Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 42 of 131
Found at i:14002028 original size:19 final size:20
Alignment explanation
Indices: 14001988--14002037 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
14001978 ATTGCAAAAG
14001988 AAATTCAAAATAATTTTCAA
1 AAATTCAAAATAATTTTCAA
14002008 AAATTCAAAAT-ATTTAT-AA
1 AAATTCAAAATAATTT-TCAA
*
14002027 AAATTCCAAAT
1 AAATTCAAAAT
14002038 TTTCTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTCAAAATAATTTTCAA
Found at i:14004560 original size:29 final size:31
Alignment explanation
Indices: 14004504--14004562 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
14004494 TAAATAAATA
14004504 TATTATAATACTTTTATAACATGTAACTTTTT
1 TATTATAATACTTTTATAACA-GTAACTTTTT
* *
14004536 TATTATAATA-TTTTTTACCA-TAACTTT
1 TATTATAATACTTTTATAACAGTAACTTT
14004563 AAAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
31 8 0.32
32 10 0.40
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (31 bp):
TATTATAATACTTTTATAACAGTAACTTTTT
Found at i:14005885 original size:41 final size:41
Alignment explanation
Indices: 14005840--14006171 Score: 339
Period size: 41 Copynumber: 8.1 Consensus size: 41
14005830 AAAACGAAAT
*
14005840 CTAATGCT-GGGGACTTTAGCGGCGTTTTTGAAAAAGTGCCG
1 CTAATGCTAGGGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCG
* * * * * *
14005881 CTAATGCTGGGGGCTTTAGCGACGTTTGTGATAAAGTGCCA
1 CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
* *
14005922 CTAATGTTAAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
1 CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
* * * * * *
14005963 CTAATGCTTGGGGCTTTAGCGGCATTTTCGGAGAAGCGCCA
1 CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
*** *
14006004 CTAATGCTCTAGGCTTTAGCGACGTTTTTGAAAAAGCGCCG
1 CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
** *
14006045 C-ATAT-CT-GAGTTCTTTAGCGGCGTTTTTGAAAAGGCGCCG
1 CTA-ATGCTAG-GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
*** * *
14006085 CTAATGCTCTTGGCTTTAGCGGCGTTTTTGAAGAAGCGCCA
1 CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
* *
14006126 CTAATGCTAGGGTCCTTTAGCGGCGTTTTTGAGAAAGCGCCG
1 CTAATGCTAGGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCG
14006168 CTAA
1 CTAA
14006172 AGACATTTTA
Statistics
Matches: 235, Mismatches: 49, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
40 32 0.14
41 170 0.72
42 33 0.14
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (41 bp):
CTAATGCTAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
Found at i:14006566 original size:20 final size:20
Alignment explanation
Indices: 14006543--14006640 Score: 108
Period size: 20 Copynumber: 5.0 Consensus size: 20
14006533 TTCCATGCGG
*
14006543 TTCAACTCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
*
14006563 TTCAGCTCACTTGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* *
14006583 GTCAGCTCATTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* * * *
14006603 GTCAGCTCCCACGAGCTCAG
1 TTCAGCTCACTCGAGCTCAA
*
14006623 TTCAGCTCA-TTGAGCTCA
1 TTCAGCTCACTCGAGCTCA
14006641 TTATTAGCTC
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 7 0.11
20 58 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCTCAA
Found at i:14006569 original size:10 final size:10
Alignment explanation
Indices: 14006556--14006610 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
14006546 AACTCACTCG
14006556 AGCTCAATTC
1 AGCTCAATTC
* *
14006566 AGCTCACTTG
1 AGCTCAATTC
*
14006576 AGCTCAAGTC
1 AGCTCAATTC
14006586 AGCTC-ATTC
1 AGCTCAATTC
*
14006595 GAGCTCAAGTC
1 -AGCTCAATTC
14006606 AGCTC
1 AGCTC
14006611 CCACGAGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 3 0.08
10 30 0.83
11 3 0.08
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:14006597 original size:40 final size:40
Alignment explanation
Indices: 14006542--14006640 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
14006532 TTTCCATGCG
* * * **
14006542 GTTCAACTCACTCGAGCTCAATTCAGCTCACTTGAGCTCAA
1 GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTC-A
*
14006583 G-TCAGCTCATTCGAGCTCAAGTCAGCTCCCACGAGCTCA
1 GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTCA
14006622 GTTCAGCTCATT-GAGCTCA
1 GTTCAGCTCATTCGAGCTCA
14006641 TTATTAGCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 9 0.18
40 41 0.80
41 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (40 bp):
GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTCA
Found at i:14008054 original size:11 final size:11
Alignment explanation
Indices: 14008038--14008084 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
14008028 AGTCATTGTG
14008038 AAAAAAATTGAA
1 AAAAAAATTG-A
14008050 AAAAAAATT--
1 AAAAAAATTGA
*
14008059 AAAAAAATTAA
1 AAAAAAATTGA
14008070 AAAAAAATTAGA
1 AAAAAAATT-GA
14008082 AAA
1 AAA
14008085 TAAAGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 9 0.29
11 9 0.29
12 13 0.42
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:14008064 original size:21 final size:20
Alignment explanation
Indices: 14008038--14008084 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 20
14008028 AGTCATTGTG
14008038 AAAAAAATTGAAAAAAAAATT
1 AAAAAAATT-AAAAAAAAATT
14008059 AAAAAAATTAAAAAAAAATT
1 AAAAAAATTAAAAAAAAATT
14008079 AGAAAA
1 A-AAAA
14008085 TAAAGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAAATTAAAAAAAAATT
Found at i:14008084 original size:9 final size:9
Alignment explanation
Indices: 14008050--14008074 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14008040 AAAAATTGAA
14008050 AAAAAAATT
1 AAAAAAATT
14008059 AAAAAAATT
1 AAAAAAATT
14008068 AAAAAAA
1 AAAAAAA
14008075 AATTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAATT
Found at i:14009140 original size:36 final size:36
Alignment explanation
Indices: 14009097--14009184 Score: 167
Period size: 36 Copynumber: 2.4 Consensus size: 36
14009087 AGAAATGAAA
14009097 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
14009133 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
1 GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
*
14009169 GAAAAAGAAGGTGAGT
1 GAAAAAGAAGATGAGT
14009185 TTGGAGAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.55, C:0.02, G:0.30, T:0.14
Consensus pattern (36 bp):
GAAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATT
Found at i:14009219 original size:18 final size:18
Alignment explanation
Indices: 14009196--14009253 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
14009186 TGGAGAAATG
*
14009196 AAAGAAAAAGACATTGAA
1 AAAGAAAAAGAAATTGAA
* *
14009214 AAAGAAGAAGAAATTGCA
1 AAAGAAAAAGAAATTGAA
*
14009232 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
14009250 AAAG
1 AAAG
14009254 TGAGTGAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.66, C:0.03, G:0.21, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:14009292 original size:30 final size:29
Alignment explanation
Indices: 14009221--14009297 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
14009211 GAAAAAGAAG
14009221 AAGAAATTGCAAAAGAAAAGGAAATTGAAA
1 AAGAAATTG-AAAAGAAAAGGAAATTGAAA
** * *
14009251 AAGTGAGTGAAAAGGCAAAA-GAGATTGAAA
1 AAGAAATTGAAAA-G-AAAAGGAAATTGAAA
14009281 AAGAAATTGAAAGAGAA
1 AAGAAATTGAAA-AGAA
14009298 GAAAAAGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
29 6 0.16
30 26 0.70
31 5 0.14
ACGTcount: A:0.60, C:0.03, G:0.25, T:0.13
Consensus pattern (29 bp):
AAGAAATTGAAAAGAAAAGGAAATTGAAA
Found at i:14011027 original size:20 final size:20
Alignment explanation
Indices: 14011004--14011101 Score: 108
Period size: 20 Copynumber: 5.0 Consensus size: 20
14010994 TTCCATGCGG
*
14011004 TTCAACTCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
*
14011024 TTCAGCTCACTTGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* *
14011044 GTCAGCTCATTCGAGCTCAA
1 TTCAGCTCACTCGAGCTCAA
* * * *
14011064 GTCAGCTCCCACGAGCTCAG
1 TTCAGCTCACTCGAGCTCAA
*
14011084 TTCAGCTCA-TTGAGCTCA
1 TTCAGCTCACTCGAGCTCA
14011102 TTATTAGCTC
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 7 0.11
20 58 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCTCAA
Found at i:14011030 original size:10 final size:10
Alignment explanation
Indices: 14011017--14011071 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
14011007 AACTCACTCG
14011017 AGCTCAATTC
1 AGCTCAATTC
* *
14011027 AGCTCACTTG
1 AGCTCAATTC
*
14011037 AGCTCAAGTC
1 AGCTCAATTC
14011047 AGCTC-ATTC
1 AGCTCAATTC
*
14011056 GAGCTCAAGTC
1 -AGCTCAATTC
14011067 AGCTC
1 AGCTC
14011072 CCACGAGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 3 0.08
10 30 0.83
11 3 0.08
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:14011058 original size:40 final size:40
Alignment explanation
Indices: 14011003--14011101 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
14010993 TTTCCATGCG
* * * **
14011003 GTTCAACTCACTCGAGCTCAATTCAGCTCACTTGAGCTCAA
1 GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTC-A
*
14011044 G-TCAGCTCATTCGAGCTCAAGTCAGCTCCCACGAGCTCA
1 GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTCA
14011083 GTTCAGCTCATT-GAGCTCA
1 GTTCAGCTCATTCGAGCTCA
14011102 TTATTAGCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 9 0.18
40 41 0.80
41 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (40 bp):
GTTCAGCTCATTCGAGCTCAAGTCAGCTCACACGAGCTCA
Found at i:14012436 original size:21 final size:21
Alignment explanation
Indices: 14012407--14012462 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
14012397 TTAGGGGTTA
*
14012407 AGGGTTTAAGGGTT-AGACGTT
1 AGGGATTAAGGGTTAAGA-GTT
* *
14012428 AGGGGTTAAGAGTTAAGAGTT
1 AGGGATTAAGGGTTAAGAGTT
*
14012449 AGGGATTTAGGGTT
1 AGGGATTAAGGGTT
14012463 TAGGGATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (21 bp):
AGGGATTAAGGGTTAAGAGTT
Found at i:14012437 original size:29 final size:28
Alignment explanation
