAT
326 GTCGCCAAGCTAACTCAGATCGGAGAT
**
2239532 CATTGGCTACGTATGTGGAACTTAGTGTAAAAAAATCTCGAGTATCCGACATTATTATTCTGAGT
1 CATTGGCTACGTATGTGGAACTTAGTGTAAAAAAATCTCGAGTATCCGACATTATTATAATGAGT
*
2239597 GGTTCACGGGTATGTCAAAGATGAGAATATGTGTAAAGTCATTTCGAGATGGTTCAGGTATGTAC
66 GGTTCACGGGTATGTCAAAGATGAGAAGATGTGTAAAGTCATTTCGAGATGGTTCAGGTATGTAC
* * * *
2239662 ATAAAGCCCATGTTTGTTAAATTCTTGAAAGGATGAATATGAGGTAAGTTTTGTGGTGGAATGAG
131 ATAAAGCCCATGTTTGTTAAATGCTTGAAACGATGAATATGAGGTAAGTTTTGTAGTAGAATGAG
* *
2239727 TTATGATCATGAGACTATGGTAAATTTACATTTATTTGAATGTTATATGTATGGTAAGGTTTGCT
196 TTATGATCATGAGACTATGGTAAATTTACATTTATTTGAATGTTATATGTATGGTAAGATTTACT
*
2239792 TATTTCTTGCATACGAGCTTACTAAGCTATATAGCTTACTCCGTTTATTTTCCATGTTTTATAGT
261 TATTTCTTGCATACGAGCTTACTAAGCTATATAGCTTACTCCATTTATTTTCCATGTTTTATAGT
* *
2239857 GTTGCCAAGCTAACTCGGATCGGAGAT
326 GTCGCCAAGCTAACTCAGATCGGAGAT
2239884 TGTTGGAGAT
Statistics
Matches: 334, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
352 334 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (352 bp):
CATTGGCTACGTATGTGGAACTTAGTGTAAAAAAATCTCGAGTATCCGACATTATTATAATGAGT
GGTTCACGGGTATGTCAAAGATGAGAAGATGTGTAAAGTCATTTCGAGATGGTTCAGGTATGTAC
ATAAAGCCCATGTTTGTTAAATGCTTGAAACGATGAATATGAGGTAAGTTTTGTAGTAGAATGAG
TTATGATCATGAGACTATGGTAAATTTACATTTATTTGAATGTTATATGTATGGTAAGATTTACT
TATTTCTTGCATACGAGCTTACTAAGCTATATAGCTTACTCCATTTATTTTCCATGTTTTATAGT
GTCGCCAAGCTAACTCAGATCGGAGAT
Found at i:2247813 original size:68 final size:67
Alignment explanation
Indices: 2247741--2247890 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
2247731 CATCATGTGT
* * * *
2247741 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
2247803 ATGTAG
62 ATGTAG
** * *
2247809 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
2247874 AG
66 AG
2247876 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
2247891 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:2247846 original size:64 final size:64
Alignment explanation
Indices: 2247765--2247948 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
2247755 AGACATTATG
* *
2247765 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
2247829 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
2247894 AA
63 AA
* * * *
2247896 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
2247949 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:2257502 original size:48 final size:48
Alignment explanation
Indices: 2257382--2257674 Score: 270
Period size: 48 Copynumber: 5.9 Consensus size: 48
2257372 AGGGTAAGAT
* * *
2257382 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCGAG
* * * *
2257431 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* *
2257480 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAT-G-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCACATATCGAG
* * * *
2257528 GCCAATGCCATGTTCCA-AGCATGGTCTTACATTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCACATATCGAG
* *
2257576 GCTGATGCCATGTCCCAGACATGGTCTTACACTCTTACATTGGCTTACATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACA--C-T--A---GCTCACATATCGAG
* * *
2257632 GCCGATGCCATGTCCTAGACGTGGTCTTACACTAGCTCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
2257675 ACCATAGTAT
Statistics
Matches: 198, Mismatches: 30, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
46 7 0.04
47 2 0.01
48 105 0.53
49 3 0.02
50 36 0.18
51 2 0.01
53 1 0.01
54 1 0.01
56 41 0.21
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
Found at i:2257575 original size:96 final size:97
Alignment explanation
Indices: 2257382--2257608 Score: 348
Period size: 96 Copynumber: 2.3 Consensus size: 97
2257372 AGGGTAAGAT
* * *
2257382 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC-GTGCCAATGCCATGTTC
*
2257447 CAAACATGGTCTTACACTAGCCCACATGTCGAG
65 CAAACATGGTCTTACACTAGCCCACATATCGAG
*
2257480 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAT-GTGCCAATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGTGCCAATGCCATGTTCC
* * * *
2257544 AAGCATGGTCTTACATTGGCTCACATATCGAG
66 AAACATGGTCTTACACTAGCCCACATATCGAG
*
2257576 GCTGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
