Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 60 of 378
Found at i:15306353 original size:20 final size:20
Alignment explanation
Indices: 15306328--15306367 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15306318 AAAATGTGTT
15306328 TTGACTAGCTGTTAATTCTG
1 TTGACTAGCTGTTAATTCTG
*
15306348 TTGACTAGCTGTTGATTCTG
1 TTGACTAGCTGTTAATTCTG
15306368 CTCGCAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (20 bp):
TTGACTAGCTGTTAATTCTG
Found at i:15307806 original size:15 final size:16
Alignment explanation
Indices: 15307780--15307809 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15307770 CATTTCCAGC
15307780 TCATTAATCTTATACT
1 TCATTAATCTTATACT
15307796 TCATT-ATCTTATAC
1 TCATTAATCTTATAC
15307810 CGTTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (16 bp):
TCATTAATCTTATACT
Found at i:15309341 original size:21 final size:20
Alignment explanation
Indices: 15309298--15309344 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15309288 TTTAGCACAC
*
15309298 TAAAAAAACCCTAAAACCCT
1 TAAAAAAACCCTAAAACCAT
* *
15309318 TAAAAAAACTCTAAATCCAAT
1 TAAAAAAACCCTAAAACC-AT
15309339 TAAAAA
1 TAAAAA
15309345 GTTTTCACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (20 bp):
TAAAAAAACCCTAAAACCAT
Found at i:15323085 original size:5 final size:6
Alignment explanation
Indices: 15323070--15323094 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15323060 TAAATTCTCA
15323070 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
15323095 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:15328116 original size:19 final size:19
Alignment explanation
Indices: 15328075--15328125 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
15328065 TTTTATTTTT
* * **
15328075 TAAAATATAAATTTTAATT
1 TAAAATATAAATATAAAAA
15328094 TAAAATATAAATATAAAAA
1 TAAAATATAAATATAAAAA
15328113 TAAAA-ATAAATAT
1 TAAAATATAAATAT
15328126 TTATGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATATAAATATAAAAA
Found at i:15331581 original size:71 final size:71
Alignment explanation
Indices: 15331454--15331596 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
15331444 TTATCCTTTC
15331454 AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
1 AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
15331519 TTATTT
66 TTATTT
*
15331525 AAGAACTCCACATTTATTTTTGTAAGTCTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
1 AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
15331590 TTATTT
66 TTATTT
15331596 A
1 A
15331597 TGATAATTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (71 bp):
AAGAACTCCACATTTATTTTTGTAAGACTATTCCATAATTTATGGAATTTATGAACCACTTTTAT
TTATTT
Found at i:15336246 original size:2 final size:2
Alignment explanation
Indices: 15336239--15336275 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15336229 ATCTTCAATA
15336239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15336276 AACAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15344832 original size:23 final size:23
Alignment explanation
Indices: 15344800--15344855 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
15344790 AAAAAAACTA
* *
15344800 TTGCTTTTTTTTTTACTATTTTC
1 TTGCTCTTTTTTTAACTATTTTC
*
15344823 TTGCTCTTTTTTTAACTATTTTG
1 TTGCTCTTTTTTTAACTATTTTC
15344846 TTGCTACTTT
1 TTGCT-CTTT
15344856 CTTGTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (23 bp):
TTGCTCTTTTTTTAACTATTTTC
Found at i:15344874 original size:33 final size:33
Alignment explanation
Indices: 15344830--15344897 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
15344820 TTCTTGCTCT
* * *
15344830 TTTTTTAACTATTTTGTTGCTA-CTTTCTTGTTG
1 TTTTTTAACTATTATATTGCTATCATT-TTGTTG
*
15344863 TTTTTTCACTATTATATTGCTATCATTTTGTTG
1 TTTTTTAACTATTATATTGCTATCATTTTGTTG
15344896 TT
1 TT
15344898 ATTGTTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (33 bp):
TTTTTTAACTATTATATTGCTATCATTTTGTTG
Found at i:15349360 original size:11 final size:11
Alignment explanation
Indices: 15349344--15349380 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15349334 TGCCAATAAG
15349344 GTTATATGCGC
1 GTTATATGCGC
*
15349355 GTTATAAG-G-
1 GTTATATGCGC
15349364 GTTATATGCGC
1 GTTATATGCGC
15349375 GTTATA
1 GTTATA
15349381 AGGGTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (11 bp):
GTTATATGCGC
Found at i:15349368 original size:20 final size:20
Alignment explanation
Indices: 15349339--15349386 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15349329 TGGCATGCCA
15349339 ATAA-GGTTATATGCGCGTT
1 ATAAGGGTTATATGCGCGTT
15349358 ATAAGGGTTATATGCGCGTT
1 ATAAGGGTTATATGCGCGTT
15349378 ATAAGGGTT
1 ATAAGGGTT
15349387 TTATATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (20 bp):
ATAAGGGTTATATGCGCGTT
Found at i:15353964 original size:42 final size:42
Alignment explanation
Indices: 15353915--15353998 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
15353905 TAGGTTCTGG
* * *
15353915 GTTCGACTCCTTGTGTGTACTTTTTGGAAGAATATTTTTTTA
1 GTTCGACTCATTATATGTACTTTTTGGAAGAATATTTTTTTA
15353957 GTTCGACTCATTATATGTACTTTTTGGAAGAATATTTTTTTA
1 GTTCGACTCATTATATGTACTTTTTGGAAGAATATTTTTTTA
15353999 TTCTCTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.50
Consensus pattern (42 bp):
GTTCGACTCATTATATGTACTTTTTGGAAGAATATTTTTTTA
Found at i:15354706 original size:16 final size:16
Alignment explanation
Indices: 15354682--15354732 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
15354672 ATCATAGAAT
*
15354682 TTTTTAATTTTTTTTA
1 TTTTAAATTTTTTTTA
15354698 TTTTAAA-TTTTTTTA
1 TTTTAAATTTTTTTTA
15354713 TTTTAAATTTTTTTTA
1 TTTTAAATTTTTTTTA
15354729 TTTT
1 TTTT
15354733 TTTGCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTAAATTTTTTTTA
Found at i:15354710 original size:14 final size:15
Alignment explanation
Indices: 15354683--15354732 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
15354673 TCATAGAATT
*
15354683 TTTTAATTTTTTTTA
1 TTTTAAATTTTTTTA
15354698 TTTTAAATTTTTTTA
1 TTTTAAATTTTTTTA
15354713 TTTTAAATTTTTTTTA
1 TTTTAAA-TTTTTTTA
15354729 TTTT
1 TTTT
15354733 TTTGCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTAAATTTTTTTA
Found at i:15355664 original size:137 final size:138
Alignment explanation
Indices: 15355349--15355665 Score: 465
Period size: 137 Copynumber: 2.3 Consensus size: 138
15355339 TTATCTTTGA
* * * * * *
15355349 CATGATGCCATAGTGTCATTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTT
* * **
15355414 TCAACCATGGTCTTATTTTTTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTATTTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
15355479 TTTTATGT
131 TTTCATAT
* * *
15355487 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTT
*
15355552 TCAACCATGGTCTTA-TTCTTTCATGTCACGTTGCCATGGTATTTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTATTTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
15355616 TTTCATAT
131 TTTCATAT
* *
15355624 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
15355666 ATTTCAGAGA
Statistics
Matches: 159, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
137 88 0.55
138 71 0.45
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (138 bp):
CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCATAT
Found at i:15355665 original size:46 final size:46
Alignment explanation
Indices: 15355349--15355667 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
15355339 TTATCTTTGA
* * * * * *
15355349 CATGATGCCATAGTGTCATTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
**
15355395 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
15355441 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
15355487 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
15355533 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
15355578 CACGTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
**
15355624 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
15355668 TTCAGAGAGC
Statistics
Matches: 244, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
45 43 0.18
46 201 0.82
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:15364301 original size:20 final size:20
Alignment explanation
Indices: 15364260--15364301 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
15364250 ATGATATAAC
* *
15364260 ATGTGTAATAGTTGGTATAT
1 ATGTGTAATAGTTGATAGAT
15364280 ATGTGTAATAGTT-ATAAGAT
1 ATGTGTAATAGTTGAT-AGAT
15364300 AT
1 AT
15364302 TTTATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (20 bp):
ATGTGTAATAGTTGATAGAT
Found at i:15364386 original size:14 final size:14
Alignment explanation
Indices: 15364369--15364399 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15364359 ATAATATAGT
15364369 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
15364383 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
15364397 ATA
1 ATA
15364400 GAAAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:15364433 original size:4 final size:4
Alignment explanation
Indices: 15364424--15364502 Score: 61
Period size: 4 Copynumber: 19.2 Consensus size: 4
15364414 AGCAAACGTG
* * * * **
15364424 AGAA AGAA AGAA AGAA AGAA AGAT AGAA AGACT A-AC AGAG AGCAA ACGTG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AG-AA A-GAA
*
15364474 AGAA AGAA AGAA GGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
15364503 TAAAAAAGGG
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
3 1 0.02
4 53 0.90
5 4 0.07
