Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 12 of 207
Found at i:4052179 original size:17 final size:18
Alignment explanation
Indices: 4052152--4052190 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
4052142 GCTTTTATTT
4052152 ATATAAATAAATATTAAA
1 ATATAAATAAATATTAAA
4052170 ATAT-AATAAATATTAAA
1 ATATAAATAAATATTAAA
4052187 ATAT
1 ATAT
4052191 TATGGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAAATAAATATTAAA
Found at i:4054690 original size:4 final size:4
Alignment explanation
Indices: 4054681--4054713 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4054671 TCATCAAGGT
4054681 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
4054714 CTTGCATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4058609 original size:45 final size:45
Alignment explanation
Indices: 4058556--4058651 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
4058546 ATTCAAATAT
4058556 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
1 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
4058601 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
1 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
*
4058646 AGTATT
1 ATTATT
4058652 GTACTATCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (45 bp):
ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
Found at i:4062575 original size:9 final size:9
Alignment explanation
Indices: 4062559--4062628 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
4062549 GGTATTTTTC
4062559 GGTAATTCG
1 GGTAATTCG
*
4062568 GTTAATTCG
1 GGTAATTCG
*
4062577 GTTAATTCG
1 GGTAATTCG
*
4062586 GTTAATTCG
1 GGTAATTCG
4062595 GGTAATTCG
1 GGTAATTCG
4062604 GGTAATTCG
1 GGTAATTCG
4062613 GGTAATTCG
1 GGTAATTCG
*
4062622 AGTAATT
1 GGTAATT
4062629 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:4073686 original size:27 final size:27
Alignment explanation
Indices: 4073656--4073720 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
4073646 CTCACTCGAG
*
4073656 GCTATAATACTACAACCATTCAGGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* * *
4073683 GCTATAGTACGACAACCATTTAAGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* *
4073710 GTTATGATACT
1 GCTATAATACT
4073721 TGTAATGGCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (27 bp):
GCTATAATACTACAACCATTCAAGAGT
Found at i:4078419 original size:42 final size:42
Alignment explanation
Indices: 4078336--4078427 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
4078326 CTTGGTATCT
* * ***
4078336 CACACTTAGTGCTCGTTATTCGACATCGTCATTTTTGTTTCG
1 CACACTTAATGCTCGTTATTCAACATCGTCATTTGAATTTCG
*
4078378 CACATTTAATGCTCGTTATTCAACATCGTCATTTGAATTTCG
1 CACACTTAATGCTCGTTATTCAACATCGTCATTTGAATTTCG
4078420 CACACTTA
1 CACACTTA
4078428 GTGCCATTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (42 bp):
CACACTTAATGCTCGTTATTCAACATCGTCATTTGAATTTCG
Found at i:4099708 original size:21 final size:22
Alignment explanation
Indices: 4099684--4099741 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 22
4099674 TAAAATATAA
4099684 ATTTTGAATTTTTTTGTAAA-T
1 ATTTTGAATTTTTTTGTAAATT
*
4099705 ATTTTGAA--TTTTTGAAAATT
1 ATTTTGAATTTTTTTGTAAATT
4099725 ATTTT-AATTTTTGTTGT
1 ATTTTGAATTTTT-TTGT
4099742 GAGAGAGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 11 0.35
20 6 0.19
21 11 0.35
22 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (22 bp):
ATTTTGAATTTTTTTGTAAATT
Found at i:4101661 original size:32 final size:33
Alignment explanation
Indices: 4101622--4101684 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
4101612 TATACCAAAC
*
4101622 AATAAATAATA-TTT-AAGAATCTTTTTATCTAA
1 AATAAATAATATTTTAAAG-ATATTTTTATCTAA
*
4101654 AATAAATATTATTTTAAAGATATTTTTATCT
1 AATAAATAATATTTTAAAGATATTTTTATCT
4101685 TTTCGGCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 14 0.52
34 3 0.11
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (33 bp):
AATAAATAATATTTTAAAGATATTTTTATCTAA
Found at i:4101709 original size:17 final size:18
Alignment explanation
Indices: 4101677--4101710 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4101667 TTAAAGATAT
4101677 TTTTATCTTTTCGGCCCC
1 TTTTATCTTTTCGGCCCC
*
4101695 TTTTAT-TTTTGGGCCC
1 TTTTATCTTTTCGGCCC
4101711 TGGGCGGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.26, G:0.15, T:0.53
Consensus pattern (18 bp):
TTTTATCTTTTCGGCCCC
Found at i:4129064 original size:17 final size:17
Alignment explanation
Indices: 4129044--4129077 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4129034 TAAGAGATTA
4129044 TAAATAAAAATAAACAT
1 TAAATAAAAATAAACAT
* *
4129061 TAAATCAAAATATACAT
1 TAAATAAAAATAAACAT
4129078 ACATCGTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAAAAATAAACAT
Found at i:4129640 original size:7 final size:7
Alignment explanation
Indices: 4129630--4129655 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4129620 AAGGGAATTA
4129630 GGGGATT
1 GGGGATT
4129637 GGGGATT
1 GGGGATT
4129644 GGGGATT
1 GGGGATT
4129651 GGGGA
1 GGGGA
4129656 GGGGAATAAG
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:0.62, T:0.23
Consensus pattern (7 bp):
GGGGATT
Found at i:4130300 original size:14 final size:14
Alignment explanation
Indices: 4130283--4130329 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4130273 GAAGAGAATG
4130283 AAAAATAAAGAAAA
1 AAAAATAAAGAAAA
* **
4130297 AAAAAGAAAGTTAA
1 AAAAATAAAGAAAA
*
4130311 AAAAATAAA-ACAA
1 AAAAATAAAGAAAA
4130324 AAAAAT
1 AAAAAT
4130330 TAAATTGCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (14 bp):
AAAAATAAAGAAAA
Found at i:4132531 original size:27 final size:26
Alignment explanation
Indices: 4132446--4132531 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
4132436 TCTTAAAAAG
* *
4132446 AAAAAAAACTTAAATACCAAATTAAA
1 AAAAAAAATTTAAATAACAAATTAAA
* * *
4132472 AAATATCAAATTTTAATAACAAATTAGAT
1 AAA-A-AAAATTTAAATAACAAATTA-AA
*
4132501 AAAAGAAATTTAAATAACAAATTAAA
1 AAAAAAAATTTAAATAACAAATTAAA
4132527 AAAAA
1 AAAAA
4132532 TTTAATATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.17
27 19 0.40
28 17 0.35
29 4 0.08
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAAAAATTTAAATAACAAATTAAA
Found at i:4143998 original size:16 final size:16
Alignment explanation
Indices: 4143977--4144013 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4143967 TTGGTTCGCT
*
4143977 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
4143993 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4144009 GTAAT
1 GTAAT
4144014 AGTATTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:4144318 original size:120 final size:120
Alignment explanation
Indices: 4144182--4144471 Score: 537
Period size: 120 Copynumber: 2.4 Consensus size: 120
4144172 TTAATCATAT
4144182 TTTAACATAATTATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAAATTCTTAATA-
1 TTTAACATAATTATTATTAAATATAATTTAAT-AAAAATATATAATTTAATAAAATTCTTAATAT
*
4144246 TAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4144302 TTTAACATAATTATTATGAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
4144367 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4144422 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
4144472 CTAAAGTTTG
Statistics
Matches: 165, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
119 31 0.19
120 134 0.81
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4160599 original size:3 final size:3
Alignment explanation
Indices: 4160591--4160643 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
4160581 AATGAGTAAG
4160591 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4160639 ATT AT
1 ATT AT
4160644 AACTCACAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4173843 original size:16 final size:16
Alignment explanation
Indices: 4173822--4173858 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4173812 TTGGTTCGCT
*
4173822 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
4173838 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4173854 GTAAT
1 GTAAT
4173859 AGTATTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:4174908 original size:9 final size:9
Alignment explanation
Indices: 4174894--4174924 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4174884 GTTAAACGAA
4174894 TCGAGTTAT
1 TCGAGTTAT
*
4174903 TCGAGTTAA
1 TCGAGTTAT
4174912 TCGAGTTAT
1 TCGAGTTAT
4174921 TCGA
1 TCGA
4174925 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4174994 original size:9 final size:9
Alignment explanation
Indices: 4174977--4175013 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4174967 TGAGTTTTCA
4174977 AATTCGAAT
1 AATTCGAAT
*
4174986 AACTCGAAT
1 AATTCGAAT
4174995 AATTCGAAT
1 AATTCGAAT
4175004 AATTCGAAT
1 AATTCGAAT
4175013 A
1 A
4175014 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4178338 original size:23 final size:23
Alignment explanation
Indices: 4178309--4178356 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4178299 TGAATGAAAG
4178309 TGAAAGTTGATATGAATATGTGC
1 TGAAAGTTGATATGAATATGTGC
4178332 TGAAAGTTGATATGAATATGTGC
1 TGAAAGTTGATATGAATATGTGC
4178355 TG
1 TG
4178357 GAATTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (23 bp):
TGAAAGTTGATATGAATATGTGC
Found at i:4182088 original size:24 final size:25
Alignment explanation
Indices: 4182056--4182102 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4182046 ATTAAGGTTT
*
4182056 TATTTATTATTAAATTAT-AAATTA
1 TATTAATTATTAAATTATGAAATTA
*