2257609 CTTACATTGG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
96 76 0.64
98 43 0.36
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGTGCCAATGCCATGTTCC
AAACATGGTCTTACACTAGCCCACATATCGAG
Found at i:2257619 original size:56 final size:56
Alignment explanation
Indices: 2257552--2257664 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
2257542 CCAAGCATGG
*
2257552 TCTTACATTGGCTCACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACAC
1 TCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC
* * *
2257608 TCTTACATTGGCTTACATATCGAGGCCGATGCCATGTCCTAGACGTGGTCTTACAC
1 TCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC
2257664 T
1 T
2257665 AGCTCTCATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (56 bp):
TCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC
Found at i:2266118 original size:26 final size:26
Alignment explanation
Indices: 2266089--2266199 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
2266079 CATGAAATTC
*
2266089 TTATAATTAAACATTTACCTAACCCA
1 TTATCATTAAACATTTACCTAACCCA
2266115 TTATCATTAAAACATTTACCTAACCCA
1 TTATCATT-AAACATTTACCTAACCCA
** *
2266142 TTATCATGGAACATTTACCTAACCTA
1 TTATCATTAAACATTTACCTAACCCA
** *
2266168 TTATCATGGAACATTTACCTAACCTA
1 TTATCATTAAACATTTACCTAACCCA
2266194 TTATCA
1 TTATCA
2266200 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 55 0.69
27 25 0.31
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATTAAACATTTACCTAACCCA
Found at i:2270023 original size:27 final size:27
Alignment explanation
Indices: 2269986--2270122 Score: 156
Period size: 27 Copynumber: 5.1 Consensus size: 27
2269976 AGCATGGCTG
* *
2269986 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
** *
2270012 CCAGATACAGATAATCATCGCAGAGCCA
1 CCAGATACAGAT-ATTGTGGCAGAGCCA
2270040 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATAT-TGTGGCAGAGCCA
2270067 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
*
2270094 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
2270121 CC
1 CC
2270123 CGAACGGTTC
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.07
27 74 0.76
28 16 0.16
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:2271812 original size:53 final size:52
Alignment explanation
Indices: 2271746--2271856 Score: 159
Period size: 53 Copynumber: 2.1 Consensus size: 52
2271736 CATGAAGTTC
*
2271746 TTATCATGAAACATTTACCTAACCCATTATCATTAAAACATTTACCTTACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCA-TAAAACATTTACCTAACCCA
* * ** *
2271799 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATAAAACATTTACCTAACCCA
2271851 TTATCA
1 TTATCA
2271857 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 22 0.42
53 30 0.58
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATAAAACATTTACCTAACCCA
Found at i:2271818 original size:26 final size:26
Alignment explanation
Indices: 2271746--2271856 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
2271736 CATGAAGTTC
2271746 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2271772 TTATCATTAAAACATTTACCTTACCCA
1 TTATCA-TGAAACATTTACCTAACCCA
* *
2271799 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
2271825 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2271851 TTATCA
1 TTATCA
2271857 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 54 0.69
27 24 0.31
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2274431 original size:46 final size:47
Alignment explanation
Indices: 2274364--2274466 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 47
2274354 ATGAAAATAA
2274364 AAAAAAAAGTGTGTGGTTGTTT-CCCCCCCATTGCCGTGAGCTAAAG
1 AAAAAAAAGTGTGTGGTTGTTTCCCCCCCCATTGCCGTGAGCTAAAG
2274410 AAAAAAAAGTGTGTGGTTGTTTCCCCCCCCATTGCCGTGAGCTAAAG
1 AAAAAAAAGTGTGTGGTTGTTTCCCCCCCCATTGCCGTGAGCTAAAG
2274457 AAAAGAAAAG
1 AAAA-AAAAG
2274467 AGAAAATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 22 0.40
47 28 0.51
48 5 0.09
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (47 bp):
AAAAAAAAGTGTGTGGTTGTTTCCCCCCCCATTGCCGTGAGCTAAAG
Found at i:2275617 original size:39 final size:40
Alignment explanation
