Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 46 of 202
Found at i:13719191 original size:18 final size:19
Alignment explanation
Indices: 13719150--13719191 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13719140 ACATAGATTG
* *
13719150 TATTTCTTTTTGTTTTAAT
1 TATTTCTTTTCGTGTTAAT
13719169 T-TTTCTTTTCGTGTT-AT
1 TATTTCTTTTCGTGTTAAT
13719186 TATTTC
1 TATTTC
13719192 GATGAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 16 0.80
19 1 0.05
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (19 bp):
TATTTCTTTTCGTGTTAAT
Found at i:13722538 original size:21 final size:21
Alignment explanation
Indices: 13722497--13722539 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13722487 AATAAAGTAG
*
13722497 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
13722518 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
13722539 A
1 A
13722540 AATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:13722647 original size:58 final size:56
Alignment explanation
Indices: 13722541--13722680 Score: 167
Period size: 58 Copynumber: 2.4 Consensus size: 56
13722531 ATTTTAGTAA
* * *
13722541 ATTTATATAATAATTATATTAAGAATTTTATTAAATTATATACTTTTTATTAAATTAT
1 ATTTA-ATAATAATTATGTTAA-AATATGATTAAATTATATACTTTTTATTAAATTAT
*
13722599 ATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATTA-TTTTTATTAAATTAT
1 ATTTAATAATAATTATGTTAAAATATGATTAAATTA--TA-TACTTTTTATTAAATTAT
*
13722657 TTTTAATAATAATCT-TGTTAAAAT
1 ATTTAATAATAAT-TATGTTAAAAT
13722681 TTAATAACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
56 12 0.16
57 15 0.21
58 43 0.59
59 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (56 bp):
ATTTAATAATAATTATGTTAAAATATGATTAAATTATATACTTTTTATTAAATTAT
Found at i:13722862 original size:16 final size:16
Alignment explanation
Indices: 13722841--13722911 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
13722831 TTGATTACTG
*
13722841 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
13722857 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
** *
13722873 ATTACATTTCTATTTC
1 ATTACAGCTCTATTCC
* *
13722889 ATTATAGCTCTATTCT
1 ATTACAGCTCTATTCC
13722905 ATTACAG
1 ATTACAG
13722912 TGAACCAAAC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:13732630 original size:34 final size:34
Alignment explanation
Indices: 13732567--13732654 Score: 160
Period size: 34 Copynumber: 2.6 Consensus size: 34
13732557 TGAAAAATCG
13732567 TTGTATATTGGTGTTTATAA-CGACTGTTCTGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
13732600 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
*
13732634 TTGTATATTGGTGTTTGTAAC
1 TTGTATATTGGTGTTTATAAC
13732655 GTGTAAATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 20 0.38
34 33 0.62
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.47
Consensus pattern (34 bp):
TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
Found at i:13734188 original size:15 final size:15
Alignment explanation
Indices: 13734170--13734204 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13734160 TCTTCTTCTT
13734170 CTTCTCCTCCTCCTC
1 CTTCTCCTCCTCCTC
*
13734185 CTTCTCCTTCTCCTC
1 CTTCTCCTCCTCCTC
*
13734200 TTTCT
1 CTTCT
13734205 AGCAATAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (15 bp):
CTTCTCCTCCTCCTC
Found at i:13744572 original size:13 final size:12
Alignment explanation
Indices: 13744552--13744584 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
13744542 TTTAAATTTT
13744552 TTTTAAAAAGTA
1 TTTTAAAAAGTA
13744564 TTTTAAAAAGTA
1 TTTTAAAAAGTA
13744576 TTTTAAAAA
1 TTTTAAAAA
13744585 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (12 bp):
TTTTAAAAAGTA
Found at i:13755010 original size:261 final size:259
Alignment explanation
Indices: 13754539--13755252 Score: 1160
Period size: 261 Copynumber: 2.7 Consensus size: 259
13754529 TCCATTTTTC
* * * *
13754539 TTTGTATGAAAAAACATTTAAGACAATATACAAAGGATATAAATGTAATTGATGAATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
*
13754604 TAAACCAATTTGTTCGAAAAAA-ATAAGTATACAAAACAAATATACTATACTTAGGGCACTAGAT
66 TAAACCAATTTGTTC-AAAAAATATAAGTATACAAAACAAATATACTACACTTAGGGCACTAGAT
* *
13754668 CCAACATTATAATCCATAATTGATTACTCATTTTAGACTTATTGCTCTATGTAATGTTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
*
13754733 CAAAACAAATATACTACACGTAGGACACTAGATCTAACATGATAATCCATAATTGATTACTCATT
195 CAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* *
13754798 TTTGCATGCAAAAACATTGAGGACAATATACAAATGATATAAATGTAATTGATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
* * *
13754863 TAAACCAATTTGTTCAAAAAAGTATAAGTATAAAAAAATAAATATACTACACTTAGGACACTAGA
66 TAAACCAATTTGTTCAAAAAA-TATAAGTAT-ACAAAACAAATATACTACACTTAGGGCACTAGA
*
13754928 TCCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGTTCTATGTAATGTTTCTTAT
129 TCCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTAT
*
13754993 ACAAAACAAATATACTACACTTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCAT
194 ACAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCAT
13755058 T
259 T
* * * *
13755059 TTTTCATGTAAAAACATTGAGTACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
* * * **
13755124 TAAACTATTTTTTTTGAAAAATATAAGTATACAAAACAAATATACTACACTTAGGGCACTAGATC
66 TAAACCAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGGCACTAGATC
* *
13755189 CAACATGATAATCCATAATTGATTACTAATTTTAGACTCATTGCTCTATGTAATATTTCTTATA
131 CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
13755253 AGATTGTTTT
Statistics
Matches: 421, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
258 6 0.01
259 167 0.40
260 17 0.04
261 231 0.55
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.35
Consensus pattern (259 bp):
TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
TAAACCAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGGCACTAGATC
CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATAC
AAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
Found at i:13757959 original size:25 final size:25
Alignment explanation
Indices: 13757931--13757990 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
13757921 AACTCTGGGA
13757931 AATAGAAGAACAAGAGAAAAAGAAG
1 AATAGAAGAACAAGAGAAAAAGAAG
*** *
13757956 AATA-AGAGAAGTGGAGAAGAAGAAG
1 AATAGA-AGAACAAGAGAAAAAGAAG
*
13757981 AAAAGAAGAA
1 AATAGAAGAA
13757991 GAGGAGAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.28, T:0.05
Consensus pattern (25 bp):
AATAGAAGAACAAGAGAAAAAGAAG
Found at i:13757990 original size:17 final size:16
Alignment explanation
Indices: 13757929--13757998 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
13757919 AGAACTCTGG
*
13757929 GAAATAGAAGAACAAGA
1 GAAA-AGAAGAAGAAGA
*
13757946 GAAAAAGAAGAATAAGA
1 G-AAAAGAAGAAGAAGA
** *
13757963 GAAGTGGAGAAGAAGAA
1 GAAAAGAAGAAGAAG-A
*
13757980 GAAAAGAAGAAGAGGA
1 GAAAAGAAGAAGAAGA
13757996 GAA
1 GAA
13757999 GGAGGATGAG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 14 0.33
17 25 0.60
18 3 0.07
ACGTcount: A:0.63, C:0.01, G:0.31, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAGA
Found at i:13757991 original size:25 final size:25
Alignment explanation
Indices: 13757944--13757999 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
13757934 AGAAGAACAA
* * *
13757944 GAGAAAAAGAAGAATAAGAGAAGTG
1 GAGAAGAAGAAGAAAAAGAGAAGAG
13757969 GAGAAGAAGAAG-AAAAGAAGAAGAG
1 GAGAAGAAGAAGAAAAAG-AGAAGAG
13757994 GAGAAG
1 GAGAAG
13758000 GAGGATGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.04
Consensus pattern (25 bp):
GAGAAGAAGAAGAAAAAGAGAAGAG
Found at i:13758004 original size:3 final size:3
Alignment explanation
Indices: 13757991--13758035 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
13757981 AAAAGAAGAA
* * *
13757991 GAG GAG AAG GAG GAT GAG TAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
13758036 AATAAGAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.60, T:0.04
Consensus pattern (3 bp):
GAG
Found at i:13760002 original size:40 final size:39
Alignment explanation
Indices: 13759958--13760072 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
13759948 GAGTGCATTT
13759958 AGGGGCATAGTTGTGCAAACAAGGACACCGAA-TCGTTTAC
1 AGGGGCATAGTTGTGCAAAC-AGGACACCGAAGT-GTTTAC
**
13759998 AGGGGCATAAATGTGCAAACAGGAACACCGAAGTGTTTAC
1 AGGGGCATAGTTGTGCAAACAGG-ACACCGAAGTGTTTAC
* * *
13760038 AGAGGCACAGTTGTGCAAATAGGAGCACCGAAGTG
1 AGGGGCATAGTTGTGCAAACAGGA-CACCGAAGTG
13760073 CAATCAAGGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.06
40 60 0.92
41 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (39 bp):
AGGGGCATAGTTGTGCAAACAGGACACCGAAGTGTTTAC
Found at i:13761728 original size:18 final size:18
Alignment explanation
Indices: 13761695--13761747 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
13761685 ATTCACCTAA
*
13761695 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
13761714 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
13761732 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
13761748 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:13761865 original size:9 final size:9
Alignment explanation
Indices: 13761851--13761914 Score: 85