4182080 TATTAATTATTATATTATGAAAT
1 TATTAATTATTAAATTATGAAAT
4182103 AAATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTAATTATTAAATTATGAAATTA
Found at i:4183822 original size:45 final size:45
Alignment explanation
Indices: 4183773--4183909 Score: 184
Period size: 45 Copynumber: 3.0 Consensus size: 45
4183763 TTCTGTTACC
*
4183773 GATTCGGCACTTTGTGTGTCGAATACTGATACTATTACTATTATT
1 GATTCGGCACTTTGTGTGTCGAATACTGATACTGTTACTATTATT
* * * * **
4183818 GATTCGGCACTTTGTGTGTTGAATACTGTTACCGTTACTGTTACC
1 GATTCGGCACTTTGTGTGTCGAATACTGATACTGTTACTATTATT
* *
4183863 GATTCGGCACTTCGTGTGTCGAATACTGCTACTGTTACTGATTATT
1 GATTCGGCACTTTGTGTGTCGAATACTGATACTGTTACT-ATTATT
4183909 G
1 G
4183910 TTTACTGGTG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 73 0.95
46 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (45 bp):
GATTCGGCACTTTGTGTGTCGAATACTGATACTGTTACTATTATT
Found at i:4187499 original size:3 final size:3
Alignment explanation
Indices: 4187433--4187480 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
4187423 AAAATAAAAC
*
4187433 TAA TAAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4187479 TA
1 TA
4187481 TCAAATTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4188675 original size:50 final size:50
Alignment explanation
Indices: 4188616--4188983 Score: 214
Period size: 50 Copynumber: 7.4 Consensus size: 50
4188606 GCAAGATTTG
* * * *
4188616 CCGTCGTAGCTTCAATCTACTCCATTACACCGCCAGAGAAGTAAGATTCG
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* ** ** ** * * * *
4188666 CTGTTGTAGCTTCAATCTATTTAACCGCAATGTCGGAGAAGCAAGATTTA
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* * * * *
4188716 CCGTTGTAGCTTCAATCTGTTCCACTGCACCTCTAGGGAAGTAAGATTCA
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* ** * ** * *
4188766 CTGTTGTAGCTTCAATCTATTTAACAACAATGTCGGAGAAGTAAGATTCA
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* * * ** * * * *
4188816 CCGTCGTAGCTTCAATCTGTTCCACTGCATTGCTAGGGAAATAAGATTCG
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* ** * ** * * * ** *
4188866 CTGTTGTAGCTTCAATCTATTTAACCACAATGTCGGGGAAACAATATTCA
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* * * * * * *
4188916 CCGTCGTAGCTTCAATCTATTCTACTGCACCGCTAGGGAAATAAGATTCG
1 CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
* *
4188966 CCGTTGTGGCCTCAATCT
1 CCGTTGTAGCTTCAATCT
4188984 TTTTAATTGC
Statistics
Matches: 231, Mismatches: 87, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 231 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
CCGTTGTAGCTTCAATCTATTCCACTACACCGCCAGAGAAGTAAGATTCA
Found at i:4188757 original size:100 final size:99
Alignment explanation
Indices: 4188578--4189233 Score: 652
Period size: 100 Copynumber: 6.7 Consensus size: 99
4188568 TTGCCATCTC
* ** * ** * *
4188578 CAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTCAATCTACTCCATTA
1 CAATCTATTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
* * * *
4188643 CACCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTT
65 CACCGCTAGGGAAATAAGATTCGCCGTTGTAGCTT
* *
4188678 CAATCTATTTAACCGCAATGTCGGAGAAGCAAGATTTACCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATCTATTTAACTGCAATGTCGG-GAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
* * * *
4188743 CACCTCTAGGGAAGTAAGATTCACTGTTGTAGCTT
65 CACCGCTAGGGAAATAAGATTCGCCGTTGTAGCTT
** * *
4188778 CAATCTATTTAACAACAATGTCGGAGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTG
1 CAATCTATTTAACTGCAATGTCGG-GAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
** *
4188843 CATTGCTAGGGAAATAAGATTCGCTGTTGTAGCTT
65 CACCGCTAGGGAAATAAGATTCGCCGTTGTAGCTT
** * * * * *
4188878 CAATCTATTTAACCACAATGTCGGGGAAACAATATTCACCGTCGTAGCTTCAATCTATTCTACTG
1 CAATCTATTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
* *
4188943 CACCGCTAGGGAAATAAGATTCGCCGTTGTGGCCT
65 CACCGCTAGGGAAATAAGATTCGCCGTTGTAGCTT
* * ** *
4188978 CAATCTTTTTAATTGCAATGTC-----G--AGATTC-CTATTGTAGCTTCAATCTGTTCCACTAC
1 CAATCTATTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC
* * * *
4189035 ACCGCATA-GGAAATAAGATTCGCCATCGTGGCAT
66 ACCGC-TAGGGAAATAAGATTCGCCGTTGTAGCTT
* * * * * *
4189069 CAATCT-TTTAATTGCGATGTCAGGGAAGCAAGATTCGCCATTGTAGTTTTAATCTGTTCCACTG
1 CAATCTATTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
* * * *
4189133 CACCACCT-GGGAAATAAGATTCGCCATTGTGGCTC
65 CACC-GCTAGGGAAATAAGATTCGCCGTTGTAGCTT
* * *
4189168 CAATCT-TTTAATTGCAATGTTGGGAAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATCTATTTAACTGCAATGTCGGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
4189232 CA
65 CA
4189234 TTACTGGGGA
Statistics
Matches: 477, Mismatches: 64, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
90 14 0.03
91 56 0.12
92 7 0.01
96 1 0.00
98 9 0.02
99 108 0.23
100 280 0.59
101 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (99 bp):
CAATCTATTTAACTGCAATGTCGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC
ACCGCTAGGGAAATAAGATTCGCCGTTGTAGCTT
Found at i:4189253 original size:50 final size:50
Alignment explanation
Indices: 4189091--4189255 Score: 127
Period size: 50 Copynumber: 3.3 Consensus size: 50
4189081 TGCGATGTCA
* * * **
4189091 GGGAAGCAAGATTCGCCATTGTAGTTTTAATCTGTTCCACTGCACCACCT-
1 GGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAATA-CTG
** * * * ** * **
4189141 GGGAAATAAGATTCGCCATTGTGGCTCCAATCT-TTTAATTGCAATGTTG
1 GGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAATACTG
* * * *
4189190 GGAAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATTACTG
1 GGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAATACTG
*
4189240 GGGAAGTAAGATTCAC
1 GGGAAGCAAGATTCAC
4189256 TATCTTCGAT
Statistics
Matches: 83, Mismatches: 30, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
48 1 0.01
49 32 0.39
50 50 0.60
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAATACTG
Found at i:4189463 original size:132 final size:131
Alignment explanation
Indices: 4189242--4189755 Score: 574
Period size: 132 Copynumber: 3.9 Consensus size: 131
4189232 CATTACTGGG
* * * * * * *
4189242 GAAG-TAAGATTCACTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTACCATTT
1 GAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATTTGCAATCT
* * * ** *
4189305 TCAACCTACTCCACTGCT-ATTCAGGGAGATAGGACTAGT-GCTTTCGATCTGCTTTACTGCCAG
65 TCAACCTACTCCACTACTGCTT-AGGGAGATAGGACTAATGGC-TTAAATCTGC-TT-CT-CCAC
4189368 TA-C-AA
125 TATCTAA
* * *
4189373 GAAGATAAGATAT-GCCATCTTCGATTTGCTTCACTACTGCTTAGGGAGACAGAATTTGTAATCT
1 GAAGATAAGAT-TCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATCT
* * * **
4189437 CCAACCAAATCTGCTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
65 TCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC-
**
4189502 TGG
129 TAA
* * * *
4189505 GAAGATAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGCAATCTT
1 GAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTT
*
4189570 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATTTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC-T
**
4189635 GG
130 AA
* *
4189637 GAATATAAGATTCGCCATCTTCGATCTGCTCCATTACTGCTTAGGGAGACAGAATTTGCAATCTT
1 GAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTT
* * **
4189702 CAACCTACTCCACTACTGCTTATGGAGATAGGACTAATGGTTTCGATCTGCTTC
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTC
4189756 GCTGTCAGTA
Statistics
Matches: 327, Mismatches: 47, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
129 5 0.02
130 3 0.01
131 7 0.02
132 306 0.94
133 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (131 bp):
GAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAATCTT
CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTA
A
Found at i:4189597 original size:44 final size:44
Alignment explanation
Indices: 4189533--4189729 Score: 138
Period size: 44 Copynumber: 4.5 Consensus size: 44
4189523 CTTCGATCTG
*
4189533 CTCCACTACTGCTTAAGGAGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
* * * * *
4189577 CTCCACTACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATTTGCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAA---CCTA
* * * * * * *
4189623 CTCCACTA-T-CTT-GGGAATATAAGATTC-GCCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGA-CAGAATCTGCAATCTTCAACCTA
* *
4189665 CTCCATTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
*
4189709 CTCCACTACTGCTTATGGAGA
1 CTCCACTACTGCTTAGGGAGA
4189730 TAGGACTAAT
Statistics
Matches: 113, Mismatches: 26, Indels: 28
0.68 0.16 0.17
Matches are distributed among these distances:
41 3 0.03
42 9 0.08
43 15 0.13
44 63 0.56
45 10 0.09
46 11 0.10
47 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
Found at i:4189720 original size:264 final size:263
Alignment explanation
Indices: 4189240--4189755 Score: 641
Period size: 264 Copynumber: 2.0 Consensus size: 263
4189230 TGCATTACTG
* * * * * *
4189240 GGGAAGTAAGATTCACTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATTT
1 GGGAAGTAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCT
* * ** *
4189305 TCAACCTACTCCACTGCTATTCAGGGAGATAGGACTAGTGCTTTCGATCTGCTTTACTGCCAGTA
66 TCAACCTACTCCACTACTATTCAGGGAGATAGGACTAATGCTTTAAATCTGCTTTACTGCCACTA
* * *
4189370 CAAGAAGATAAGATATGCCATCTTCGATTTGCTTCACTACTGCTTAGGGAGACAGAATTTGTAAT
131 CAAGAAGATAAGATATGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAAT
**
4189435 CTCCAACCAAATCTGCTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
196 CTCCAACCAAATCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