6 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.27, T:0.04
Consensus pattern (4 bp):
AGAA
Found at i:15365318 original size:47 final size:47
Alignment explanation
Indices: 15365254--15365364 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
15365244 GACATTGAGT
* *
15365254 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCAGATTTGTTC
* * * *
15365301 CGATGAAGTACTTTGTGTACTATAATGTTAAGGTTCCAGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
15365348 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
15365365 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
Found at i:15390525 original size:18 final size:20
Alignment explanation
Indices: 15390502--15390541 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
15390492 TGAAAATTTA
*
15390502 AATTTTAGAA-TTA-TTATT
1 AATTTTACAATTTATTTATT
15390520 AATTTTACAATTTATTTATT
1 AATTTTACAATTTATTTATT
15390540 AA
1 AA
15390542 AATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTACAATTTATTTATT
Found at i:15390786 original size:21 final size:21
Alignment explanation
Indices: 15390760--15390809 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
15390750 CACGAGTTTT
15390760 TTTTCAAAAAGTAACATACAC
1 TTTTCAAAAAGTAACATACAC
15390781 TTTTCAAAAAGTAACATACAC
1 TTTTCAAAAAGTAACATACAC
*
15390802 TATTCAAA
1 TTTTCAAA
15390810 TGGGGAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (21 bp):
TTTTCAAAAAGTAACATACAC
Found at i:15391723 original size:21 final size:21
Alignment explanation
Indices: 15391685--15391739 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
15391675 ACCATTATTT
**
15391685 CTAATCTC-CCTGCAACAGTTT
1 CTAATCTCACC-GCAACAGTAA
* *
15391706 TTAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCAACAGTAA
15391727 CTAATCTCACCGC
1 CTAATCTCACCGC
15391740 CACTACTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.27, C:0.35, G:0.09, T:0.29
Consensus pattern (21 bp):
CTAATCTCACCGCAACAGTAA
Found at i:15394170 original size:17 final size:18
Alignment explanation
Indices: 15394125--15394172 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
15394115 AAATAATTAC
15394125 TTTAATTATTAATTATTATA
1 TTTAATT-TT-ATTATTATA
15394145 TTTAATTTTATTATTA-A
1 TTTAATTTTATTATTATA
*
15394162 TTTATTTTTAT
1 TTTAATTTTAT
15394173 AAGTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 2 0.07
20 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATTTTATTATTATA
Found at i:15400725 original size:3 final size:3
Alignment explanation
Indices: 15400717--15400756 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15400707 TAGCATAGAT
15400717 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15400757 GATAGCGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15403516 original size:16 final size:17
Alignment explanation
Indices: 15403491--15403524 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15403481 TATTAATTTT
*
15403491 TTTTTATAAATTTTAAA
1 TTTTTATAAAGTTTAAA
15403508 TTTTT-TAAAGTTTAAA
1 TTTTTATAAAGTTTAAA
15403524 T
1 T
15403525 AGAAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTATAAAGTTTAAA
Found at i:15404505 original size:6 final size:6
Alignment explanation
Indices: 15404494--15404528 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
15404484 CTCACTTTAT
*
15404494 TACTAA TACTAA TGCTAA TACTAA TACTAA TACTA
1 TACTAA TACTAA TACTAA TACTAA TACTAA TACTA
15404529 TATGTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (6 bp):
TACTAA
Found at i:15405679 original size:18 final size:18
Alignment explanation
Indices: 15405643--15405679 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15405633 TAAACTTTAC
* *
15405643 AATTTGAATAACTCGAAT
1 AATTTGAATAAATCAAAT
15405661 AATTTGAATAAATCAAAT
1 AATTTGAATAAATCAAAT
15405679 A
1 A
15405680 GAAAATTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (18 bp):
AATTTGAATAAATCAAAT
Found at i:15405826 original size:18 final size:17
Alignment explanation
Indices: 15405786--15405829 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15405776 AACTCAAAAT
15405786 AAATTT-TAAAAATCCA
1 AAATTTATAAAAATCCA
*
15405802 AATATTTATAAAATTTCCA
1 AA-ATTTATAAAA-ATCCA
15405821 AAATTTATA
1 AAATTTATA
15405830 TTTTTAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 4 0.17
18 12 0.50
19 6 0.25
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTATAAAAATCCA
Found at i:15406461 original size:1 final size:1
Alignment explanation
Indices: 15406457--15406482 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
15406447 TAAAAACGGC
15406457 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
15406483 CTTGAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15407434 original size:19 final size:18
Alignment explanation
Indices: 15407410--15407455 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
15407400 TAAACAATAT
15407410 ATAATAATAACATGTATAA
1 ATAATAATAACAT-TATAA
* *
15407429 ATAATAATTACATTTTAA
1 ATAATAATAACATTATAA
15407447 A-AATAATAA
1 ATAATAATAA
15407456 TATGAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 12 0.50
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAATAATAACATTATAA
Found at i:15407779 original size:166 final size:166
Alignment explanation
Indices: 15407579--15407905 Score: 394
Period size: 166 Copynumber: 2.0 Consensus size: 166
15407569 AATTTTTCAA
* * *
15407579 ATCTAATCTCTTTATTTATCATTTAAATACTTTT-ATAATATTTAATTTTAATTTTTAA-AAATT
1 ATCTAATCTCTTTAATTAACATTTAAATACTTTTAAT-ATATTTAATTTTAA-TATTAAGAAATT
* * ** * * *
15407642 ATATTACGAATTAAAAATT-TAAAATTATCTTTAAGCTT-AAAATATACCTAACCAATTTCACTT
64 ATATTACAAATTAAAAATTAAAAAATTATAATAAAACTTAAAAAGATACCTAA-CAATTTCA-TT
*
15407705 TCATATTCCAAAATTAT-ATTTTTACTTATTCAAAATTAAT
127 TCAAATTCC-AAATTATCATTTTTACTTATTCAAAATTAAT
* * *
15407745 ATCTCATCTCTTTAATTAACTTTTCAATACTTTTAATATATTTAATTTTAATATTAAGAAATTAT
1 ATCTAATCTCTTTAATTAACATTTAAATACTTTTAATATATTTAATTTTAATATTAAGAAATTAT
* * *
15407810 ATTTCAAATTTAAGATTAAAAAATTATAATAAAACTTAAAAAGATACCTAACAATTTCATTTCAA
66 ATTACAAATTAAAAATTAAAAAATTATAATAAAACTTAAAAAGATACCTAACAATTTCATTTCAA
* * *
15407875 ATTTCAAATTTTCATTTTTACTTATTTAAAA
131 ATTCCAAATTATCATTTTTACTTATTCAAAA
15407906 ATAAAATATC
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
165 11 0.08
166 89 0.65
167 24 0.18
168 12 0.09
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.46
Consensus pattern (166 bp):
ATCTAATCTCTTTAATTAACATTTAAATACTTTTAATATATTTAATTTTAATATTAAGAAATTAT
ATTACAAATTAAAAATTAAAAAATTATAATAAAACTTAAAAAGATACCTAACAATTTCATTTCAA
ATTCCAAATTATCATTTTTACTTATTCAAAATTAAT
Found at i:15407827 original size:27 final size:26
Alignment explanation
Indices: 15407781--15407837 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
15407771 ATACTTTTAA
* * *
15407781 TATATTTAATTTTAATATTAAGAAAT
1 TATATTTAAATTTAAGATTAAAAAAT
15407807 TATATTTCAAATTTAAGATTAAAAAAT
1 TATATTT-AAATTTAAGATTAAAAAAT
15407834 TATA
1 TATA
15407838 ATAAAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
TATATTTAAATTTAAGATTAAAAAAT
Found at i:15411451 original size:29 final size:29
Alignment explanation
Indices: 15411419--15411484 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
15411409 ATTACTTTTT
* *
15411419 TATAAAAATAATATAAAAAATCAATTAAA
1 TATAAAAATAAGATAAAAAATAAATTAAA
* * *
15411448 TATAAAAATAGGATGAAAAATAAATTAAT
1 TATAAAAATAAGATAAAAAATAAATTAAA
*
15411477 TATGAAAA
1 TATAAAAA
15411485 CAGAATATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (29 bp):
TATAAAAATAAGATAAAAAATAAATTAAA
Found at i:15413492 original size:2 final size:2
Alignment explanation
Indices: 15413485--15413521 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15413475 TTAGGACTTT
15413485 TA TA TA TA 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 TA TA TA TA T
15413522 TTGTTTGACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15422802 original size:113 final size:111
Alignment explanation
Indices: 15422573--15422839 Score: 261
Period size: 109 Copynumber: 2.4 Consensus size: 111
15422563 ATCAGTATTT
* * * * ** *
15422573 AAAAAAAATTTGGTGCTGGCCA-GTAAATGGCCGGCATTAGATACTTTTTTCGTGTCCCAATGTA
1 AAAAAAAATTGGGTGCAGACCATGT-AATGGCCGACACCAGACACTTTTTTCGTGTCCCAATGTA
* *
15422637 ATTTTTTTTACTCAGTTACACTGATGGCCGTAACTAGTAAAATT-AA
65 ATTTTTTTTACTCAGGTACACTGATGGCCGGAACTAGTAAAATTAAA
*
15422683 AAAAAAAA-TGGGTGCAGACCATGTGATGGCCGACACCAGACACTTTTTTCGTGTCCCAATGTAA
1 AAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGACACTTTTTTCGTGTCCCAATGT-A
** * * * **
15422747 ATTTTTTTTTTTACTTTGGTACACTGATGGCTGGCACTAGTTAAATTTTTTA
65 A---TTTTTTTTACTCAGGTACACTGATGGCCGGAACTAG-TAAA-ATTAAA
** * *
15422799 AAAAAATTTTGGGTGCTGGCCATGTAATGGCCGACACCAGA
1 AAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGA
15422840 GATGTAAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
109 43 0.34
110 12 0.09
113 30 0.24
114 4 0.03
115 2 0.02
116 7 0.06
117 29 0.23
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (111 bp):
AAAAAAAATTGGGTGCAGACCATGTAATGGCCGACACCAGACACTTTTTTCGTGTCCCAATGTAA
TTTTTTTTACTCAGGTACACTGATGGCCGGAACTAGTAAAATTAAA
Found at i:15425077 original size:11 final size:12
Alignment explanation
Indices: 15425054--15425079 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15425044 AAAAAATTAC
15425054 TTTTCAAATTTT
1 TTTTCAAATTTT
15425066 TTTTCAAATTTT
1 TTTTCAAATTTT
15425078 TT
1 TT
15425080 GTTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCAAATTTT
Found at i:15426177 original size:21 final size:21