Indices: 14012395--14012450 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
14012385 CGGGGCGTAT
* *
14012395 CGTTAGGGGTTAAGGGTTTAAGGGTTAGA
1 CGTTAGGGGTTAAGAG-TTAAGAGTTAGA
14012424 CGTTAGGGGTTAAGAGTTAAGAGTTAG
1 CGTTAGGGGTTAAGAGTTAAGAGTTAG
14012451 GGATTTAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.27, C:0.04, G:0.39, T:0.30
Consensus pattern (28 bp):
CGTTAGGGGTTAAGAGTTAAGAGTTAGA
Found at i:14012442 original size:14 final size:14
Alignment explanation
Indices: 14012396--14012442 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
14012386 GGGGCGTATC
*
14012396 GTTAGGGGTTAAGG
1 GTTAGGGGTTAAGA
*
14012410 GTTTAAGGGTT-AGA
1 G-TTAGGGGTTAAGA
14012424 CGTTAGGGGTTAAGA
1 -GTTAGGGGTTAAGA
14012439 GTTA
1 GTTA
14012443 AGAGTTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.32
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:14012630 original size:14 final size:14
Alignment explanation
Indices: 14012587--14012632 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
14012577 TATCATTATA
14012587 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
* * *
14012601 G-TTGGGGTATATG
1 GTTTAGGGTTTAAG
14012614 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
14012628 GTTTA
1 GTTTA
14012633 AAAGATACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:14012669 original size:22 final size:21
Alignment explanation
Indices: 14012644--14012697 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
14012634 AAGATACTAT
14012644 TTTAAGGTTTATGGA-TTATGAG
1 TTTAAGGTTTAT-GATTTATG-G
*
14012666 TTTAGGGTTTATGATTTATGG
1 TTTAAGGTTTATGATTTATGG
*
14012687 TTTATGGTTTA
1 TTTAAGGTTTA
14012698 CAATTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (21 bp):
TTTAAGGTTTATGATTTATGG
Found at i:14012675 original size:7 final size:7
Alignment explanation
Indices: 14012665--14012782 Score: 69
Period size: 7 Copynumber: 16.7 Consensus size: 7
14012655 TGGATTATGA
14012665 GTTTAGG
1 GTTTAGG
*
14012672 GTTTATG
1 GTTTAGG
* *
14012679 ATTTATG
1 GTTTAGG
*
14012686 GTTTATG
1 GTTTAGG
**
14012693 GTTTACA
1 GTTTAGG
*
14012700 ATTTAAGG
1 GTTT-AGG
14012708 G-TTAGG
1 GTTTAGG
* *
14012714 GTTCAAG
1 GTTTAGG
14012721 GTTTAGG
1 GTTTAGG
*
14012728 GGTTAGGG
1 GTTTA-GG
*
14012736 GTTAAGG
1 GTTTAGG
*
14012743 ATTTAGG
1 GTTTAGG
* *
14012750 CTTTAGT
1 GTTTAGG
14012757 GTTTAGG
1 GTTTAGG
14012764 AG-TTAGG
1 -GTTTAGG
14012771 GTTTAGG
1 GTTTAGG
14012778 GTTTA
1 GTTTA
14012783 AATTAATTAG
Statistics
Matches: 84, Mismatches: 22, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
6 5 0.06
7 72 0.86
8 7 0.08
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:14012688 original size:14 final size:14
Alignment explanation
Indices: 14012651--14012697 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
14012641 TATTTTAAGG
*
14012651 TTTATGGATTATGA
1 TTTATGGTTTATGA
*
14012665 GTTTAGGGTTTATGA
1 -TTTATGGTTTATGA
*
14012680 TTTATGGTTTATGG
1 TTTATGGTTTATGA
14012694 TTTA
1 TTTA
14012698 CAATTTAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (14 bp):
TTTATGGTTTATGA
Found at i:14012689 original size:21 final size:21
Alignment explanation
Indices: 14012665--14012782 Score: 96
Period size: 21 Copynumber: 5.6 Consensus size: 21
14012655 TGGATTATGA
* *
14012665 GTTTAGGGTTTATGATTTATG
1 GTTTAGGGTTTAGGATTTAGG
* **
14012686 GTTTATGGTTTACAATTTAAGG
1 GTTTAGGGTTTAGGATTT-AGG
*
14012708 G-TTAGGGTTCAAGG-TTTAGG
1 GTTTAGGGTT-TAGGATTTAGG
* *
14012728 GGTTAGGGGTTAAGGATTTAGG
1 GTTTA-GGGTTTAGGATTTAGG
* * *
14012750 CTTTAGTGTTTAGGAGTTAGG
1 GTTTAGGGTTTAGGATTTAGG
14012771 GTTTAGGGTTTA
1 GTTTAGGGTTTA
14012783 AATTAATTAG
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.05
21 55 0.71
22 18 0.23
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTAGG
Found at i:14016606 original size:43 final size:42
Alignment explanation
Indices: 14016539--14016698 Score: 180
Period size: 43 Copynumber: 3.8 Consensus size: 42
14016529 TTTTTGCGAG
* *
14016539 AAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCGTTTTTGGGAA
1 AAGC-TCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * *
14016581 AAACATCGCTAAAGTTCTTGATCTATAGCGACATTTGTGGGAA
1 AAGC-TCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
*
14016624 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GCAA
1 AAGC-TCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * *
14016666 AAGCGCTGCTAAAGATCCTGATCTATAGCGGCG
1 AAGCTC-GCTAAAGGTCTTGATCTATAGCGGCG
14016699 CTTTTTCGTC
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 44 0.44
43 55 0.55
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
AAGCTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
Found at i:14016688 original size:85 final size:85
Alignment explanation
Indices: 14016539--14016695 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 85
14016529 TTTTTGCGAG
* * * * *
14016539 AAGCGTCGCTAAAGGTTTGTTCTATAGCGGCGTTTTTGGGAAAAACATCGCTAAAGTTCTTGATC
1 AAGCGTCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGGCAAAAACATCGCTAAAGATCCTGATC
14016604 TATAGCGACATTTGTGGGAA
66 TATAGCGACATTTGTGGGAA
* *
14016624 AAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GCAAAAGC-GCTGCTAAAGATCCTGA
1 AAGCGTCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGCAAAAACATC-GCTAAAGATCCTGA
14016687 TCTATAGCG
64 TCTATAGCG
14016696 GCGCTTTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 1 0.02
85 43 0.68
86 19 0.30
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (85 bp):
AAGCGTCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGGCAAAAACATCGCTAAAGATCCTGATC
TATAGCGACATTTGTGGGAA
Found at i:14016764 original size:69 final size:68
Alignment explanation
Indices: 14016638--14016767 Score: 215
Period size: 69 Copynumber: 1.9 Consensus size: 68
14016628 GTCGCTAAAG
* *
14016638 GTCTTGATCTATAGCGGCGTTTGTGCAAAAGCGCTGCTAAAGATCCTGATCTATAGCGGCGCTTT
1 GTCTTGATCTATAGCGGCGTTTGTGCAAAAGCGCCGCTAAAGATCCTAATCTATAGCGGCGCTTT
14016703 TTC
66 TTC
* *
14016706 GTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCG
1 GTCTTGATCTATAGCGGCGTTTGT-GCAAAAGCGCCGCTAAAGATCCTAATCTATAGCGGCG
14016768 TTTGTGGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 24 0.42
69 33 0.58
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (68 bp):
GTCTTGATCTATAGCGGCGTTTGTGCAAAAGCGCCGCTAAAGATCCTAATCTATAGCGGCGCTTT
TTC
Found at i:14016773 original size:43 final size:43
Alignment explanation
Indices: 14016712--14016813 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
14016702 TTTCGTCTTG
*
14016712 ATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTA
1 ATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
14016755 ATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
1 ATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
14016798 ATCTATAGCGGCGTTT
1 ATCTATAGCGGCGTTT
14016814 ATTTCTAAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
ATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
Found at i:14016839 original size:111 final size:110
Alignment explanation
Indices: 14016614--14016842 Score: 255
Period size: 111 Copynumber: 2.1 Consensus size: 110
14016604 TATAGCGACA
* * * * *
14016614 TTTGTGGGAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAAAGCGCTGCTAAA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGAAAAAGCGCCGCTAAA
* *** * * * ***
14016679 GATCCTGATCTATAGCGGCGCTTTTTCGTCTTGATCTATAGCGGCG
66 GATCCTAATCTATAGCGGCGCTTTTTCGTAAAGAGCCACA-CAAAG
14016725 TTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGT-GAAAAAGCGCCGCTAA
* *
14016790 AGGTCCTAATCTATAGCGGCGTTTATTTC-TAAAGACGCCACA-AAAG
65 AGATCCTAATCTATAGCGGCGCTT-TTTCGTAAAGA-GCCACACAAAG
14016836 TTTGTGG
1 TTTGTGG
14016843 CGTTGACAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
111 53 0.54
112 38 0.39
113 7 0.07
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (110 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGAAAAAGCGCCGCTAAA
GATCCTAATCTATAGCGGCGCTTTTTCGTAAAGAGCCACACAAAG
Found at i:14020482 original size:85 final size:85
Alignment explanation
Indices: 14020334--14020489 Score: 249
Period size: 85 Copynumber: 1.8 Consensus size: 85
14020324 CCACTACTGT
* * * * *
14020334 TTTGCTGTTACTGCCACTTGTTGTGAGTGCAAAACATATTTGTAGATTAAACATACTGTCACTTG
1 TTTGCAGTTACTGCAACTTGTTGTGAGTGCAAAACATATTTGTAGATTAAAAAAACTGCCACTTG
14020399 GTTCATGATCGAACCACATA
66 GTTCATGATCGAACCACATA
* *
14020419 TTTGCAGTTACTGCAACTTGTTGTGAGTGCAGAACATATTTGTAGATTAAAAAAATTGCCACTTG
1 TTTGCAGTTACTGCAACTTGTTGTGAGTGCAAAACATATTTGTAGATTAAAAAAACTGCCACTTG
14020484 GTTCAT
66 GTTCAT
14020490 AATCAAATCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (85 bp):
TTTGCAGTTACTGCAACTTGTTGTGAGTGCAAAACATATTTGTAGATTAAAAAAACTGCCACTTG
GTTCATGATCGAACCACATA
Found at i:14020625 original size:18 final size:18
Alignment explanation
Indices: 14020602--14020636 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14020592 TAGTCTAAAA
14020602 GATAAGAACTATCTGAAG
1 GATAAGAACTATCTGAAG
14020620 GATAAGAACTATCTGAA
1 GATAAGAACTATCTGAA
14020637 TGCGCCTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
GATAAGAACTATCTGAAG
Found at i:14022695 original size:57 final size:58
Alignment explanation
Indices: 14022596--14022724 Score: 188
Period size: 57 Copynumber: 2.2 Consensus size: 58
14022586 TACCGAAAAG
* * * * * * *
14022596 GAGCTTTTGTGGCTGATTCTATTTTATGAGAGCCTTTGTGGCTGATTCTGTTATATGA
1 GAGCCTTTGTGGCTAATTCTATTATATAAGAGCCTTTATGGCTAAATCTGTTATATGA
14022654 GAGCC-TTGTGGCTAATTCTATTATATAAGAGCCTTTATGGCTAAATCTGTTATATGA
1 GAGCCTTTGTGGCTAATTCTATTATATAAGAGCCTTTATGGCTAAATCTGTTATATGA
14022711 GAGCCTTTGTGGCT
1 GAGCCTTTGTGGCT
14022725 GATTTTGTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 51 0.81
58 12 0.19
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (58 bp):
GAGCCTTTGTGGCTAATTCTATTATATAAGAGCCTTTATGGCTAAATCTGTTATATGA
Found at i:14022733 original size:29 final size:29
Alignment explanation