Indices: 2275513--2275736 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
2275503 TTGAATGATG
* *
2275513 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
2275552 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
2275593 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
2275632 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
2275671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
2275710 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
2275737 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 73 0.45
40 76 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:2275687 original size:79 final size:80
Alignment explanation
Indices: 2275513--2275736 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 80
2275503 TTGAATGATG
* * * * *
2275513 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
2275576 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
2275593 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
2275655 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
2275671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
2275736 G
66 G
2275737 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 34 0.27
79 56 0.45
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:2275758 original size:79 final size:79
Alignment explanation
Indices: 2275581--2275769 Score: 215
Period size: 79 Copynumber: 2.4 Consensus size: 79
2275571 GGTATTTGTG
* * * *
2275581 CGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCC
**
2275645 CAAAGGCATTTGTG
66 CAAAGGCATTTGAA
* *
2275659 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGT
1 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-
*
2275723 CCCGAAGGCATTTGAA
64 CCCAAAGGCATTTGAA
* * *
2275739 CGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
2275770 TACGTGATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 22 0.23
79 49 0.52
80 24 0.25
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCC
CAAAGGCATTTGAA
Found at i:2281637 original size:40 final size:40
Alignment explanation
Indices: 2281585--2282258 Score: 1026
Period size: 40 Copynumber: 16.6 Consensus size: 40
2281575 CATTTGAATG
*
2281585 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
2281625 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2281665 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
2281705 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
2281745 ATATCCGGGATAAGACCTGAAGGCATTTGTGTGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
2281785 ATATCCGGGCTAAGACCCGGAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
2281825 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2281865 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2281905 ATATCCGGGATAAGACCTATAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCC-GG----G----ATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2281954 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2281994 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2282034 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
2282074 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
2282114 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
2282154 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
2282194 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
2282234 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGATAAGACCCGAAGGCA
2282259 ATTGAGCTTG
Statistics
Matches: 588, Mismatches: 35, Indels: 22
0.91 0.05 0.03
Matches are distributed among these distances:
39 2 0.00
40 542 0.92
41 3 0.01
44 1 0.00
45 1 0.00
48 2 0.00
49 37 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:2284365 original size:27 final size:27
Alignment explanation
Indices: 2284327--2284448 Score: 129
Period size: 27 Copynumber: 4.5 Consensus size: 27
2284317 TAATAAAGAG
* *
2284327 AAATTACTGAAATACTCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*
2284354 AAATTGCCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
2284381 AAATTACTGAAATACCCCTGATTTGTT
1 AAATTACCGAAATACCCTTGATTTGTA
* * * *
2284408 AAATTATCAAAATACTCTTG-TAGTGTA