Alignment explanation
Indices: 15426153--15426225 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
15426143 AATGAGAGAA
15426153 AAATTAATATGAAAA-AAATG-T
1 AAATTAA-ATGAAAAGAAA-GAT
15426174 AAATTAAAATGAAAAGAAAGAT
1 AAATT-AAATGAAAAGAAAGAT
* *
15426196 AACTTAAATGAAAAGAGAA-AA
1 AAATTAAATGAAAAGA-AAGAT
15426217 AAATTAAAT
1 AAATTAAAT
15426226 TTAAATGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
21 33 0.73
22 12 0.27
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.22
Consensus pattern (21 bp):
AAATTAAATGAAAAGAAAGAT
Found at i:15426203 original size:27 final size:24
Alignment explanation
Indices: 15426165--15426380 Score: 92
Period size: 26 Copynumber: 8.8 Consensus size: 24
15426155 ATTAATATGA
15426165 AAAAAATGTAAATTAAAATGAAAAG
1 AAAAAAT-TAAATTAAAATGAAAAG
* *
15426190 -AAAGA-TAACTT-AAATGAAAAGAG
1 AAAAAATTAAATTAAAATG-AAA-AG
*
15426213 AAAAAAATTAAATTTAAATGAAATGAG
1 -AAAAAATTAAATTAAAATGAAA--AG
* *
15426240 AAAAAAATAAATTAAAATGGAAAG
1 AAAAAATTAAATTAAAATGAAAAG
* * *
15426264 AAGGATAATTTAAA-TGAAATG--AGG
1 AA--A-AAATTAAATTAAAATGAAAAG
* *
15426288 AAGAAATTAAATTTAAATGGCAAAA-
1 AAAAAATTAAATTAAAAT-G-AAAAG
* * *
15426313 AAGATAATTTAAA-TGAAAT-AATA-
1 AA-A-AAATTAAATTAAAATGAAAAG
* *
15426336 AAAAAATAAAATTTAAATGAAATGAG
1 AAAAAATTAAATTAAAATGAAA--AG
15426362 AAAAAATTAAATTAAAATG
1 AAAAAATTAAATTAAAATG
15426381 GGAAGAAAGA
Statistics
Matches: 144, Mismatches: 25, Indels: 43
0.68 0.12 0.20
Matches are distributed among these distances:
21 18 0.12
22 19 0.13
23 10 0.07
24 12 0.08
25 7 0.05
26 57 0.40
27 21 0.15
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (24 bp):
AAAAAATTAAATTAAAATGAAAAG
Found at i:15426251 original size:74 final size:75
Alignment explanation
Indices: 15426163--15426306 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 75
15426153 AAATTAATAT
15426163 GAAAAAAATGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTT
1 GAAAAAAA-GTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTT
15426228 AAATGAAATGA
65 AAATGAAATGA
* * * * * *
15426239 GAAAAAAA-TAAATTAAAATGGAAAGAAGGATAATTTAAATGAAATGAGGAAGAAATTAAATTTA
1 GAAAAAAAGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTTA
15426303 AATG
66 AATG
15426307 GCAAAAAAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
74 54 0.87
76 8 0.13
ACGTcount: A:0.62, C:0.01, G:0.15, T:0.22
Consensus pattern (75 bp):
GAAAAAAAGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAAAGAGAAAAAAATTAAATTTA
AATGAAATGA
Found at i:15426319 original size:122 final size:121
Alignment explanation
Indices: 15426168--15426463 Score: 452
Period size: 122 Copynumber: 2.4 Consensus size: 121
15426158 AATATGAAAA
* * * *
15426168 AAATGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAA-AGAGAAAAAAATTAAATTTAAAT
1 AAAT-TAAATTTAAATGGAAA-AAAGATAATTTAAATGAAATA-AGAAAAAAATAAAATTTAAAT
*
15426232 GAAATGAGAAAAAAATAAATTAAAATGGAAAGAAGGATAATTTAAATGAAATGAGGAAG
63 GAAATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
*
15426291 AAATTAAATTTAAATGGCAAAAAAGATAATTTAAATGAAATAATAAAAAAATAAAATTTAAATGA
1 AAATTAAATTTAAATGG-AAAAAAGATAATTTAAATGAAATAAGAAAAAAATAAAATTTAAATGA
* * *
15426356 AATGAGAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGGGGAAG
65 AATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
15426413 AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAA-AAAATAAAT
1 AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAAGAAAA-AAAT
15426464 TTAAATGGAA
Statistics
Matches: 161, Mismatches: 9, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
120 4 0.02
121 29 0.18
122 120 0.75
123 8 0.05
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (121 bp):
AAATTAAATTTAAATGGAAAAAAGATAATTTAAATGAAATAAGAAAAAAATAAAATTTAAATGAA
ATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAG
Found at i:15426367 original size:21 final size:23
Alignment explanation
Indices: 15426344--15426470 Score: 86
Period size: 22 Copynumber: 5.5 Consensus size: 23
15426334 TAAAAAAATA
15426344 AAATTTAAATGAAAT-GAGAAA-
1 AAATTTAAATGAAATGGAGAAAG
*
15426365 AAA-TTAAATTAAAATGGGAAGAAAG
1 AAATTTAAA-TGAAAT-GG-AGAAAG
*
15426390 ATAATTTAAATGAAATGG-GGAAG
1 A-AATTTAAATGAAATGGAGAAAG
* *
15426413 AAA-TTAAATTTAAATGGAAAAAAG
1 AAATTTAAA-TGAAATGG-AGAAAG
* * *
15426437 ATAATTTAAATGAAAT-AAAAAAT
1 A-AATTTAAATGAAATGGAGAAAG
15426460 AAATTTAAATG
1 AAATTTAAATG
15426471 GAAAAAAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 23
0.73 0.08 0.20
Matches are distributed among these distances:
20 5 0.06
21 13 0.15
22 19 0.22
23 12 0.14
24 9 0.11
25 10 0.12
26 12 0.14
27 5 0.06
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (23 bp):
AAATTTAAATGAAATGGAGAAAG
Found at i:15426372 original size:95 final size:95
Alignment explanation
Indices: 15426165--15426401 Score: 223
Period size: 95 Copynumber: 2.4 Consensus size: 95
15426155 ATTAATATGA
** * *
15426165 AAAAAATGTAAATTAAAATGAAAAGAAAGATAACTTAAATGAAAAG-AGAAAAAAATTAAATTTA
1 AAAAAAT-TAAATTAAAATGGGAAGAAAGATAATTTAAATG----GCA-AAAAAGA-T-AATTTA
*
15426229 AATGAAATGAGAAAAAAATAAATTAAAATGGAAAGAAG
58 AATGAAATAAGAAAAAAATAAATTAAAATGGAAAGAAG
* * * * *
15426267 GATAATTTAAA-TGAAATGAGGAAGAAA-TTAAATTTAAATGGCAAAAAAGATAATTTAAATGAA
1 AAAAAATTAAATTAAAATG-GGAAGAAAGAT-AATTTAAATGGCAAAAAAGATAATTTAAATGAA
* *
15426330 ATAATAAAAAAATAAAATTTAAAT-GAAATG-AG
64 ATAAGAAAAAAAT-AAATTAAAATGGAAA-GAAG
15426362 AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATG
1 AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATG
15426402 AAATGGGGAA
Statistics
Matches: 111, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
95 55 0.50
96 18 0.16
97 7 0.06
98 1 0.01
100 7 0.06
101 19 0.17
102 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (95 bp):
AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGGCAAAAAAGATAATTTAAATGAAAT
AAGAAAAAAATAAATTAAAATGGAAAGAAG
Found at i:15426398 original size:27 final size:27
Alignment explanation
Indices: 15426368--15426447 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 27
15426358 TGAGAAAAAA
15426368 TTAAATTAAAATGGGAAGAAAGATAAT
1 TTAAATTAAAATGGGAAGAAAGATAAT
*
15426395 TTAAA-TGAAATGGG--G-AAGA-AA-
1 TTAAATTAAAATGGGAAGAAAGATAAT
* *
15426416 TTAAATTTAAAT-GGAAAAAAGATAAT
1 TTAAATTAAAATGGGAAGAAAGATAAT
15426442 TTAAAT
1 TTAAAT
15426448 GAAATAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
21 7 0.16
22 7 0.16
23 4 0.09
24 5 0.11
25 2 0.05
26 14 0.32
27 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (27 bp):
TTAAATTAAAATGGGAAGAAAGATAAT
Found at i:15426398 original size:47 final size:47
Alignment explanation
Indices: 15426336--15426497 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 47
15426326 TGAAATAATA
* * *
15426336 AAAAAATAAAATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGG
1 AAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGG
* * *
15426383 AAGAAAGATAATTTAAATGAAATGGGGAAGAAATTAAATTTAAAT-GG
1 AAAAAAGATAATTTAAATGAAAT-GAGAAAAAATTAAATTTAAATGGG
*
15426430 AAAAAAGATAATTTAAATGAAAT---AAAAAA-TAAATTTAAATGGA
1 AAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGG
* *
15426473 AAAAAATATAAATTAAATGAAATGA
1 AAAAAAGATAATTTAAATGAAATGA
15426498 AATGGAAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
42 11 0.11
43 27 0.27
47 44 0.44
48 18 0.18
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.25
Consensus pattern (47 bp):
AAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGG
Found at i:15426422 original size:74 final size:75
Alignment explanation
Indices: 15426270--15426428 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 75
15426260 AAAGAAGGAT
* * *
15426270 AATTTAAATGAAATGAGGAAGAAATTAAATTTAAATGGCAAAAAAGATAATTTAAATGAAATAAT
1 AATTTAAATGAAATGAGGAAAAAATTAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
15426335 AAAAAAATAA
66 AAAAAAATAA
* * **
15426345 AATTTAAATGAAATGA-GAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGGG
1 AATTTAAATGAAATGAGGAAAAAATTAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
* * *
15426409 GAAGAAATTA
66 AAAAAAATAA
15426419 AATTTAAATG
1 AATTTAAATG
15426429 GAAAAAAGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 58 0.78
75 16 0.22
ACGTcount: A:0.58, C:0.01, G:0.15, T:0.26
Consensus pattern (75 bp):
AATTTAAATGAAATGAGGAAAAAATTAAATTAAAATGGCAAAAAAGATAATTTAAATGAAATAAG
AAAAAAATAA
Found at i:15426477 original size:21 final size:21
Alignment explanation
Indices: 15426417--15426491 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
15426407 GGGAAGAAAT
*
15426417 TAAATTTAAATGGAAAAAAGA
1 TAAATTTAAATGGAAAAAAAA
*
15426438 T-AATTTAAATGAAATAAAAAA
1 TAAATTTAAATGGAA-AAAAAA
15426459 TAAATTTAAATGGAAAAAAATA
1 TAAATTTAAATGGAAAAAAA-A
15426481 TAAA-TTAAATG
1 TAAATTTAAATG
15426492 AAATGAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.25
21 19 0.40
22 17 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (21 bp):
TAAATTTAAATGGAAAAAAAA
Found at i:15426495 original size:5 final size:5
Alignment explanation
Indices: 15426482--15426554 Score: 74
Period size: 5 Copynumber: 13.6 Consensus size: 5
15426472 AAAAAAATAT
* *
15426482 AAATT AAATG AAATG AAATGG AAATTC AAATG AAATG AAATG AAATTG
1 AAATG AAATG AAATG AAAT-G AAA-TG AAATG AAATG AAATG AAA-TG
*
15426530 AAATTA AAATTG AAATG AAATG AAA
1 AAA-TG AAA-TG AAATG AAATG AAA
15426555 AAAAAAAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
5 37 0.62
6 22 0.37