Indices: 14022596--14022741 Score: 186
Period size: 29 Copynumber: 5.1 Consensus size: 29
14022586 TACCGAAAAG
* * *
14022596 GAGCTTTTGTGGCTGATTCTATTTTATGA
1 GAGCCTTTGTGGCTGATTCTGTTATATGA
14022625 GAGCCTTTGTGGCTGATTCTGTTATATGA
1 GAGCCTTTGTGGCTGATTCTGTTATATGA
* * *
14022654 GAGCC-TTGTGGCTAATTCTATTATATAA
1 GAGCCTTTGTGGCTGATTCTGTTATATGA
* * *
14022682 GAGCCTTTATGGCTAAATCTGTTATATGA
1 GAGCCTTTGTGGCTGATTCTGTTATATGA
* *
14022711 GAGCCTTTGTGGCTGATTTTGTTATAAGA
1 GAGCCTTTGTGGCTGATTCTGTTATATGA
14022740 GA
1 GA
14022742 AAATTTGTGG
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
28 25 0.25
29 76 0.75
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (29 bp):
GAGCCTTTGTGGCTGATTCTGTTATATGA
Found at i:14022854 original size:28 final size:28
Alignment explanation
Indices: 14022823--14022920 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
14022813 AATGGACAAA
14022823 TTTGTGGCTATCTTTGCTCATGGATGCC
1 TTTGTGGCTATCTTTGCTCATGGATGCC
* * *
14022851 TTTGTGGCTATCTTTACTTATGGACGCC
1 TTTGTGGCTATCTTTGCTCATGGATGCC
* *
14022879 -TTGATGGCTATCTATTGTTCAAGGATGCC
1 TTTG-TGGCTATCT-TTGCTCATGGATGCC
*
14022908 TCTGTGGCTATCT
1 TTTGTGGCTATCT
14022921 ATGTCAAAGG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.05
28 34 0.59
29 19 0.33
30 2 0.03
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.42
Consensus pattern (28 bp):
TTTGTGGCTATCTTTGCTCATGGATGCC
Found at i:14022983 original size:89 final size:89
Alignment explanation
Indices: 14022872--14023064 Score: 323
Period size: 89 Copynumber: 2.2 Consensus size: 89
14022862 CTTTACTTAT
*
14022872 GGACGCCTTGATGGCTATCTATTGTTCAAGGATGCCTCTGTGGCTATCTATGTCAAAGGAAAGAT
1 GGACGCCTTCATGGCTATCTATTGTTCAAGGATGCCTCTGTGGCTATCTATGTCAAAGGAAAGAT
*
14022937 TTCTACAACCATCTCCGAAAGTAA
66 TTCTACAACCACCTCCGAAAGTAA
* * *
14022961 GGACGCCTTTATGGCTATCTATTTTTCAAGGATGCCTCTGTGGCTATCTATGTCAAAGGAAATAT
1 GGACGCCTTCATGGCTATCTATTGTTCAAGGATGCCTCTGTGGCTATCTATGTCAAAGGAAAGAT
*
14023026 TTCTACAGCCACCTCCGAAAGTAA
66 TTCTACAACCACCTCCGAAAGTAA
*
14023050 GTACGCCTTCATGGC
1 GGACGCCTTCATGGC
14023065 GTAGTTTGTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 97 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (89 bp):
GGACGCCTTCATGGCTATCTATTGTTCAAGGATGCCTCTGTGGCTATCTATGTCAAAGGAAAGAT
TTCTACAACCACCTCCGAAAGTAA
Found at i:14025016 original size:30 final size:30
Alignment explanation
Indices: 14024980--14025100 Score: 179
Period size: 30 Copynumber: 4.0 Consensus size: 30
14024970 GTATATGTTT
*
14024980 TATACATTACCGAATTGATTTGTATAAAGA
1 TATACATTACCGAATTGATTTGTATATAGA
*
14025010 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTACCGAATTGATTTGTATATAGA
*
14025040 TATACATTATCGAATTGATTTGTATATAGA
1 TATACATTACCGAATTGATTTGTATATAGA
* * *
14025070 TATACATTGCCAAATTTGATTCGTATATAGA
1 TATACATTACCGAA-TTGATTTGTATATAGA
14025101 AATATATTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 67 0.82
31 15 0.18
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (30 bp):
TATACATTACCGAATTGATTTGTATATAGA
Found at i:14025054 original size:60 final size:61
Alignment explanation
Indices: 14024980--14025100 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 61
14024970 GTATATGTTT
* *
14024980 TATACATTACCGAATTGATTTGTATAAAGATATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTACCGAATTGATTTGTATAAAGATATACATTGCCAAATTTGATTCGTATATAGA
* *
14025040 TATACATTATCGAATTGATTTGTATATAGATATACATTGCCAAATTTGATTCGTATATAGA
1 TATACATTACCGAATTGATTTGTATAAAGATATACATTGCCAAATTTGATTCGTATATAGA
14025101 AATATATTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 41 0.73
61 15 0.27
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (61 bp):
TATACATTACCGAATTGATTTGTATAAAGATATACATTGCCAAATTTGATTCGTATATAGA
Found at i:14025353 original size:41 final size:41
Alignment explanation
Indices: 14025300--14025406 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
14025290 TGTAAAACCA
14025300 TGTCTGAGACATTGGCATCGTATATGATTCGTATAAGACCC
1 TGTCTGAGACATTGGCATCGTATATGATTCGTATAAGACCC
14025341 TGTCTGAGACATTGGCATCGTATATGATTCGTATAAGACCC
1 TGTCTGAGACATTGGCATCGTATATGATTCGTATAAGACCC
* *
14025382 TGTCTGGGACAGTGGCATCG-ATATG
1 TGTCTGAGACATTGGCATCGTATATG
14025407 CATTAACATG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 5 0.08
41 59 0.92
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTCTGAGACATTGGCATCGTATATGATTCGTATAAGACCC
Found at i:14030241 original size:14 final size:15
Alignment explanation
Indices: 14030217--14030254 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
14030207 AAAGAGGCAA
14030217 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
14030232 GAAG-AGGAAAAGA-
1 GAAGAAGGAAAAGAG
14030245 GAACGAAGGA
1 GAA-GAAGGA
14030255 TGTGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.58, C:0.03, G:0.39, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:14038712 original size:25 final size:25
Alignment explanation
Indices: 14038684--14038766 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
14038674 GCTTTAAATG
* * *
14038684 GTAAGTTCCTCCAAGCTGAATAAAA
1 GTAAGCTCCTCCGAGCTGAATAACA
** *
14038709 GTAAGCTCCTTTGAGCTGAATAACG
1 GTAAGCTCCTCCGAGCTGAATAACA
14038734 GTAAGCTCCTCCGAGCTGAATAACA
1 GTAAGCTCCTCCGAGCTGAATAACA
14038759 GTAAGCTC
1 GTAAGCTC
14038767 ATATGAGCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTGAATAACA
Found at i:14038774 original size:25 final size:25
Alignment explanation
Indices: 14038697--14038803 Score: 97
Period size: 25 Copynumber: 4.3 Consensus size: 25
14038687 AGTTCCTCCA
* * *
14038697 AGCTGAATAAAAGTAAGCTCCTTTG
1 AGCTGAATAACAGTAAGCTCATATG
* * **
14038722 AGCTGAATAACGGTAAGCTCCTCCG
1 AGCTGAATAACAGTAAGCTCATATG
14038747 AGCTGAATAACAGTAAGCTCATATG
1 AGCTGAATAACAGTAAGCTCATATG
* * * * * *
14038772 AGCTTAGTATCGGTAAACTCATAAG
1 AGCTGAATAACAGTAAGCTCATATG
14038797 AGCTGAA
1 AGCTGAA
14038804 ATCGGTAACC
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
AGCTGAATAACAGTAAGCTCATATG
Found at i:14038800 original size:50 final size:50
Alignment explanation
Indices: 14038697--14038803 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
14038687 AGTTCCTCCA
* * * * **
14038697 AGCTGAATAAAAGTAAGCTCCTTTGAGCTGAATAACGGTAAGCTCCTCCG
1 AGCTGAATAAAAGTAAGCTCATATGAGCTGAATAACGGTAAACTCATAAG
* * * *
14038747 AGCTGAATAACAGTAAGCTCATATGAGCTTAGTATCGGTAAACTCATAAG
1 AGCTGAATAAAAGTAAGCTCATATGAGCTGAATAACGGTAAACTCATAAG
14038797 AGCTGAA
1 AGCTGAA
14038804 ATCGGTAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (50 bp):
AGCTGAATAAAAGTAAGCTCATATGAGCTGAATAACGGTAAACTCATAAG
Found at i:14042345 original size:14 final size:15
Alignment explanation
Indices: 14042321--14042358 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
14042311 AAAGAGACAA
14042321 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
14042336 GAAG-AGGAAAAGA-
1 GAAGAAGGAAAAGAG
14042349 GAATGAAGGA
1 GAA-GAAGGA
14042359 GGTGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:14045769 original size:509 final size:508
Alignment explanation
Indices: 14044807--14046051 Score: 2125
Period size: 509 Copynumber: 2.4 Consensus size: 508
14044797 GACAATTTCA
* *
14044807 AGTTAATGAAGATTGACTTTGATTTGGAAAAGGCAATAATAATTTTTTAGCAAAAATATGTAAAA
1 AGTTAATGAAGATTGACTTTGATTT-GAAAAAGCAATAATAATTTTGTAGCAAAAATATGTAAAA
14044872 TTTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTA
65 TTTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTA
*
14044937 TTTGGTTTTGGAGAGGAAACAAAATCCTATTCTTGTTGGAAAATTTTGATTAAATATCTAGGGTT
130 TTTGGTTTTGGAGAGGAAACAAAATCCTATTCCTGTTGGAAAATTTTGATTAAATATCTAGGGTT
* * *
14045002 TGTGAACCCAAGGGTGACAAGAGTAATTTTCCTCTTGAACAATAATCCTCATGTTTAAATTTGAT
195 TGTGAACCCAAGGGCGACAAGAGTAATTTTCCTCTTAAACAATAATCCTCACGTTTAAATTTGAT
* *
14045067 TCGGGGTACCTAAAATGAGTCCTTGAAACGAAATTTAACAAGAATTAATAATGATTTTCAAGATT
260 TCGGGGCACCTAAAATGAGTCCTTGAAACGAAATTTAACAAGAATTAATAACGATTTTCAAGATT
* * * *
14045132 TGTCAAGATTATTGAAAGATTCGATGAAAAATCGAGAAAGATCATTTTAATCGATCGCAAGATTA
325 TGTCAAGATTATTGAAAGATTCAATGAAAAATCAAGAAAGATAATTTTAATCAATCGCAAGATTA
*
14045197 TCGTTAGATAGAAAATCTATAAATATTTAAGATCAACTTCAAGATTTTATGCATCCTTACCGCTT
390 TCGTTAGATAGAAAATCTATAAATATTTAAGATCAACTTCAAGATTTTATGCATCCCTACCGCTT
* * * *
14045262 TTTGGTAGAGATTGAGGGGTTTCTAACGCCAATTTTGATTCCGGTAGAAAAATG
455 CTTGGTAGAGATTGAGGGGTTTCCAACGACAATTTTGATTCCGGTAGAAAAACG
*
14045316 AGTTAATGAAGATTGACTTTGATTTAGAAAAAGCGATAATAATTTTGTAGCAAAAATATGTAAAA
1 AGTTAATGAAGATTGACTTTGATTT-GAAAAAGCAATAATAATTTTGTAGCAAAAATATGTAAAA
14045381 TTTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTA
65 TTTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTA
* *
14045446 TTTGGTTTTGGAGAGGAAACAAAATCCTATTCCTATTGGAAAATTTTGACTAAATATCTAGGGTT
130 TTTGGTTTTGGAGAGGAAACAAAATCCTATTCCTGTTGGAAAATTTTGATTAAATATCTAGGGTT
14045511 TGTGAACCCAAGGGCGACAAGAGTAATTTTCCTCTTAAACAATAATCCTCACGTTTAAATTTGAT
195 TGTGAACCCAAGGGCGACAAGAGTAATTTTCCTCTTAAACAATAATCCTCACGTTTAAATTTGAT
* *
14045576 TTGGGGCACCTAAAACT-AGTCCTTGAAACGAGATTTAACAAGAATTAATAACGATTTTCAAGAT
260 TCGGGGCACCTAAAA-TGAGTCCTTGAAACGAAATTTAACAAGAATTAATAACGATTTTCAAGAT
*
14045640 TTGTCAAGATTATTGAAAGATTCAATGAATAATCAAGAAAGATAATTTTAATCAATCGCAAGATT
324 TTGTCAAGATTATTGAAAGATTCAATGAAAAATCAAGAAAGATAATTTTAATCAATCGCAAGATT
*
14045705 ATCGTTAGATAGAAAATCTCTAAATATTTAAGATCAACTTCAAGATTTTATGCATCCCTACCGCT
389 ATCGTTAGATAGAAAATCTATAAATATTTAAGATCAACTTCAAGATTTTATGCATCCCTACCGCT
*
14045770 TCTTGGTAGAGATTGAGGGGTTTCCAATGACAATTTTGATTCCGGTAGAAAAACG
454 TCTTGGTAGAGATTGAGGGGTTTCCAACGACAATTTTGATTCCGGTAGAAAAACG
* ** *
14045825 AGTTAATGAAGATTGACTTTGATTTGTGAAAAGCAATAATAATTCAGTAACAAAAATATGTAAAA
1 AGTTAATGAAGATTGACTTTGATTTG-AAAAAGCAATAATAATTTTGTAGCAAAAATATGTAAAA
* *
14045890 TTTGATGTAAAAGAAATGGAAGAAGATAAAGTATGAGAATAAAGAGGGAGGTGAAAGAAATTCTA
65 TTTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTA
* *
14045955 TTTGGTTTTGGAGAGGAAACAAAATCTTATTCCTGTTGGGAAAA-TTGGATTAAATATCTAGGGT