Period size: 9 Copynumber: 7.1 Consensus size: 9
13761841 GTAGTGATTC
13761851 AATTCGGTT
1 AATTCGGTT
*
13761860 AATTCGGGT
1 AATTCGGTT
13761869 AATTCGGTT
1 AATTCGGTT
13761878 AATTCTGG-T
1 AATTC-GGTT
*
13761887 AATCCGGTT
1 AATTCGGTT
13761896 AATTCGGTT
1 AATTCGGTT
*
13761905 AATTCAGTT
1 AATTCGGTT
13761914 A
1 A
13761915 GTTTTTAACC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
8 2 0.04
9 44 0.92
10 2 0.04
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13762053 original size:12 final size:12
Alignment explanation
Indices: 13762036--13762060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13762026 TGTTATTTCG
13762036 GGTCGGTTAACC
1 GGTCGGTTAACC
13762048 GGTCGGTTAACC
1 GGTCGGTTAACC
13762060 G
1 G
13762061 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:13764804 original size:2 final size:2
Alignment explanation
Indices: 13764797--13764832 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13764787 CATAACTAGC
13764797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13764833 TGCACTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13771866 original size:40 final size:40
Alignment explanation
Indices: 13771811--13771920 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
13771801 TATGCCTCGG
* * * *
13771811 TTTGTACTTTGGTACCTCTGAATGCACATAAGTGCCCCTA
1 TTTGTACTTTAGTACCCCTGAATGCACATAAGTACACCTA
* **
13771851 TTTGTACTTTAGTACCCCTAAATGCACATGCGTACACCTA
1 TTTGTACTTTAGTACCCCTGAATGCACATAAGTACACCTA
* *
13771891 TTTTTAC-TTCGATACCCCTGAATGCACATA
1 TTTGTACTTTAG-TACCCCTGAATGCACATA
13771921 CATGTCGCTG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.05
40 55 0.95
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (40 bp):
TTTGTACTTTAGTACCCCTGAATGCACATAAGTACACCTA
Found at i:13776028 original size:12 final size:12
Alignment explanation
Indices: 13776004--13776053 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
13775994 TGGTACACAT
*
13776004 GGCCTGGGACAC
1 GGCCTGCGACAC
*
13776016 GGGCTGCGACAC
1 GGCCTGCGACAC
* *
13776028 GGTCTGAGACAC
1 GGCCTGCGACAC
13776040 GGCCTGCGACAC
1 GGCCTGCGACAC
13776052 GG
1 GG
13776054 TTGTGTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.18, C:0.32, G:0.40, T:0.10
Consensus pattern (12 bp):
GGCCTGCGACAC
Found at i:13778705 original size:17 final size:18
Alignment explanation
Indices: 13778683--13778723 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
13778673 TAATAAATGA
13778683 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
13778700 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
13778717 TAATATA
1 AAATATA
13778724 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:13788198 original size:25 final size:23
Alignment explanation
Indices: 13788160--13788205 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
13788150 GTTTGATGCA
13788160 AACATCAAAGAAATTAAAAGAAACG
1 AACATCAAAGAAA-T-AAAGAAACG
13788185 AACATCAATA-AAATAAAGAAA
1 AACATCAA-AGAAATAAAGAAA
13788206 AGTCCTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 11 0.55
26 1 0.05
ACGTcount: A:0.67, C:0.11, G:0.09, T:0.13
Consensus pattern (23 bp):
AACATCAAAGAAATAAAGAAACG
Found at i:13790176 original size:21 final size:22
Alignment explanation
Indices: 13790147--13790197 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13790137 TCTCTCTCGC
*
13790147 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
13790168 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
13790190 TTT-ATTTT
1 TTTCATTTT
13790198 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:13793479 original size:14 final size:14
Alignment explanation
Indices: 13793461--13793498 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13793451 TCCCTAAACA
13793461 CTAAATCTTAAACTT
1 CTAAATCTTAAA-TT
*
13793476 -TAAATATTAAATT
1 CTAAATCTTAAATT
13793489 CTAAATCTTA
1 CTAAATCTTA
13793499 TTCATCCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (14 bp):
CTAAATCTTAAATT
Found at i:13796888 original size:10 final size:10
Alignment explanation
Indices: 13796873--13796904 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
13796863 CACATCTTTC
13796873 TCTCTTCCAT
1 TCTCTTCCAT
13796883 TCTCTTCCAT
1 TCTCTTCCAT
13796893 TCTCTTCCAT
1 TCTCTTCCAT
13796903 TC
1 TC
13796905 ACTTTCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (10 bp):
TCTCTTCCAT
Found at i:13797364 original size:16 final size:16
Alignment explanation
Indices: 13797333--13797381 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
13797323 CGAATGAATT
13797333 AATTATTAATTGAATTGA
1 AATTA-TAATT-AATTGA
13797351 AATTATAATTAATTGA
1 AATTATAATTAATTGA
* * *
13797367 CATAATATTTAATTG
1 AATTATAATTAATTG
13797382 GTGCATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 5 0.18
18 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (16 bp):
AATTATAATTAATTGA
Found at i:13800847 original size:30 final size:30
Alignment explanation
Indices: 13800802--13800860 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
13800792 GTTTCCGTAA
*
13800802 GAAAACCTTTATGGCGAACTCTGTTAAAAT
1 GAAAACCTTTATGGCGAACTCTGATAAAAT
* * *
13800832 GAAAGCCTTTGTGGCGATCTCTGATAAAA
1 GAAAACCTTTATGGCGAACTCTGATAAAA
13800861 AGGATGCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (30 bp):
GAAAACCTTTATGGCGAACTCTGATAAAAT
Found at i:13802452 original size:13 final size:13
Alignment explanation
Indices: 13802434--13802463 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13802424 AAATGGGAAA
13802434 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
13802447 AAAAACTAAAGAG
1 AAAAACTAAAGAC
13802460 AAAA
1 AAAA
13802464 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Found at i:13813416 original size:16 final size:17
Alignment explanation
Indices: 13813395--13813427 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
13813385 TATAATCAAA
13813395 TTTCACTC-ATTCAATT
1 TTTCACTCTATTCAATT
13813411 TTTCACTCTATTCAATT
1 TTTCACTCTATTCAATT
13813428 AAATCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTCACTCTATTCAATT
Found at i:13821296 original size:27 final size:27
Alignment explanation
Indices: 13821266--13821596 Score: 394
Period size: 27 Copynumber: 12.3 Consensus size: 27
13821256 GGGTATAACA
* *
13821266 GTCATTTTACCCTATGAAGATATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
13821293 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * **
13821320 GTAATTTTACCCAAT-AGGGGTATTTTA
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
13821347 CTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
13821374 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
13821401 GTTATTTTACCTTATGATGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
13821428 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
13821455 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
13821482 GTTATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
13821509 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
13821536 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
13821563 ATCATTTTACCCTCTGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
13821590 GTCATTT
1 GTCATTT
13821597 AACCTATATC
Statistics
Matches: 262, Mismatches: 40, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 262 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:13821388 original size:81 final size:81
Alignment explanation
Indices: 13821264--13821596 Score: 479
Period size: 81 Copynumber: 4.1 Consensus size: 81
13821254 AGGGGTATAA
* * * *
13821264 CAGTCATTTTACCCTATGAAGATATTTCGGTCATTTTACCCTATGGGGGTATTTTGGTAATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
*
13821329 CCCAAT-AGGGGTATTT
66 CCCTATGA-GGGTATTT
* * * *
13821345 TACTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
* *
13821410 CCTTATGATGGTATTT
66 CCCTATGAGGGTATTT
* * *
13821426 CAGTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGGTTATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
*
13821491 CCTTATGAGGGTATTT
66 CCCTATGAGGGTATTT
* * *
13821507 CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
*
13821572 CCCTCTGAGGGTATTT
66 CCCTATGAGGGTATTT
13821588 CAGTCATTT
1 CAGTCATTT
13821597 AACCTATATC
Statistics
Matches: 226, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 225 1.00
82 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.44
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTA
CCCTATGAGGGTATTT
Found at i:13828796 original size:21 final size:20
Alignment explanation
Indices: 13828768--13828807 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13828758 TTTTACACAG
13828768 TTTGGCCACACGGCCATGTC
1 TTTGGCCACACGGCCATGTC
*
13828788 TTTGAGCCACATGGCCATGT
1 TTTG-GCCACACGGCCATGT
13828808 GACGCCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (20 bp):
TTTGGCCACACGGCCATGTC
Found at i:13832318 original size:2 final size:2
Alignment explanation
Indices: 13832313--13832341 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13832303 ACAATCTAAT
13832313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13832342 TTACTGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13833136 original size:20 final size:19