7 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (5 bp):
AAATG
Found at i:15426506 original size:27 final size:27
Alignment explanation
Indices: 15426482--15426554 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
15426472 AAAAAAATAT
*
15426482 AAATTAAATGAAATGAAATGGAAATTC
1 AAATTAAATGAAATGAAATGGAAATTA
* *
15426509 AAATGAAATGAAATGAAATTGAAATTA
1 AAATTAAATGAAATGAAATGGAAATTA
15426536 AAATTGAAATGAAATGAAA
1 AAATT-AAATGAAATGAAA
15426555 AAAAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 28 0.68
28 13 0.32
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (27 bp):
AAATTAAATGAAATGAAATGGAAATTA
Found at i:15426507 original size:43 final size:42
Alignment explanation
Indices: 15426418--15426513 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 42
15426408 GGAAGAAATT
* *
15426418 AAATTTAAATGGAAAAAAGATAATTTAAATGAAATAAAAAAT
1 AAATTTAAATGGAAAAAAGATAAATTAAATGAAATAAAAAAG
* * **
15426460 AAATTTAAATGGAAAAAAATATAAATTAAATGAAATGAAATGG
1 AAATTTAAATGG-AAAAAAGATAAATTAAATGAAATAAAAAAG
*
15426503 AAATTCAAATG
1 AAATTTAAATG
15426514 AAATGAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.61, C:0.01, G:0.11, T:0.26
Consensus pattern (42 bp):
AAATTTAAATGGAAAAAAGATAAATTAAATGAAATAAAAAAG
Found at i:15426518 original size:48 final size:45
Alignment explanation
Indices: 15426226--15426554 Score: 171
Period size: 48 Copynumber: 7.0 Consensus size: 45
15426216 AAAATTAAAT
*
15426226 TTAAATGAAAT-GAGAAAAAA-ATAAATTAAAATGGAAA-GAAGGATAA
1 TTAAATGAAATGGA-AAAAAATATAAATT-AAAT-GAAATGAAAGA-AA
* *
15426272 TTTAAATGAAATGAGGAAGAAAT-TAAATTTAAATGGCAAA--AAAGATAA
1 -TTAAATGAAATG-GAAAAAAATATAAA-TTAAAT-G-AAATGAAAGA-AA
** *
15426320 TTTAAATGAAATAATAAAAAAATA-AAATTTAAATGAAATGAGAAAAAA
1 -TTAAATGAAAT-GGAAAAAAATATAAA-TTAAATGAAATGA-AAGAAA
* * * * * *
15426368 TTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGGGGAAGAAA
1 TTAAA-TGAAATGGAAAAAAATATAAATTAAATGAAAT--GAAAGAAA
* * *
15426416 TTAAATTTAAATGG-AAAAAAGATAATTTAAATGAAAT-AAA-AAA
1 TTAAA-TGAAATGGAAAAAAATATAAATTAAATGAAATGAAAGAAA
*
15426459 -TAAATTTAAATGGAAAAAAATATAAATTAAATGAAATGAAATGGAAA
1 TTAAA-TGAAATGGAAAAAAATATAAATTAAATGAAATGAAA--GAAA
*
15426506 TTCAAATGAAAT-GAAATGAAAT-TGAAATTAAAATTGAAATGAAATGAAA
1 TT-AAATGAAATGGAAA-AAAATAT-AAATT-AAA-TGAAATGAAA-GAAA
15426555 AAAAAAAAGA
Statistics
Matches: 232, Mismatches: 25, Indels: 48
0.76 0.08 0.16
Matches are distributed among these distances:
42 13 0.06
43 24 0.10
44 5 0.02
46 3 0.01
47 64 0.28
48 93 0.40
49 20 0.09
50 10 0.04
ACGTcount: A:0.60, C:0.01, G:0.15, T:0.25
Consensus pattern (45 bp):
TTAAATGAAATGGAAAAAAATATAAATTAAATGAAATGAAAGAAA
Found at i:15426865 original size:22 final size:22
Alignment explanation
Indices: 15426816--15426865 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
15426806 AACTACTTCT
15426816 AATT-AATATGAAAAAAATATG
1 AATTGAATATGAAAAAAATATG
* *
15426837 AAATGAAT-TGAAAAAAATTTTG
1 AATTGAATATGAAAAAAA-TATG
15426859 AATTGAA
1 AATTGAA
15426866 AAAAGATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (22 bp):
AATTGAATATGAAAAAAATATG
Found at i:15427097 original size:18 final size:18
Alignment explanation
Indices: 15427074--15427108 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15427064 AATTATAAAT
15427074 TTAAATGAAAACAAAAAC
1 TTAAATGAAAACAAAAAC
*
15427092 TTAAATGAAAATAAAAA
1 TTAAATGAAAACAAAAA
15427109 TTTTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
TTAAATGAAAACAAAAAC
Found at i:15427305 original size:12 final size:13
Alignment explanation
Indices: 15427288--15427316 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15427278 TTTTAAGCCT
15427288 AAAAAA-CCTAAA
1 AAAAAACCCTAAA
15427300 AAAAAACCCTAAA
1 AAAAAACCCTAAA
15427313 AAAA
1 AAAA
15427317 TTGAAATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAAACCCTAAA
Found at i:15428465 original size:17 final size:18
Alignment explanation
Indices: 15428433--15428468 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15428423 ATATTATTTT
15428433 TTAATTATTTAAAATATA
1 TTAATTATTTAAAATATA
*
15428451 TTAATT-TTTATAATATA
1 TTAATTATTTAAAATATA
15428468 T
1 T
15428469 AACAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATTTAAAATATA
Found at i:15434800 original size:32 final size:32
Alignment explanation
Indices: 15434764--15434828 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
15434754 TGTATGCATT
15434764 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
15434796 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
15434828 T
1 T
15434829 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:15437480 original size:30 final size:30
Alignment explanation
Indices: 15437446--15437505 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
15437436 ACTTAACAAG
* *
15437446 CAAATACCTCTAGAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
15437476 CAAATGCCTGTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
15437506 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:15440055 original size:12 final size:12
Alignment explanation
Indices: 15440038--15440062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15440028 TTAATAAAAT
15440038 AAAATAAATTAA
1 AAAATAAATTAA
15440050 AAAATAAATTAA
1 AAAATAAATTAA
15440062 A
1 A
15440063 CTTTTGAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAATTAA
Found at i:15440055 original size:17 final size:18
Alignment explanation
Indices: 15440028--15440062 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15440018 CATTAAAATT
15440028 TTAATAAAATAAAATAAA
1 TTAATAAAATAAAATAAA
*
15440046 TTAA-AAAATAAATTAAA
1 TTAATAAAATAAAATAAA
15440063 CTTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAATAAAATAAAATAAA
Found at i:15442198 original size:12 final size:11
Alignment explanation
Indices: 15442173--15442214 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
15442163 AAACAAAATT
15442173 AGAAAG-AAAA
1 AGAAAGAAAAA
15442183 AGAAAGAAAAA
1 AGAAAGAAAAA
15442194 GAGAAAGAAGAAA
1 -AGAAAGAA-AAA
15442207 AG-AAGAAA
1 AGAAAGAAA
15442215 TCACGCAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.24
11 9 0.31
12 10 0.34
13 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:15442213 original size:15 final size:16
Alignment explanation
Indices: 15442175--15442214 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15442165 ACAAAATTAG
15442175 AAAGAA-AAAGAAAGA
1 AAAGAAGAAAGAAAGA
15442190 AAA-AGAGAAAG-AAGA
1 AAAGA-AGAAAGAAAGA
15442205 AAAGAAGAAA
1 AAAGAAGAAA
15442215 TCACGCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 16 0.73
16 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAAGAAAGA
Found at i:15444824 original size:27 final size:28
Alignment explanation
Indices: 15444770--15444824 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
15444760 TGAATGGAAT
* *
15444770 TTGAATTGGTATGAATAAATGATTAATAC
1 TTGAATTGGTATG-AGAAATGATAAATAC
15444799 TTGAATTGGTATG-GAAATGATAAATA
1 TTGAATTGGTATGAGAAATGATAAATA
15444825 GAAATGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
29 13 0.54
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (28 bp):
TTGAATTGGTATGAGAAATGATAAATAC
Found at i:15445108 original size:41 final size:41
Alignment explanation
Indices: 15445063--15445143 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
15445053 ACTAATGAAT
* *
15445063 CTCAAACTTTGATTAAATGTGTTGGAAAAATATATCCTATA
1 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTATA
15445104 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTAT
1 CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTAT
15445144 CTCCTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (41 bp):
CTCAAACATTGATTAAATGTGCTGGAAAAATATATCCTATA
Found at i:15451011 original size:52 final size:47
Alignment explanation
Indices: 15450917--15451123 Score: 168
Period size: 47 Copynumber: 4.3 Consensus size: 47
15450907 CCATGGCAGC
* * * *
15450917 ATGTGAAATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATA-TTGGGATATGGCATC-G-G
*
15450968 AAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCCGTATAAGACCATAT-TGGGATATGGCATCGG
* * * *
15451018 -TGTGATATATGCTACTGTATAAGACCATATATGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATAT-TGGGATATGGCATCGG
* * ** * *
15451065 -TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCAT-ATTGGGATATGGCATCGG
15451111 TATGTGATATGTG
1 -ATGTGATATGTG
15451124 ACTATGTGCA
Statistics
Matches: 129, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
46 25 0.19
47 51 0.40
48 11 0.09
50 1 0.01
51 2 0.02
52 28 0.22
53 11 0.09
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATTGGGATATGGCATCGG
Found at i:15456430 original size:19 final size:19
Alignment explanation
Indices: 15456406--15456444 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15456396 ATTCATTGAT
15456406 TTACCCTCAATATTAACCA
1 TTACCCTCAATATTAACCA
15456425 TTACCCTCAATATTAACCA
1 TTACCCTCAATATTAACCA
15456444 T
1 T
15456445 AACTCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (19 bp):
TTACCCTCAATATTAACCA
Found at i:15463908 original size:13 final size:13
Alignment explanation
Indices: 15463872--15463932 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
15463862 TATTTAAGAA
15463872 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
15463886 -TAAAAATATAAT
1 ATAATAATATAAT
15463898 ATAATAATATAAAGT
1 ATAATAATAT-AA-T
* * *
15463913 AAAATAATAAAAA
1 ATAATAATATAAT
15463926 ATAATAA
1 ATAATAA