1 AAATTACCGAAATACCCTTGAT-TTGTA
*
2284435 AAATTACCAAAATA
1 AAATTACCGAAATA
2284449 TCGTTGTAGT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGATTTGTA
Found at i:2284421 original size:54 final size:54
Alignment explanation
Indices: 2284327--2284441 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
2284317 TAATAAAGAG
* * * * *
2284327 AAATTACTGAAATACTCTTGATTTGTAAAATTGCCGAAATACCCTTG-ATTTGTA
1 AAATTACTGAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTA-GTGTA
* * *
2284381 AAATTACTGAAATACCCCTGATTTGTTAAATTATCAAAATACTCTTGTAGTGTA
1 AAATTACTGAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTAGTGTA
2284435 AAATTAC
1 AAATTAC
2284442 CAAAATATCG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
AAATTACTGAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTAGTGTA
Found at i:2284455 original size:27 final size:27
Alignment explanation
Indices: 2284408--2284465 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
2284398 CTGATTTGTT
*
2284408 AAATTATCAAAATACTCTTGTAGTGTA
1 AAATTACCAAAATACTCTTGTAGTGTA
2284435 AAATTACCAAAATA-TCGTTGTAGTGTA
1 AAATTACCAAAATACTC-TTGTAGTGTA
2284462 AAAT
1 AAAT
2284466 GACTGACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACTCTTGTAGTGTA
Found at i:2284513 original size:26 final size:26
Alignment explanation
Indices: 2284483--2284542 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
2284473 ATACCCCTGT
*
2284483 AGGGTAAAATGACTGTTTTGCCCTTG
1 AGGGTAAAATGACTATTTTGCCCTTG
2284509 AGGGTAAAATGACTATTTTGCCCTTG
1 AGGGTAAAATGACTATTTTGCCCTTG
2284535 AGGGTAAA
1 AGGGTAAA
2284543 TGATCGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (26 bp):
AGGGTAAAATGACTATTTTGCCCTTG
Found at i:2288199 original size:13 final size:13
Alignment explanation
Indices: 2288181--2288206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2288171 CAAGCGTGTA
2288181 TGATCACATGGGC
1 TGATCACATGGGC
2288194 TGATCACATGGGC
1 TGATCACATGGGC
2288207 GTGTCTCATA
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TGATCACATGGGC
Found at i:2288560 original size:32 final size:33
Alignment explanation
Indices: 2288513--2288585 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
2288503 GAGAAAATAT
2288513 TGAAATGGAAGATATGAGAAATGAT-TA-TGAGATG
1 TGAAAT-GAAGATAT--GAAATGATGTATTGAGATG
2288547 TGAAATG-AGATATGAAATGATGTATTGAGATG
1 TGAAATGAAGATATGAAATGATGTATTGAGATG
2288579 TGAAATG
1 TGAAATG
2288586 TAACACCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
30 8 0.22
31 2 0.05
32 20 0.54
33 1 0.03
34 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (33 bp):
TGAAATGAAGATATGAAATGATGTATTGAGATG
Found at i:2291233 original size:34 final size:34
Alignment explanation
Indices: 2291190--2291260 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
2291180 TACTATTGAA
*
2291190 TTGAAACACATAAACATAGCTTACTTGTTGTATT
1 TTGAAACACATAAACATAGCTTACTTGTTGCATT
2291224 TTGAAACACATAAACATAGCTTACTTGTTGCATT
1 TTGAAACACATAAACATAGCTTACTTGTTGCATT
2291258 TTG
1 TTG
2291261 CATTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (34 bp):
TTGAAACACATAAACATAGCTTACTTGTTGCATT
Found at i:2291936 original size:19 final size:19
Alignment explanation
Indices: 2291912--2291952 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2291902 ACGACCTAGC
2291912 CACATGGGCATGTGCCACA
1 CACATGGGCATGTGCCACA
*
2291931 CACATGGGCATGTGTCACA
1 CACATGGGCATGTGCCACA
2291950 CAC
1 CAC
2291953 GGGCAACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (19 bp):
CACATGGGCATGTGCCACA
Found at i:2291956 original size:17 final size:17
Alignment explanation
Indices: 2291912--2291957 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
2291902 ACGACCTAGC
*
2291912 CACATGGGCATGTGCCA
1 CACACGGGCATGTGCCA
*
2291929 CACACATGGGCATGTGTCA
1 CACAC--GGGCATGTGCCA
2291948 CACACGGGCA
1 CACACGGGCA
2291958 ACACACATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 9 0.36
19 16 0.64
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.15
Consensus pattern (17 bp):
CACACGGGCATGTGCCA
Found at i:2293929 original size:43 final size:44
Alignment explanation
Indices: 2293882--2293993 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 44