130 TTTGGTTTTGGAGAGGAAACAAAATCCTATTCCTGTT-GGAAAATTTTGATTAAATATCTAGGGT
*
14046019 TTGAGAACCCAAGGGCGACAAGAGTAATTTTCC
194 TTGTGAACCCAAGGGCGACAAGAGTAATTTTCC
14046052 CAAAGTTTTG
Statistics
Matches: 695, Mismatches: 38, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
508 1 0.00
509 687 0.99
510 7 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (508 bp):
AGTTAATGAAGATTGACTTTGATTTGAAAAAGCAATAATAATTTTGTAGCAAAAATATGTAAAAT
TTGATGTAAAAGAAATGGAAGAAGATAAAATATGAGAATAAATAGGGAGGTGAAAGAAATTCTAT
TTGGTTTTGGAGAGGAAACAAAATCCTATTCCTGTTGGAAAATTTTGATTAAATATCTAGGGTTT
GTGAACCCAAGGGCGACAAGAGTAATTTTCCTCTTAAACAATAATCCTCACGTTTAAATTTGATT
CGGGGCACCTAAAATGAGTCCTTGAAACGAAATTTAACAAGAATTAATAACGATTTTCAAGATTT
GTCAAGATTATTGAAAGATTCAATGAAAAATCAAGAAAGATAATTTTAATCAATCGCAAGATTAT
CGTTAGATAGAAAATCTATAAATATTTAAGATCAACTTCAAGATTTTATGCATCCCTACCGCTTC
TTGGTAGAGATTGAGGGGTTTCCAACGACAATTTTGATTCCGGTAGAAAAACG
Found at i:14047545 original size:41 final size:41
Alignment explanation
Indices: 14047495--14047699 Score: 198
Period size: 41 Copynumber: 5.0 Consensus size: 41
14047485 ATTATTGCTG
* * * *
14047495 AATTGCACATGCGCGCCCTTGTTTCTACTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * * * * * *
14047536 AATTACACATATGTTCCTCTGTTTGTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * * *
14047577 AATTGCACATATGTGCACCTGTTTGTACTTCGTTACCCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATA-CCCCTA
* * * *
14047619 AATTACACATGCGTGCCCCTGTTTGTACTT-TAGCACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGA-TACCCCTA
14047660 AATTGCACATACGTGCCCCTGTTTGTACTTC-AGTACCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGA-TACCCCT
14047700 GAATGTATTT
Statistics
Matches: 133, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
41 101 0.76
42 32 0.24
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
Found at i:14047664 original size:83 final size:81
Alignment explanation
Indices: 14047495--14047703 Score: 231
Period size: 83 Copynumber: 2.5 Consensus size: 81
14047485 ATTATTGCTG
* * * * * * *
14047495 AATTGCACATGCGCGC-CCTTGTTTCTACTTCGATACCCCTAAATTACACATATGTTCCTCTGTT
1 AATTGCACATACGTGCACC-TGTTTGTACTTCG-TACCCCTGAATTACACATACGTGCCCCTGTT
* * * *
14047559 TGTACTTCGGTACCCTTG
64 TGTACTTCAGCACCCCTA
* *
14047577 AATTGCACATATGTGCACCTGTTTGTACTTCGTTACCCCCTGAATTACACATGCGTGCCCCTGTT
1 AATTGCACATACGTGCACCTGTTTGTACTTCG-TA-CCCCTGAATTACACATACGTGCCCCTGTT
*
14047642 TGTACTTTAGCACCCCTA
64 TGTACTTCAGCACCCCTA
*
14047660 AATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAAT
1 AATTGCACATACGTGCACCTGTTTGTACTTC-GTACCCCTGAAT
14047704 GTATTTTTGT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
82 36 0.34
83 70 0.65
84 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (81 bp):
AATTGCACATACGTGCACCTGTTTGTACTTCGTACCCCTGAATTACACATACGTGCCCCTGTTTG
TACTTCAGCACCCCTA
Found at i:14061826 original size:33 final size:27
Alignment explanation
Indices: 14061753--14061806 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14061743 AAATGTGAAG
*
14061753 GGGGTTGTTAAGTGTTGATTCCCCGAA
1 GGGGTTGCTAAGTGTTGATTCCCCGAA
14061780 GGGGTTGCTAAGTGTTGATTCCCCGAA
1 GGGGTTGCTAAGTGTTGATTCCCCGAA
14061807 TCATTGGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (27 bp):
GGGGTTGCTAAGTGTTGATTCCCCGAA
Found at i:14061859 original size:102 final size:102
Alignment explanation
Indices: 14061678--14061867 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 102
14061668 GAATATAAAG
* * *
14061678 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCAACTATATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCAACCATATCTT
* *
14061743 AAATGTGAAGGGGGTTGTTAAGTGTTGATTCCCCGAA
66 AAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGAA
* * *
14061780 GGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTTATCTC-ACCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAT-TCAACCATATCT
14061844 TAAATGTGAAAGGGGTTGCTAAGT
65 TAAATGTGAAAGGGGTTGCTAAGT
14061868 ACTGATTCTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 77 0.97
103 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCAACCATATCTT
AAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGAA
Found at i:14061901 original size:75 final size:77
Alignment explanation
Indices: 14061778--14061977 Score: 280
Period size: 75 Copynumber: 2.6 Consensus size: 77
14061768 TGATTCCCCG
* * *
14061778 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTTA-TCTCACCGTA-
1 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTCATTC-CACCGTAT
14061841 TCTTAAATGTG-A
65 TCTTAAATGTGAA
* * * *
14061853 AAGGGGTTGCTAAGTACTGATTCTCTGATTCATTGGTGGTTGCTAAGTGCTCATTCCATCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTCATTCCACCGTATT
* *
14061918 TTTGAATGTGAA
66 CTTAAATGTGAA
*
14061930 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGCTTGCTAAGT
1 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTAAGT
14061978 ACTGAATCCA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
75 53 0.49
76 11 0.10
77 45 0.41
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTCATTCCACCGTATT
CTTAAATGTGAA
Found at i:14068769 original size:27 final size:27
Alignment explanation
Indices: 14068731--14068782 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
14068721 TTTAAATGTG
*
14068731 AAGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGTTGCTAACTGCTGATTCCCCC
*
14068758 AAGGGGTTGCTAACTGGTGATTCCC
1 AAGGGGTTGCTAACTGCTGATTCCC
14068783 TGAATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (27 bp):
AAGGGGTTGCTAACTGCTGATTCCCCC
Found at i:14068859 original size:42 final size:44
Alignment explanation
Indices: 14068796--14068900 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
14068786 ATCATTTGTA
* *
14068796 GTTGCTAAGTGCTGATCCCACCGTA-TCTTAAATGTG-AAAGGG
1 GTTGCTAAGTGTTGATTCCACCGTATTCTTAAATGTGAAAAGGG
* * *
14068838 GTTGCTAAGTGTTGCTTCCACCGTATTTTTGAATGTGAAAAGGG
1 GTTGCTAAGTGTTGATTCCACCGTATTCTTAAATGTGAAAAGGG
*
14068882 GTTCCTAAGTGTTGATTCC
1 GTTGCTAAGTGTTGATTCC
14068901 TCGAATCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 22 0.41
43 9 0.17
44 23 0.43
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (44 bp):
GTTGCTAAGTGTTGATTCCACCGTATTCTTAAATGTGAAAAGGG
Found at i:14074550 original size:85 final size:84
Alignment explanation
Indices: 14074407--14074646 Score: 318
Period size: 85 Copynumber: 2.8 Consensus size: 84
14074397 CATTGAATAA
* * * * * * * *
14074407 AAAGGGGGTTCTAAGTGCTGATTCCCCGAATTATTGACTTTAAAGATGGTTGCTAAGTGCTGATT
1 AAAGGGGCTGCTATGTGCTGATTCCCCGTATTACTGA-ATTAAAGGTGGTTGCTAAGTGCTGAAT
*
14074472 CCACCGTATCTTTGATTGTG
65 CCACCGTATCTTTGACTGTG
14074492 AAAGGGGCTGCTATGTGCTGATTCCCCGTATTACTGAATATAAAGGTGGTTGCTAAGTGCTGAAT
1 AAAGGGGCTGCTATGTGCTGATTCCCCGTATTACTGAAT-TAAAGGTGGTTGCTAAGTGCTGAAT
* * *
14074557 CCGCCGTATTTTTTACTGTG
65 CCACCGTATCTTTGACTGTG
* * * *
14074577 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGTGGTTGTTAAGTGCTGAATC
1 AAAGGGGCTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGAATC
14074642 CACCG
66 CACCG
14074647 AGTAACGGAT
Statistics
Matches: 137, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 29 0.21
85 108 0.79
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (84 bp):
AAAGGGGCTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCTGAATC
CACCGTATCTTTGACTGTG
Found at i:14074565 original size:43 final size:42
Alignment explanation
Indices: 14074398--14074638 Score: 213
Period size: 43 Copynumber: 5.7 Consensus size: 42
14074388 ACCGGAAAAC
* * *
14074398 ATTGAATAAAAAGGGGGTT-CTAAGTGCTGATTCCCCGAATT
1 ATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCCCGTATT
* * *
14074439 ATTGACTTTAAAGATGGTTGCTAAGTGCTGATTCCACCGTATCT
1 ATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC-CCGTAT-T
* * * *
14074483 -TTGATTGTGAAAGG-GGCTGCTATGTGCTGATTCCCCGTATT
1 ATTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCCCGTATT
* *
14074524 ACTGAATATAAAGGTGGTTGCTAAGTGCTGAATCCGCCGTATT
1 ATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC-CCGTATT
* * * * * *
14074567 TTTTACTGTGAAAGG-GGTTGCTATGTGCTGATTCCCCGTATC
1 ATTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCCCGTATT
* * *
14074609 ACTGAAT-TTAAGGTGGTTGTTAAGTGCTGA
1 ATTGAATATAAAGGTGGTTGCTAAGTGCTGA
14074639 ATCCACCGAG
Statistics
Matches: 159, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
40 4 0.03
41 35 0.22
42 52 0.33
43 58 0.36
44 10 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
ATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCCCGTATT
Found at i:14075485 original size:27 final size:27
Alignment explanation
Indices: 14075447--14075500 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14075437 TTATTTTTCA
14075447 TATGTTTACTTTCTAAGCTATATGCTT
1 TATGTTTACTTTCTAAGCTATATGCTT
14075474 TATGTTTACTTTCTAAGCTATATGCTT
1 TATGTTTACTTTCTAAGCTATATGCTT
14075501 ACTCCTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (27 bp):
TATGTTTACTTTCTAAGCTATATGCTT
Found at i:14078645 original size:36 final size:36
Alignment explanation
Indices: 14078598--14078671 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
14078588 AAAACTTATA
*
14078598 ATACCCCTAACACTGGTGGCAGATGGCAATTTTTCT
1 ATACCCCTAACACTAGTGGCAGATGGCAATTTTTCT
14078634 ATACCCCTAACACTAGTGGCAGATGGCAATTTTTCT
1 ATACCCCTAACACTAGTGGCAGATGGCAATTTTTCT
14078670 AT
1 AT
14078672 CACTTCAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (36 bp):
ATACCCCTAACACTAGTGGCAGATGGCAATTTTTCT
Found at i:14088225 original size:17 final size:17
Alignment explanation
Indices: 14088203--14088236 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14088193 GATAAATATA
*
14088203 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
14088220 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
14088237 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:14093048 original size:18 final size:18
Alignment explanation