15463933 AGAAACAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
12 6 0.16
13 19 0.50
14 4 0.11
15 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:15464836 original size:6 final size:6
Alignment explanation
Indices: 15464825--15464857 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
15464815 TGTGTACCGC
*
15464825 TACTGT TACTGT TACTGT TATTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
15464858 GGTGTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:15466998 original size:117 final size:117
Alignment explanation
Indices: 15466786--15467030 Score: 420
Period size: 117 Copynumber: 2.1 Consensus size: 117
15466776 GCCTATTTAT
*
15466786 TGTATTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
* *
15466851 AAATTGATTATAATAATAATTTAAGATGTTGAAAATGAAGATATTTGGAAAA
66 AAATTGATTACAATAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
*
15466903 TGTACTAATTATAACAAAATTAA-TTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
* *
15466967 AAATTGATTACACCTATTAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
66 AAATTGATTACA-ATAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
15467020 TGTACTAATTA
1 TGTACTAATTA
15467031 ATTTTTTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
116 52 0.43
117 69 0.57
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (117 bp):
TGTACTAATTACAACAAAATTAATTTTTTCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
AAATTGATTACAATAATAATTTAAGATGTTGAAAATGAAGATATTTAGAAAA
Found at i:15468550 original size:22 final size:22
Alignment explanation
Indices: 15468500--15468564 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
15468490 TTACACATTA
*
15468500 TATTAAAAAATAAATTAATTATTTT
1 TATTAAAAAAT---TTAATTATTTG
*
15468525 TATTAAAAAATTTATTTATTTG
1 TATTAAAAAATTTAATTATTTG
15468547 TATTATTAAAAA-TTAATT
1 TATTA--AAAAATTTAATT
15468565 CATAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 14 0.40
23 5 0.14
24 5 0.14
25 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAAAAAATTTAATTATTTG
Found at i:15476654 original size:21 final size:22
Alignment explanation
Indices: 15476618--15476659 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
15476608 ATTTATAAGA
15476618 TTTAAAAACGAGTTAAAATATAC
1 TTTAAAAAC-AGTTAAAATATAC
*
15476641 TTTAAAAA-AGTTAATATAT
1 TTTAAAAACAGTTAAAATAT
15476660 GCAAAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
TTTAAAAACAGTTAAAATATAC
Found at i:15476748 original size:22 final size:23
Alignment explanation
Indices: 15476705--15476748 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15476695 TTAATCTTTT
15476705 TACTTTTATTTGAAGTAATTTAC
1 TACTTTTATTTGAAGTAATTTAC
15476728 TACTTTTACTTT-AA-TAATTTA
1 TACTTTTA-TTTGAAGTAATTTA
15476749 AAAATACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (23 bp):
TACTTTTATTTGAAGTAATTTAC
Found at i:15479112 original size:2 final size:2
Alignment explanation
Indices: 15479061--15479098 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
15479051 AAAAACCTTT
15479061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15479099 TCTTGTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15480125 original size:30 final size:29
Alignment explanation
Indices: 15480076--15480132 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
15480066 AATTTTTTAT
15480076 TTTCCCCCAAACTTTTTACTCCATCCCAC
1 TTTCCCCCAAACTTTTTACTCCATCCCAC
*
15480105 TTTCCCCCTAAAAC-TTTTACTCCCTCCC
1 TTTCCCCC--AAACTTTTTACTCCATCCC
15480133 CATCCCACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 13 0.52
31 4 0.16
ACGTcount: A:0.19, C:0.46, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTCCCCCAAACTTTTTACTCCATCCCAC
Found at i:15480408 original size:17 final size:17
Alignment explanation
Indices: 15480388--15480435 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15480378 CATATTTTAT
15480388 ATTATTTGTATTATTGA
1 ATTATTTGTATTATTGA
*
15480405 ATTATTTAGTACATATTGA
1 ATTATTT-GTA-TTATTGA
*
15480424 A-TATTTATATTA
1 ATTATTTGTATTA
15480436 AAATTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 9 0.35
18 8 0.31
19 7 0.27
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (17 bp):
ATTATTTGTATTATTGA
Found at i:15481306 original size:30 final size:30
Alignment explanation
Indices: 15481272--15481347 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 30
15481262 CAAATGAGTT
15481272 TAAAATTATTAAAATTATTTTTTATTTTTA
1 TAAAATTATTAAAATTATTTTTTATTTTTA
15481302 TAAAATTA--AAAA-TATTTTTTATTTTTA
1 TAAAATTATTAAAATTATTTTTTATTTTTA
* *
15481329 TAAGATTATTAAGATTATT
1 TAAAATTATTAAAATTATT
15481348 AAATGCATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 22 0.54
28 4 0.10
29 3 0.07
30 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTTATTTTTA
Found at i:15481458 original size:23 final size:23
Alignment explanation
Indices: 15481428--15481474 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15481418 ATTGCCGTCT
15481428 TCGATCTTCATCCCCATTATTTC
1 TCGATCTTCATCCCCATTATTTC
*
15481451 TCGATCTTCATCCTCATTATTTC
1 TCGATCTTCATCCCCATTATTTC
15481474 T
1 T
15481475 TCTTTTCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.04, T:0.47
Consensus pattern (23 bp):
TCGATCTTCATCCCCATTATTTC
Found at i:15481760 original size:27 final size:27
Alignment explanation
Indices: 15481730--15481782 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
15481720 CAAAAAGCAG
*
15481730 AGAAAATTCATAAAGACAATCGGAGCT
1 AGAAAATTCATAAAGACAATCAGAGCT
*
15481757 AGAAAATTCATAAAGAGAATCAGAGC
1 AGAAAATTCATAAAGACAATCAGAGC
15481783 CTCTAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (27 bp):
AGAAAATTCATAAAGACAATCAGAGCT
Found at i:15482079 original size:22 final size:22
Alignment explanation
Indices: 15482010--15482083 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
15482000 CAGACACTTG
15482010 AAAACCCAGAAATTTAAAAACAA
1 AAAACCCAGAAATTTAAAAAC-A
15482033 AAAATCCCCCAGAAA-TTAAATAACA
1 AAAA---CCCAGAAATTTAAA-AACA
* *
15482058 AAAACCCAAAAATTTTAAAACA
1 AAAACCCAGAAATTTAAAAACA
15482080 AAAA
1 AAAA
15482084 ACCCTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
22 15 0.34
23 8 0.18
25 10 0.23
26 11 0.25
ACGTcount: A:0.64, C:0.19, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAACCCAGAAATTTAAAAACA
Found at i:15482087 original size:23 final size:23
Alignment explanation
Indices: 15482010--15482087 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
15482000 CAGACACTTG
15482010 AAAACCCAGAAATTTAAAAACAA
1 AAAACCCAGAAATTTAAAAACAA
15482033 AAAATCCCCCAGAAA-TTAAATAAC-A
1 AAAA---CCCAGAAATTTAAA-AACAA
* *
15482058 AAAACCCAAAAATTTTAAAACAA
1 AAAACCCAGAAATTTAAAAACAA
15482081 AAAACCC
1 AAAACCC
15482088 TTTTTTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
22 10 0.21
23 16 0.34
25 10 0.21
26 11 0.23
ACGTcount: A:0.62, C:0.22, G:0.03, T:0.14
Consensus pattern (23 bp):
AAAACCCAGAAATTTAAAAACAA
Found at i:15484077 original size:22 final size:22
Alignment explanation
Indices: 15484052--15484095 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15484042 TAGTAATACA
15484052 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15484074 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15484096 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15484208 original size:15 final size:15
Alignment explanation
Indices: 15484188--15484244 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
15484178 ATTCAATATT
15484188 AATATTTTAATAATA
1 AATATTTTAATAATA
*
15484203 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
15484222 AATATATTAATAATA
1 AATATTTTAATAATA
*
15484237 AATGTTTT
1 AATATTTT
15484245 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:15484845 original size:3 final size:3
Alignment explanation
Indices: 15484837--15484902 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
15484827 AAACTCTGAT
15484837 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15484885 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
15484903 GGTCTTCCCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15485819 original size:40 final size:38
Alignment explanation
Indices: 15485724--15485869 Score: 116
Period size: 40 Copynumber: 3.7 Consensus size: 38
15485714 ATTTTAGTGG
* * *
15485724 TTTAGCGGCACTTTTTAAAAACGCTGCTAAAGATCAAG
1 TTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCAAC
* *
15485762 TATTAGCGGTGCTTTTTTAAGAAACGCCGCTATAAG-TACACC
1 T-TTAGCGGCGC-TTTTTAA-AAACGCCGCTA-AAGAT-CAAC
* *
15485804 TTTAGCGGCGCTTTTTAAAAAACGCCGCTAATA-CTCGATC
1 TTTAGCGGCGCTTTTT-AAAAACGCCGCTAA-AGATC-AAC
* *
15485844 TTTAGCAGCGTTTTTTGAAAAACGCC
1 TTTAGCGGCGCTTTTT-AAAAACGCC
15485870 ACAAAAATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 50 0.56
41 22 0.25
42 6 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (38 bp):
TTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCAAC
Found at i:15486068 original size:21 final size:21
Alignment explanation
Indices: 15486022--15486073 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
15486012 TTAATTATCA
* *
15486022 TTATAGTTTAGGGTTTATAGT
1 TTATGGTTAAGGGTTTATAGT
*
15486043 ATATGGTTAAGGGTTTA-ATGT
1 TTATGGTTAAGGGTTTATA-GT
15486064 TTATGAGTTA
1 TTATG-GTTA
15486074 CTATTGTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATAGT
Found at i:15486231 original size:7 final size:7
Alignment explanation
Indices: 15486136--15486232 Score: 63
Period size: 7 Copynumber: 13.6 Consensus size: 7