Alignment explanation
Indices: 13833092--13833163 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
13833082 TATAAACCTT
13833092 AAAAAT-TATAAAAAT-AGA
1 AAAAATATATAAAAATCA-A
*
13833110 AATAAATATTTAAAAATTCAA
1 AA-AAATATATAAAAA-TCAA
*
13833131 AAAAATATATACAAAATCTA
1 AAAAATATATA-AAAATCAA
13833151 AAAAATATATAAA
1 AAAAATATATAAA
13833164 TTATAAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.04
19 6 0.13
20 29 0.63
21 8 0.17
22 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (19 bp):
AAAAATATATAAAAATCAA
Found at i:13833170 original size:18 final size:18
Alignment explanation
Indices: 13833130--13833182 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
13833120 TAAAAATTCA
* *
13833130 AAAAAATATATACAAAATCT
1 AAAAAATATAT--AAATTAT
13833150 AAAAAATATATAAATTAT
1 AAAAAATATATAAATTAT
* *
13833168 AAACATTATATAAAT
1 AAAAAATATATAAAT
13833183 GGAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 18 0.62
20 11 0.38
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATATATAAATTAT
Found at i:13835336 original size:31 final size:31
Alignment explanation
Indices: 13835264--13835336 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
13835254 CAAACTGGTA
*
13835264 ATTGAACTATTCGAAAATTTTCATTTAAGTT
1 ATTGAACTATTCGAAAATTTTCATTTAAGTC
* * * *
13835295 ACTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTCGAAAATTTTCATTTAAGTC
*
13835326 ATTGAGCTATT
1 ATTGAACTATT
13835337 AAGGGTGTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCGAAAATTTTCATTTAAGTC
Found at i:13840375 original size:16 final size:16
Alignment explanation
Indices: 13840350--13840391 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13840340 AATAGTTTTG
*
13840350 TTTAGCACAACCAT-TA
1 TTTAGAACAA-CATATA
*
13840366 TTTAGAACAACTTATA
1 TTTAGAACAACATATA
13840382 TTTAGAACAA
1 TTTAGAACAA
13840392 TTGTGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (16 bp):
TTTAGAACAACATATA
Found at i:13841329 original size:19 final size:19
Alignment explanation
Indices: 13841289--13841355 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
13841279 CGATGTATAT
* *
13841289 AATTATAAAAAT-TTATCA
1 AATTATAAAATTATTAACA
13841307 AATTATAAAATTATTAACA
1 AATTATAAAATTATTAACA
* *
13841326 AATTATAAATTTATCAA-A
1 AATTATAAAATTATTAACA
13841344 AATTATTAAAAT
1 AATTA-TAAAAT
13841356 ATTTTTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.40
19 25 0.60
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTATAAAATTATTAACA
Found at i:13841476 original size:6 final size:6
Alignment explanation
Indices: 13841465--13841496 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13841455 AATTTTATAG
13841465 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
13841497 AGTTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:13851569 original size:40 final size:41
Alignment explanation
Indices: 13851514--13851593 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
13851504 ACTTTGGGAA
13851514 TAATTTAATTGAGTCAATTTATTCG-ATGGAATTAAATTGT
1 TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
*
13851554 TAATTTAATTGAGTCAATTTATTTGATATGGAATTAAATT
1 TAATTTAATTGAGTCAATTTATTCGA-ATGGAATTAAATT
13851594 AGGTGGTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 24 0.65
42 13 0.35
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (41 bp):
TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
Found at i:13852252 original size:42 final size:37
Alignment explanation
Indices: 13852146--13852252 Score: 89
Period size: 36 Copynumber: 2.8 Consensus size: 37
13852136 ATTCAAAAAA
*
13852146 TAATA-TTATTTTAATAG--TTTAATTTAAATTTAAAT
1 TAATACTTATCTTAATAGTATTTAATTT-AATTTAAAT
*
13852181 TAATACTTATCTTAATAGTATTTTA-TTAATTTAATAT
1 TAATACTTATCTTAATAGTATTTAATTTAATTTAA-AT
*
13852218 TAAAGTGA-TTATCTTAATATTAAATTTAATTTAAT
1 T-AA-T-ACTTATCTTAATAGT--ATTTAATTTAAT
13852253 GTTTATCTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
35 5 0.09
36 18 0.31
37 5 0.09
38 6 0.10
39 13 0.22
40 1 0.02
41 5 0.09
42 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATACTTATCTTAATAGTATTTAATTTAATTTAAAT
Found at i:13860443 original size:40 final size:40
Alignment explanation
Indices: 13860323--13860456 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
13860313 ACTTCGAGTT
* *
13860323 GATGAGACACTGGGTGTCAATATATC-ACTTCGAATTTATTC
1 GATGAGACACTGGGTGTCAAT-TTTCTACTTCGAA-TTATCC
* * ** *
13860364 GATGAGGCACTAGGT-TCCAA--TT-TACTTCGGTTTAACC
1 GATGAGACACTGGGTGT-CAATTTTCTACTTCGAATTATCC
*
13860401 GATGAGACATTGGGTGTCAATTTTCTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTTCTACTTCGAATTATCC
* *
13860441 GATGAGGCACTAGGTG
1 GATGAGACACTGGGTG
13860457 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
37 19 0.27
38 8 0.11
39 2 0.03
40 26 0.37
41 16 0.23
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTTCTACTTCGAATTATCC
Found at i:13871249 original size:41 final size:41
Alignment explanation
Indices: 13871180--13871282 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
13871170 TAATTCAGAA
* * * **
13871180 CACCGGCATTAAGCTTGGTAGACATAAAGTCTGAAATATTT
1 CACCAGCATTAAGCCTGCTAGATGTAAAGTCTGAAATATTT
*
13871221 CACCAGCATTAAGTCTGCTAGATGTAAAGTCTGAAATATTT
1 CACCAGCATTAAGCCTGCTAGATGTAAAGTCTGAAATATTT
*
13871262 CACCGGCATTAAGCCTGCTAG
1 CACCAGCATTAAGCCTGCTAG
13871283 GCACAGAGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCAGCATTAAGCCTGCTAGATGTAAAGTCTGAAATATTT
Found at i:13871563 original size:2 final size:2
Alignment explanation
Indices: 13871556--13871599 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13871546 TCGAACCTCC
13871556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13871598 TA
1 TA
13871600 GACATTGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13872383 original size:25 final size:25
Alignment explanation
Indices: 13872341--13872388 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
13872331 ATCAAACATC
*
13872341 AAAAATCACAACATATCATCAATGG
1 AAAAATCACAAAATATCATCAATGG
13872366 AAAAA-CACAAAATAATCATCAAT
1 AAAAATCACAAAAT-ATCATCAAT
13872389 TTCAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAATCACAAAATATCATCAATGG
Found at i:13876724 original size:42 final size:43
Alignment explanation
Indices: 13876654--13876765 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
13876644 TTTTAGAAAT
* * *
13876654 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCAC
1 AAACGCCGCTAAA-AACATGACCTTTAGCGACACTTTTTCCCAC
**
13876697 AAACGCCGCTAAAAACATGACCTTTAGCGACACTTTTTGTCAC
1 AAACGCCGCTAAAAACATGACCTTTAGCGACACTTTTTCCCAC
*
13876740 AAACGCCGCTAAAAACATAACCTTTA
1 AAACGCCGCTAAAAACATGACCTTTA
13876766 AAAAATTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 17 0.27
43 45 0.73
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAAACATGACCTTTAGCGACACTTTTTCCCAC
Found at i:13880387 original size:41 final size:41
Alignment explanation
Indices: 13880330--13880416 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
13880320 TTATATGGAT
13880330 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
* *
13880371 AAAATTTTTATATGGATATGCCCGTATAACAAAGTCGGTCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
13880412 AAAAT
1 AAAAT
13880417 CGTAGAACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (41 bp):
AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
Found at i:13880676 original size:24 final size:25
Alignment explanation
Indices: 13880635--13880682 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
13880625 GTCTTTTCTT
13880635 TAAAAGTATATAAATATTATAAAAA
1 TAAAAGTATATAAATATTATAAAAA
* *
13880660 TAAAAGTTTA-AAATATTTTAAAA
1 TAAAAGTATATAAATATTATAAAA
13880683 TTCATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAGTATATAAATATTATAAAAA
Found at i:13882276 original size:41 final size:41
Alignment explanation
Indices: 13882231--13882554 Score: 432
Period size: 41 Copynumber: 7.9 Consensus size: 41
13882221 AGATTTAATT
* **
13882231 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
* * ** *
13882272 ATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAGGTACGAGT
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
* * *** *
13882313 ATTAGCGGTGCTTTTCCAAGAACGCCGCTAAAGAAACTAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
13882354 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
*
13882395 ATTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
* * * *
13882436 ATTAGCAGTGCTTTTCCAAAAACACCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
* *
13882477 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
* * *
13882518 ATTAGCGGCGCTTTTTCAAAAACGCTGCTAAATGCCC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCC
13882555 CAAAAACTCT
Statistics
Matches: 252, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 252 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:13882684 original size:40 final size:39
Alignment explanation
Indices: 13882614--13882724 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
13882604 TTTGGAAAAT
*