Indices: 14093027--14093065 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14093017 ATTTCATGGG
14093027 ATGCAT-GGTTCGCATGAA
1 ATGCATGGGTT-GCATGAA
*
14093045 ATGCATGGGTTGCATGGA
1 ATGCATGGGTTGCATGAA
14093063 ATG
1 ATG
14093066 TGTGAAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (18 bp):
ATGCATGGGTTGCATGAA
Found at i:14103060 original size:34 final size:33
Alignment explanation
Indices: 14103022--14103086 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
14103012 GGGGCAAGAG
14103022 CCAGGGGTGCGGGAAAGAGCCCTCGCGGTATGGA
1 CCAGGGGTGCGGGAAAGAGCCC-CGCGGTATGGA
* ***
14103056 CCAGGGGTGTGGGGCGGAGCCCCGCGGTATG
1 CCAGGGGTGCGGGAAAGAGCCCCGCGGTATG
14103087 AACCGCATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.15, C:0.25, G:0.48, T:0.12
Consensus pattern (33 bp):
CCAGGGGTGCGGGAAAGAGCCCCGCGGTATGGA
Found at i:14107855 original size:18 final size:18
Alignment explanation
Indices: 14107804--14107861 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14107794 TGCAACACAT
*
14107804 TGCAT-GGTTCGCATGAAA
1 TGCATGGGTT-GCATGGAA
14107822 TGCATGGGTTGCATGGAA
1 TGCATGGGTTGCATGGAA
** *
14107840 TGCATGTTTTGTATGGAA
1 TGCATGGGTTGCATGGAA
14107858 TGCA
1 TGCA
14107862 CGGAGTGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 31 0.89
19 4 0.11
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (18 bp):
TGCATGGGTTGCATGGAA
Found at i:14113345 original size:25 final size:25
Alignment explanation
Indices: 14113315--14113382 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
14113305 GTTCCAACCC
* *
14113315 ACAGCTCGTGTGAGCATACTGATTT
1 ACAGCTCGTGTGAGCATACCGATCT
*
14113340 ACAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATCT
* **
14113365 ATAGCTCAAGTGAGCATA
1 ACAGCTCGTGTGAGCATA
14113383 TCAATTCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATCT
Found at i:14116975 original size:58 final size:58
Alignment explanation
Indices: 14116885--14116997 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
14116875 AAGGCTGCTT
* *
14116885 AGGACTTCTACATGCCATCTTCATCTTTAACATATATCTGCTTTTTTTTCTTCTTATA
1 AGGACTTCTACATGCCATCTTCATCTTTAACATATATCTACTTTATTTTCTTCTTATA
**
14116943 AGGACTTCTTTATGCCATCTTCATCTTTAACATATATCTACTTTATTTTCTTCTT
1 AGGACTTCTACATGCCATCTTCATCTTTAACATATATCTACTTTATTTTCTTCTT
14116998 TACTCGTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (58 bp):
AGGACTTCTACATGCCATCTTCATCTTTAACATATATCTACTTTATTTTCTTCTTATA
Found at i:14122297 original size:37 final size:37
Alignment explanation
Indices: 14122247--14122321 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
14122237 TTCATTTTAA
*
14122247 TCCATAGCATTTAATATGGCTCAACTCTATGTCCTTT
1 TCCATAGCATTTAATATAGCTCAACTCTATGTCCTTT
* *
14122284 TCCATAGCATTTAATATAGCTCAGCTCTATTTCCTTT
1 TCCATAGCATTTAATATAGCTCAACTCTATGTCCTTT
14122321 T
1 T
14122322 TCTTAGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (37 bp):
TCCATAGCATTTAATATAGCTCAACTCTATGTCCTTT
Found at i:14122953 original size:19 final size:19
Alignment explanation
Indices: 14122929--14122974 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
14122919 TGATTTATTC
14122929 TAAGATTTATCCACCTAAA
1 TAAGATTTATCCACCTAAA
*
14122948 TAAGATTTATCTACCTAAA
1 TAAGATTTATCCACCTAAA
14122967 TAA-ATTTA
1 TAAGATTTA
14122975 AAATATATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCCACCTAAA
Found at i:14128089 original size:39 final size:39
Alignment explanation
Indices: 14128035--14128113 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
14128025 TTGTGTTAGA
14128035 TTAATTACATTTCTTAACTTAGAATTATTAAACTCATGT
1 TTAATTACATTTCTTAACTTAGAATTATTAAACTCATGT
14128074 TTAATTACATTTCTTAACTTAGAATTATTAAACTCATGT
1 TTAATTACATTTCTTAACTTAGAATTATTAAACTCATGT
14128113 T
1 T
14128114 CATGTTGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (39 bp):
TTAATTACATTTCTTAACTTAGAATTATTAAACTCATGT
Found at i:14133335 original size:15 final size:15
Alignment explanation
Indices: 14133296--14133335 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14133286 TTTCAAACAT
*
14133296 ATATAAAATATAAAT
1 ATATAAAATATAAAA
*
14133311 ATAAAAAATATAAAA
1 ATATAAAATATAAAA
*
14133326 ATATATAATA
1 ATATAAAATA
14133336 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAAAATATAAAA
Found at i:14135414 original size:17 final size:17
Alignment explanation
Indices: 14135392--14135433 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
14135382 TACAACCTAG
* *
14135392 CACATGGTCGTGTGGGT
1 CACATGGCCCTGTGGGT
14135409 CACATGGCCCTGTGGGT
1 CACATGGCCCTGTGGGT
14135426 CACATGGC
1 CACATGGC
14135434 TGTGTGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (17 bp):
CACATGGCCCTGTGGGT
Found at i:14135439 original size:17 final size:17
Alignment explanation
Indices: 14135392--14135439 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
14135382 TACAACCTAG
14135392 CACATGG-TCGTGTGGGT
1 CACATGGCT-GTGTGGGT
**
14135409 CACATGGCCCTGTGGGT
1 CACATGGCTGTGTGGGT
14135426 CACATGGCTGTGTG
1 CACATGGCTGTGTG
14135440 AATGGGTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.27
Consensus pattern (17 bp):
CACATGGCTGTGTGGGT
Found at i:14138408 original size:28 final size:28
Alignment explanation
Indices: 14138376--14138467 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
14138366 ACAAATGTGT
* *
14138376 CCTTTAAGAGGTTCGCTACAAAGGCTTA
1 CCTTTAAGAGGTTCACCACAAAGGCTTA
* ** *
14138404 CCTTTTTAA-AGTTTTTCCACAAAGGC-AA
1 CC--TTTAAGAGGTTCACCACAAAGGCTTA
*
14138432 TCCTTTAAGAGGTTCACCACAAATGCTTA
1 -CCTTTAAGAGGTTCACCACAAAGGCTTA
14138461 CCTTTAA
1 CCTTTAA
14138468 TAGAGATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
27 5 0.10
28 23 0.47
29 16 0.33
30 5 0.10
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (28 bp):
CCTTTAAGAGGTTCACCACAAAGGCTTA
Found at i:14138438 original size:57 final size:58
Alignment explanation
Indices: 14138375--14138488 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
14138365 CACAAATGTG
* * * *
14138375 TCCTTTAAGAGGTTCGCTACAAAGGCTTACCTTT-TTAAAGTTTTTCCACAAAGGCAA
1 TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCAA
* *
14138432 TCCTTTAAGAGGTTCACCACAAATGCTTACCTTTAATAGAGATTTTCCACAAAGGCA
1 TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCA
14138489 TGTCCTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 31 0.62
58 19 0.38
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (58 bp):
TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCAA
Found at i:14140698 original size:17 final size:17
Alignment explanation
Indices: 14140676--14140717 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
14140666 TACAACCTAG
* *
14140676 CACATGGTCGTGTGGGT
1 CACATGGCCCTGTGGGT
14140693 CACATGGCCCTGTGGGT
1 CACATGGCCCTGTGGGT
14140710 CACATGGC
1 CACATGGC
14140718 TGTGTGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (17 bp):
CACATGGCCCTGTGGGT
Found at i:14140723 original size:17 final size:17
Alignment explanation
Indices: 14140676--14140723 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
14140666 TACAACCTAG
14140676 CACATGG-TCGTGTGGGT
1 CACATGGCT-GTGTGGGT
**
14140693 CACATGGCCCTGTGGGT
1 CACATGGCTGTGTGGGT
14140710 CACATGGCTGTGTG
1 CACATGGCTGTGTG
14140724 AATGGGTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.27
Consensus pattern (17 bp):
CACATGGCTGTGTGGGT
Found at i:14143692 original size:28 final size:28
Alignment explanation
Indices: 14143660--14143751 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
14143650 ACAAATGTGT
* *
14143660 CCTTTAAGAGGTTCGCTACAAAGGCTTA
1 CCTTTAAGAGGTTCACCACAAAGGCTTA
* ** *
14143688 CCTTTTTAA-AGTTTTTCCACAAAGGC-AA
1 CC--TTTAAGAGGTTCACCACAAAGGCTTA
*
14143716 TCCTTTAAGAGGTTCACCACAAATGCTTA
1 -CCTTTAAGAGGTTCACCACAAAGGCTTA
14143745 CCTTTAA
1 CCTTTAA
14143752 TAGAGATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
27 5 0.10
28 23 0.47
29 16 0.33
30 5 0.10
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (28 bp):
CCTTTAAGAGGTTCACCACAAAGGCTTA
Found at i:14143722 original size:57 final size:58
Alignment explanation
Indices: 14143659--14143772 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
14143649 CACAAATGTG
* * * *
14143659 TCCTTTAAGAGGTTCGCTACAAAGGCTTACCTTT-TTAAAGTTTTTCCACAAAGGCAA
1 TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCAA
* *
14143716 TCCTTTAAGAGGTTCACCACAAATGCTTACCTTTAATAGAGATTTTCCACAAAGGCA
1 TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCA
14143773 TGTCCTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 31 0.62
58 19 0.38
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (58 bp):
TCCTTTAAGAGGTTCACCACAAAGGCTTACCTTTAATAAAGATTTTCCACAAAGGCAA
Found at i:14145547 original size:28 final size:28
Alignment explanation
Indices: 14145511--14145565 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14145501 GGATGTTACA
* *
14145511 GTTCGCACAAAGAGGG-TCGCACATATAG
1 GTTCACACAAAG-GGGTTCACACATATAG
14145539 GTTCACACAAAGGGGTTCACACATATA
1 GTTCACACAAAGGGGTTCACACATATA
14145566 CACTAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (28 bp):
GTTCACACAAAGGGGTTCACACATATAG
Found at i:14145977 original size:16 final size:14
Alignment explanation
Indices: 14145958--14146030 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 14
14145948 GTTTGCAAGC
14145958 AGGGGTTCGCACTTA
1 AGGGGTTCGCAC-TA
14145973 TAGGGGGTTCGCA-TA
1 -A-GGGGTTCGCACTA
14145988 AGGGGTTCGC-CTA
1 AGGGGTTCGCACTA
*
14146001 TAGTGGGTTCGCATGTA
1 -AG-GGGTTCGCA-CTA
14146018 AGGGGGTTCGCAC
1 A-GGGGTTCGCAC
14146031 ATGCAAGGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
13 11 0.23
14 3 0.06
15 10 0.21
16 11 0.23
17 13 0.27
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (14 bp):
AGGGGTTCGCACTA
Found at i:14145994 original size:13 final size:13
Alignment explanation
Indices: 14145976--14146029 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
14145966 GCACTTATAG
14145976 GGGGTTCGCATAA
1 GGGGTTCGCATAA
*