15486126 GGGTTAAATG
15486136 TTAGGGTT
1 TTAGGG-T
*
15486144 TTA-GTT
1 TTAGGGT
15486150 TTAGGGT
1 TTAGGGT
15486157 GTT-GGGAT
1 -TTAGGG-T
*
15486165 TTAAGGT
1 TTAGGGT
*
15486172 TAAGGGT
1 TTAGGGT
*
15486179 TAAGGGT
1 TTAGGGT
* *
15486186 TTATGTT
1 TTAGGGT
*
15486193 TTATGGT
1 TTAGGGT
*
15486200 TTAAGGT
1 TTAGGGT
*
15486207 TTAGGGG
1 TTAGGGT
15486214 TTAGGGAT
1 TTAGGG-T
15486222 TTAGGGT
1 TTAGGGT
15486229 TTAG
1 TTAG
15486233 ATTAATTAGT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
6 4 0.06
7 53 0.75
8 14 0.20
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:15493366 original size:21 final size:21
Alignment explanation
Indices: 15493341--15493400 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
15493331 AGGGTTTCTT
15493341 GGTTTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTTTGGGGGGTTA
***
15493362 GGTTTTTTTTTTTCTGGGTTA
1 GGTTTTTTTTTTGGGGGGTTA
15493383 GGTTTTTTTTTTGGGGGG
1 GGTTTTTTTTTTGGGGGG
15493401 CTTAATGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.02, G:0.35, T:0.60
Consensus pattern (21 bp):
GGTTTTTTTTTTGGGGGGTTA
Found at i:15494254 original size:30 final size:30
Alignment explanation
Indices: 15494218--15494279 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
15494208 TTTTGAAAAA
15494218 CAGAAATT-AAAAGACTCAACTCA-ACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCACA-TCTCG
15494248 CAGAAATTAAAAAGCTCAACTCACATCTCG
1 CAGAAATTAAAAAGCTCAACTCACATCTCG
15494278 CA
1 CA
15494280 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCACATCTCG
Found at i:15494513 original size:79 final size:78
Alignment explanation
Indices: 15494397--15494620 Score: 260
Period size: 79 Copynumber: 2.9 Consensus size: 78
15494387 AAAACAGATT
* * * * *
15494397 TTGAAAATACCTC-GACATGTGACCCG-AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTT
1 TTGAAAATACCTCAG-CGTGTGATCTGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
15494460 TTGAAAAATATAAA
65 TTGAAAAATAAAAA
*
15494474 TTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTG--AAAATACCTCAGCGTGTGATCTGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
15494538 TTTGAAAGACAGAAA
64 TTTGAAAAATAAAAA
* * * *
15494553 TTGAAAATAGCTCAGCGCGTGAAC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 TTGAAAATACCTCAGCGTGTGATCTGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
15494616 TGAAA
66 TGAAA
15494621 CTTAACTTGA
Statistics
Matches: 128, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
76 12 0.09
77 50 0.39
79 64 0.50
80 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (78 bp):
TTGAAAATACCTCAGCGTGTGATCTGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAATAAAAA
Found at i:15494591 original size:77 final size:79
Alignment explanation
Indices: 15494423--15495134 Score: 393
Period size: 77 Copynumber: 8.7 Consensus size: 79
15494413 ATGTGACCCG
* * * *
15494423 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCT
* * * *
15494488 CAGTGTGTGATCTGA
65 CAGCGCGTGAACTCA
* *
15494503 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
15494566 AGCGCGTGAAC-CA
66 AGCGCGTGAACTCA
** *
15494579 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG--AAACTTAACTTGAAAAGCAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAA--A-A--
** * ** * *
15494641 TTGAAAAT-ACCTTGATATGTGACTGA
60 -T--ACCTCAGC--G-CGTG-AACTCA
* *
15494667 AGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-A--TAC
* * * * *
15494729 CTCAACTCTCGCAGAAATTAAA
63 CTC-A-GCGCG-TG-AACT-CA
* * * * *
15494751 AAGCTCAACTCACCTCTCGTAACATGAGTTGAATTTTTTTGAAGAAA-AAAAATTG-AAAATAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAA-AAACAGAAATTGAAAAATACC
* *
15494814 TCAGCACGTGAGC-CA
64 TCAGCGCGTGAACTCA
* *
15494829 AGGCTCAACTAACTTCTCGCAATATGAGTTGA--TTTTTG-AAAACAG-AATCTGAAAAACAGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT-TG--AAA-A-A-
** ** * * * *
15494890 TTTGAAAATACCTCGACATGTGACCCG
60 --T--ACCT-CAGCG-CGTG-AACTCA
* * * *
15494917 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCT
* * * *
15494982 CAGTGTGTGATCTGA
65 CAGCGCGTGAACTCA
* * *
15494997 A-GCTCAACTCACCTCTCGCAATATGTGTTGATTTTTTTGAAAGACAGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
*
15495060 AGCGCGTGAGC-CA
66 AGCGCGTGAACTCA
**
15495073 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAACAGAAATTGAAAAA
15495135 CGGAAATTAA
Statistics
Matches: 486, Mismatches: 93, Indels: 105
0.71 0.14 0.15
Matches are distributed among these distances:
73 6 0.01
74 12 0.02
75 6 0.01
76 13 0.03
77 96 0.20
78 29 0.06
79 95 0.20
80 25 0.05
81 7 0.01
82 10 0.02
83 8 0.02
84 40 0.08
85 9 0.02
86 6 0.01
87 29 0.06
88 66 0.14
89 9 0.02
90 10 0.02
91 7 0.01
92 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGCGTGAACTCA
Found at i:15494746 original size:30 final size:30
Alignment explanation
Indices: 15494710--15494769 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15494700 TTTTGAAAAA
*
15494710 CAGAAATT-AAAAGACTTAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
15494740 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
15494770 TAACATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.22
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:15495029 original size:494 final size:492
Alignment explanation
Indices: 15494054--15495110 Score: 1952
Period size: 494 Copynumber: 2.1 Consensus size: 492
15494044 GACATTAAAA
* * *
15494054 ACAGAAATTGAAAATAGCTCAGCACGTGAGCTAAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
15494119 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTTAAAATACATCGATATGTGACTGAAGGTTCAAC
66 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACATCGATATGTGACTGAAGGTTCAAC
15494184 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCTCGC
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCTCGC
*
15494249 AGAAATTAAAAAGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAATTAAA
196 AGAAATTAAAAAGCTCAACTCACATCTCGCAACATGAGTTGAATTTTTTTGAAAAAAAAATTAAA
* *
15494314 AATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAATA
261 AATAGCTCAGCACGTGAGCCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAACA
15494379 AAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCA
326 AAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCA
15494444 ATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCA
391 ATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCA
15494509 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
456 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
*
15494546 ACAGAAATTGAAAATAGCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
15494611 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTTGATATGTGACTGAAGGTTCAAC
66 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACATCGATATGTGACTGAAGGTTCAAC
*
15494676 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTTAACTCAACTCTCGC
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCTCGC
* * *
15494741 AGAAATTAAAAAGCTCAACTCACCTCTCGTAACATGAGTTGAATTTTTTTGAAGAAAAAAAATTG
196 AGAAATTAAAAAGCTCAACTCACATCTCGCAACATGAGTTGAATTTTTTTG-A-AAAAAAAATTA
15494806 AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAA
259 AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAA
*
15494871 CAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCG
324 CAAAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCG
15494936 CAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCT
389 CAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCT
*
15495001 CAACTCACCTCTCGCAATATGTGTTGATTTTTTTGAAAG
454 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
15495040 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15495105 TTTTTT
66 TTTTTT
15495111 TTTTGAAAGG
Statistics
Matches: 546, Mismatches: 17, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
492 235 0.43
493 1 0.00
494 310 0.57
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (492 bp):
ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACATCGATATGTGACTGAAGGTTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCTCGC
AGAAATTAAAAAGCTCAACTCACATCTCGCAACATGAGTTGAATTTTTTTGAAAAAAAAATTAAA
AATAGCTCAGCACGTGAGCCAAGGCTCAACTAACTTCTCGCAATATGAGTTGATTTTTGAAAACA
AAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCA
ATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
Found at i:15495134 original size:250 final size:244
Alignment explanation
Indices: 15494054--15495301 Score: 1379
Period size: 250 Copynumber: 5.1 Consensus size: 244
15494044 GACATTAAAA
* *
15494054 ACAGAAATTGAAAATAGCTCAGCACGTGAGCTAAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** * * * * *
15494119 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTTAAAATACATCGATATGTGA-CTGAAGGTTCAA
66 TTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTG-AGGCTCAA
* * * * *
15494183 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAACTC
130 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAA-AAT-ACCTC-AGTG
* * *
15494245 TCGCAGAAAT-TAAAAAGCTCAACTCACATCTCGCAATATGAGTTGAATTTTTTTGAAA-
192 T-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAG
* * *
15494303 A-AAAAATTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
15494367 -TTTTTGAAA-ATAAAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCA
66 TTTTTTGAAACA-GAAAT-TGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTGAGGCTCA
* * *