2293872 ATCGATTTGA
* *
2293882 GATTTACGTGTAAGACCATGTCTGGGACA-TCGACATC-TTATTT
1 GATTTACATGTAAGACCATGTCTGGGACAGT-GACATCAATATTT
* * *
2293925 GATTT-CATGTAAGACCTTGTCTGGGATAGTGGCATCAATATTT
1 GATTTACATGTAAGACCATGTCTGGGACAGTGACATCAATATTT
* *
2293968 GA-TTACATGTAAAACCACGTCTGGGA
1 GATTTACATGTAAGACCATGTCTGGGA
2293994 TGTTGGCGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
GATTTACATGTAAGACCATGTCTGGGACAGTGACATCAATATTT
Found at i:2297171 original size:47 final size:47
Alignment explanation
Indices: 2297061--2298211 Score: 2167
Period size: 47 Copynumber: 24.2 Consensus size: 47
2297051 NNNNNNNNNN
2297061 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297108 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 --ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297157 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297204 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 --ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297253 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297300 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297347 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297394 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297441 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297488 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297535 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297582 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297629 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297676 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297723 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297770 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297817 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297864 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297911 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2297958 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
2298005 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 --ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2298054 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 --ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2298103 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
2298150 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 --ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
2298199 ACACTTTCACATT
1 --ACTTTCACATT
2298212 TATTCAAATA
Statistics
Matches: 1091, Mismatches: 5, Indels: 12
0.98 0.00 0.01
Matches are distributed among these distances:
47 846 0.78
49 245 0.22
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
Found at i:2299421 original size:27 final size:27
Alignment explanation
Indices: 2299383--2299699 Score: 271
Period size: 27 Copynumber: 11.5 Consensus size: 27
2299373 TAATAAAGAG
* *
2299383 AAATTACTGAAATACTCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*
2299410 AAATTGCCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
2299437 AAATTACCGAAATATCCTCGA-TTGTG
1 AAATTACCGAAATACCCTTGATTTGTA
*** *
2299463 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*** * *
2299490 AAATTACCGAAATACCCCCAATTTCTG
1 AAATTACCGAAATACCCTTGATTTGTA
* *
2299517 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *
2299544 AAATTATCGAAATACCCTTAATTTTACAATTTGTA
1 AAATTACCGAAATACCC------TT--GATTTGTA
*
2299579 AAATTACCGAAAT-CCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*
2299605 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
2299632 AAATTACTGAAATACCCCTGATTTGTT
1 AAATTACCGAAATACCCTTGATTTGTA
* * * *
2299659 AAATTATCAAAATACTCTTG-TAGTGTA
1 AAATTACCGAAATACCCTTGAT-TTGTA
*
2299686 AAATTACCAAAATA
1 AAATTACCGAAATA
2299700 TCGTTGTAGT
Statistics
Matches: 236, Mismatches: 43, Indels: 22
0.78 0.14 0.07
Matches are distributed among these distances:
26 41 0.17
27 171 0.72
28 1 0.00
33 1 0.00
34 3 0.01
35 19 0.08
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGATTTGTA
Found at i:2299521 original size:80 final size:81
Alignment explanation
Indices: 2299382--2299673 Score: 248