4189500 CTT
261 CTT
*
4189503 GGGAAGATAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAAGGAGAC-AGAATCTGCAAT
1 GGGAAG-TAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAAGGAGACAAG-ATCTACAAT
* *
4189567 CTTCAACCTACTCCACTACTGCTT-AGGGAGATAGGACTAATGGC-TTAAATTTGC-TT-CT-CC
64 CTTCAACCTACTCCACTACT-ATTCAGGGAGATAGGACTAAT-GCTTTAAATCTGCTTTACTGCC
** * *
4189627 ACTATCTTGGGAATATAAGAT-TCGCCATCTTCGATCTGCTCCATTACTGCTTAGGGAGACAGAA
127 ACTA-C--AAGAAGATAAGATAT-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAA
* * * * * **
4189691 TTTGCAATCTTCAACCTACTCCACTACTGCTTATGGAGATAGGACTAATGGTTTCGATCTGCTTC
188 TTTGCAATCTCCAACCAAATCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTC
4189756 GCTGTCAGTA
Statistics
Matches: 215, Mismatches: 30, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
261 5 0.02
262 3 0.01
263 11 0.05
264 192 0.89
265 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (263 bp):
GGGAAGTAAGATTCACCACCTTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCT
TCAACCTACTCCACTACTATTCAGGGAGATAGGACTAATGCTTTAAATCTGCTTTACTGCCACTA
CAAGAAGATAAGATATGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATTTGCAAT
CTCCAACCAAATCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CTT
Found at i:4189907 original size:46 final size:46
Alignment explanation
Indices: 4189840--4190170 Score: 484
Period size: 46 Copynumber: 7.2 Consensus size: 46
4189830 TCACTGTCAG
* * * * *
4189840 TACAGGAAGGCAAGATATGCTATCTTC-AGTCTGCTCCGCTGTCAGA
1 TACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAA
* *
4189886 TACGGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCTAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
* * *
4189932 TACAGGAAGACAAGATTTGCTATCTTTGATCTACTCTGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
*
4189978 TACAGGAAGATAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
* *
4190024 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCTAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
*
4190070 TATAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
* * * *
4190116 TACATGAAGGCAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
4190162 TACAGGAAG
1 TACAGGAAG
4190171 CCAAATACAG
Statistics
Matches: 256, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 255 1.00
47 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (46 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
Found at i:4190091 original size:138 final size:138
Alignment explanation
Indices: 4189840--4190253 Score: 533
Period size: 138 Copynumber: 2.9 Consensus size: 138
4189830 TCACTGTCAG
* * * * *
4189840 TACAGGAAGGCAAGATATGCTATCTTC-AGTCTGCTCCGCTGTCAGATACGGGAAGACAAGATCT
1 TACAGGAAGGCAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATACAGGAAGACAAGATCT
* * *
4189904 GCTATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATTTGCTATCTTTGATCTACTCT
65 GCTATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCC
4189969 GCTGCCAAA
130 GCTGCCAAA
**
4189978 TACAGGAAGATAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTG
1 TACAGGAAGGCAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTG
* *
4190043 CTATCTTCGATCTACTCTGCTGCTAAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTCCG
66 CTATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCG
4190108 CTGCCAAA
131 CTGCCAAA
* * *
4190116 TACATGAAGGCAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAATACAGGAAGCCAAATACAG
1 TACAGGAAGGCAAGATCTGCTATCTTCGATCTACT-C-C-G-C---T-------GCCAAATACAG
* *
4190181 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATC
52 GAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGCTATC
4190246 TTCGATCT
117 TTCGATCT
4190254 GTTCTCTGGG
Statistics
Matches: 240, Mismatches: 21, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
138 154 0.64
139 2 0.01
140 1 0.00
141 1 0.00
142 1 0.00
145 1 0.00
152 80 0.33
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (138 bp):
TACAGGAAGGCAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTG
CTATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCG
CTGCCAAA
Found at i:4190175 original size:14 final size:14
Alignment explanation
Indices: 4190156--4190184 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4190146 CAACTCCGCT
4190156 GCCAAATACAGGAA
1 GCCAAATACAGGAA
4190170 GCCAAATACAGGAA
1 GCCAAATACAGGAA
4190184 G
1 G
4190185 ACAAGATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.24, T:0.07
Consensus pattern (14 bp):
GCCAAATACAGGAA
Found at i:4190203 original size:60 final size:60
Alignment explanation
Indices: 4190110--4190230 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
4190100 CTACTCCGCT
* *
4190110 GCCAAATACATGAAGGCAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAATACAGGAA
1 GCCAAATACAGGAAGACAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAATACAGGAA
* * *
4190170 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAA
1 GCCAAATACAGGAAGACAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAATACAGGAA
4190230 G
1 G
4190231 ACAAGATCTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
GCCAAATACAGGAAGACAAGATCTGCAATCTTCGATCAACTCCGCTGCCAAATACAGGAA
Found at i:4190536 original size:24 final size:24
Alignment explanation
Indices: 4190485--4190538 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4190475 TTACCCCCAT
*
4190485 TGTAATCTTCAAACTTCAATCCAT
1 TGTAATCTTCAAACTTCAATCCAC
**
4190509 TGTAATCTTCAAGGTT-AAGTCCAC
1 TGTAATCTTCAAACTTCAA-TCCAC
4190533 TGTAAT
1 TGTAAT
4190539 TTTGGGACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (24 bp):
TGTAATCTTCAAACTTCAATCCAC
Found at i:4196176 original size:6 final size:6
Alignment explanation
Indices: 4196165--4196199 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
4196155 CTAAAGTTTT
*
4196165 AAAAAG AAAAAG AAAAAG AAAAGG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
4196200 AAATATATAT
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4196471 original size:3 final size:3
Alignment explanation
Indices: 4196465--4196500 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4196455 AATGATGATG
4196465 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
4196501 TCAAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4218579 original size:100 final size:100
Alignment explanation
Indices: 4218462--4218662 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
4218452 TATATTATCA
4218462 TTGTAAAATTATTTTTTAATTTATATTAAATAAATATTATTTTAATGTCTTGATGTAGGCATTAT
1 TTGTAAAATTATTTTTTAATTTATATTAAATAAATATTATTTTAATGTCTTGATGTAGGCATTAT
4218527 TTCTGAAAATATATGAAAAGTAAGGAAGTTGGTTT
66 TTCTGAAAATATATGAAAAGTAAGGAAGTTGGTTT
4218562 TTGTAAAATTATTTTTTAATTTATATTAAATAAATATTATTTTAATGTCTTGATGTAGGCATTAT
1 TTGTAAAATTATTTTTTAATTTATATTAAATAAATATTATTTTAATGTCTTGATGTAGGCATTAT
4218627 TTCTGAAAATATATGAAAAGTAAGGAAGTTGGTTT
66 TTCTGAAAATATATGAAAAGTAAGGAAGTTGGTTT
4218662 T
1 T
4218663 CTTTGTAAAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (100 bp):
TTGTAAAATTATTTTTTAATTTATATTAAATAAATATTATTTTAATGTCTTGATGTAGGCATTAT
TTCTGAAAATATATGAAAAGTAAGGAAGTTGGTTT
Found at i:4221006 original size:15 final size:15
Alignment explanation
Indices: 4220986--4221015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4220976 ATATAGGCAT
*
4220986 TTAATTTTTTCTAAA
1 TTAATTATTTCTAAA
4221001 TTAATTATTTCTAAA
1 TTAATTATTTCTAAA
4221016 AATATATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTATTTCTAAA
Found at i:4254931 original size:23 final size:22
Alignment explanation
Indices: 4254897--4254940 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4254887 AAGAAAAGTA
*
4254897 AAAAAAAAAAAAACTTTGATGG
1 AAAAAAAAAAAAACGTTGATGG
* *
4254919 AAAAAATAGAAAACGTTGATGG
1 AAAAAAAAAAAAACGTTGATGG
4254941 CTAAAGGAAA
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:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAAAAAAAAAAACGTTGATGG
Found at i:4255203 original size:21 final size:21
Alignment explanation
Indices: 4255156--4255210 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4255146 ACTGCTATTT
* *
4255156 CTAATCTCACTGCTACAATAC
1 CTAATCTCACCGCTACAATAA
* * *
4255177 CCAATCTCACCGCTATAGTAA
1 CTAATCTCACCGCTACAATAA
4255198 CTAATCTCACCGC
1 CTAATCTCACCGC
4255211 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.36, G:0.07, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:4255501 original size:19 final size:18
Alignment explanation
Indices: 4255473--4255514 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4255463 TTCAAAATAT
*
4255473 AAAAATTTAACAACTATA
1 AAAAATTTAAAAACTATA
*
4255491 AAAAATATTAAAAATTATA
1 AAAAAT-TTAAAAACTATA
4255510 AAAAA
1 AAAAA
4255515 AACTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTTAAAAACTATA
Found at i:4257223 original size:158 final size:150
Alignment explanation
Indices: 4256847--4257235 Score: 571
Period size: 158 Copynumber: 2.5 Consensus size: 150
4256837 GGAAAAATCC
*
4256847 AAAAAAGCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
*** * * *
4256912 CTGAGCTAGACGGGCCGGTTGATCTAGAATGTGTAAATTCTTTTACAAATTCAAAACTAATTGTT
66 CTGAGCTAGACGGGCTAATTGATCTACAATGTGTAAATTCTTTTACAAATTAAAAACTAATAGTT
4256977 TCCAGTTACTTGGAAAAAGT
131 TCCAGTTACTTGGAAAAAGT
* *
4256997 TAAAGATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
* *
4257062 CTGAGCTAGACGGGCTAATTGATCTCCATTGTGTAAGATTATAAACTTCTTACAAATTTAAAAAC
66 CTGAGCTAGACGGGCTAATTGATCTACAATGTGTAA-A-T-T---CTT-TTACAAA-TTAAAAAC