13882614 GCCGCTAATGCTTATTTTTAGCGGTGTTTTT-CAAAATGC
1 GCCGCTAATGCTGATTTTTAGCGGTGTTTTTGCAAAA-GC
* *
13882653 GCCGCTAATGCTCGATCTTTAGCAGG-GTTTTTGTAAAAGC
1 GCCGCTAATGCT-GATTTTTAGC-GGTGTTTTTGCAAAAGC
* *
13882693 GCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 GCCGCTAATGC-TGATTTTTAGCGGTGTTTTT
13882725 TATCCAAACG
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
39 14 0.23
40 41 0.66
41 7 0.11
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (39 bp):
GCCGCTAATGCTGATTTTTAGCGGTGTTTTTGCAAAAGC
Found at i:13882737 original size:41 final size:39
Alignment explanation
Indices: 13882614--13882741 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 39
13882604 TTTGGAAAAT
* *
13882614 GCCGCTAATGCTT-ATTTTTAGCGGTGTTTT-TCAAAATGC
1 GCCGCTAATGCTTGATTTTTAGGGGTTTTTTATC-AAA-GC
* *
13882653 GCCGCTAATGCTCGATCTTTAGCAGGGTTTTTGTA--AAAGC
1 GCCGCTAATGCTTGATTTTTAG--GGGTTTTT-TATCAAAGC
13882693 GCCGCTAATGCTTGATTTTTAGTGGCGTTTTTTATCCAAA-C
1 GCCGCTAATGCTTGATTTTTAG-GG-GTTTTTTAT-CAAAGC
13882734 GCCGCTAA
1 GCCGCTAA
13882742 AAATGCCGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
39 16 0.22
40 35 0.48
41 12 0.16
42 9 0.12
43 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (39 bp):
GCCGCTAATGCTTGATTTTTAGGGGTTTTTTATCAAAGC
Found at i:13892486 original size:18 final size:18
Alignment explanation
Indices: 13892465--13892499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13892455 TAAATGCATT
*
13892465 TATTTATTAAATAAAATA
1 TATTAATTAAATAAAATA
*
13892483 TATTAATTAAATTAAAT
1 TATTAATTAAATAAAAT
13892500 GTATATTTTG
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:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAATTAAATAAAATA
Found at i:13892907 original size:95 final size:94
Alignment explanation
Indices: 13892764--13893011 Score: 255
Period size: 95 Copynumber: 2.6 Consensus size: 94
13892754 GAAATAAGGG
** * * * * ***
13892764 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTATAAATTTTTTAAAATTGGATTAGATTTCGTG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGATTTAAAG
** * *
13892829 TTTATTG-TTTTTTAAGAAAAAATCAATTAA
66 -TTAAGGATTTTTAAAG-AAAAATCAAATAA
* * * * * *
13892859 ATTAGGATTTAGGGTTACTTAAGTAATTTAATTAAAAAATTTTAAAAATCAGATTAGGGTTTAAA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAATTAGATTA-GATTTAAA
13892924 GTTAAGGATTTTTAAAGAAAAATCAAATAA
65 GTTAAGGATTTTTAAAGAAAAATCAAATAA
* * *
13892954 ATTAGGGTTCAAGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTT-AAAAATTAGATTAG
13893012 GGTTTAGGGT
Statistics
Matches: 123, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
95 98 0.80
96 25 0.20
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGATTTAAAG
TTAAGGATTTTTAAAGAAAAATCAAATAA
Found at i:13893020 original size:7 final size:7
Alignment explanation
Indices: 13893008--13893037 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13892998 AAAAATTAGA
13893008 TTAGGGT
1 TTAGGGT
13893015 TTAGGGT
1 TTAGGGT
13893022 TTAGGGT
1 TTAGGGT
13893029 TTAGGGT
1 TTAGGGT
13893036 TT
1 TT
13893038 TTAAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:13893339 original size:126 final size:126
Alignment explanation
Indices: 13893107--13893395 Score: 490
Period size: 126 Copynumber: 2.3 Consensus size: 126
13893097 TTGTTAATTT
* **
13893107 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGGGAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
* *
13893172 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGTAGGATGCTTTGTCAGCA-ATAGTACCA
66 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAGA-AGTACCA
*
13893233 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
**
13893298 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACCA
13893359 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
13893396 GCGTATGTTT
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
126 153 0.99
127 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACCA
Found at i:13894333 original size:34 final size:35
Alignment explanation
Indices: 13894289--13894356 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
13894279 TGTAAAAGTA
* *
13894289 AATTTTTATTTTATTACATGAAATAATA-TAAAAG
1 AATTTATATTTTATTACATCAAATAATATTAAAAG
13894323 AATTTATATTTTATTACATCAAATAATATTAAAA
1 AATTTATATTTTATTACATCAAATAATATTAAAA
13894357 TATTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (35 bp):
AATTTATATTTTATTACATCAAATAATATTAAAAG
Found at i:13894497 original size:21 final size:21
Alignment explanation
Indices: 13894473--13894517 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13894463 TTGTCCAGCT
* * *
13894473 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTCTGGTTCC
13894494 TCCGGCGGGGATTCTGGTTCC
1 TCCGGCGGGGATTCTGGTTCC
13894515 TCC
1 TCC
13894518 AGTAGGGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.27, G:0.42, T:0.29
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTCC
Found at i:13894789 original size:18 final size:18
Alignment explanation
Indices: 13894763--13894805 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13894753 GACTAGAAAA
* * *
13894763 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
13894781 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
13894799 AGGATAC
1 AGGATAC
13894806 GCACCTGGCA
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:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:13896043 original size:27 final size:29
Alignment explanation
Indices: 13895997--13896070 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
13895987 AATTTTTACG
*
13895997 ATTTAAAAATAATTTT-AAAA-AAAT-AAA
1 ATTTAAAAAT-TTTTTAAAAATAAATAAAA
*
13896024 ATTTAAAAATTTTTTAAAAATAATTAAAA
1 ATTTAAAAATTTTTTAAAAATAAATAAAA
* **
13896053 AATTAAAGCTTTTTTAAA
1 ATTTAAAAATTTTTTAAA
13896071 TAGGAATTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 4 0.10
27 14 0.36
28 3 0.08
29 18 0.46
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTTAAAAATTTTTTAAAAATAAATAAAA
Found at i:13896355 original size:14 final size:14
Alignment explanation
Indices: 13896336--13896369 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13896326 CCCCTGACAT
13896336 CGCGCTGACATGGA
1 CGCGCTGACATGGA
*
13896350 CGCGCTGACGTGGA
1 CGCGCTGACATGGA
*
13896364 CACGCT
1 CGCGCT
13896370 TTTGGGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (14 bp):
CGCGCTGACATGGA
Found at i:13896641 original size:16 final size:16
Alignment explanation
Indices: 13896620--13896666 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
13896610 CGGTAGAATG
13896620 GAAAAAATAGAAAGAT
1 GAAAAAATAGAAAGAT
*
13896636 G-AAAAATTGAAGAGAT
1 GAAAAAATAGAA-AGAT
13896652 -AGAAAAATAGAAAGA
1 GA-AAAAATAGAAAGA
13896667 AAAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (16 bp):
GAAAAAATAGAAAGAT
Found at i:13903124 original size:45 final size:46
Alignment explanation
Indices: 13903069--13903180 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 46
13903059 GATGACTATT
* * *
13903069 TGTGCTCCAAAAAATTCAAAGAATTC-AA-AAGGCAGAATATGTGTA
1 TGTGTTCCAAAAAATTCAAAGAATTCAAAGAAGGCA-AAGATGAGTA
* **
13903114 TGTGTTCCAAAAAATTCAAAAAATTCAAAGAATTCAAAGATGAGTA
1 TGTGTTCCAAAAAATTCAAAGAATTCAAAGAAGGCAAAGATGAGTA
13903160 TGTGTTCCAAAAAATTCAAAG
1 TGTGTTCCAAAAAATTCAAAG
13903181 CTAATACAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
45 24 0.41
46 30 0.52
47 4 0.07
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.26
Consensus pattern (46 bp):
TGTGTTCCAAAAAATTCAAAGAATTCAAAGAAGGCAAAGATGAGTA
Found at i:13903153 original size:9 final size:9
Alignment explanation
Indices: 13903121--13903151 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13903111 GTATGTGTTC
13903121 CAAAAAATT
1 CAAAAAATT
13903130 CAAAAAATT
1 CAAAAAATT
*
13903139 CAAAGAATT
1 CAAAAAATT
13903148 CAAA
1 CAAA
13903152 GATGAGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.65, C:0.13, G:0.03, T:0.19
Consensus pattern (9 bp):
CAAAAAATT
Found at i:13905455 original size:6 final size:6
Alignment explanation
Indices: 13905426--13905466 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
13905416 TTTGCCTAAT
*
13905426 ATGTGA AT-TAA AT-TGA AT-TGA ATGTGA ATGTGA ATGTGA AT
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA AT
13905467 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 13 0.41
6 19 0.59
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (6 bp):
ATGTGA
Found at i:13905461 original size:12 final size:11
Alignment explanation
Indices: 13905426--13905467 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
13905416 TTTGCCTAAT
*
13905426 ATGTGAATTAA
1 ATGTGAATTGA
13905437 AT-TGAATTGA
1 ATGTGAATTGA
13905447 ATGTGAATGTGA
1 ATGTGAAT-TGA
13905459 ATGTGAATT
1 ATGTGAATT
13905468 TTATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:13905991 original size:25 final size:25
Alignment explanation
Indices: 13905953--13906011 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
13905943 GGCTCTTTGT
* *
13905953 GAGCTTCTCGATACATGGCTATCTG
1 GAGCTTCCCAATACATGGCTATCTG
13905978 GAGCTTCCCAATACATGGCTATCTG
1 GAGCTTCCCAATACATGGCTATCTG
*
13906003 GAGATTCCC
1 GAGCTTCCC