15494430 ACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTG
129 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAGTGTG
15494495 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
194 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
* *
15494546 ACAGAAATTGAAAATAGCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** * * * *
15494611 TTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTTGATATGTGA-CTGAAGGTTCAA
66 TTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTG-AGGCTCAA
* * * * *
15494675 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTTAACTCAACTC
130 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAA-A-ATACCTC-AGTG
* * * *
15494737 TCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGTAACATGAGTTGAATTTTTTTG-AAG
192 T-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAG
* * * *
15494795 AAAAAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTAACTTCTCGCAATATGAGTTG
1 -ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
15494860 A-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTC
65 ATTTTTTG-AAACAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTGAGGCTC
* * *
15494923 AACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGT
128 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAGTGT
*
15494988 GTGATCTGAAGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTTTGAAAG
193 GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
*
15495040 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* ** * * *
15495105 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTAAAAATACCTCGGTGTGTGACCTGAGG
66 ----TTTTTTGAAA--CAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTGAGG
* * * * *
15495170 CTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAATAGAAATTG--AAATTACCTCAG
125 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAG
* * * * *
15495232 CGTGT--CCTGAGGCTCAACTCACATATCGCAATATGAGTTGATTTTTTTTTGAAAG
190 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAG
*
15495287 GCAGAAATTTGAAAA
1 ACAGAAA-TTGAAAA
15495302 ACGAAAATTG
Statistics
Matches: 852, Mismatches: 105, Indels: 85
0.82 0.10 0.08
Matches are distributed among these distances:
241 4 0.00
242 30 0.04
243 38 0.04
244 193 0.23
245 76 0.09
246 4 0.00
247 48 0.06
248 134 0.16
249 65 0.08
250 224 0.26
251 14 0.02
252 18 0.02
253 4 0.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (244 bp):
ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGATATGTGACCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAGTGTGTG
ATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG
Found at i:15495301 original size:168 final size:167
Alignment explanation
Indices: 15494972--15495449 Score: 706
Period size: 168 Copynumber: 2.8 Consensus size: 167
15494962 TATAAATTGA
* * * * * *
15494972 AAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTTTGA
1 AAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
* * * * *
15495037 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
66 CA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
15495101 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
127 TTGA-TTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATT
*
15495143 AAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGA
1 AAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
* * *
15495208 CAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACATATCGCAATATGAGTTGA
66 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15495273 TTTTTTTTTGAAAGGCAGAAATTTGAAAAACGAAAATT
131 TTTTTTTTTGAAAGGCAGAAA-TTGAAAAACGAAAATT
* ** *
15495311 GAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACTAGTTGATTTTTTTGA
1 AAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
*
15495376 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
66 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
15495441 TTTTTTTTT
131 TTTTTTTTT
15495450 TAAAATACCT
Statistics
Matches: 280, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
167 23 0.08
168 180 0.64
170 18 0.06
171 59 0.21
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (167 bp):
AAAAATACCTCGGTGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATT
Found at i:15495449 original size:76 final size:75
Alignment explanation
Indices: 15495306--15495571 Score: 212
Period size: 76 Copynumber: 3.7 Consensus size: 75
15495296 TGAAAAACGA
* *
15495306 AAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACTAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCACAATACTAGTTGATTTT
15495371 TTTGACAACAG
65 TTTGACAACAG
*
15495382 AAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCACAATA-TGAGTTGATTT
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCACAATACT-AGTTGATTT
15495444 TTTT--------
64 TTTTGACAACAG
* *
15495448 ---TTTAAAATACCTC-AGCGGGT-CCTGAGGCTCAACTCACCTCTCGA-AATA-TGAGTTGATT
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTC-ACAATACT-AGTTGATT
*** *
15495506 TTTGAAACATACGAA
63 TTTTTGACA-AC-AG
* *
15495521 AAATTGACAATACCTC-AGCGTGT-CCCGAGGCTCAACTCACCTCTCACAATA
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCACAATA
15495572 TGAATTGAAT
Statistics
Matches: 161, Mismatches: 12, Indels: 34
0.78 0.06 0.16
Matches are distributed among these distances:
63 56 0.35
64 1 0.01
73 1 0.01
74 39 0.24
75 2 0.01
76 62 0.39
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (75 bp):
AAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCACAATACTAGTTGATTTTT
TTGACAACAG
Found at i:15495562 original size:139 final size:137
Alignment explanation
Indices: 15495331--15495584 Score: 377
Period size: 139 Copynumber: 1.8 Consensus size: 137
15495321 CGACGTGTGA
* * *** *
15495331 CCTGAGGCTCAACTCGCCTCTCGCAATACTAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
1 CCTGAGGCTCAACTCACCTCTCGAAATACTAGTTGATTTTTGAAACAACAAAAATTGAAATTACC
* * *
15495396 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTAAAATACCTC
66 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTTTTTTTAAAATACCTC
15495461 AGCGGGT
131 AGCGGGT
15495468 CCTGAGGCTCAACTCACCTCTCGAAATA-TGAGTTGATTTTTGAAACATACGAAAAATTGACAA-
1 CCTGAGGCTCAACTCACCTCTCGAAATACT-AGTTGATTTTTGAAACA-AC-AAAAATTGA-AAT
15495531 TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTT
62 TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTT
15495585 GAAATAAAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
136 1 0.01
137 40 0.38
138 2 0.02
139 59 0.57
140 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (137 bp):
CCTGAGGCTCAACTCACCTCTCGAAATACTAGTTGATTTTTGAAACAACAAAAATTGAAATTACC
TCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTTTTTTTAAAATACCTC
AGCGGGT
Found at i:15511649 original size:24 final size:22
Alignment explanation
Indices: 15511615--15511668 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
15511605 AGGGTTTCTT
**
15511615 GGTTTTTTTTTTTTGGGGGTTA
1 GGTTTTTTTTTTTTTTGGGTTA
15511637 GGTTTTTTTTTTTTTTGGGTTA
1 GGTTTTTTTTTTTTTTGGGTTA
15511659 GGTTTTTTTT
1 GGTTTTTTTT
15511669 GGGGGGGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.04, C:0.00, G:0.26, T:0.70
Consensus pattern (22 bp):
GGTTTTTTTTTTTTTTGGGTTA
Found at i:15513199 original size:20 final size:21
Alignment explanation
Indices: 15513146--15513207 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
15513136 CAAATTTCAA
15513146 AAATTAAACATAATATAATATTT
1 AAATTAAA-ATAA-ATAATATTT
* *
15513169 AAAATAGAAATAAATATTATTT
1 AAATTA-AAATAAATAATATTT
15513191 -AATTAAAATAAAATAAT
1 AAATTAAAAT-AAATAAT
15513208 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
22 8 0.24
23 9 0.27
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTAAAATAAATAATATTT
Found at i:15514940 original size:21 final size:21
Alignment explanation
Indices: 15514896--15514940 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15514886 AAAATTGCTG
* * *
15514896 TTTTTATTGTTTTCTTGTTGT
1 TTTTTACTGTTTTCTTGCTAT
*
15514917 TTTTTACTGTTTTGTTGCTAT
1 TTTTTACTGTTTTCTTGCTAT
15514938 TTT
1 TTT
15514941 CTTCACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.13, T:0.73
Consensus pattern (21 bp):
TTTTTACTGTTTTCTTGCTAT
Found at i:15515125 original size:13 final size:13
Alignment explanation
Indices: 15515104--15515133 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15515094 TAAATTTTTT
*
15515104 TATATAAAAATAA
1 TATAAAAAAATAA
15515117 TATAAAAAAATAA
1 TATAAAAAAATAA
15515130 TATA
1 TATA
15515134 GGCAGGTCGG
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:15520332 original size:10 final size:10
Alignment explanation
Indices: 15520317--15520356 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
15520307 AAAATCTTAG
15520317 ATTAAAAAAT
1 ATTAAAAAAT
15520327 ATTAAAAAAT
1 ATTAAAAAAT
*
15520337 CTGTAAAAAAT
1 AT-TAAAAAAT
15520348 -TTAAAAAAT
1 ATTAAAAAAT
15520357 CATATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 8 0.29
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:15520351 original size:20 final size:21
Alignment explanation
Indices: 15520319--15520357 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
15520309 AATCTTAGAT
15520319 TAAAAAATATTAAAAAATCTG
1 TAAAAAATATTAAAAAATCTG
15520340 TAAAAAAT-TTAAAAAATC
1 TAAAAAATATTAAAAAATC
15520358 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAAAATATTAAAAAATCTG
Found at i:15522135 original size:7 final size:7
Alignment explanation