* *
4257127 TAATAGTTTCCAGTTCCTTGGAAAATGT
123 TAATAGTTTCCAGTTACTTGGAAAAAGT
**
4257155 AAAAAATCTTCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
4257220 CTGAGCTAGACGGGCT
66 CTGAGCTAGACGGGCT
4257236 TCTTGTCGCG
Statistics
Matches: 214, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
150 92 0.43
151 1 0.00
152 1 0.00
153 1 0.00
156 3 0.01
157 7 0.03
158 109 0.51
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (150 bp):
AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
CTGAGCTAGACGGGCTAATTGATCTACAATGTGTAAATTCTTTTACAAATTAAAAACTAATAGTT
TCCAGTTACTTGGAAAAAGT
Found at i:4260056 original size:21 final size:21
Alignment explanation
Indices: 4260008--4260092 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
4259998 CTTTGCCGAC
*
4260008 CAGGCACTTTATGTGTTGTATTT
1 CAGGCACTTTATGTGTCGTA--T
4260031 CAGGCACTTTATGTGTCGTAT
1 CAGGCACTTTATGTGTCGTAT
** *
4260052 CAGGCA-TCTCGTGTGTCGTTT
1 CAGGCACT-TTATGTGTCGTAT
4260073 CAGGCAC-TTATGTGTCGTAT
1 CAGGCACTTTATGTGTCGTAT
4260093 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.21
21 23 0.43
23 19 0.36
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (21 bp):
CAGGCACTTTATGTGTCGTAT
Found at i:4261205 original size:18 final size:18
Alignment explanation
Indices: 4261182--4261217 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4261172 AAGTTTACAT
* *
4261182 TATATTATATTATTTTTA
1 TATATTAAATAATTTTTA
4261200 TATATTAAATAATTTTTA
1 TATATTAAATAATTTTTA
4261218 ACACACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTAAATAATTTTTA
Found at i:4273922 original size:10 final size:10
Alignment explanation
Indices: 4273907--4273931 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4273897 TGGCGGTTAG
4273907 AAAAAAATAA
1 AAAAAAATAA
4273917 AAAAAAATAA
1 AAAAAAATAA
4273927 AAAAA
1 AAAAA
4273932 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:4274072 original size:10 final size:10
Alignment explanation
Indices: 4274003--4274081 Score: 72
Period size: 10 Copynumber: 8.0 Consensus size: 10
4273993 TACATTATGG
4274003 AATTATAAAA
1 AATTATAAAA
*
4274013 AAATATAAAA
1 AATTATAAAA
**
4274023 AAAAAT-AAA
1 AATTATAAAA
4274032 AATTAT-AAA
1 AATTATAAAA
* *
4274041 AATTATTATA
1 AATTATAAAA
*
4274051 AATTAATTAAA
1 AATT-ATAAAA
4274062 AATTATAAAA
1 AATTATAAAA
*
4274072 AATGATAAAA
1 AATTATAAAA
4274082 TGATTTACTA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
9 16 0.27
10 34 0.58
11 9 0.15
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (10 bp):
AATTATAAAA
Found at i:4275473 original size:17 final size:17
Alignment explanation
Indices: 4275448--4275482 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4275438 TATGTGTCAT
*
4275448 AAATTACATAATATAAA
1 AAATAACATAATATAAA
4275465 AAATAACATAATATAAA
1 AAATAACATAATATAAA
4275482 A
1 A
4275483 TATTATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAACATAATATAAA
Found at i:4275904 original size:20 final size:20
Alignment explanation
Indices: 4275881--4275922 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4275871 TGATTTTACA
*
4275881 TATTTTGTTT-TAAATATTTT
1 TATTTT-TTTATAAATAATTT
4275901 TATTTTTTTATAAATAATTT
1 TATTTTTTTATAAATAATTT
4275921 TA
1 TA
4275923 CAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTTTTATAAATAATTT
Found at i:4281346 original size:17 final size:17
Alignment explanation
Indices: 4281296--4281356 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
4281286 ATTTTTTAAT
* *
4281296 TTTTTATTAACTTTTGTC
1 TTTTT-TTAAATTTTATC
*
4281314 TTTTTCTTTAAATTTTTTC
1 -TTTT-TTTAAATTTTATC
* *
4281333 TTTTTTTAAGTTTTATA
1 TTTTTTTAAATTTTATC
4281350 TTTTTTT
1 TTTTTTT
4281357 CTTATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 14 0.39
20 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTTAAATTTTATC
Found at i:4281355 original size:9 final size:8
Alignment explanation
Indices: 4281326--4281396 Score: 61
Period size: 8 Copynumber: 8.5 Consensus size: 8
4281316 TTTCTTTAAA
*
4281326 TTTTTTCT
1 TTTTTTAT
*
4281334 TTTTTTAAG
1 TTTTTT-AT
*
4281343 TTTTATAT
1 TTTTTTAT
*
4281351 TTTTTTCT
1 TTTTTTAT
*
4281359 TATTTTAT
1 TTTTTTAT
4281367 TTTGTTTAT
1 TTT-TTTAT
*
4281376 TTATTTAT
1 TTTTTTAT
4281384 TTATTTTAT
1 TT-TTTTAT
4281393 TTTT
1 TTTT
4281397 ATTAATTTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
8 30 0.61
9 19 0.39
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTAT
Found at i:4281355 original size:19 final size:17
Alignment explanation
Indices: 4281279--4281399 Score: 56
Period size: 19 Copynumber: 6.9 Consensus size: 17
4281269 CCTTCTTTTA
4281279 TTTTTTAATTTTTTAATTT
1 TTTTTTAA-TTTTT-ATTT
* *
4281298 TTTATTAACTTTTGTCTTT
1 TTTTTTAA-TTTT-TATTT
* *
4281317 TTCTTTAAATTTTT-TCT
1 TT-TTTTAATTTTTATTT
4281334 TTTTTTAAGTTTTATATTT
1 TTTTTTAA-TTTT-TATTT
4281353 TTTTCTT-A-TTTTA-TT
1 TTTT-TTAATTTTTATTT
* *
4281368 TTGTTTATTTATTTA-TT
1 TTTTTTAATT-TTTATTT
*
4281385 TATTTT-ATTTTTATT
1 TTTTTTAATTTTTATT
4281400 AATTTTAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
14 2 0.03
15 9 0.11
16 11 0.14
17 21 0.27
18 2 0.03
19 27 0.34
20 7 0.09
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTTAATTTTTATTT
Found at i:4281376 original size:25 final size:24
Alignment explanation
Indices: 4281326--4281398 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
4281316 TTTCTTTAAA
* *
4281326 TTTTTTCTTTTTTTAAGTTTTATAT
1 TTTTTTCTTATTTT-ATTTTTATAT
*
4281351 TTTTTTCTTATTTTATTTTGTTTAT
1 TTTTTTCTTATTTTATTTT-TATAT
4281376 TTATTTAT-TTATTTTATTTTTAT
1 TT-TTT-TCTTATTTTATTTTTAT
4281399 TAATTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 4 0.10
25 21 0.51
26 15 0.37
27 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (24 bp):
TTTTTTCTTATTTTATTTTTATAT
Found at i:4281384 original size:17 final size:17
Alignment explanation
Indices: 4281362--4281406 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
4281352 TTTTTCTTAT
4281362 TTTATTT-TGTTTATTTA
1 TTTATTTAT-TTTATTTA
4281379 TTTATTTATTTTA-TT-
1 TTTATTTATTTTATTTA
*
4281394 TTTATTAATTTTA
1 TTTATTTATTTTA
4281407 AAAAATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 11 0.42
18 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:4281466 original size:23 final size:22
Alignment explanation
Indices: 4281425--4281490 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 22
4281415 GAAATGTAGA
4281425 TTTAAAATATTTTATAATATATATTT
1 TTTAAAATA--TTA-AATATATA-TT
4281451 TTTAAAATATTAAATATATATT
1 TTTAAAATATTAAATATATATT
*
4281473 TTTAATAATATAAAATAT
1 TTTAA-AATATTAAATAT
4281491 TTAAATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
22 7 0.18
23 19 0.50
24 3 0.08
26 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAAATATTAAATATATATT
Found at i:4281494 original size:39 final size:39
Alignment explanation
Indices: 4281434--4281509 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
4281424 ATTTAAAATA
* * * *
4281434 TTTTATAATATATATTTTTTAAA-ATATTAAATATATAT
1 TTTTATAATATAAAATATTTAAATATATTAAAGATATAT
*
4281472 TTTTAATAATATAAAATATTTAAATATTTTAAAGATAT
1 TTTT-ATAATATAAAATATTTAAATATATTAAAGATAT
4281510 GACCTTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.13
39 16 0.52
40 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (39 bp):
TTTTATAATATAAAATATTTAAATATATTAAAGATATAT
Found at i:4281547 original size:29 final size:29
Alignment explanation
Indices: 4281514--4281587 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
4281504 AGATATGACC
*
4281514 TTTCAAATTTATTATTAGTTTTTTAATAT
1 TTTCAAATTTATTATTAGTTTTATAATAT
*
4281543 TTTC-AATATTATTTAATTTGTTTTATAATAT
1 TTTCAAAT-TTA-TT-ATTAGTTTTATAATAT
4281574 TTT-AAA-TTATTATT
1 TTTCAAATTTATTATT
4281588 TTTAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 3 0.08
28 5 0.13
29 10 0.26
30 2 0.05
31 19 0.49
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTCAAATTTATTATTAGTTTTATAATAT
Found at i:4282620 original size:72 final size:72
Alignment explanation
Indices: 4282539--4282686 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 72
4282529 AAACTTAAAG
* * * * *
4282539 AAATTAAATATATTAAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAATATAT
1 AAATTAAATATATTAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATAT
4282604 TTTTTAA
66 TTTTTAA
*
4282611 AAATTAAATATATTAAAAAAATGTTAAGTATAACTAATATTAAAATTATAATATATTCAATATAT
1 AAATTAAATATATTAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATAT
4282676 TTTTTAA
66 TTTTTAA
4282683 AAAT
1 AAAT
4282687 ATATTTTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (72 bp):
AAATTAAATATATTAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATAT
TTTTTAA
Found at i:4282843 original size:20 final size:20
Alignment explanation
Indices: 4282814--4282870 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
4282804 TAAGTTTTTT
*
4282814 AAAATTAATAATAAAAAATA
1 AAAATAAATAATAAAAAATA
*
4282834 AAAATAAATAA-ATAAAGATA
1 AAAATAAATAATA-AAAAATA
* *
4282854 AAGACAAA-AATAAAAAA
1 AAAATAAATAATAAAAAA
4282871 AATGTCAGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAATAAATAATAAAAAATA
Found at i:4282846 original size:14 final size:13
Alignment explanation
Indices: 4282823--4282870 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
4282813 TAAAATTAAT
4282823 AATAAAAAATAAA
1 AATAAAAAATAAA
4282836 AATAAATAAATAAA
1 AATAAA-AAATAAA
* * *
4282850 GAT-AAAGACAAA
1 AATAAAAAATAAA
4282862 AATAAAAAA
1 AATAAAAAA