13906012 GATTAATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCAATACATGGCTATCTG
Found at i:13906079 original size:23 final size:25
Alignment explanation
Indices: 13906032--13906080 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
13906022 TCTTCGGAGC
* *
13906032 TACTCGTTATAGGCTCGTATGAGCT
1 TACTCGTTATAGGCTCGGATAAGCT
13906057 TACT-GTTATA-GCTCGGATAAGCT
1 TACTCGTTATAGGCTCGGATAAGCT
13906080 T
1 T
13906081 CCCGTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (25 bp):
TACTCGTTATAGGCTCGGATAAGCT
Found at i:13906087 original size:23 final size:24
Alignment explanation
Indices: 13906036--13906087 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
13906026 CGGAGCTACT
* *
13906036 CGTTATAGGCTCGTATGAGCTTAC
1 CGTTATAGGCTCGGATAAGCTTAC
* *
13906060 TGTTATA-GCTCGGATAAGCTTCC
1 CGTTATAGGCTCGGATAAGCTTAC
13906083 CGTTA
1 CGTTA
13906088 CATGGCTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (24 bp):
CGTTATAGGCTCGGATAAGCTTAC
Found at i:13911981 original size:7 final size:7
Alignment explanation
Indices: 13911969--13911998 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13911959 AGGGGTTTAG
13911969 TACCATA
1 TACCATA
13911976 TACCATA
1 TACCATA
13911983 TACCATA
1 TACCATA
13911990 TACCATA
1 TACCATA
13911997 TA
1 TA
13911999 TCACAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
TACCATA
Found at i:13918958 original size:9 final size:9
Alignment explanation
Indices: 13918926--13918960 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
13918916 AAATTCACAT
*
13918926 ATTTTAATA
1 ATTTAAATA
13918935 ATTTTAAATA
1 A-TTTAAATA
13918945 ATTTAAATA
1 ATTTAAATA
13918954 ATTTAAA
1 ATTTAAA
13918961 AAACTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
ATTTAAATA
Found at i:13919096 original size:21 final size:21
Alignment explanation
Indices: 13919072--13919124 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
13919062 CACTGTTTCT
13919072 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
* * *
13919093 AATCTCACCACTATAGTAATT
1 AATCTCACCGCTACAGTAATC
13919114 AATCTCACCGC
1 AATCTCACCGC
13919125 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:13919818 original size:9 final size:9
Alignment explanation
Indices: 13919795--13919873 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
13919785 CATGGTTATT
*
13919795 TAAATATTA
1 TAAAAATTA
13919804 -AAAAATTA
1 TAAAAATTA
13919812 TAAAAATTA
1 TAAAAATTA
*
13919821 TTTTAAAAA-CA
1 ---TAAAAATTA
* *
13919832 TTAAGATTA
1 TAAAAATTA
13919841 TAAGAAATTA
1 TAA-AAATTA
*
13919851 TAAAAAAT-
1 TAAAAATTA
13919859 TAAAAATTA
1 TAAAAATTA
13919868 TAAAAA
1 TAAAAA
13919874 ACTATATACA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
8 18 0.33
9 21 0.39
10 8 0.15
11 1 0.02
12 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13919879 original size:27 final size:28
Alignment explanation
Indices: 13919804--13919879 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
13919794 TTAAATATTA
*
13919804 AAAAATTATAAAAATTATTTTAAAAACATT
1 AAAAATTATAAAAA--ATTATAAAAACATT
* *
13919834 -AAGATTATAAGAAATTATAAAAA-ATT
1 AAAAATTATAAAAAATTATAAAAACATT
*
13919860 AAAAATTATAAAAAACTATA
1 AAAAATTATAAAAAATTATA
13919880 TACATGCACA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.08
27 25 0.64
29 11 0.28
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATTATAAAAAATTATAAAAACATT
Found at i:13920217 original size:10 final size:10
Alignment explanation
Indices: 13920202--13920241 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
13920192 CATTCTAAAC
13920202 ATAATTTTTA
1 ATAATTTTTA
13920212 ATAA--TTTA
1 ATAATTTTTA
*
13920220 ATAATTTCT-
1 ATAATTTTTA
13920229 ATAATTTTTA
1 ATAATTTTTA
13920239 ATA
1 ATA
13920242 CTTTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 8 0.32
9 8 0.32
10 9 0.36
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:13920234 original size:17 final size:18
Alignment explanation
Indices: 13920202--13920235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13920192 CATTCTAAAC
*
13920202 ATAATTTTTAATAATTTA
1 ATAATTTCTAATAATTTA
13920220 ATAATTTCT-ATAATTT
1 ATAATTTCTAATAATTT
13920236 TTAATACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATAATTTCTAATAATTTA
Found at i:13920675 original size:22 final size:22
Alignment explanation
Indices: 13920647--13920696 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13920637 AATTATTTTA
13920647 TCAAATTCC-TCTC-AATTTGCTC
1 TCAAATTCCTTC-CAAATTT-CTC
13920669 TCAAATTCCTTCCAAATTTCTC
1 TCAAATTCCTTCCAAATTTCTC
13920691 TCAAAT
1 TCAAAT
13920697 CCATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAAATTCCTTCCAAATTTCTC
Found at i:13920695 original size:11 final size:11
Alignment explanation
Indices: 13920647--13920696 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
13920637 AATTATTTTA
13920647 TCAAATTCCTC
1 TCAAATTCCTC
* *
13920658 TCAATTTGCTC
1 TCAAATTCCTC
13920669 TCAAATTCCT-
1 TCAAATTCCTC
*
13920679 TCCAAATTTCTC
1 T-CAAATTCCTC
13920691 TCAAAT
1 TCAAAT
13920697 CCATATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 30 0.94
12 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (11 bp):
TCAAATTCCTC
Found at i:13920714 original size:51 final size:51
Alignment explanation
Indices: 13920656--13920755 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
13920646 ATCAAATTCC
13920656 TCTCAATTTGCTCTCAA-ATTC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATATTCTCTT--AAATTTCTCTCAAATCCATATTTAA
* * *
13920707 TCTCAATTTGCTCTCAATTTTCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATATTCTCTTAAATTTCTCTCAAATCCATATTT
13920756 TTAAATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 38 0.86
52 3 0.07
53 3 0.07
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATATTCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:13920974 original size:125 final size:125
Alignment explanation
Indices: 13920823--13921120 Score: 390
Period size: 125 Copynumber: 2.4 Consensus size: 125
13920813 GATAAGTGCA
*
13920823 TCCACGTA-GGCGTGATTTCACAAATTCTTCTGATAAAGCATCTTGCTTGAAG-CGTTTTTATAC
1 TCCACG-AGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCTTGCTTGAAGTAGTTTTTATAC
* * *
13920886 TATTTGCTCAGAAACGTCAACT-C-AAATTTTTTTTTTCTAGGACCTACTATAGCAAAAGCGCG
65 TATTTGCTCAGAAACGTCAA-TGCGAAA-TTATTTTTGC-AAGACCTACTATAGCAAAAGCGCG
* * *
13920948 TCCACGAGGGCGTGATTTCACAAATTCTTTTCATAAAGCATCTTGCTTGAAGTATTTTTTATACT
1 TCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCTTGCTTGAAGTAGTTTTTATACT
*
13921013 ATTTGCTCAGAAACGTCAATGCGAAATTATTTTTGCAAGACCTACTGTAGCAAAAGCGCG
66 ATTTGCTCAGAAACGTCAATGCGAAATTATTTTTGCAAGACCTACTATAGCAAAAGCGCG
** * * * *
13921073 TAGACGTGGGCGCGACTTT-AGAAATTCTTCTGATAAAGCATCCTGCTT
1 TCCACGAGGGCGTGA-TTTCACAAATTCTTCTGATAAAGCATCTTGCTT
13921121 TGATTTTATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
124 1 0.01
125 107 0.70
126 41 0.27
127 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (125 bp):
TCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCTTGCTTGAAGTAGTTTTTATACT
ATTTGCTCAGAAACGTCAATGCGAAATTATTTTTGCAAGACCTACTATAGCAAAAGCGCG
Found at i:13922637 original size:96 final size:95
Alignment explanation
Indices: 13922501--13922817 Score: 394
Period size: 96 Copynumber: 3.3 Consensus size: 95
13922491 GGTTTTAGAT
* * * *
13922501 TTTAGGG-TTTTAAAG-AAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAA-TAAATTAATTAT
13922564 AAATTTT-AAAAATTAGATTAGGGTTTAGCG
65 AAATTTTAAAAAATTAGATTAGGGTTTAGCG
* * * * *
13922594 TTTATGATTTTTAAGGAAAAAAATCAAATAAATTAGGGATTAGGGTTACTTGAGTAAATTAATTT
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTT-AATAAATTAATTA
* *
13922659 TAAATTTTAAAAAAATT-GATTAGTGTTTAGGG
64 TAAATTTT-AAAAAATTAGATTAGGGTTTAGCG
*
13922691 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTGAATAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTT-AATAAATTAATTAT
* **
13922756 AAATTTTGAAAAAAATAGATT-GGAGTTTAGTA
65 AAATTTT-AAAAAATTAGATTAGG-GTTTAGCG
13922788 TTTAGGGTTTTTAAGG-AAAAATCAAATAAA
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAA
13922818 GGTAGTTGTT
Statistics
Matches: 194, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
93 5 0.03
94 7 0.04
96 121 0.62
97 54 0.28
98 7 0.04
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.38
Consensus pattern (95 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAATAAATTAATTATA
AATTTTAAAAAATTAGATTAGGGTTTAGCG
Found at i:13926915 original size:2 final size:2
Alignment explanation
Indices: 13926908--13926936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13926898 CAAGCTCTAA
13926908 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13926937 TTTTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13929543 original size:37 final size:37
Alignment explanation
Indices: 13929500--13929591 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 37
13929490 AATTTGGAGA
*
13929500 GTTGTTTTCTTGATATTATTTGAGATTGATTCAAAAG
1 GTTGTTTTCTTGATATTATTTAAGATTGATTCAAAAG
* * *
13929537 TTTGTTTTCTTAATATTATTTAAGATTGATTCAAAGG
1 GTTGTTTTCTTGATATTATTTAAGATTGATTCAAAAG
*
13929574 GTTATTTTCTTGATATTA