14145989 GGGGTTCGCCTATA
1 GGGGTTCGCATA-A
14146003 GTGGGTTCGCATGTAA
1 G-GGGTTCGCA--TAA
14146019 GGGGGTTCGCA
1 -GGGGTTCGCA
14146030 CATGCAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 11 0.32
14 2 0.06
15 8 0.24
16 10 0.29
17 3 0.09
ACGTcount: A:0.17, C:0.17, G:0.41, T:0.26
Consensus pattern (13 bp):
GGGGTTCGCATAA
Found at i:14146009 original size:28 final size:31
Alignment explanation
Indices: 14145958--14146030 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 31
14145948 GTTTGCAAGC
14145958 AGGGGTTCGCACTTATAGGGGGTTCGCA-TA
1 AGGGGTTCGCACTTATAGGGGGTTCGCAGTA
*
14145988 AGGGGTTCGC-C-TATAGTGGGTTCGCATGTA
1 AGGGGTTCGCACTTATAGGGGGTTCGCA-GTA
14146018 AGGGGGTTCGCAC
1 A-GGGGTTCGCAC
14146031 ATGCAAGGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 14 0.37
29 1 0.03
30 13 0.34
31 9 0.24
32 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (31 bp):
AGGGGTTCGCACTTATAGGGGGTTCGCAGTA
Found at i:14146010 original size:15 final size:14
Alignment explanation
Indices: 14145958--14146012 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 14
14145948 GTTTGCAAGC
14145958 AGGGGTTCGCACTTAT
1 AGGGGTTCGC-C-TAT
*
14145974 AGGGGGTTCGCATA-
1 A-GGGGTTCGCCTAT
14145988 AGGGGTTCGCCTAT
1 AGGGGTTCGCCTAT
14146002 AGTGGGTTCGC
1 AG-GGGTTCGC
14146013 ATGTAAGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 11 0.32
14 3 0.09
15 10 0.29
16 1 0.03
17 9 0.26
ACGTcount: A:0.16, C:0.18, G:0.38, T:0.27
Consensus pattern (14 bp):
AGGGGTTCGCCTAT
Found at i:14151932 original size:203 final size:204
Alignment explanation
Indices: 14151542--14152154 Score: 1196
Period size: 204 Copynumber: 3.0 Consensus size: 204
14151532 ATAAGCAACC
14151542 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
1 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
*
14151607 TTTGTGGCTTTTAATTCTTT-AAAAGCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
66 TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
14151671 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
131 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
14151736 GGAAAAGAA
196 GGAAAAGAA
14151745 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
1 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
14151810 TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
66 TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
14151875 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
131 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
14151940 GGAAAAGAA
196 GGAAAAGAA
14151949 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
1 AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
14152014 TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
66 TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
14152079 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGA-C-CAAAAAAAAAACAAG
131 TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
14152142 GGAAAAGAA
196 GGAAAAGAA
14152151 AAAT
1 AAAT
14152155 GAAGGCTGGC
Statistics
Matches: 408, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
202 28 0.07
203 86 0.21
204 294 0.72
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (204 bp):
AAATTGGTTGCAGTAATCATTTTGTTTGGTGGAAGTGAAGTTTCTCTTTCTAATGAGCAACTAAA
TTTGTGGCTTTTAATTCTTTAAAAATCCTTGCATAAGAGAGCCACCTGCATTCATTTTTGCTGCA
TTGGGCTATCGCCATCCATTAGTAACATAATCTAACTATTATTATGACCACAAAAAAAAAACAAG
GGAAAAGAA
Found at i:14155357 original size:23 final size:24
Alignment explanation
Indices: 14155330--14155378 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
14155320 CGTCAATGAC
*
14155330 CTGGTGTACGCCGGACGGT-GTGA
1 CTGGTGGACGCCGGACGGTAGTGA
* *
14155353 CTGGTGGACGTCGGATGGTAGTGA
1 CTGGTGGACGCCGGACGGTAGTGA
14155377 CT
1 CT
14155379 AGCAGTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.14, C:0.18, G:0.43, T:0.24
Consensus pattern (24 bp):
CTGGTGGACGCCGGACGGTAGTGA
Found at i:14158363 original size:75 final size:75
Alignment explanation
Indices: 14158212--14158366 Score: 181
Period size: 75 Copynumber: 2.1 Consensus size: 75
14158202 TTTTGTTGGA
* *
14158212 TAAATGCATCTTTGATTAATGTCTTGCATTAATACAATTGCATCTTTAGAAGCTTGCATTAAATG
1 TAAATGCATCTTTGATTAATGTCTTGCATTAATACAATAGCATCTTTAGAAGCCTGCATTAAATG
**
14158277 TCTTGTTTAT
66 TCTTGCATAT
* * * * *
14158287 TAAATGCATCTTTGTTTAATGTTTTGCATTAATACACTAGCATCCTTTA-ATA-CCTGCGTTATA
1 TAAATGCATCTTTGATTAATGTCTTGCATTAATACAATAGCAT-CTTTAGA-AGCCTGCATTAAA
14158350 TGTTCTT-CATAT
64 TG-TCTTGCATAT
14158362 TAAAT
1 TAAAT
14158367 AAGTCATGCA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
75 58 0.85
76 10 0.15
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (75 bp):
TAAATGCATCTTTGATTAATGTCTTGCATTAATACAATAGCATCTTTAGAAGCCTGCATTAAATG
TCTTGCATAT
Found at i:14164502 original size:20 final size:20
Alignment explanation
Indices: 14164479--14164516 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14164469 GTATAAAATT
*
14164479 AATGAAAGAGAAAGTTGATG
1 AATGAAAAAGAAAGTTGATG
14164499 AATGAAAAAGAAAGTTGA
1 AATGAAAAAGAAAGTTGA
14164517 ATCAAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.18
Consensus pattern (20 bp):
AATGAAAAAGAAAGTTGATG
Found at i:14165948 original size:13 final size:13
Alignment explanation
Indices: 14165932--14165971 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
14165922 TATTTTTGTT
14165932 ATATTTTTTATTA
1 ATATTTTTTATTA
* **
14165945 ATATTTTTAAGAA
1 ATATTTTTTATTA
14165958 ATATTTTTTATTA
1 ATATTTTTTATTA
14165971 A
1 A
14165972 AAATTAATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATTTTTTATTA
Found at i:14168343 original size:33 final size:32
Alignment explanation
Indices: 14168261--14168346 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
14168251 GATGCTAGTC
* * * *
14168261 GATATTTATTATCACTTCACAAAATTAAAGTT
1 GATATTTGTTATCATTTCACAAAATAAAAGGT
*
14168293 G-TAATTTGTTATAATTTCACAAAATGAAAAGGT
1 GAT-ATTTGTTATCATTTCACAAAAT-AAAAGGT
14168326 GATATTTGTTATCATTTCACA
1 GATATTTGTTATCATTTCACA
14168347 GAACCGCGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 1 0.02
32 20 0.44
33 23 0.51
34 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (32 bp):
GATATTTGTTATCATTTCACAAAATAAAAGGT
Found at i:14169279 original size:17 final size:17
Alignment explanation
Indices: 14169231--14169279 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
14169221 ACAATTACAT
*
14169231 ACCAAAGAATATAAAAA
1 ACCAAAGAATATTAAAA
* *
14169248 AACAAATGAAATATTAGAA
1 ACCAAA-G-AATATTAAAA
14169267 ACCAAAGAATATT
1 ACCAAAGAATATT
14169280 GGTGGCGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
18 2 0.08
19 13 0.50
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (17 bp):
ACCAAAGAATATTAAAA
Found at i:14171116 original size:18 final size:18
Alignment explanation
Indices: 14171089--14171123 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14171079 TATCAATACC
* *
14171089 AAAATGATACCTAATTGA
1 AAAATAATACCAAATTGA
14171107 AAAATAATACCAAATTG
1 AAAATAATACCAAATTG
14171124 TTATATTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAATAATACCAAATTGA
Found at i:14172301 original size:21 final size:20
Alignment explanation
Indices: 14172262--14172301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14172252 AAATGTGCAG
* *
14172262 ACAGGGGCACCGTAGTGTAA
1 ACAGGAGCACCGAAGTGTAA
14172282 ACAGGAGCACCGAAAGTGTA
1 ACAGGAGCACCG-AAGTGTA
14172302 TATAGAGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.12
Consensus pattern (20 bp):
ACAGGAGCACCGAAGTGTAA
Found at i:14172349 original size:17 final size:17
Alignment explanation
Indices: 14172327--14172359 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14172317 ATGCAAATCC
14172327 CGTACAAGCACGCATAT
1 CGTACAAGCACGCATAT
*
14172344 CGTACAAGCGCGCATA
1 CGTACAAGCACGCATA
14172360 CTAACCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.15
Consensus pattern (17 bp):
CGTACAAGCACGCATAT
Found at i:14173741 original size:59 final size:62
Alignment explanation
Indices: 14173666--14173782 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
14173656 ATCACTTTAG
* * *
14173666 TATTAAATTAATATAAT-ATT-TAT-CAAGACAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAAGATAATGATTATATACAAAACAAATATTAGATTAAATTTAATATTAAATCT
* * *
14173725 TATTAAAATAAGATAATGGTTATCTACAAAATAAATATTAGATTAAATTTAATATTAA
1 TATTAAAATAAGATAATGATTATATACAAAACAAATATTAGATTAAATTTAATATTAA
14173783 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 15 0.31
60 2 0.04
61 2 0.04
62 30 0.61
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.40
Consensus pattern (62 bp):
TATTAAAATAAGATAATGATTATATACAAAACAAATATTAGATTAAATTTAATATTAAATCT
Found at i:14174317 original size:19 final size:19
Alignment explanation
Indices: 14174279--14174318 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14174269 AAAATATCAT
* *
14174279 ATTAATTTTATTTGATTTG
1 ATTAATTTAATTTGACTTG
*
14174298 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTGACTTG
14174317 AT
1 AT
14174319 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTAATTTGACTTG
Found at i:14179610 original size:22 final size:22
Alignment explanation
Indices: 14179564--14179610 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14179554 ATAAATTATT
* *
14179564 TTTATAACATAAATTTTCAATA
1 TTTATAACATAAATTTACAAAA
* *
14179586 TTTATAATATAAATTTAGAAAA
1 TTTATAACATAAATTTACAAAA
14179608 TTT
1 TTT
14179611 TTGTTATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTATAACATAAATTTACAAAA
Found at i:14188417 original size:26 final size:26
Alignment explanation
Indices: 14188383--14188443 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
14188373 TATTTCATAA
14188383 GGGCTTACCTTTGTAGCCCCTATGAG
1 GGGCTTACCTTTGTAGCCCCTATGAG
14188409 GGGCTTACCTTTGTAGCCCCTATGAG
1 GGGCTTACCTTTGTAGCCCCTATGAG
*
14188435 TGGC-TACCT
1 GGGCTTACCT
14188444 ATTAATAGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (26 bp):