4282871 AATGTCAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 9 0.32
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:4282911 original size:10 final size:9
Alignment explanation
Indices: 4282898--4282931 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
4282888 AAAAGTTAAA
4282898 AAAAAAAAGT
1 AAAAAAAA-T
4282908 AAAAAAAATT
1 AAAAAAAA-T
4282918 AAAAAAAAT
1 AAAAAAAAT
4282927 AAAAA
1 AAAAA
4282932 TAAAAGCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4283043 original size:14 final size:15
Alignment explanation
Indices: 4283017--4283045 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4283007 ATCTTTTCAG
4283017 AATTTTTTAAATTAT
1 AATTTTTTAAATTAT
4283032 AATTTTTT-AATTAT
1 AATTTTTTAAATTAT
4283046 TTTTAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTAAATTAT
Found at i:4283202 original size:36 final size:35
Alignment explanation
Indices: 4283153--4283404 Score: 218
Period size: 36 Copynumber: 7.2 Consensus size: 35
4283143 TAAAAATAAA
4283153 AAAAATAATTTCAAAAATATATTTTTAAAATTTAT
1 AAAAATAATTTCAAAAATATATTTTTAAAATTTAT
*
4283188 AAGAAATAATTTCAAAAATATATATTTAAAA-TT-T
1 AA-AAATAATTTCAAAAATATATTTTTAAAATTTAT
*** ** *
4283222 AAAAATATATTTTTGAAAT-T-TTTTT-ATTTTGTTT
1 AAAAATA-ATTTCAAAAATATATTTTTAAAATT-TAT
* *
4283256 AAAAATATATTTTAAAAATATATTTAAAATTTAAAATTTAG
1 AAAAATA-ATTTCAAAAATATA-TT----TTTAAAATTTAT
*
4283297 AAAATTAATTTCAAAAATATATTTTTAAAATTTAT
1 AAAAATAATTTCAAAAATATATTTTTAAAATTTAT
* * *
4283332 AAGACATAATTTAAAAAATA-ATATTTAAAATTTA-
1 AA-AAATAATTTCAAAAATATATTTTTAAAATTTAT
*
4283366 AAAAATAATTT-AAAAATA-ATATTTAAAATTT-T
1 AAAAATAATTTCAAAAATATATTTTTAAAATTTAT
4283398 AAAAATA
1 AAAAATA
4283405 TATATTATAA
Statistics
Matches: 181, Mismatches: 21, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.01
32 32 0.18
33 15 0.08
34 31 0.17
35 31 0.17
36 41 0.23
37 2 0.01
39 2 0.01
40 13 0.07
41 10 0.06
42 3 0.02
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATATTTTTAAAATTTAT
Found at i:4283225 original size:21 final size:22
Alignment explanation
Indices: 4283195--4283242 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4283185 TATAAGAAAT
4283195 AATTTCAAAAATATATATTTAA
1 AATTTCAAAAATATATATTTAA
* *
4283217 AATTT-AAAAATATATTTTTGA
1 AATTTCAAAAATATATATTTAA
4283238 AATTT
1 AATTT
4283243 TTTTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:4283363 original size:21 final size:20
Alignment explanation
Indices: 4283339--4283382 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
4283329 TATAAGACAT
*
4283339 AATTTAAAAAATAATATTTAA
1 AATTTAAAAAATAAT-TTAAA
4283360 AATTTAAAAAATAATTTAAA
1 AATTTAAAAAATAATTTAAA
4283380 AAT
1 AAT
4283383 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTAAAAAATAATTTAAA
Found at i:4283394 original size:12 final size:11
Alignment explanation
Indices: 4283253--4283404 Score: 64
Period size: 13 Copynumber: 12.9 Consensus size: 11
4283243 TTTTATTTTG
4283253 TTTAAAAATATA
1 TTTAAAAATA-A
4283265 TTTTAAAAATATA
1 -TTTAAAAATA-A
*
4283278 TTTAAAATTTAAAA
1 TTTAAAA---ATAA
4283292 TTTAGAAAATTAA
1 TTTA-AAAA-TAA
4283305 TTTCAAAAATATA
1 TTT-AAAAATA-A
*
4283318 TTTTTAAAAT--
1 -TTTAAAAATAA
*
4283328 TTATAAGACATAA
1 TT-TAA-AAATAA
4283341 TTTAAAAAATAA
1 TTT-AAAAATAA
*
4283353 TATTTAAAAT--
1 T-TTAAAAATAA
*
4283363 TTAAAAAATAA
1 TTTAAAAATAA
4283374 TTTAAAAATAA
1 TTTAAAAATAA
*
4283385 TATTTAAAAT--
1 T-TTAAAAATAA
4283395 TTTAAAAATA
1 TTTAAAAATA
4283405 TATATTATAA
Statistics
Matches: 109, Mismatches: 12, Indels: 39
0.68 0.08 0.24
Matches are distributed among these distances:
9 15 0.14
10 4 0.04
11 14 0.13
12 29 0.27
13 33 0.30
14 9 0.08
15 5 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:4283399 original size:33 final size:34
Alignment explanation
Indices: 4283136--4283416 Score: 187
Period size: 35 Copynumber: 7.9 Consensus size: 34
4283126 AAAATATATT
* * * *
4283136 TAATATTTAAAAATAAAAAAAATAATTTCAAAAA
1 TAATATTTAAAATTTAAAAATATAATTTAAAAAA
* *
4283170 TATATTTTTAAAATTTATAAGAA-ATAATTTCAAAAA
1 TA-ATATTTAAAATTTA-AA-AATATAATTTAAAAAA
***
4283206 TATATATTTAAAATTTAAAAATAT-ATTTTTGAAA
1 TA-ATATTTAAAATTTAAAAATATAATTTAAAAAA
* * *** *
4283240 T-TTTTTTATTTTGTTTAAAAATATATTTTAAAAATATA
1 TAATATTTA--AAATTTAAAAATATAATTT-AAAA-A-A
* *
4283278 TTTAAAATTTAAAATTTAGAAAAT-TAATTTCAAAAA
1 --TAATATTTAAAATTTA-AAAATATAATTTAAAAAA
* * *
4283314 TATATTTTTAAAATTTATAAGACATAATTTAAAAAA
1 TA-ATATTTAAAATTTA-AAAATATAATTTAAAAAA
4283350 TAATATTTAAAATTTAAAAA-ATAATTT-AAAAA
1 TAATATTTAAAATTTAAAAATATAATTTAAAAAA
4283382 TAATATTTAAAATTTTAAAAATATATATTATAAAA
1 TAATATTTAAAA-TTTAAAAATATA-ATT-TAAAA
4283417 CATTTCAAAT
Statistics
Matches: 194, Mismatches: 32, Indels: 39
0.73 0.12 0.15
Matches are distributed among these distances:
32 22 0.11
33 15 0.08
34 31 0.16
35 49 0.25
36 47 0.24
37 7 0.04
38 4 0.02
39 9 0.05
40 6 0.03
41 4 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (34 bp):
TAATATTTAAAATTTAAAAATATAATTTAAAAAA
Found at i:4283400 original size:21 final size:23
Alignment explanation
Indices: 4283374--4283416 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
4283364 TAAAAAATAA
4283374 TTTAAAAATA-ATATT-TAAAAT
1 TTTAAAAATATATATTATAAAAT
4283395 TTTAAAAATATATATTATAAAA
1 TTTAAAAATATATATTATAAAA
4283417 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAAATATATATTATAAAAT
Found at i:4283408 original size:144 final size:144
Alignment explanation
Indices: 4283117--4283416 Score: 399
Period size: 144 Copynumber: 2.1 Consensus size: 144
4283107 AAATGTTTAA
*
4283117 ATATTATTAAAAATATATTTAATATTTAAAAATAAAAAAAATAATTTCAAAAATATATTTTTAAA
1 ATATT-TTAAAAATATATTTAAAATTTAAAAATAAAAAAAATAATTTCAAAAATATATTTTTAAA
* * ** * *
4283182 ATTTATAAGAAATAATTTCAAAAATATATATTTAAAATTTAAAAATATATTTTTGAAATTTTTTT
65 ATTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATATAATTTAAAAATTATTTA
** *
4283247 ATTTTGTTTAAAAAT
130 AAATTGTTAAAAAAT
* * * *
4283262 ATATTTTAAAAATATATTTAAAATTTAAAATTTAGAAAATTAATTTCAAAAATATATTTTTAAAA
1 ATATTTTAAAAATATATTTAAAATTTAAAAATAAAAAAAATAATTTCAAAAATATATTTTTAAAA
*
4283327 TTTATAAGACATAATTTAAAAAATA-ATATTTAAAATTTAAAAA-ATAATTTAAAAATAATATTT
66 TTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATATAATTTAAAAAT--TATTT
4283390 AAAATT-TTAAAAATAT
129 AAAATTGTTAAAAA-AT
*
4283406 ATATTATAAAA
1 ATATTTTAAAA
4283417 CATTTCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
142 10 0.07
143 24 0.18
144 97 0.71
145 5 0.04
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (144 bp):
ATATTTTAAAAATATATTTAAAATTTAAAAATAAAAAAAATAATTTCAAAAATATATTTTTAAAA
TTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATATAATTTAAAAATTATTTAA
AATTGTTAAAAAAT
Found at i:4283455 original size:14 final size:13
Alignment explanation
Indices: 4283432--4283479 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
4283422 CAAATTTTTT
*
4283432 AAAATTAATAACAA
1 AAAATAAATAA-AA
*
4283446 AAAATAAATAAGA
1 AAAATAAATAAAA
*
4283459 AAAATAAACAAAA
1 AAAATAAATAAAA
4283472 TAAAATAA
1 -AAAATAA
4283480 GAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:4283504 original size:23 final size:23
Alignment explanation
Indices: 4283441--4283508 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
4283431 TAAAATTAAT
4283441 AACAAAA-AATAAATAAGAAAAATA
1 AACAAAATAA-AAA-AAGAAAAATA
*
4283465 AACAAAATAAAATAAGAAAAATA
1 AACAAAATAAAAAAAGAAAAATA
**
4283488 TAA-AACTTAAAAAAAGAAAAA
1 -AACAAAATAAAAAAAGAAAAA
4283509 AAATTAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 25 0.66
24 11 0.29
25 2 0.05
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (23 bp):
AACAAAATAAAAAAAGAAAAATA
Found at i:4283519 original size:37 final size:40
Alignment explanation
Indices: 4283478--4283551 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 40
4283468 AAAATAAAAT
* *
4283478 AAGAAAAATATAAAACTTA--AAAAAAG-AAAAAAAATTA
1 AAGAAAAAGACAAAACTTAATAAAAAAGTAAAAAAAATTA
*
4283515 AAGAAAAAGACAAAAGTTAATAAAAAAGTAAAAAAAA
1 AAGAAAAAGACAAAACTTAATAAAAAAGTAAAAAAAA
4283552 AGTAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.52
39 7 0.23
40 8 0.26
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.14
Consensus pattern (40 bp):
AAGAAAAAGACAAAACTTAATAAAAAAGTAAAAAAAATTA
Found at i:4284371 original size:20 final size:20
Alignment explanation
Indices: 4284348--4284397 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
4284338 TGAACAAAAC
4284348 AAAAATCACGAAAAATATGG
1 AAAAATCACGAAAAATATGG
* * *
4284368 -AAAATCATG-AAACTGTGG
1 AAAAATCACGAAAAATATGG
4284386 ACAAAATCACGA
1 A-AAAATCACGA
4284398 TAATATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAAATCACGAAAAATATGG
Found at i:4285239 original size:18 final size:19
Alignment explanation
Indices: 4285218--4285253 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4285208 AATAATCTTC
4285218 AAAAAATT-GATAAAATTA
1 AAAAAATTAGATAAAATTA
*
4285236 AAAAAATTATATAAAATT
1 AAAAAATTAGATAAAATT
4285254 CTTAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAAATTAGATAAAATTA
Found at i:4289819 original size:25 final size:25
Alignment explanation
Indices: 4289759--4289823 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
4289749 CACACCACAA
*
4289759 CTCTTATGAGCATCCCGATATTTGG
1 CTCTTATGAGCTTCCCGATATTTGG
*** *
4289784 CTCTCCCGAGCTTCTCGAT-TTATGG
1 CTCTTATGAGCTTCCCGATATT-TGG
4289809 CTCTTATGAGCTTCC
1 CTCTTATGAGCTTCC
4289824 TAATATACAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.37
Consensus pattern (25 bp):
CTCTTATGAGCTTCCCGATATTTGG