1 GTTGTTTTCTTGATATTA
13929592 ATGTTGTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.52
Consensus pattern (37 bp):
GTTGTTTTCTTGATATTATTTAAGATTGATTCAAAAG
Found at i:13932258 original size:2 final size:2
Alignment explanation
Indices: 13932251--13932278 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13932241 TGTTGTCTAC
13932251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13932279 GTAACGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13936721 original size:13 final size:13
Alignment explanation
Indices: 13936703--13936754 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13936693 TATTAAAACA
13936703 TTAAAAATTTATT
1 TTAAAAATTTATT
*
13936716 TTAAAAATACTTTTT
1 TTAAAAAT--TTATT
**
13936731 TTAAAAAAGTATT
1 TTAAAAATTTATT
13936744 TTAAAATATTT
1 TTAAAA-ATTT
13936755 TAATATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 17 0.57
14 2 0.07
15 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TTAAAAATTTATT
Found at i:13941206 original size:37 final size:37
Alignment explanation
Indices: 13941165--13941248 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
13941155 TTACGAATTA
13941165 ATTAGCTCTTCGGAGCATCTGGCGTGTTTATAGA-TGG
1 ATTAGCTCTTCGGAGCATCTGGCGTGTTT-TAGATTGG
* * *
13941202 ATTAGCTCTTCGGAGCATTTGGTGTGTTTTCGATTGG
1 ATTAGCTCTTCGGAGCATCTGGCGTGTTTTAGATTGG
13941239 ATTAGCTCTT
1 ATTAGCTCTT
13941249 ATGAGCGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 3 0.07
37 40 0.93
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.40
Consensus pattern (37 bp):
ATTAGCTCTTCGGAGCATCTGGCGTGTTTTAGATTGG
Found at i:13941278 original size:36 final size:37
Alignment explanation
Indices: 13941165--13941267 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
13941155 TTACGAATTA
* * * *
13941165 ATTAGCTCTTCGGAGCATCTGGCGTGTTTATAGA-TGG
1 ATTAGCTCTTAGGAGCATTTGACGTGTTT-TCGATTGG
* **
13941202 ATTAGCTCTTCGGAGCATTTGGTGTGTTTTCGATTGG
1 ATTAGCTCTTAGGAGCATTTGACGTGTTTTCGATTGG
* *
13941239 ATTAGCTCTTATGAGCGTTTGACGTGTTT
1 ATTAGCTCTTAGGAGCATTTGACGTGTTT
13941268 CGTGTGGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 3 0.05
37 54 0.95
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.41
Consensus pattern (37 bp):
ATTAGCTCTTAGGAGCATTTGACGTGTTTTCGATTGG
Found at i:13950040 original size:35 final size:35
Alignment explanation
Indices: 13950004--13950211 Score: 265
Period size: 35 Copynumber: 5.9 Consensus size: 35
13949994 TCAGTTAGAT
* * *
13950004 TAGCTCTTATGAGCATTGGCGTGTTACGATTGGAT
1 TAGCTCTTATGAGCACTGGCGTGTTACGGTTGGAC
* *
13950039 TAGCTCTTATGAGCA-TTGCTCTGTTACGGTTGGAC
1 TAGCTCTTATGAGCACTGGC-GTGTTACGGTTGGAC
*
13950074 TAGCTCTTATGAGCACTGGCGTGTTTCGGTTGGAC
1 TAGCTCTTATGAGCACTGGCGTGTTACGGTTGGAC
* *
13950109 TAACTCTTATGAGCACTGGCGTGTTTCGGTTGGAC
1 TAGCTCTTATGAGCACTGGCGTGTTACGGTTGGAC
* * * * *
13950144 TAACTCTTATGAGCACTGGCGTGTTTCGATTGAAT
1 TAGCTCTTATGAGCACTGGCGTGTTACGGTTGGAC
* *
13950179 TAGCTCTTATGAGCATTGGCGTGTTATGGTTGG
1 TAGCTCTTATGAGCACTGGCGTGTTACGGTTGG
13950212 GTTGACGATG
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
34 3 0.02
35 148 0.96
36 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (35 bp):
TAGCTCTTATGAGCACTGGCGTGTTACGGTTGGAC
Found at i:13953554 original size:21 final size:21
Alignment explanation
Indices: 13953513--13953555 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
13953503 AGGTAAGTTG
13953513 ATTTGTTATGATTGTGATTAA
1 ATTTGTTATGATTGTGATTAA
13953534 ATTT-TTATGTATT-TGAGTTAA
1 ATTTGTTATG-ATTGTGA-TTAA
13953555 A
1 A
13953556 AATATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
ATTTGTTATGATTGTGATTAA
Found at i:13960839 original size:45 final size:45
Alignment explanation
Indices: 13960790--13960902 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
13960780 AACGTTTTTT
*
13960790 AGCTATGGTCTTATTCATTTTTATCATGACGCCATAACATCTTTC
1 AGCTATGGTCTTACTCATTTTTATCATGACGCCATAACATCTTTC
* *
13960835 AGCTATGGTCTTACTCATTTTTATCATGATGTCATAACATCTTTC
1 AGCTATGGTCTTACTCATTTTTATCATGACGCCATAACATCTTTC
*
13960880 AGCTATGATCTTACTCATTTTTA
1 AGCTATGGTCTTACTCATTTTTA
13960903 GGCGTATAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (45 bp):
AGCTATGGTCTTACTCATTTTTATCATGACGCCATAACATCTTTC
Found at i:13965695 original size:4 final size:4
Alignment explanation
Indices: 13965686--13965715 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13965676 CCTAGGGATG
13965686 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
13965716 ACGGCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:13969323 original size:19 final size:19
Alignment explanation
Indices: 13969314--13969350 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13969304 TTGATACTAG
13969314 GCAAGGGTATCGATACCAA
1 GCAAGGGTATCGATACCAA
*
13969333 GCAGGGGTATCGATACCA
1 GCAAGGGTATCGATACCA
13969351 TATAGAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (19 bp):
GCAAGGGTATCGATACCAA
Found at i:13972695 original size:17 final size:19
Alignment explanation
Indices: 13972658--13972696 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13972648 ATACAATTTA
*
13972658 TTATTTTAATATTTCAATT
1 TTATTTTAATATATCAATT
13972677 TTATTTTAATA-AT-AATT
1 TTATTTTAATATATCAATT
13972694 TTA
1 TTA
13972697 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTAATATATCAATT
Found at i:13973852 original size:18 final size:18
Alignment explanation
Indices: 13973811--13973852 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
13973801 ATATAAACTA
*
13973811 AAAAATACAAAATATTAT
1 AAAAATACAAAATATTCT
*
13973829 AAAAATATAAAA-ATTCT
1 AAAAATACAAAATATTCT
13973846 AATAAAT
1 AA-AAAT
13973853 TATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATACAAAATATTCT
Found at i:13973937 original size:9 final size:9
Alignment explanation
Indices: 13973915--13973984 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
13973905 AAAACTCTAT
13973915 AAAATTCATA
1 AAAATT-ATA
13973925 AAAATTATA
1 AAAATTATA
** *
13973934 AAAAAAATT
1 AAAATTATA
* * *
13973943 AGAAGTATT
1 AAAATTATA
13973952 AAAATTGATA
1 AAAATT-ATA
*
13973962 TAAACTTATA
1 -AAAATTATA
13973972 AAAATTATA
1 AAAATTATA
13973981 AAAA
1 AAAA
13973985 AATCATAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
9 31 0.66
10 11 0.23
11 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:13974134 original size:6 final size:7
Alignment explanation
Indices: 13974115--13974140 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13974105 GATTTTTTAA
13974115 TATTTTT
1 TATTTTT
13974122 TATTTTT
1 TATTTTT
13974129 TATTTTT
1 TATTTTT
13974136 TATTT
1 TATTT
13974141 AATTGAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:13974798 original size:4 final size:4
Alignment explanation
Indices: 13974791--13974828 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
13974781 GTATTTATTA
*
13974791 TTTG TTTG TTTG TTTG TTTG TTTG TTTG CTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
13974829 ATTCATTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.74
Consensus pattern (4 bp):
TTTG
Found at i:13975110 original size:18 final size:19
Alignment explanation
Indices: 13975064--13975119 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
13975054 AAATTAGATT
13975064 TTTTATAAAAATCGTAAAA
1 TTTTATAAAAATCGTAAAA
** * *
13975083 AATAAAAAAAAT-GTAAAA
1 TTTTATAAAAATCGTAAAA
*
13975101 TTTTATAAAAATCATAAAA
1 TTTTATAAAAATCGTAAAA
13975120 AAATTAACGG
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
TTTTATAAAAATCGTAAAA
Found at i:13975382 original size:18 final size:18
Alignment explanation
Indices: 13975361--13975400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13975351 TTTTATATTT
*
13975361 TTTTACGTTTTTATAAAA
1 TTTTACATTTTTATAAAA
* *
13975379 TTTTACATTTTTTTATAA
1 TTTTACATTTTTATAAAA
13975397 TTTT
1 TTTT
13975401 TAATAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTACATTTTTATAAAA
Found at i:13976268 original size:14 final size:14
Alignment explanation
Indices: 13976249--13976276 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13976239 ATGACCCTTT
13976249 TCCACGTCAGCGCG
1 TCCACGTCAGCGCG
13976263 TCCACGTCAGCGCG
1 TCCACGTCAGCGCG
13976277 ATGTCAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (14 bp):
TCCACGTCAGCGCG
Found at i:13976866 original size:125 final size:124
Alignment explanation
Indices: 13976642--13976928 Score: 457
Period size: 125 Copynumber: 2.3 Consensus size: 124
13976632 ATTTATTAAG
* * * * *
13976642 GAAATCGCTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCAGAAATATAATTTCGAGTTGACG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCAGAAAAATAATTTCAAGTTGACA
* *
13976707 TTTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGTTTTATAAGAAGAATTTCT
66 TTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTCT
*
13976766 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCAG-AAAAATAATTTCAAGTTGAC
* *
13976831 ATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
65 ATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTCT
* *
13976891 GAAATCGCTCCCACATGGATGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
13976929 CATGTTTGGG