Period size: 80 Copynumber: 3.5 Consensus size: 81
2299372 GTAATAAAGA
* * * * *** *
2299382 GAAATTACTGAAATACTCTTGATTTGTAAAATTGCCGAAATACCCTTGATTTGTAAAATTACCGA
1 GAAATTATTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGA
* *
2299447 AATATCCTCGA-TTGT
66 AACACCCTCGATTTGT
* *
2299462 GAAATTATTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTCTGAAATTACCGA
1 GAAATTATTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGA
2299527 AACACCCTCGATTTGT
66 AACACCCTCGATTTGT
* * * * * *
2299543 AAAATTATCGAAATACCCTTAATTTTACAATTTGTAAAATTACCGAAAT-CCCTCGATTTGTAAA
1 GAAATTATTGAAATACCC-------T-CGATTTGTAAAATTACCGAAATACCCCCAATTTCTAAA
* * *
2299607 ATTACTGAAATACCCTTGATTTGT
58 ATTACCGAAACACCCTCGATTTGT
* * * * *
2299631 AAAATTACTGAAATACCC-CTGATTTGTTAAATTATCAAAATAC
1 GAAATTATTGAAATACCCTC-GATTTGTAAAATTACCGAAATAC
2299674 TCTTGTAGTG
Statistics
Matches: 172, Mismatches: 29, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
79 1 0.01
80 81 0.47
81 20 0.12
88 49 0.28
89 21 0.12
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (81 bp):
GAAATTATTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGA
AACACCCTCGATTTGT
Found at i:2299609 original size:61 final size:62
Alignment explanation
Indices: 2299508--2299628 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 62
2299498 GAAATACCCC
*
2299508 CAATTTCTGAAATTACCGAAACACCCTCGATTTGTAAAATTA-TCGAAATACCCTTAATTTTA
1 CAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAATTACT-GAAATACCCTTAATTTTA
* * *
2299570 CAATTTGTAAAATTACCGAAA-TCCCTCGATTTGTAAAATTACTGAAATACCCTTGATTT
1 CAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAATACCCTTAATTT
2299629 GTAAAATTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
61 34 0.63
62 20 0.37
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (62 bp):
CAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAATACCCTTAATTTTA
Found at i:2299633 original size:88 final size:89
Alignment explanation
Indices: 2299483--2299648 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 89
2299473 AATACCCTCG
*
2299483 ATTTGTAAAATTACCGAAATACCCCCAATTTCTGAAATTACCGAAACACCCTCGATTTGTAAAAT
1 ATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAAT
2299548 TA-TCGAAATACCCTTAATTTTACA
66 TACT-GAAATACCCTTAATTTTACA
* * * * * *
2299572 ATTTGTAAAATTACCGAAAT-CCCTCGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAAT
1 ATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAAT
2299636 TACTGAAATACCC
66 TACTGAAATACCC
2299649 CTGATTTGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
88 48 0.70
89 21 0.30
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (89 bp):
ATTTGTAAAATTACCGAAATACCCCCAATTTCTAAAATTACCGAAACACCCTCGATTTGTAAAAT
TACTGAAATACCCTTAATTTTACA
Found at i:2299699 original size:142 final size:142
Alignment explanation
Indices: 2299430--2299699 Score: 346
Period size: 142 Copynumber: 1.9 Consensus size: 142
2299420 AATACCCTTG
* * *
2299430 ATTTGTAAAATTACCGAAATATCCTCGATTGTGAAATTATTAAAATACCCTCGATTTGTAAAATT
1 ATTTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
* * * *
2299495 ACCGAAATACCCCCAATTTCTGAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACC
66 ACCGAAATACCCCCAATTTCTGAAATTACCAAAACACCCTCGATGTGTAAAATTACCAAAATACC
2299560 CTTAATTTTACA
131 CTTAATTTTACA
* *
2299572 ATTTGTAAAATTACCGAAAT-CCCTCGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAAT
1 ATTTGTAAAATTACCGAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCGATTTGTAAAAT
* ** * * * * * *
2299636 TACTGAAATACCCCTGATTTGTTAAATTATCAAAATACTCTTG-TAGTGTAAAATTACCAAAATA
65 TACCGAAATACCCCCAATTTCTGAAATTACCAAAACACCCTCGAT-GTGTAAAATTACCAAAATA
2299700 TCGTTGTAGT
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
141 7 0.06
142 101 0.94
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (142 bp):
ATTTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
ACCGAAATACCCCCAATTTCTGAAATTACCAAAACACCCTCGATGTGTAAAATTACCAAAATACC
CTTAATTTTACA
Found at i:2299706 original size:27 final size:27
Alignment explanation
Indices: 2299659--2299716 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
2299649 CTGATTTGTT