Found at i:4289868 original size:25 final size:24
Alignment explanation
Indices: 4289814--4289906 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
4289804 TATGGCTCTT
** *
4289814 ATGAGCTTCCTAATATACAACTTGA
1 ATGAGCTTCCTGTTATACAAC-TCA
*
4289839 TTGAGCTTCCTGTTATACAACTCA
1 ATGAGCTTCCTGTTATACAACTCA
**
4289863 CATGAGCTTCCCT-TTATATGACTCA
1 -ATGAGCTT-CCTGTTATACAACTCA
*
4289888 GAAGAGCTTCCTGTT-TACA
1 -ATGAGCTTCCTGTTATACA
4289907 TGCTCGTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.13
25 44 0.81
26 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCTGTTATACAACTCA
Found at i:4294424 original size:21 final size:21
Alignment explanation
Indices: 4294398--4294442 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4294388 TCCAACAACC
4294398 TATGTATTTCTCTTATCTTTA
1 TATGTATTTCTCTTATCTTTA
4294419 TATGTATTTCTCTTATCTTTA
1 TATGTATTTCTCTTATCTTTA
4294440 TAT
1 TAT
4294443 AACAAACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.62
Consensus pattern (21 bp):
TATGTATTTCTCTTATCTTTA
Found at i:4298893 original size:5 final size:5
Alignment explanation
Indices: 4298883--4298921 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
4298873 TAAACGTATG
4298883 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
4298922 ATGTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:4301812 original size:11 final size:11
Alignment explanation
Indices: 4301798--4301834 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
4301788 TTTTCTTAAA
4301798 TTTTAAAATAC
1 TTTTAAAATAC
4301809 TTTTAAAATAC
1 TTTTAAAATAC
4301820 TTTTAAAATAC
1 TTTTAAAATAC
4301831 TTTT
1 TTTT
4301835 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:4301856 original size:16 final size:16
Alignment explanation
Indices: 4301820--4301866 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
4301810 TTTAAAATAC
4301820 TTTTAAAATACTTTT--
1 TTTTAAAATA-TTTTAA
*
4301835 TTTTAAAATTTTTTAA
1 TTTTAAAATATTTTAA
4301851 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
4301867 AAATACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 9 0.32
16 15 0.54
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:4301897 original size:42 final size:40
Alignment explanation
Indices: 4301809--4301902 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 40
4301799 TTTAAAATAC
4301809 TTTTAAAATACTTTTAAAATACTTTTTTTTAAAATTTTTTAA
1 TTTTAAAATACTTTTAAAATACTTTTTTTT--AATTTTTTAA
*
4301851 TTTTAAAATA-TTTTAAAAATACTTTTTTATT-TTTGTTTTAA
1 TTTTAAAATACTTTT-AAAATACTTTTTT-TTAATT-TTTTAA
4301892 TTTTTAAAATA
1 -TTTTAAAATA
4301903 AATTTTTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
40 2 0.04
41 10 0.21
42 33 0.70
43 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (40 bp):
TTTTAAAATACTTTTAAAATACTTTTTTTTAATTTTTTAA
Found at i:4309307 original size:177 final size:177
Alignment explanation
Indices: 4309011--4309354 Score: 643
Period size: 177 Copynumber: 1.9 Consensus size: 177
4309001 TAGTAAACTG
*
4309011 TTTTAATCGAGAATATTCATATTGCTATATATCTACACTAGTAAACACTAGTGAACTGTTTGATA
1 TTTTAATCGAGAATAGTCATATTGCTATATATCTACACTAGTAAACACTAGTGAACTGTTTGATA
4309076 AGCATGGAAGTCAAACTGTTAGCAGATGATTAATTGGGATTGATCAAGTTTTAAGAGTTGATTTC
66 AGCATGGAAGTCAAACTGTTAGCAGATGATTAATTGGGATTGATCAAGTTTTAAGAGTTGATTTC
* *
4309141 TACTGAGAGTATGCGCAACTAGTGTTTCGACTAGCTTGTTTGTTTCA
131 TACCGAGAATATGCGCAACTAGTGTTTCGACTAGCTTGTTTGTTTCA
*
4309188 TTTTAATCGAGAATAGTCATATTGCTATATATCTACACTAGTAAATACTAGTGAACTGTTTGATA
1 TTTTAATCGAGAATAGTCATATTGCTATATATCTACACTAGTAAACACTAGTGAACTGTTTGATA
*
4309253 AGCATGGAAGTCAAACTGTTAGCAGATGATTAATTGGGATTGATTAAGTTTTAAGAGTTGATTTC
66 AGCATGGAAGTCAAACTGTTAGCAGATGATTAATTGGGATTGATCAAGTTTTAAGAGTTGATTTC
4309318 TACCGAGAATATGCGCAACTAGTGTTTCGACTAGCTT
131 TACCGAGAATATGCGCAACTAGTGTTTCGACTAGCTT
4309355 CAAATCAGTT
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 162 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (177 bp):
TTTTAATCGAGAATAGTCATATTGCTATATATCTACACTAGTAAACACTAGTGAACTGTTTGATA
AGCATGGAAGTCAAACTGTTAGCAGATGATTAATTGGGATTGATCAAGTTTTAAGAGTTGATTTC
TACCGAGAATATGCGCAACTAGTGTTTCGACTAGCTTGTTTGTTTCA
Found at i:4309679 original size:17 final size:17
Alignment explanation
Indices: 4309657--4309695 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4309647 TAATTAAATT
4309657 ATATTTTTTTATTTTAA
1 ATATTTTTTTATTTTAA
*
4309674 ATATTTTTTTATTTTTA
1 ATATTTTTTTATTTTAA
4309691 ATATT
1 ATATT
4309696 CCAATGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATATTTTTTTATTTTAA
Found at i:4311992 original size:49 final size:49
Alignment explanation
Indices: 4311935--4312038 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
4311925 TCATGTGTTA
* * * *
4311935 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTTAATTT
4311984 TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTTAATTT
4312033 TAATTT
1 TAATTT
4312039 GTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:4313425 original size:21 final size:21
Alignment explanation
Indices: 4313384--4313426 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4313374 AATAAAGTAG
*
4313384 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
4313405 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
4313426 A
1 A
4313427 AATTCATATA
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:4313468 original size:17 final size:18
Alignment explanation
Indices: 4313443--4313488 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4313433 TATAAGAATA
*
4313443 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
4313460 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
4313478 ATTAAATTATA
1 ATTAAATTATA
4313489 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:4313564 original size:59 final size:59
Alignment explanation
Indices: 4313391--4313564 Score: 167
Period size: 59 Copynumber: 2.9 Consensus size: 59
4313381 TAGATTATAT
* *
4313391 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-ATTAT
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAA
* * * * ** * * * *
4313448 ATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA
1 ATT-A-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA-TATTTTAA
*
4313509 ATTATATTTTATAGTATTATATATTACGATTTTAGTAAATTCATATAAGAATATTT
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTT
4313565 AATATTAAGA
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 37 0.43
60 35 0.41
61 8 0.09
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (59 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAA
Found at i:4313583 original size:102 final size:102
Alignment explanation
Indices: 4313474--4313693 Score: 404
Period size: 102 Copynumber: 2.2 Consensus size: 102
4313464 AATTATATAT
*
4313474 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTACGAT
1 TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTATTATATATTACGAT
4313539 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* *
4313576 TTTTATTACATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTATTATATATTACGAT
*
4313641 TTTAGTAAATTCATATAAGAATATTTAATATTAGGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
4313678 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
4313694 ATTTTTATTA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 113 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTATTATATATTACGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:4313591 original size:59 final size:56
Alignment explanation
Indices: 4313409--4313592 Score: 167
Period size: 59 Copynumber: 3.1 Consensus size: 56
4313399 TATAGTATTA
4313409 TATATTATGATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATATTA-GATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATT-AAT
* * * * * *
4313467 TATA-TA-TTTTTATTAAATT-ATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
1 TATATTAGATTTTAGTAAATTCATA--TAAGAATAATTATATT-AA-GA-ATTTTAT--TAAT
*
4313527 ATATATTACGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTACAT
1 -TATATTA-GATTTTAGTAAATTCATATAAGAATAATT-ATATTAAGAATTTTATTA-AT
4313587 TATATT
1 TATATT
4313593 TAATAATAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 27
0.71 0.09 0.19
Matches are distributed among these distances:
54 3 0.03
55 11 0.11
56 14 0.14
57 4 0.04
58 5 0.05
59 15 0.15
60 3 0.03
61 12 0.12
62 3 0.03
63 11 0.11
64 15 0.15
65 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (56 bp):
TATATTAGATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAT
Found at i:4313961 original size:50 final size:49
Alignment explanation
Indices: 4313870--4313967 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
4313860 ATTACAACAT
*
4313870 CATTCCATTCAACCAAACACAAGAATACTATTATAGTTCTATTCCATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTATAGCTCTATTCCATTC
* *
4313919 CATTCCATTCAACCAAACA-ATTGAATTACTATTA-CGCCTCTATTCCATT
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTATAG-CTCTATTCCATT
4313968 ACAGCTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 1 0.02
49 23 0.53
50 19 0.44
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (49 bp):
CATTCCATTCAACCAAACACAAGAATACTATTATAGCTCTATTCCATTC
Found at i:4313978 original size:16 final size:16
Alignment explanation
Indices: 4313949--4314000 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
4313939 TTGAATTACT
*
4313949 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* *
4313965 ATTACAGCTTTATTCC
1 ATTACACCTCTATTCC
4313981 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