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 41 0.27
125 109 0.73
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCAGAAAAATAATTTCAAGTTGACA
TTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTCT
Found at i:13979576 original size:49 final size:49
Alignment explanation
Indices: 13979521--13979641 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
13979511 TAAGAATATT
13979521 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
13979570 AACTATTTTGTATTTTATTACAGCAAATAATATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
13979619 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
13979642 TAATATAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:13981780 original size:11 final size:11
Alignment explanation
Indices: 13981766--13981851 Score: 58
Period size: 11 Copynumber: 8.3 Consensus size: 11
13981756 GAGAAATTTA
13981766 AGAGGAAATTG
1 AGAGGAAATTG
*
13981777 AGAGCAAATTG
1 AGAGGAAATTG
**
13981788 AGATTAAA-T-
1 AGAGGAAATTG
* *
13981797 A-TGG-ATTTG
1 AGAGGAAATTG
13981806 AGA-GAAATTG
1 AGAGGAAATTG
13981816 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
13981827 AGAGTAATTTG
1 AGAGGAAATTG
13981838 AGAGGAAATTG
1 AGAGGAAATTG
13981849 AGA
1 AGA
13981852 AATGATTAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 4 0.07
10 6 0.11
11 42 0.76
12 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:13981828 original size:21 final size:22
Alignment explanation
Indices: 13981803--13981851 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
13981793 AAATATGGAT
13981803 TTGAGAGAAATTGGA-AGGAAA
1 TTGAGAGAAATTGGAGAGGAAA
* *
13981824 TTGAGAGTAATTTGAGAGGAAA
1 TTGAGAGAAATTGGAGAGGAAA
13981846 TTGAGA
1 TTGAGA
13981852 AATGATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTGGAGAGGAAA
Found at i:13982641 original size:27 final size:27
Alignment explanation
Indices: 13982611--13982665 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13982601 TTACTAAATG
*
13982611 AGTATTCTTTTTTAATTTTAAAATCTT
1 AGTATTCCTTTTTAATTTTAAAATCTT
13982638 AGTATTCCTTTTTAATTTTAAAATCTT
1 AGTATTCCTTTTTAATTTTAAAATCTT
13982665 A
1 A
13982666 CATCAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (27 bp):
AGTATTCCTTTTTAATTTTAAAATCTT
Found at i:13987972 original size:25 final size:25
Alignment explanation
Indices: 13987938--13987992 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
13987928 GCTCACCAAA
13987938 GAAGGTTCGCCCTAGAGAATTCCAT
1 GAAGGTTCGCCCTAGAGAATTCCAT
13987963 GAAGGTTCGCCCTAGAGAATTCCAT
1 GAAGGTTCGCCCTAGAGAATTCCAT
13987988 GAAGG
1 GAAGG
13987993 GGACCTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (25 bp):
GAAGGTTCGCCCTAGAGAATTCCAT
Found at i:13989542 original size:45 final size:44
Alignment explanation
Indices: 13989420--13989558 Score: 129
Period size: 45 Copynumber: 3.1 Consensus size: 44
13989410 AACAAATCAG
* * * * * *
13989420 TGAAGATAGCAGATCTTGCCTTCCTACACTGACAGTGAAGTAGA
1 TGAAGATAACAAATCTTACTTTCCTATACTGACAGTGAAGCAGA
* * * *
13989464 TCGAAGACAAC-AACCTTACCTTT-CTGTACTGACAGTGGAGCAGA
1 T-GAAGATAACAAATCTTA-CTTTCCTATACTGACAGTGAAGCAGA
*
13989508 CTGAAGATAACAAATCTTACTTTCCTATACTGACAGCGAAGCAGA
1 -TGAAGATAACAAATCTTACTTTCCTATACTGACAGTGAAGCAGA
13989553 TCGAAG
1 T-GAAG
13989559 GCACTAGCCT
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
44 35 0.47
45 39 0.53
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
TGAAGATAACAAATCTTACTTTCCTATACTGACAGTGAAGCAGA
Found at i:13989580 original size:89 final size:89
Alignment explanation
Indices: 13989420--13990010 Score: 605
Period size: 89 Copynumber: 6.6 Consensus size: 89
13989410 AACAAATCAG
* * ** * * * * *
13989420 TGAAGATAGCAGATCTTGCCTTCCTACACTGACAGTGAAGTAGATCGAAGACAACAACCTTACCT
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
13989485 TTCTGTACTGACAGTGGAGCAGAC
66 TCCTGTACTGACAGTGGAGCAGAC
* * * * *
13989509 TGAAGATAACAAATCTTACTTTCCTATACTGACAGCGAAGCAGATCGAAGGCACTAGCCTTGCCT
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
13989574 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGTGGAGCAGAC
* ** * *
13989598 TAAAGATAGTAAATCTTGCCTTCCTTGTACTGATAGCGAAGCAGATCGAAGGCACCAGCCTTGCC
1 TGAAGATAACAAATCTTGCCTTCC-TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
13989663 TTCCTGTACTAACAGTGAAGCAGAC
65 TTCCTGTACTGACAGTGGAGCAGAC
* * *
13989688 TGAAGATAACAAATATTGCCTTTCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
13989753 CCCTAGGT-TTG-CAGCGGAGCAGAC
66 TCCT--GTACTGACAGTGGAGCAGAC
* * * *
13989777 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCT
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
13989842 TCCTGTAATGACAGTGAAGTAGAT
66 TCCTGTACTGACAGTGGAGCAGAC
* * * ** * *
13989866 TGAAGATAACAGATATTGCCTTCTTGTACTGATTGCGAAGAAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * *
13989931 CCCTGGGT-TTG-TAGCGGAGCAAAC
66 TCCT--GTACTGACAGTGGAGCAGAC
* * * * * * *
13989955 TAAAGATAGCAGATCTTGCCTTCTTGTATTAACAGCAAAGCAGATCGAAGACACCA
1 TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
13990011 TAGTTTACAG
Statistics
Matches: 420, Mismatches: 75, Indels: 14
0.83 0.15 0.03
Matches are distributed among these distances:
87 2 0.00
88 2 0.00
89 331 0.79
90 81 0.19
91 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
TGAAGATAACAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGTGGAGCAGAC
Found at i:13989661 original size:45 final size:44
Alignment explanation
Indices: 13989433--13989935 Score: 334
Period size: 44 Copynumber: 11.3 Consensus size: 44
13989423 AGATAGCAGA
** * * * *
13989433 TCTTGCCTTCCTACACTGACAGTGAAGTAGATCGAAGACAACAA
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * * * * * * *
13989477 CCTTACCTTTCTGTACTGACAGTGGAGCAGA-CTGAAGATAACAAA
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGA-CACCAG
* * * * *
13989522 TCTTACTTTCCTATACTGACAGCGAAGCAGATCGAAGGCACTAG
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * * * ** *
13989566 CCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTAAAGATAGTAAA
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACA-CCAG
* *
13989611 TCTTGCCTTCCTTGTACTGATAGCGAAGCAGATCGAAGGCACCAG
1 TCTTGCCTTCC-TGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * * * * *
13989656 CCTTGCCTTCCTGTACTAACAGTGAAGCAGA-CTGAAGATAACAAA
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGA-CACCAG
* * *
13989701 TATTGCCTTTCTGTACTGACAACGAAGCAGATCGAAGACACCAG
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * * * * *
13989745 CCTTGCCTCCCTAGGT-TTG-CAGCGGAGCAGA-CTGAAGATAGCAG
1 TCTTGCCTTCCT--GTACTGACAGCGAAGCAGATC-GAAGACACCAG
* *
13989789 ATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGGCACCAG
1 -TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * * * * * *
13989834 CCTTGCCTTCCTGTAATGACAGTGAAGTAGATTGAAGATAACAG
1 TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
* * ** *
13989878 ATATTGCCTTCTTGTACTGATTGCGAAGAAGATCGAAGACACCAG
1 -TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
*
13989923 TCTTGCCTCCCTG
1 TCTTGCCTTCCTG
13989936 GGTTTGTAGC
Statistics
Matches: 344, Mismatches: 97, Indels: 36
0.72 0.20 0.08
Matches are distributed among these distances:
43 6 0.02
44 160 0.47
45 150 0.44
46 27 0.08
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
TCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAG
Found at i:13989775 original size:44 final size:44
Alignment explanation
Indices: 13989535--13989932 Score: 220
Period size: 45 Copynumber: 8.9 Consensus size: 44
13989525 TACTTTCCTA
* *
13989535 TACTGACAGCGAAGCAGATCGAAGGCACTAGCCTTGCCTTCCT-G
1 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC-TCCTGG
* * * ** ** *
13989579 TACTGACAGCGGAGCAGA-CTAAAGATAGTAAATCTTGCCTTCCTTG
1 TACTGACAGCGAAGCAGATC-GAAGACA-CCAGCCTTGCC-TCCTGG
* *
13989625 TACTGATAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTTCCT-G
1 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC-TCCTGG
* * * * *** *
13989669 TACTAACAGTGAAGCAGA-CTGAAGATAACAAATATTGCCTTTCT-G
1 TACTGACAGCGAAGCAGATC-GAAGA-CACCAGCCTTGCC-TCCTGG
*
13989714 TACTGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGG
1 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT-CCT-GG
* * * * * * *
13989760 T-TTG-CAGCGGAGCAGA-CTGAAGATAGCAGATCTTGCCTTCTTG
1 TACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTGCCTCCTGG
*
13989803 TACTGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTTCCT-G
1 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC-TCCTGG
* * * * * * ** * *
13989847 TAATGACAGTGAAGTAGATTGAAGATAACAGATATTGCCTTCTTG
1 TACTGACAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCTGG
** * *
13989892 TACTGATTGCGAAGAAGATCGAAGACACCAGTCTTGCCTCC
1 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
13989933 CTGGGTTTGT
Statistics
Matches: 265, Mismatches: 71, Indels: 36
0.71 0.19 0.10
Matches are distributed among these distances:
43 6 0.02
44 116 0.44
45 117 0.44
46 25 0.09
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (44 bp):
TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTGG
Found at i:13989884 original size:178 final size:177