GGGCTTACCTTTGTAGCCCCTATGAG
Found at i:14189168 original size:44 final size:42
Alignment explanation
Indices: 14189119--14189259 Score: 174
Period size: 44 Copynumber: 3.2 Consensus size: 42
14189109 CGAACAACAG
* * * *
14189119 TAAATAAAAGATAAATAAAAAGATGAATCAATTATGCAAAATAA
1 TAAATAAAAGATGAAT-TAAA-ACGAATCAATTATGCAAGATAA
*
14189163 TAAATAAACGAGTCGAATTAAAACGAATCAATTATGCAAGATAA
1 TAAATAAAAGA-T-GAATTAAAACGAATCAATTATGCAAGATAA
*
14189207 TAAATAAACGAGTTGAATTAAAACGAATCAATTATGCAAGATAA
1 TAAATAAA--AGATGAATTAAAACGAATCAATTATGCAAGATAA
14189251 TAAATAAAA
1 TAAATAAAA
14189260 AGACGAATCA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.01
44 76 0.88
45 5 0.06
46 4 0.05
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.23
Consensus pattern (42 bp):
TAAATAAAAGATGAATTAAAACGAATCAATTATGCAAGATAA
Found at i:14189266 original size:33 final size:33
Alignment explanation
Indices: 14189229--14189291 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
14189219 TTGAATTAAA
*
14189229 ACGAATCAATTATGCAAGATAATAAATAAAAAG
1 ACGAATCAAGTATGCAAGATAATAAATAAAAAG
14189262 ACGAATCAAGTATGCAAGATAATAAATAAA
1 ACGAATCAAGTATGCAAGATAATAAATAAA
14189292 CTTCAGTCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.21
Consensus pattern (33 bp):
ACGAATCAAGTATGCAAGATAATAAATAAAAAG
Found at i:14189340 original size:44 final size:44
Alignment explanation
Indices: 14189290--14189829 Score: 251
Period size: 44 Copynumber: 12.0 Consensus size: 44
14189280 ATAATAAATA
14189290 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
* * *
14189334 AACTTCAGTCTGCTCCACTACAATTTCATGGAGATAAGACTTGT
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
* ** * *
14189378 ATCTTCAACCTGCTCCACTGCGACTTCAGGGAGATAA-AGTT-T
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
* * ** * *
14189420 GAAATGGTAAGATCTAATCCGACCCTTTGCAACTTCAAAGG-TATAAGA-TT-T
1 -AACT--TCAG-TCTGCTCC-A--C--TGCAACTTC-AGGGAGATAAGACTTGT
* * * * * * *
14189471 ATCGTTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGA-TTAGT
1 AAC--TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GT
** *
14189517 AGTTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGT
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
* ** * **
14189561 ATCTTCAACCTGC-CCTACTGCAACTTTAGGG-GATAAGGTTTGT
1 AACTTCAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTGT
* * ** * * * *
14189604 TACTTTAACCTACTCTACTGCAACTTCAGAGAGATAAG-GTT-T
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
* * * * *
14189646 GA-TATGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTAATTT
1 AACT-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGT
* * ** * * * *
14189694 ATAGCTTCAATTTTTTCCGCTGCAACTTTAGGGAAATAAGACTCGCT
1 A-A-CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-T
* * *
14189741 ATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAATG-TTTGTT
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA-GACTTG-T
* * *
14189786 ATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATGAGACTTGT
1 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
14189830 TTTCGATTTG
Statistics
Matches: 370, Mismatches: 91, Indels: 70
0.70 0.17 0.13
Matches are distributed among these distances:
41 29 0.08
42 5 0.01
43 43 0.12
44 149 0.40
45 72 0.19
46 9 0.02
47 4 0.01
48 3 0.01
49 6 0.02
50 6 0.02
51 39 0.11
52 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
Found at i:14189614 original size:43 final size:43
Alignment explanation
Indices: 14189533--14189646 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
14189523 AGTCTGCTTC
** *
14189533 ACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCCCT
1 ACTGCAACTTCAGGG-GATAAGGTTTGTATCTTCAACCTACCCT
* * *
14189577 ACTGCAACTTTAGGGGATAAGGTTTGT-TACTTTAACCTACTCT
1 ACTGCAACTTCAGGGGATAAGGTTTGTAT-CTTCAACCTACCCT
*
14189620 ACTGCAACTTCAGAGAGATAAGGTTTG
1 ACTGCAACTTCAG-GGGATAAGGTTTG
14189647 ATATGATCTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 33 0.55
44 26 0.43
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ACTGCAACTTCAGGGGATAAGGTTTGTATCTTCAACCTACCCT
Found at i:14189764 original size:45 final size:45
Alignment explanation
Indices: 14189713--14189813 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
14189703 ATTTTTTCCG
* *
14189713 CTGCAACTTTAGGGAAATAA-GACTCGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAAGGAAATAATG-CTCGCTATCTTCAGTCTGCTCCA
* * * *
14189758 CTGCAACTTCAAGGAGATAATGTTTGTTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAAGGAAATAATGCTCGCTATCTTCAGTCTGCTCCA
14189803 CTGCAACTTCA
1 CTGCAACTTCA
14189814 GAGAGATGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (45 bp):
CTGCAACTTCAAGGAAATAATGCTCGCTATCTTCAGTCTGCTCCA
Found at i:14195115 original size:21 final size:21
Alignment explanation
Indices: 14195092--14195134 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
14195082 TAATTTTAGA
14195092 ATAATA-ATACATAT-TAAA-
1 ATAATATATACATATATAAAG
14195110 ATAATATATACATATATAAAG
1 ATAATATATACATATATAAAG
14195131 ATAA
1 ATAA
14195135 AGAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 4 0.18
21 4 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATATATACATATATAAAG
Found at i:14201872 original size:5 final size:5
Alignment explanation
Indices: 14201862--14201893 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
14201852 AAGTATTAAG
14201862 TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
14201894 AAACAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:14205564 original size:25 final size:25
Alignment explanation
Indices: 14205483--14205642 Score: 105
Period size: 25 Copynumber: 6.4 Consensus size: 25
14205473 ATTCATATTT
*
14205483 GGGAATGCTCATGTGAGCACATA-AAC
1 GGGAA-GCTCATATGAGC-CATATAAC
* * *
14205509 GGGAAGCTCTCTCTCGAGCCATATAAT
1 GGGAAGCTC-ATAT-GAGCCATATAAC
*
14205536 GGGAAGCTCATATGAGCCATGTAAC
1 GGGAAGCTCATATGAGCCATATAAC
* * * *
14205561 GGGAAGCTTATACGGGCTATATAAC
1 GGGAAGCTCATATGAGCCATATAAC
* *
14205586 GGGAAGCTAATAAT-AGCCATAATTA-
1 GGGAAGCTCAT-ATGAGCCAT-ATAAC
**
14205611 -GGAAGCTCATGCGAGCCA-ATAAC
1 GGGAAGCTCATATGAGCCATATAAC
*
14205634 GGGTAGCTC
1 GGGAAGCTC
14205643 CGAAGATCCA
Statistics
Matches: 104, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
22 3 0.03
24 21 0.20
25 48 0.46
26 17 0.16
27 15 0.14
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATATGAGCCATATAAC
Found at i:14205755 original size:26 final size:26
Alignment explanation
Indices: 14205719--14205778 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
14205709 AAAGTTCCGG
14205719 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* **
14205745 AGAGCCTTTAATCGGGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
14205771 AGAGCCAT
1 AGAGCCAT
14205779 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:14205784 original size:26 final size:26
Alignment explanation
Indices: 14205734--14205793 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
14205724 CATTAATCAA
*
14205734 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCACAAAGAGCCTATAATCGG
14205760 GAAGCTCACAAAGAGCC-ATATATCGG
1 GAAGCTCACAAAGAGCCTATA-ATCGG
*
14205786 GACGCTCA
1 GAAGCTCA
14205794 TAAAAGCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTATAATCGG
Found at i:14205921 original size:24 final size:24
Alignment explanation
Indices: 14205884--14205945 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
14205874 TAAGATTCAT
*
14205884 ATAACGGGAAGCTCGA-GAGGGCTA
1 ATAACGGGAAGCTC-ATGAGAGCTA
* *
14205908 ATAACAGGATGCTCATGAGAGCTA
1 ATAACGGGAAGCTCATGAGAGCTA
*
14205932 ATAACGGGACGCTC
1 ATAACGGGAAGCTC
14205946 TTTCGAGCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (24 bp):
ATAACGGGAAGCTCATGAGAGCTA
Found at i:14214205 original size:44 final size:45
Alignment explanation
Indices: 14214142--14214231 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
14214132 TTTATAAAGG
* *
14214142 AAATAAAAACCTAATATAAT-AGAGAATAAGTAAAACTAAAACTC
1 AAATAAAAACCTAATATAATAAGAAAATAAATAAAACTAAAACTC
*
14214186 AAATAAAAACCTGATATAATAAAGAAAATAAATAAAACTAAAACTC
1 AAATAAAAACCTAATATAAT-AAGAAAATAAATAAAACTAAAACTC
14214232 GAATTGCTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.46
46 22 0.54
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (45 bp):
AAATAAAAACCTAATATAATAAGAAAATAAATAAAACTAAAACTC
Found at i:14215615 original size:34 final size:35
Alignment explanation
Indices: 14215572--14215655 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 35
14215562 TTTATAAAGG
* * * *
14215572 AAATAAAAAC-CTAATATGATAGAGAAAATAAGTA
1 AAATTAAAACTCTAATATAATAAAGAAAATAAATA
14215606 AAATTAAAACTCT-ATATAATAAAGAAAATAAATA
1 AAATTAAAACTCTAATATAATAAAGAAAATAAATA
14215640 AAATTAAAACTCTAAT
1 AAATTAAAACTCTAAT
14215656 TGCTGCCGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 40 0.91
35 4 0.09
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.25
Consensus pattern (35 bp):
AAATTAAAACTCTAATATAATAAAGAAAATAAATA
Found at i:14216014 original size:38 final size:38
Alignment explanation
Indices: 14215963--14216039 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
14215953 GGATCCTAAT
14215963 ATACACTTATATACTAATTTCAACGAAATCATGCCACC
1 ATACACTTATATACTAATTTCAACGAAATCATGCCACC
14216001 ATACACTTATATACTAATTTCAACGAAATCATGCCACC
1 ATACACTTATATACTAATTTCAACGAAATCATGCCACC
14216039 A
1 A
14216040 CTAACTTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (38 bp):
ATACACTTATATACTAATTTCAACGAAATCATGCCACC
Found at i:14222960 original size:40 final size:40
Alignment explanation
Indices: 14222905--14223104 Score: 220
Period size: 40 Copynumber: 5.0 Consensus size: 40
14222895 AAGGAGGAGG
* * * * *
14222905 TACTGACAGTTTGTCTGCAACACTGATGGCTTGTTCACAT
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
*
14222945 TACTGGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
* * * *