4313997 ATTA
1 ATTA
4314001 TAGCGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:4315626 original size:11 final size:11
Alignment explanation
Indices: 4315610--4315639 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
4315600 GTTTAACTAG
4315610 TTCAAAACACA
1 TTCAAAACACA
4315621 TTC-AAACACA
1 TTCAAAACACA
4315631 TTCAAAACA
1 TTCAAAACA
4315640 TATCAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (11 bp):
TTCAAAACACA
Found at i:4315629 original size:10 final size:10
Alignment explanation
Indices: 4315614--4315646 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4315604 AACTAGTTCA
4315614 AAACACATTC
1 AAACACATTC
4315624 AAACACATTC
1 AAACACATTC
4315634 AAA-ACATATC
1 AAACACAT-TC
4315644 AAA
1 AAA
4315647 ATAATCATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (10 bp):
AAACACATTC
Found at i:4316558 original size:40 final size:40
Alignment explanation
Indices: 4316486--4316625 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
4316476 AACAAACCAG
* *
4316486 TTTGGCACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGGATAAATCGAAGTAATAA
* * *
4316526 TTTGACACCTAGTATCTCATCGGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATCGGATAAATCGAAGTAATAA
* * * * *
4316564 -TTGGCACCCATTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGGATAAAT-CGAAGTAATAA
* *
4316604 TTTGACACCTAGTGTCTTATCG
1 TTTGACACCCAGTGTCTCATCG
4316626 ACTCGAAGTC
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 20 0.26
38 8 0.10
39 2 0.03
40 32 0.41
41 16 0.21
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGGATAAATCGAAGTAATAA
Found at i:4316800 original size:24 final size:23
Alignment explanation
Indices: 4316761--4316807 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4316751 TACCAATTCA
4316761 ATCAATATAAATTCAATAAATTT
1 ATCAATATAAATTCAATAAATTT
*
4316784 ATCACATACTAAA-TCAATCAATTT
1 ATCA-ATA-TAAATTCAATAAATTT
4316808 CAATTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
ATCAATATAAATTCAATAAATTT
Found at i:4319397 original size:23 final size:21
Alignment explanation
Indices: 4319358--4319401 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
4319348 GACAGATACG
4319358 AGAATTCCACCCAAACACACC
1 AGAATTCCACCCAAACACACC
*
4319379 AGAATATCCAACCTAAACACACC
1 AGAAT-TCC-ACCCAAACACACC
4319402 CGAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.45, C:0.39, G:0.05, T:0.11
Consensus pattern (21 bp):
AGAATTCCACCCAAACACACC
Found at i:4320542 original size:5 final size:5
Alignment explanation
Indices: 4320521--4320598 Score: 81
Period size: 5 Copynumber: 15.4 Consensus size: 5
4320511 TTACTTTATT
4320521 TAATA TATATAA TAATA TAATA TAATA TAATA -AATA TAATA TAATA TATTATA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
* *
4320574 TTATA TTATA TAATA -AA-A TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
4320599 CCTAACATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
3 1 0.02
4 8 0.12
5 44 0.69
6 4 0.06
7 7 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:4320574 original size:7 final size:7
Alignment explanation
Indices: 4320525--4320598 Score: 50
Period size: 7 Copynumber: 10.7 Consensus size: 7
4320515 TTTATTTAAT
4320525 ATATATA
1 ATATATA
4320532 ATA-AT-
1 ATATATA
4320537 ATAATATA
1 AT-ATATA
4320545 ATATAATA
1 ATAT-ATA
4320553 A-ATAT-
1 ATATATA
4320558 A-ATATA
1 ATATATA
*
4320564 ATATATT
1 ATATATA
4320571 ATATTATA
1 ATA-TATA
*
4320579 TTATATA
1 ATATATA
*
4320586 ATAAAATA
1 AT-ATATA
4320594 ATATA
1 ATATA
4320599 CCTAACATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
5 7 0.13
6 6 0.11
7 23 0.43
8 17 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:4320585 original size:41 final size:40
Alignment explanation
Indices: 4320521--4320598 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
4320511 TTACTTTATT
*
4320521 TAATATATATAATAATATAATATAATATAATAAATATAATA
1 TAATATATATAATAATATAATATAATAAAAT-AATATAATA
* *
4320562 TAATATAT-TATATTATATTATATAATAAAATAATATA
1 TAATATATATA-ATAATATAATATAATAAAATAATATA
4320599 CCTAACATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.24
41 25 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
TAATATATATAATAATATAATATAATAAAATAATATAATA
Found at i:4328734 original size:18 final size:19
Alignment explanation
Indices: 4328705--4328742 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4328695 AAAAAAAAGT
4328705 ATTTTAAAAATATTTTAAA
1 ATTTTAAAAATATTTTAAA
4328724 ATTTT-AAAATATTTTAAA
1 ATTTTAAAAATATTTTAAA
4328742 A
1 A
4328743 AAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTAAAAATATTTTAAA
Found at i:4328737 original size:10 final size:10
Alignment explanation
Indices: 4328699--4328742 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
4328689 AAAATAAAAA
4328699 AAAAGTATTTT
1 AAAA-TATTTT
4328710 AAAAATATTTT
1 -AAAATATTTT
4328721 -AAA-ATTTT
1 AAAATATTTT
4328729 AAAATATTTT
1 AAAATATTTT
4328739 AAAA
1 AAAA
4328743 AAATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.17
9 6 0.20
10 9 0.30
11 6 0.20
12 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
AAAATATTTT
Found at i:4328743 original size:11 final size:11
Alignment explanation
Indices: 4328698--4328743 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
4328688 AAAAATAAAA
4328698 AAAAAGTATTTT
1 AAAAA-TATTTT
4328710 AAAAATATTTT
1 AAAAATATTTT
4328721 --AAA-ATTTT
1 AAAAATATTTT
4328729 -AAAATATTTT
1 AAAAATATTTT
4328739 AAAAA
1 AAAAA
4328744 AATATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 6 0.19
10 5 0.16
11 10 0.32
12 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:4329936 original size:9 final size:9
Alignment explanation
Indices: 4329918--4329947 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4329908 GACATAAAAA
4329918 GATAATGAT
1 GATAATGAT
*
4329927 GATTATGAT
1 GATAATGAT
4329936 GATAATGAT
1 GATAATGAT
4329945 GAT
1 GAT
4329948 GGTGATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (9 bp):
GATAATGAT
Found at i:4329953 original size:18 final size:18
Alignment explanation
Indices: 4329918--4329956 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4329908 GACATAAAAA
*
4329918 GATAATGATGATTATGAT
1 GATAATGATGATGATGAT
*
4329936 GATAATGATGATGGTGAT
1 GATAATGATGATGATGAT
4329954 GAT
1 GAT
4329957 GATTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (18 bp):
GATAATGATGATGATGAT
Found at i:4331774 original size:67 final size:67
Alignment explanation
Indices: 4331699--4331890 Score: 285
Period size: 67 Copynumber: 2.9 Consensus size: 67
4331689 TCAACTTTGG
* *
4331699 CAACATGTGAAGTCCACGAAAACATTAAATATGGGGTATAATATGTAAGAACATAGCTTGGCTAT
1 CAACATGTGAAGTCCACCAAAACATTAAATATGGGGTATAATATGTAAGACCATAGCTTGGCTAT
4331764 GA
66 GA
* * *
4331766 CAACATGTGAAGTCTACCAAAACATTAAATATGGTGTATAGTATGTAAGACCATAGCTTGGCTAT
1 CAACATGTGAAGTCCACCAAAACATTAAATATGGGGTATAATATGTAAGACCATAGCTTGGCTAT
*
4331831 GG
66 GA
* * * * *
4331833 CAACATGTGAAGTCCACCAAAACATTAAACATTGGGTATATTGTGTAGGACCATAGCT
1 CAACATGTGAAGTCCACCAAAACATTAAATATGGGGTATAATATGTAAGACCATAGCT
4331891 GGGTTATGGT
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 112 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (67 bp):
CAACATGTGAAGTCCACCAAAACATTAAATATGGGGTATAATATGTAAGACCATAGCTTGGCTAT
GA
Found at i:4337336 original size:31 final size:31
Alignment explanation
Indices: 4337268--4337336 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
4337258 AAATTTTAGA
*
4337268 ATATTAATAAGTATTAAATTATGTTATATGTG
1 ATATTAATAAGTA-TAAATTATGTTATATGAG
*
4337300 TTATTAA-AAGTA-AAATATATTGTTATATGAG
1 ATATTAATAAGTATAAAT-TA-TGTTATATGAG
4337331 ATATTA
1 ATATTA
4337337 TGCTGATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.12
30 2 0.06
31 20 0.62
32 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (31 bp):
ATATTAATAAGTATAAATTATGTTATATGAG
Found at i:4342669 original size:20 final size:20
Alignment explanation
Indices: 4342636--4342676 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4342626 TAGCAAGAAA
*
4342636 ATTTAGTTAGTTAAGTTGAG
1 ATTTAGTTACTTAAGTTGAG
*
4342656 ATTTATTTACTTAAGTTGAG
1 ATTTAGTTACTTAAGTTGAG
4342676 A
1 A
4342677 ATTGAACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTAGTTACTTAAGTTGAG
Found at i:4346578 original size:84 final size:84
Alignment explanation
Indices: 4346425--4346579 Score: 249
Period size: 84 Copynumber: 1.8 Consensus size: 84
4346415 TTTTTTTTCA
* *
4346425 TTTTTTTGCACTTAATTGGGTACTTGAACTTTCAAAATGCATCAAAAGTCCCTCAAACCTTTTAA
1 TTTTTTTGCACTTAATTGGATACTTGAACTTTCAAAATGCATCAAAAGACCCTCAAACCTTTTAA
4346490 AAAAATAATTAAACTCTTC
66 AAAAATAATTAAACTCTTC
*
4346509 TTTTTTTGCACTTAATTGGATACTTGAACTTTCAAAATGCATCAAAA-ACACTCTCAAACTTTTT
1 TTTTTTTGCACTTAATTGGATACTTGAACTTTCAAAATGCATCAAAAGAC-C-CTCAAACCTTTT
*
4346573 CAAAAAA
64 AAAAAAA
4346580 CCCCTATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 1 0.02
84 47 0.72
85 17 0.26
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (84 bp):
TTTTTTTGCACTTAATTGGATACTTGAACTTTCAAAATGCATCAAAAGACCCTCAAACCTTTTAA
AAAAATAATTAAACTCTTC
Found at i:4346634 original size:37 final size:37
Alignment explanation
Indices: 4346593--4346668 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
4346583 CTATTTTTAT
*
4346593 TAAAAATTAGAAAAAATATATAAAAATCAT-AAAAATA
1 TAAAAATT-GAAAAAATATATAAAAACCATAAAAAATA
* ** *
4346630 TAAAAATTGTAAACTTTTATAAAAACCATAAAAAATA
1 TAAAAATTGAAAAAATATATAAAAACCATAAAAAATA
4346667 TA
1 TA