Indices: 15522123--15522147 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15522113 TAAGACTCAA
15522123 ATCTAGG
1 ATCTAGG
15522130 ATCTAGG
1 ATCTAGG
15522137 ATCTAGG
1 ATCTAGG
15522144 ATCT
1 ATCT
15522148 CATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (7 bp):
ATCTAGG
Found at i:15522425 original size:20 final size:19
Alignment explanation
Indices: 15522375--15522425 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 19
15522365 AATAGTTCTG
15522375 TCTCTTGATGAACAATTGTA
1 TCTCTTG-TGAACAATTGTA
15522395 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
15522412 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
15522426 TATTTATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.54
18 2 0.07
19 2 0.07
20 9 0.32
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:15530923 original size:27 final size:26
Alignment explanation
Indices: 15530886--15531000 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
15530876 AGCATGGCTG
* *
15530886 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
15530912 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
15530940 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
15530967 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
15530994 CCAGAAC
1 CCAGAAC
15531001 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:15530945 original size:54 final size:54
Alignment explanation
Indices: 15530886--15531000 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
15530876 AGCATGGCTG
*
15530886 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
15530940 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
15530994 CCAGAAC
1 CCAGAAC
15531001 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:15531130 original size:26 final size:26
Alignment explanation
Indices: 15531101--15531152 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15531091 CAAAATTAAC
*
15531101 CCTACGGGTATAACGGTAATTTTCCA
1 CCTACGGGTATAACAGTAATTTTCCA
*
15531127 CCTAGGGGTATAACAGTAATTTTCCA
1 CCTACGGGTATAACAGTAATTTTCCA
15531153 TACATAGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (26 bp):
CCTACGGGTATAACAGTAATTTTCCA
Found at i:15531172 original size:28 final size:26
Alignment explanation
Indices: 15531106--15531176 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 26
15531096 TTAACCCTAC
* *
15531106 GGGTATAACGGTAATTTTCCACCTAG
1 GGGTATAACAGTAATTTTCCACATAG
15531132 GGGTATAACAGTAATTTTCCATACATAG
1 GGGTATAACAGTAATTTTCC--ACATAG
* *
15531160 GGGTATTATAGTAATTT
1 GGGTATAACAGTAATTT
15531177 AGCTACTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 19 0.49
28 20 0.51
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (26 bp):
GGGTATAACAGTAATTTTCCACATAG
Found at i:15532653 original size:26 final size:26
Alignment explanation
Indices: 15532617--15532726 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15532607 CATTAAATTC
15532617 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
15532643 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
15532669 TTATCATGAAAAATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15532695 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15532721 TTATCA
1 TTATCA
15532727 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15533901 original size:22 final size:22
Alignment explanation
Indices: 15533884--15533927 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15533874 AGTGCTAAGT
**
15533884 AGAGAGCATTAAAGTGCTGAAC
1 AGAGAGCAACAAAGTGCTGAAC
15533906 AGAGAGCAACAAAGTGCTGAAC
1 AGAGAGCAACAAAGTGCTGAAC
15533928 CCATACAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (22 bp):
AGAGAGCAACAAAGTGCTGAAC
Found at i:15539146 original size:12 final size:12
Alignment explanation
Indices: 15539129--15539161 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15539119 CTGCCCGCCC
15539129 ATATTATTTTTT
1 ATATTATTTTTT
15539141 ATATTA-TTTTT
1 ATATTATTTTTT
*
15539152 ATATGATTTT
1 ATATTATTTT
15539162 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:15539320 original size:30 final size:30
Alignment explanation
Indices: 15539284--15539346 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
15539274 ACTTAACAAG
15539284 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
15539314 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
15539344 CAA
1 CAA
15539347 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:15539401 original size:22 final size:22
Alignment explanation
Indices: 15539375--15539423 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15539365 ATATTCAAAT
15539375 AATAACAACAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * * *
15539397 CATAATAATAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
15539419 AATAA
1 AATAA
15539424 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:15539837 original size:96 final size:96
Alignment explanation
Indices: 15539725--15540012 Score: 549
Period size: 96 Copynumber: 3.0 Consensus size: 96
15539715 TACTATCATA
15539725 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
1 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
15539790 ACGTAGGAGTGGGTGAGCCTATCATTCCATG
66 ACGTAGGAGTGGGTGAGCCTATCATTCCATG
*
15539821 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATGAGTGTGT
1 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
*
15539886 ACGTAGGAGTGCGTGAGCCTATCATTCCATG
66 ACGTAGGAGTGGGTGAGCCTATCATTCCATG
15539917 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
1 TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
*
15539982 ACGTAGGAGTGGGTGAGCCTATCATTGCATG
66 ACGTAGGAGTGGGTGAGCCTATCATTCCATG
15540013 CACATGGCAT
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 187 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (96 bp):
TATGCTTAGTCTTATATATACACCCACGCATACACCGATCCGTTTCCATTCCAGCATAAGTGTGT
ACGTAGGAGTGGGTGAGCCTATCATTCCATG
Found at i:15540562 original size:31 final size:31
Alignment explanation
Indices: 15540526--15540585 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15540516 TTAATTTTAC
* * *
15540526 CAATTTTAGTCTTTTTATTTTTCGAATTGAT
1 CAATTTTAGTCTCTATACTTTTCGAATTGAT
15540557 CAATTTTAGTCTCTATACTTTTCGAATTG
1 CAATTTTAGTCTCTATACTTTTCGAATTG
15540586 GGAACCCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (31 bp):
CAATTTTAGTCTCTATACTTTTCGAATTGAT
Found at i:15544869 original size:27 final size:27
Alignment explanation
Indices: 15544804--15544945 Score: 137
Period size: 27 Copynumber: 5.2 Consensus size: 27
15544794 GTGACGAAGT
15544804 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
* * * * *
15544831 TACTAAAACAGATATATGTGGTAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
*
15544858 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
*
15544885 CACCAGGA-CATATATATGTGGCAGAGC
1 CACCA-GATCAGATATATGTGGCAGAGC
* * *
15544912 CACCAGATTAGATAAATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
15544940 CACCAG
1 CACCAG
15544946 GACGCTTCCT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
26 10 0.11
27 63 0.68
28 19 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:15544876 original size:54 final size:54
Alignment explanation
Indices: 15544804--15544944 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
15544794 GTGACGAAGT
* * *
15544804 CACCAGATACAGAT-ATTGTGGCAGAGCTACTAAAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
* ** *
15544858 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACATATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
* *
15544912 CACCAGATTAGATAAATTGTGGCATAGCCACCA
1 CACCAGATCAGAT-AATTGTGGCAGAGCCACCA
15544945 GGACGCTTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 5 0.06
54 53 0.69
55 19 0.25
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
Found at i:15546574 original size:26 final size:26
Alignment explanation
Indices: 15546544--15546625 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
15546534 TGAAATGCCC
15546544 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15546570 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15546596 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15546622 ATCA
1 ATCA
15546626 ATTTTTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15549683 original size:2 final size:2
Alignment explanation
Indices: 15549676--15549707 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15549666 CCCTTGCATT
15549676 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
15549708 GGTTTTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15549909 original size:18 final size:16
Alignment explanation
Indices: 15549886--15549920 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15549876 AATTTAACTT
15549886 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
15549904 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
15549920 T
1 T
15549921 TATAAACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:15556722 original size:23 final size:25
Alignment explanation
Indices: 15556685--15556736 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
15556675 TTTAGACAAT
* *
15556685 AAAAGAAGAATAGAA-AAG-GAAGA
1 AAAAGAAGAAGAGAAGAAGAAAAGA
*
15556708 AAAAGAAGAGGAGAAGAAGAAAAGA
1 AAAAGAAGAAGAGAAGAAGAAAAGA
15556733 AAAA
1 AAAA
15556737 ATGGAGATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 3 0.12
25 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (25 bp):
AAAAGAAGAAGAGAAGAAGAAAAGA
Done.