*
2299659 AAATTATCAAAATACTCTTGTAGTGTA
1 AAATTACCAAAATACTCTTGTAGTGTA
2299686 AAATTACCAAAATA-TCGTTGTAGTGTA
1 AAATTACCAAAATACTC-TTGTAGTGTA
2299713 AAAT
1 AAAT
2299717 GACTGACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACTCTTGTAGTGTA
Found at i:2299764 original size:26 final size:26
Alignment explanation
Indices: 2299734--2299793 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
2299724 ATACCCCTGT
*
2299734 AGGGTAAAATGACTGTTTTGCCCTTG
1 AGGGTAAAATGACTATTTTGCCCTTG
2299760 AGGGTAAAATGACTATTTTGCCCTTG
1 AGGGTAAAATGACTATTTTGCCCTTG
2299786 AGGGTAAA
1 AGGGTAAA
2299794 TGATCGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (26 bp):
AGGGTAAAATGACTATTTTGCCCTTG
Found at i:2303450 original size:13 final size:13
Alignment explanation
Indices: 2303432--2303457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2303422 CAAGCGTGTA
2303432 TGATCACATGGGC
1 TGATCACATGGGC
2303445 TGATCACATGGGC
1 TGATCACATGGGC
2303458 GTGTCTCATA
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TGATCACATGGGC
Found at i:2303811 original size:32 final size:33
Alignment explanation
Indices: 2303764--2303836 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
2303754 GAGAAAATAT
2303764 TGAAATGGAAGATATGAGAAATGAT-TA-TGAGATG
1 TGAAAT-GAAGATAT--GAAATGATGTATTGAGATG
2303798 TGAAATG-AGATATGAAATGATGTATTGAGATG
1 TGAAATGAAGATATGAAATGATGTATTGAGATG
2303830 TGAAATG
1 TGAAATG
2303837 TAACACCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
30 8 0.22
31 2 0.05
32 20 0.54
33 1 0.03
34 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (33 bp):
TGAAATGAAGATATGAAATGATGTATTGAGATG
Found at i:2306484 original size:34 final size:34
Alignment explanation
Indices: 2306441--2306511 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
2306431 TACTATTGAA
*
2306441 TTGAAACACATAAACATAGCTTACTTGTTGTATT
1 TTGAAACACATAAACATAGCTTACTTGTTGCATT
2306475 TTGAAACACATAAACATAGCTTACTTGTTGCATT
1 TTGAAACACATAAACATAGCTTACTTGTTGCATT
2306509 TTG
1 TTG
2306512 CATTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (34 bp):
TTGAAACACATAAACATAGCTTACTTGTTGCATT
Found at i:2307187 original size:19 final size:19
Alignment explanation
Indices: 2307163--2307203 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2307153 ACGACCTAGC
2307163 CACATGGGCATGTGCCACA
1 CACATGGGCATGTGCCACA
*
2307182 CACATGGGCATGTGTCACA
1 CACATGGGCATGTGCCACA
2307201 CAC
1 CAC
2307204 GGGCAACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (19 bp):
CACATGGGCATGTGCCACA
Found at i:2307207 original size:17 final size:17
Alignment explanation
Indices: 2307163--2307208 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
2307153 ACGACCTAGC
*
2307163 CACATGGGCATGTGCCA
1 CACACGGGCATGTGCCA
*
2307180 CACACATGGGCATGTGTCA
1 CACAC--GGGCATGTGCCA
2307199 CACACGGGCA
1 CACACGGGCA
2307209 ACACACATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 9 0.36
19 16 0.64
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.15
Consensus pattern (17 bp):
CACACGGGCATGTGCCA
Found at i:2309180 original size:43 final size:44
Alignment explanation
Indices: 2309133--2309244 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 44
2309123 ATCGATTTGA
* *
2309133 GATTTACGTGTAAGACCATGTCTGGGACA-TCGACATC-TTATTT
1 GATTTACATGTAAGACCATGTCTGGGACAGT-GACATCAATATTT
* * *
2309176 GATTT-CATGTAAGACCTTGTCTGGGATAGTGGCATCAATATTT
1 GATTTACATGTAAGACCATGTCTGGGACAGTGACATCAATATTT
* *
2309219 GA-TTACATGTAAAACCACGTCTGGGA
1 GATTTACATGTAAGACCATGTCTGGGA
2309245 TGTTGGCGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
GATTTACATGTAAGACCATGTCTGGGACAGTGACATCAATATTT
Found at i:2309728 original size:13 final size:13
Alignment explanation
Indices: 2309710--2309770 Score: 113
Period size: 13 Copynumber: 4.7 Consensus size: 13
2309700 GTTAGGGACA
2309710 CACCCGTGTGTCC
1 CACCCGTGTGTCC
2309723 CACCCGTGTGTCC
1 CACCCGTGTGTCC
2309736 CACCCGTGTGTCC
1 CACCCGTGTGTCC
2309749 CACCCGTGTGTCC
1 CACCCGTGTGTCC
*
2309762 CACCGGTGT
1 CACCCGTGT
2309771 TGAATTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.08, C:0.44, G:0.25, T:0.23
Consensus pattern (13 bp):
CACCCGTGTGTCC
Done.