4346669 TTAACATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (37 bp):
TAAAAATTGAAAAAATATATAAAAACCATAAAAAATA
Found at i:4346642 original size:17 final size:18
Alignment explanation
Indices: 4346605--4346668 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
4346595 AAAATTAGAA
4346605 AAAATATATAAAAATCAT
1 AAAATATATAAAAATCAT
**
4346623 AAAA-ATATAAAAATTGT
1 AAAATATATAAAAATCAT
* * *
4346640 AAACTTTTATAAAAACCAT
1 AAA-ATATATAAAAATCAT
*
4346659 AAAAAATATA
1 AAAATATATA
4346669 TTAACATTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 14 0.41
18 8 0.24
19 12 0.35
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATATATAAAAATCAT
Found at i:4348868 original size:9 final size:9
Alignment explanation
Indices: 4348854--4348930 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
4348844 TTTCGTTAAA
4348854 AATTACCCG
1 AATTACCCG
*
4348863 AATTACCCA
1 AATTACCCG
*
4348872 AATTAACCG
1 AATTACCCG
*
4348881 AATTAACCG
1 AATTACCCG
*
4348890 AATTAACCG
1 AATTACCCG
4348899 AATTA-CCG
1 AATTACCCG
*
4348907 AAAAATACCCG
1 --AATTACCCG
4348918 AATTACCCG
1 AATTACCCG
4348927 AATT
1 AATT
4348931 TTTTATTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
8 3 0.05
9 50 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:4349047 original size:40 final size:39
Alignment explanation
Indices: 4349003--4349099 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
4348993 ACTTTAGTAA
**
4349003 ATTGGGTTGGTAAATTGGATAGTCTTTTAGTTTTAGTTTT
1 ATTGGGTTGGTAAATTGGATAAAC-TTTAGTTTTAGTTTT
* *
4349043 ATTGGATTGG-ATAATTGGGTAAACTTTAGTTTTAGTTTT
1 ATTGGGTTGGTA-AATTGGATAAACTTTAGTTTTAGTTTT
4349082 ATTGGGTTGGGT-AATTGG
1 ATTGGGTT-GGTAAATTGG
4349100 GTTTGGGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 29 0.59
40 20 0.41
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (39 bp):
ATTGGGTTGGTAAATTGGATAAACTTTAGTTTTAGTTTT
Found at i:4349159 original size:18 final size:18
Alignment explanation
Indices: 4349136--4349176 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4349126 TTATTAATTT
4349136 TTTCGGTTAACCGACCAA
1 TTTCGGTTAACCGACCAA
*
4349154 TTTCGGTTAACCGACCGA
1 TTTCGGTTAACCGACCAA
4349172 TTTCG
1 TTTCG
4349177 AACCGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (18 bp):
TTTCGGTTAACCGACCAA
Found at i:4350764 original size:26 final size:26
Alignment explanation
Indices: 4350724--4350782 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
4350714 CGAGCCCAAA
* *
4350724 TTAAAAATTTTATATA-AAAATAAATT
1 TTAAAAATATAATATATAAAATAAA-T
* *
4350750 TTAAAAATATAATATATTAAATACAT
1 TTAAAAATATAATATATAAAATAAAT
4350776 TTAAAAA
1 TTAAAAA
4350783 CATTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAAAAATATAATATATAAAATAAAT
Found at i:4352885 original size:85 final size:83
Alignment explanation
Indices: 4352778--4352975 Score: 225
Period size: 85 Copynumber: 2.3 Consensus size: 83
4352768 CAAACAAAAA
*
4352778 CGCCGCTAAAGACCATGTTCTTTAGCGGTGCTTAGAAAAAAACACCTCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGT-CTTAGAAAAAAACACCTCTAAAGAACATGGTCTTT
4352843 AGCGACGTTTTTTTTCTAAG
65 AGCGACG-TTTTTTTCTAAG
* * * ****** * * *
4352863 CGCCGCTAAAGAATATGGTCTTTAGCAGCGTTTTTTTTCTAAGCGCCTCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATGTTCTTTAGC-G-GTCTTAGAAAAAAACACCTCTAAAGAACATGGTCTT
*
4352928 TAGCGGCGTTTTTTTCTAAG
64 TAGCGACGTTTTTTTCTAAG
*
4352948 CGCCGCTAAAGAACATGTTCGTTAGCGG
1 CGCCGCTAAAGAACATGTTCTTTAGCGG
4352976 CACTTTTATA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 58 0.62
86 32 0.34
87 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGTCTTAGAAAAAAACACCTCTAAAGAACATGGTCTTTA
GCGACGTTTTTTTCTAAG
Found at i:4352940 original size:42 final size:43
Alignment explanation
Indices: 4352825--4352976 Score: 234
Period size: 43 Copynumber: 3.6 Consensus size: 43
4352815 AAAAACACCT
*
4352825 CTAAAGAACATGGTCTTTAGCGACGTTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCG
* * *
4352868 CTAAAGAATATGGTCTTTAGCAGCGTTTTTTTTCTAAGCGCCT
1 CTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCG
*
4352911 CTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTCTAAGCGCCG
1 CTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCG
* *
4352953 CTAAAGAACATGTTCGTTAGCGGC
1 CTAAAGAACATGGTCTTTAGCGGC
4352977 ACTTTTATAT
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 39 0.39
43 61 0.61
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (43 bp):
CTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCG
Found at i:4353349 original size:21 final size:21
Alignment explanation
Indices: 4353301--4353369 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
4353291 TTGCTCTGCT
* * *
4353301 CTGCTTCTCTCGTTGCAGCCT
1 CTGCTTCCCTCGATGCAGCCG
** * *
4353322 CCACTTCCTTCGCTGCAGCCG
1 CTGCTTCCCTCGATGCAGCCG
* *
4353343 CTGCTTCCCTCGATGCCGCCT
1 CTGCTTCCCTCGATGCAGCCG
4353364 CTGCTT
1 CTGCTT
4353370 TAAGTTGTAG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.06, C:0.43, G:0.19, T:0.32
Consensus pattern (21 bp):
CTGCTTCCCTCGATGCAGCCG
Found at i:4358887 original size:9 final size:9
Alignment explanation
Indices: 4358873--4359130 Score: 216
Period size: 9 Copynumber: 29.8 Consensus size: 9
4358863 TTTTTATGTA
4358873 TTATGTAAG
1 TTATGTAAG
4358882 TTATGTAAG
1 TTATGTAAG
*
4358891 TTGTGT-A-
1 TTATGTAAG
*
4358898 TTATGTGAG
1 TTATGTAAG
4358907 TTATGTAAG
1 TTATGTAAG
*
4358916 TTATGGAAG
1 TTATGTAAG
* *
4358925 TTATTTAAT
1 TTATGTAAG
4358934 TTATGTAAG
1 TTATGTAAG
4358943 TTATGTAAG
1 TTATGTAAG
*
4358952 TTATGTAGG
1 TTATGTAAG
*
4358961 CTATGT-A-
1 TTATGTAAG
* *
4358968 TTATCTAAA
1 TTATGTAAG
*
4358977 TAATGTAAG
1 TTATGTAAG
*
4358986 TTA-GGAAGG
1 TTATGTAA-G
4358995 TTATGT-A-
1 TTATGTAAG
4359002 TTATGTAAG
1 TTATGTAAG
4359011 TTATGTAAG
1 TTATGTAAG
*
4359020 TTGTGT-A-
1 TTATGTAAG
*
4359027 TTATGTGAG
1 TTATGTAAG
4359036 TTATGTAAG
1 TTATGTAAG
*
4359045 TTATGGAAG
1 TTATGTAAG
* *
4359054 TTATTTAAT
1 TTATGTAAG
4359063 TTATGTAAG
1 TTATGTAAG
4359072 TTATGTAAG
1 TTATGTAAG
*
4359081 TTATGTAGG
1 TTATGTAAG
*
4359090 CTATGT-A-
1 TTATGTAAG
* *
4359097 TTATCTAAA
1 TTATGTAAG
*
4359106 TAATGTAAG
1 TTATGTAAG
*
4359115 TTA-GGAAGG
1 TTATGTAA-G
4359124 TTATGTA
1 TTATGTA
4359131 TTATCTAAAA
Statistics
Matches: 195, Mismatches: 40, Indels: 27
0.74 0.15 0.10
Matches are distributed among these distances:
7 24 0.12
8 13 0.07
9 155 0.79
10 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:4358911 original size:34 final size:34
Alignment explanation
Indices: 4358837--4359134 Score: 235
Period size: 34 Copynumber: 8.9 Consensus size: 34
4358827 ACTATAAATG
* *
4358837 AGTTATGTAAGTTATGATATGATATAT-TTTTATGT-
1 AGTTATGTAAGTTATG-TAAG-T-TATGTATTATGTA
* *
4358872 A-TTATGTAAGTTATGTAAGTTGTGTATTATGTG
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* *
4358905 AGTTATGTAAGTTATGGAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGT-A-TTATGTA
* * *
4358941 AGTTATGTAAGTTATGTAGGCTATGTATTATCTA
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* * *
4358975 AATAATGTAAGTTA-GGAAG----G--TTATGT-
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* *
4359001 A-TTATGTAAGTTATGTAAGTTGTGTATTATGTG
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* *
4359034 AGTTATGTAAGTTATGGAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGT-A-TTATGTA
* * *
4359070 AGTTATGTAAGTTATGTAGGCTATGTATTATCTA
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* * *
4359104 AATAATGTAAGTTA-GGAAGGTTATGTATTAT
1 AGTTATGTAAGTTATGTAA-GTTATGTATTAT
4359135 CTAAAAGTAA
Statistics
Matches: 213, Mismatches: 33, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
25 11 0.05
26 5 0.02
27 5 0.02
29 1 0.00
30 1 0.00
31 2 0.01
32 14 0.07
33 10 0.05
34 103 0.48
35 5 0.02
36 56 0.26
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (34 bp):
AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
Found at i:4359096 original size:129 final size:129
Alignment explanation
Indices: 4358866--4359134 Score: 538
Period size: 129 Copynumber: 2.1 Consensus size: 129
4358856 TGATATATTT
4358866 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTT
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTT
4358931 AATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAAGG
66 AATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAAGG
4358995 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTT
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTT
4359060 AATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAAGG
66 AATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAAGG
4359124 TTATGTATTAT
1 TTATGTATTAT
4359135 CTAAAAGTAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 140 1.00
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (129 bp):
TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTT
AATTTATGTAAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAAGG
Found at i:4359116 original size:61 final size:61
Alignment explanation
Indices: 4359002--4359117 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
4358992 AGGTTATGTA
* * * * *
4359002 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAAT
*
4359063 TTATGTAAGTTATGTAAGTTATGTAGGCTATGT-A-TTATCTAAATAATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATGTA--CTATGTGAGTTATCTAAATAATGGAAGTTA
4359118 GGAAGGTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 41 0.87
62 1 0.02
63 5 0.11
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGGAAGTTATTTAAT
Done.