14222985 TACTGGTAGTTTATCTGCAATACTGGTGGCTTATCCATAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
* ** * *
14223025 TACCGATAGTTTATCTGCAATACTGGTGGCTTGTCCACAT
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
* * * * *
14223065 TTCTGGTAGTTTATCTACAATACTAGTGGCTTGTCCACAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
14223105 ACTAGTGTGT
Statistics
Matches: 138, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
TACTGGCAGTTTGTCTGCAATACTGGTGGCTTGTCCACAA
Found at i:14222968 original size:20 final size:20
Alignment explanation
Indices: 14222915--14223059 Score: 87
Period size: 20 Copynumber: 7.2 Consensus size: 20
14222905 TACTGACAGT
* * *
14222915 TTGTCTGCAACACTGATGGC
1 TTGTCTGCAATACTGGTAGC
*
14222935 TTGT-T-CACATTACTGGCAGC
1 TTGTCTGCA-A-TACTGGTAGC
*
14222955 TTGTCTGCAATACTGGTGGC
1 TTGTCTGCAATACTGGTAGC
** *
14222975 TTGTCCACAATACTGGTAGT
1 TTGTCTGCAATACTGGTAGC
* *
14222995 TTATCTGCAATACTGGTGGC
1 TTGTCTGCAATACTGGTAGC
* *** * * *
14223015 TTATCCATAATACCGATAGT
1 TTGTCTGCAATACTGGTAGC
* *
14223035 TTATCTGCAATACTGGTGGC
1 TTGTCTGCAATACTGGTAGC
14223055 TTGTC
1 TTGTC
14223060 CACATTTCTG
Statistics
Matches: 91, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 83 0.91
21 2 0.02
22 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGTCTGCAATACTGGTAGC
Found at i:14226245 original size:40 final size:40
Alignment explanation
Indices: 14226201--14226309 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
14226191 AAATACATAA
*
14226201 CAGGGGCACCAAAGTGCAATCAGGAGCGCAAATGAGCGA-T
1 CAGGGGCACCAAAGTGCAATCAGGAGCACAAATGAGC-ATT
* *
14226241 CAGGGGCACCGAAA-TGCAAAT-AGGGGCACAAATGTGCATT
1 CAGGGGCACC-AAAGTGC-AATCAGGAGCACAAATGAGCATT
* * *
14226281 CAGGGGTACCAAAGTTCAATCAGGGGCAC
1 CAGGGGCACCAAAGTGCAATCAGGAGCAC
14226310 TGATGTGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
39 7 0.12
40 46 0.78
41 6 0.10
ACGTcount: A:0.34, C:0.22, G:0.31, T:0.13
Consensus pattern (40 bp):
CAGGGGCACCAAAGTGCAATCAGGAGCACAAATGAGCATT
Found at i:14226285 original size:20 final size:19
Alignment explanation
Indices: 14226201--14226309 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 19
14226191 AAATACATAA
14226201 CAGGGGCACCAAAGTGCAAT
1 CAGGGGCA-CAAAGTGCAAT
* * * *
14226221 CAGGAGCGCAAATGAGCGAT
1 CAGGGGCACAAA-GTGCAAT
14226241 CAGGGGCACCGAAA-TGCAAAT
1 CAGGGGCA-C-AAAGTGC-AAT
*
14226262 -AGGGGCACAAATGTGCATT
1 CAGGGGCACAAA-GTGCAAT
* *
14226281 CAGGGGTACCAAAGTTCAAT
1 CAGGGGCA-CAAAGTGCAAT
14226301 CAGGGGCAC
1 CAGGGGCAC
14226310 TGATGTGAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
18 3 0.04
19 8 0.12
20 47 0.69
21 7 0.10
22 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.31, T:0.13
Consensus pattern (19 bp):
CAGGGGCACAAAGTGCAAT
Found at i:14226316 original size:40 final size:40
Alignment explanation
Indices: 14226258--14226369 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
14226248 ACCGAAATGC
* **
14226258 AAATAGGGGCACAAATGTGCATTCAGGGGTACCAAAGT-T
1 AAATAGGGGCACTAATGTGCAAACAGGGGTACCAAAGTAT
* * * *
14226297 CAATCAGGGGCACTGATGTGAAAACAAGGGTACCAAAGTAT
1 AAAT-AGGGGCACTAATGTGCAAACAGGGGTACCAAAGTAT
14226338 AAATAGGGGCACTAATGTGCAAACAGGGGTAC
1 AAATAGGGGCACTAATGTGCAAACAGGGGTAC
14226370 ATTTCTGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.05
40 53 0.88
41 4 0.07
ACGTcount: A:0.38, C:0.16, G:0.29, T:0.18
Consensus pattern (40 bp):
AAATAGGGGCACTAATGTGCAAACAGGGGTACCAAAGTAT
Found at i:14234324 original size:18 final size:18
Alignment explanation
Indices: 14234298--14234335 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14234288 AATCAAATTT
*
14234298 TAAAAATAAAATTTAAAC
1 TAAAAATAAAATTCAAAC
*
14234316 TAAAGATAAAATTCAAAC
1 TAAAAATAAAATTCAAAC
14234334 TA
1 TA
14234336 TTTATAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAATAAAATTCAAAC
Found at i:14240084 original size:17 final size:17
Alignment explanation
Indices: 14240033--14240084 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
14240023 ATTTGCCAAG
*
14240033 CGATACTGTTCACCAGT
1 CGATACTGTTCGCCAGT
* * *
14240050 CAATA-TTTTCTGCTAGT
1 CGATACTGTTC-GCCAGT
14240067 CGATACTGTTCGCCAGT
1 CGATACTGTTCGCCAGT
14240084 C
1 C
14240085 AGTACTATTC
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (17 bp):
CGATACTGTTCGCCAGT
Found at i:14240160 original size:34 final size:34
Alignment explanation
Indices: 14240087--14240160 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 34
14240077 CGCCAGTCAG
**
14240087 TACTATTCACTAAGCAATACTATCCACTAGACGA
1 TACTATTCACTAAGCAATACTATCCAAAAGACGA
* ** *
14240121 CACTATTTGCTAAGCGATACTATCCAAAA-AGCGA
1 TACTATTCACTAAGCAATACTATCCAAAAGA-CGA
14240155 TACTAT
1 TACTAT
14240161 ATGTCAGGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (34 bp):
TACTATTCACTAAGCAATACTATCCAAAAGACGA
Found at i:14250332 original size:16 final size:16
Alignment explanation
Indices: 14250295--14250332 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
14250285 AGTTTATAAT
14250295 ATTT-TATATTATGTA
1 ATTTATATATTATGTA
14250310 ATTTTTATATATTATGTA
1 A--TTTATATATTATGTA
14250328 ATTTA
1 ATTTA
14250333 GAACACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.05
16 4 0.20
17 3 0.15
18 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
ATTTATATATTATGTA
Found at i:14256912 original size:40 final size:39
Alignment explanation
Indices: 14256861--14256972 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 39
14256851 CGTTTGGATA
14256861 AAAAACGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTG
1 AAAAACGCCGCTAAAGATC-AGCATTAGTGGCGCTTTTTG
* *
14256901 GAAAACGCCGCTAAAGATC-G-A-TAGTGGCGCTTTATG
1 AAAAACGCCGCTAAAGATCAGCATTAGTGGCGCTTTTTG
*
14256937 AAAAACGCCGCTAAA-AACAAGCATTAGTGGCG-TTTT
1 AAAAACGCCGCTAAAGATC-AGCATTAGTGGCGCTTTT
14256973 CCAGAAAGCG
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
35 2 0.03
36 28 0.44
37 2 0.03
38 5 0.08
39 8 0.13
40 18 0.29
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGATCAGCATTAGTGGCGCTTTTTG
Found at i:14257084 original size:41 final size:41
Alignment explanation
Indices: 14257027--14257402 Score: 515
Period size: 41 Copynumber: 9.2 Consensus size: 41
14257017 TGAGCTTTCG
*
14257027 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
14257068 GGGCTTTAGCGGCGTTTTTGAGTAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
*
14257109 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
14257150 GGGCGTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
14257191 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCGGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
14257232 GGGCTTTAGCGGTGTTTTTGGGAAAGCGCCGCTAATGTTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
*
14257273 GGGCTTTAGCGGCGTTTTTGGGAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* ** *
14257314 GGGCTTTTAGCGGTG-TTTTGATAAAGCGCCGCGAATGCTCTA
1 GGGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTC-A
** * ***
14257356 --TTTTTAGCGGTGTTTTTTAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
*
14257395 GGGGTTTA
1 GGGCTTTA
14257403 AAATAATTTA
Statistics
Matches: 303, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.04
40 22 0.07
41 260 0.86
42 10 0.03
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:14257391 original size:40 final size:39
Alignment explanation
Indices: 14257318--14257393 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
14257308 TGCTCAGGGC
*
14257318 TTTTAGCGGTGTTTTGATAAAGCGCCGCGAATGCTCTAT
1 TTTTAGCGGTGTTTTGAAAAAGCGCCGCGAATGCTCTAT
* *
14257357 TTTTAGCGGTGTTTTTTAAAAAGCGCCGCTAATGCTC
1 TTTTAGCGGTG-TTTTGAAAAAGCGCCGCGAATGCTC
14257394 AGGGGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.33
40 22 0.67
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (39 bp):
TTTTAGCGGTGTTTTGAAAAAGCGCCGCGAATGCTCTAT
Found at i:14257648 original size:7 final size:7
Alignment explanation
Indices: 14257606--14257680 Score: 78
Period size: 7 Copynumber: 10.6 Consensus size: 7
14257596 GTGTTACCAT
*
14257606 TTTAAGG
1 TTTATGG
*
14257613 TTTGTGG
1 TTTATGG
*
14257620 ATTATGGG
1 TTTAT-GG
*
14257628 TTTAGGG
1 TTTATGG
*
14257635 GTTATGG
1 TTTATGG
14257642 TTTATGG
1 TTTATGG
*
14257649 TTTACGG
1 TTTATGG
14257656 TTTATGG
1 TTTATGG
14257663 TTTATGG
1 TTTATGG
*
14257670 CTTATGG
1 TTTATGG
14257677 TTTA
1 TTTA
14257681 AAGGCTGGTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 49 0.91
8 5 0.09
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:14258069 original size:14 final size:14
Alignment explanation
Indices: 14258058--14258087 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14258048 GATCTAAGGT
14258058 TTAAGGGTTAAGAG
1 TTAAGGGTTAAGAG
*
14258072 TTATGGGTTAAGAG
1 TTAAGGGTTAAGAG
14258086 TT
1 TT
14258088 GGTGATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAAGAG
Found at i:14261373 original size:43 final size:43
Alignment explanation
Indices: 14261289--14261556 Score: 310
Period size: 43 Copynumber: 6.2 Consensus size: 43
14261279 TGCTAGAAAT
* *
14261289 GCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGGGAAAAAGC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAAGC
14261332 GCCGCTAAAGGTCATGGT-TTATAGCGGCGTTTGT-GATAAAAGC
1 GCCGCTAAAGGTCATGGTCTT-TAGCGGCGTTTGTGGA-AAAAGC
* *
14261375 GCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGAAATAGC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGC
* * **
14261418 GCCGCTAAAGGTCTTGGTCTTTAACGGCGTTTGTGG-GGAAGC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGC
* * * *
14261460 GCCGTTCAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGC
* * * * * *
14261503 GCCGTTAAAGGTCTTGGTCTTTAGCGGCATTTCTAGAAAAAAAC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAAGC
14261547 GCCGCTAAAG
1 GCCGCTAAAG
14261557 TTAGCGACGC
Statistics
Matches: 194, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
42 37 0.19
43 123 0.63
44 34 0.18
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGC
Done.