Alignment explanation
Indices: 13989422--13990010 Score: 752
Period size: 178 Copynumber: 3.3 Consensus size: 177
13989412 CAAATCAGTG
* ** * * * * * *
13989422 AAGATAGCAGATCTTGCCTTCCTACACTGACAGTGAAGTAGATCGAAGACAACAACCTTACCTTT
1 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
* * * *
13989487 CTGTACTGACAGTGGAGCAGACTGAAGATAACAAATCTT-ACTTTCCTATACTGACAGCGAAGCA
66 CTGTACTGACAGTGAAGCAGACTGAAGATAACAAATATTGCCTTT-CTGTACTGACAGCGAAGCA
* * * *
13989551 GATCGAAGGCACTAGCCTTGCCTTCCT-GTACTGACAGCGGAGCAGACTA
130 GATCGAAGACACCAGCCTTGCCTCCCTGGT-TTG-CAGCGGAGCAGACTA
* * * *
13989600 AAGATAGTAAATCTTGCCTTCCTTGTACTGATAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTT
1 AAGATAGCAGATCTTGCCTT-CTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTT
* *
13989665 CCTGTACTAACAGTGAAGCAGACTGAAGATAACAAATATTGCCTTTCTGTACTGACAACGAAGCA
65 CCTGTACTGACAGTGAAGCAGACTGAAGATAACAAATATTGCCTTTCTGTACTGACAGCGAAGCA
*
13989730 GATCGAAGACACCAGCCTTGCCTCCCTAGGTTTGCAGCGGAGCAGACTG
130 GATCGAAGACACCAGCCTTGCCTCCCT-GGTTTGCAGCGGAGCAGACTA
*
13989779 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
* * * * ** *
13989844 CTGTAATGACAGTGAAGTAGATTGAAGATAACAGATATTGCC-TTCTTGTACTGATTGCGAAGAA
66 CTGTACTGACAGTGAAGCAGACTGAAGATAACAAATATTGCCTTTC-TGTACTGACAGCGAAGCA
* * *
13989908 GATCGAAGACACCAGTCTTGCCTCCCTGGGTTTGTAGCGGAGCAAACTA
130 GATCGAAGACACCAGCCTTGCCTCCCT-GGTTTGCAGCGGAGCAGACTA
* * *
13989957 AAGATAGCAGATCTTGCCTTCTTGTATTAACAGCAAAGCAGATCGAAGACACCA
1 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCA
13990011 TAGTTTACAG
Statistics
Matches: 361, Mismatches: 45, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
177 3 0.01
178 207 0.57
179 143 0.40
180 6 0.02
181 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (177 bp):
AAGATAGCAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
CTGTACTGACAGTGAAGCAGACTGAAGATAACAAATATTGCCTTTCTGTACTGACAGCGAAGCAG
ATCGAAGACACCAGCCTTGCCTCCCTGGTTTGCAGCGGAGCAGACTA
Found at i:13990195 original size:44 final size:44
Alignment explanation
Indices: 13990099--13990477 Score: 158
Period size: 44 Copynumber: 8.6 Consensus size: 44
13990089 AACAGATCTC
* ** * *
13990099 ATCTCTCTGAAGTTGCAGTAGAGCAG---ATCATATCAAACTTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGTTAAAGATAGCAAACCTT
*
13990140 ATCTCTCTGAAGTTGCAGTAGAGCATGTTAAAG-TAGCAAACCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCA-GTTAAAGATAGCAAACCTT
* * * ***
13990184 ATC-CCCATGAAGTTGCAGTGGGGCAAGTTGAAGATA-CAAGTGTT
1 ATCTCCC-TGAAGTTGCAGTAGAGC-AGTTAAAGATAGCAAACCTT
* * *
13990228 ATCTCCCTGAAGTTGCAGTAAAGTAGATTAAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAG-TTAAAGATAGCAAACCTT
* * * * * *
13990273 ATTTCCTTGAAGTTGCAGTGGAACGGATTAAAGCTATAG-ATAACAGATCTC
1 ATCTCCCTGAAGTTGCAGTAGAGCAG-TTAAAG--ATAGCA-AAC----CTT
* * * ** * *
13990324 ATCTCTCTAAAGTTACAGTAGAGCAG---ATCATATCAAACTTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGTTAAAGATAGCAAACCTT
* * * *
13990365 ATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-TAGCAAACATT
1 ATCTCCCTGAAGTTGCAGTAGAGCA-GTTAAAGATAGCAAACCTT
* * * * * *
13990409 ATCTCCCT-AAGTCGTAGTGGAGCAAGTTGAAGCA-A-CGAGCCTT
1 ATCTCCCTGAAGTTGCAGTAGAGC-AGTTAAAG-ATAGCAAACCTT
*
13990452 ATCTCCCT-AATGTTACAGTAGAGCAG
1 ATCTCCCTGAA-GTTGCAGTAGAGCAG
13990478 ACTAAAACCA
Statistics
Matches: 253, Mismatches: 59, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
41 48 0.19
42 2 0.01
43 39 0.15
44 89 0.35
45 46 0.18
46 2 0.01
47 7 0.03
51 20 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGTTAAAGATAGCAAACCTT
Found at i:13991957 original size:3 final size:3
Alignment explanation
Indices: 13991933--13992022 Score: 56
Period size: 3 Copynumber: 28.7 Consensus size: 3
13991923 TTTAATAGTG
* * * * * * *
13991933 TTA TAA TTA TTT TTA CTA TTA TTA TTT TTAA ATA TTA CTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
*
13991979 TTA TTA -TA TTTA TTA TTA TTA CTTA CCTTA TTA TTA TAA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA -TTA --TTA TTA TTA TTA TTA TT
13992023 TACTCATTCA
Statistics
Matches: 66, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
2 2 0.03
3 54 0.82
4 6 0.09
5 4 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:13991958 original size:15 final size:15
Alignment explanation
Indices: 13991938--13991999 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
13991928 TAGTGTTATA
13991938 ATTATTTTTACTATT
1 ATTATTTTTACTATT
*
13991953 ATTATTTTTA--AAT
1 ATTATTTTTACTATT
* *
13991966 ATTACTATTACTATT
1 ATTATTTTTACTATT
* *
13991981 ATTATATTTATTATT
1 ATTATTTTTACTATT
13991996 ATTA
1 ATTA
13992000 CTTACCTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 10 0.27
15 27 0.73
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTTTTACTATT
Found at i:13991999 original size:30 final size:28
Alignment explanation
Indices: 13991945--13992022 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
13991935 ATAATTATTT
*
13991945 TTACTATTATTAT-TTT-TAAATATTAC
1 TTACTATTATTATATTTATTAATATTAC
*
13991971 TATTACTATTATTATATTTATTATTATTAC
1 --TTACTATTATTATATTTATTAATATTAC
*
13992001 TTACCTTATTATTATAATTATT
1 TTA-C-TATTATTATATTTATT
13992023 TACTCATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 16 0.37
29 4 0.09
30 23 0.53
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (28 bp):
TTACTATTATTATATTTATTAATATTAC
Found at i:13992279 original size:39 final size:41
Alignment explanation
Indices: 13992203--13992292 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 41
13992193 ATATATATCT
* *
13992203 ATATACATATTTTTTATTTTCATGAATATATAAATACATAC
1 ATATATATATTTTATATTTTCATGAATATATAAATACATAC
* * * *
13992244 TTATATATATTTTATATTTT-AT-AATTTTTATATACATAC
1 ATATATATATTTTATATTTTCATGAATATATAAATACATAC
*
13992283 ATACATATAT
1 ATATATATAT
13992293 ATATATATAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 22 0.54
40 2 0.05
41 17 0.41
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (41 bp):
ATATATATATTTTATATTTTCATGAATATATAAATACATAC
Found at i:13992297 original size:20 final size:20
Alignment explanation
Indices: 13992272--13992314 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
13992262 TTATAATTTT
13992272 TATATACATACATACATATA
1 TATATACATACATACATATA
* *
13992292 TATATATATACATGCATATA
1 TATATACATACATACATATA
13992312 TAT
1 TAT
13992315 CCTTTTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (20 bp):
TATATACATACATACATATA
Found at i:13992804 original size:73 final size:72
Alignment explanation
Indices: 13992689--13992830 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 72
13992679 TCTTTTTAAA
* * *
13992689 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCC
13992754 TTTTTTC
66 TTTTTTC
* *
13992761 CTCAAGTTTTTAAATGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTAGGCATGATCC
1 CTCAAG-TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCC
13992826 CTTTT
65 CTTTT
13992831 CTAAACCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 6 0.09
73 58 0.91
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCC
TTTTTTC
Found at i:13994411 original size:17 final size:17
Alignment explanation
Indices: 13994391--13994428 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13994381 TTTTTTTTTT
**
13994391 TTTTTTTTACCTTTAAA
1 TTTTTTTTAAATTTAAA
13994408 TTTTTTTTAAATTTAAA
1 TTTTTTTTAAATTTAAA
13994425 TTTT
1 TTTT
13994429 GCAGATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTTTAAATTTAAA
Found at i:14000509 original size:59 final size:60
Alignment explanation
Indices: 14000340--14000522 Score: 196
Period size: 59 Copynumber: 3.1 Consensus size: 60
14000330 ATTTGACAAA
* * * *
14000340 TACCAAATCGAA-C-AAAAAAA-A-TAGGTACCAAATTAGGAAAAAGAGTCATGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
* * * *
14000396 TACCAAATCAAACCTTAAAAAAGATTAAGTACCAACTTAATAAAAAGTGTCAAGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
*** * * * *
14000456 TACCAAATTGGACC-AAAAAAAGTTTAGGTATCAAATTAAGAGAAAGTGTCAAGTTTAGA
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
14000515 TACCAAAT
1 TACCAAAT
14000523 ATTATATTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 11 0.11
57 1 0.01
58 6 0.06
59 46 0.44
60 40 0.38
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (60 bp):
TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
Found at i:14000618 original size:19 final size:19
Alignment explanation
Indices: 14000596--14000633 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14000586 TTAAGTACAT
*
14000596 TTGTTTTATTTATTTAATG
1 TTGTTTCATTTATTTAATG
*
14000615 TTGTTTCATTTTTTTAATG
1 TTGTTTCATTTATTTAATG
14000634 AATTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.68
Consensus pattern (19 bp):
TTGTTTCATTTATTTAATG
Found at i:14000688 original size:19 final size:19
Alignment explanation
Indices: 14000664--14000704 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14000654 AATAAACATG
* *
14000664 TTATTTTCACTTTTTTATT
1 TTATTTTCAATTTTTAATT
*
14000683 TTATTTTTAATTTTTAATT
1 TTATTTTCAATTTTTAATT
14000702 TTA
1 TTA
14000705 ATTAATAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTCAATTTTTAATT
Done.