Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 360 of 410
Found at i:110902061 original size:11 final size:11
Alignment explanation
Indices: 110902025--110902081 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
110902015 ACATGGTATG
*
110902025 TATGGTATGCA
1 TATGATATGCA
*
110902036 TATGACATG--
1 TATGATATGCA
110902045 TATGATATGCA
1 TATGATATGCA
110902056 TATGATATG--
1 TATGATATGCA
110902065 TATGATATGCA
1 TATGATATGCA
*
110902076 CATGAT
1 TATGAT
110902082 GTATTCGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 17 0.45
11 21 0.55
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (11 bp):
TATGATATGCA
Found at i:110902081 original size:20 final size:20
Alignment explanation
Indices: 110902015--110902081 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
110902005 ATTTTGATAA
* *
110902015 ACATGGTATGTATGGTATGC
1 ACATGATATGTATGATATGC
* *
110902035 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
110902055 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
110902075 ACATGAT
1 ACATGAT
110902082 GTATTCGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:110902189 original size:24 final size:24
Alignment explanation
Indices: 110902130--110902250 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
110902120 GGAGGAAGTG
110902130 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
110902154 GATAAAGAGCTTATGCCCCAATTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
110902179 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
110902203 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
110902226 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
110902251 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.22
24 38 0.44
25 29 0.34
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:110902202 original size:49 final size:49
Alignment explanation
Indices: 110902130--110902268 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 49
110902120 GGAGGAAGTG
110902130 TAAAAGGGCTTATGCCCCAGTTATGATAAAGAGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGAGCTTATGCCCCAATTAT
* * *
110902179 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGAGCTTATGCCCCAATTAT
*
110902226 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAGCAGC-TATGC
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG-AGCTTATGC
110902269 TGCCAGTGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
47 22 0.29
48 15 0.19
49 26 0.34
50 4 0.05
51 5 0.06
52 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGAGCTTATGCCCCAATTAT
Found at i:110902480 original size:30 final size:31
Alignment explanation
Indices: 110902444--110902506 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
110902434 CGTTTACAAT
110902444 AAAGGCTTC-GCCCAGTAATACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
** *
110902474 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
110902505 AA
1 AA
110902507 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:110910174 original size:20 final size:20
Alignment explanation
Indices: 110910108--110910174 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
110910098 ATTTTGATAA
* *
110910108 ACATGGTATGTATGGTATGC
1 ACATGATATGTATGATATGC
* *
110910128 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
110910148 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
110910168 ACATGAT
1 ACATGAT
110910175 GTATTCGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:110910282 original size:24 final size:24
Alignment explanation
Indices: 110910223--110910343 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
110910213 GGAGGAAGTG
110910223 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
110910247 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
110910272 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
110910296 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
110910319 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
110910344 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.21
24 40 0.44
25 31 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:110910295 original size:49 final size:48
Alignment explanation
Indices: 110910223--110910352 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
110910213 GGAGGAAGTG
110910223 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
*
110910272 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
*
110910319 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
110910353 CAGCTATGCT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 23 0.32
48 16 0.22
49 26 0.36
50 4 0.05
51 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:110910572 original size:31 final size:31
Alignment explanation
Indices: 110910537--110910600 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
110910527 TGTTTACAGT
110910537 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
110910568 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
110910599 AA
1 AA
110910601 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:110911427 original size:17 final size:18
Alignment explanation
Indices: 110911397--110911430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
110911387 CCTTCATTTC
*
110911397 TTTCTTTTATTCTTTTAG
1 TTTCTTTTAATCTTTTAG
110911415 TTTC-TTTAATCTTTTA
1 TTTCTTTTAATCTTTTA
110911431 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTTTTAATCTTTTAG
Found at i:110911833 original size:28 final size:29
Alignment explanation
Indices: 110911786--110911842 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
110911776 ATGCAATCTA
110911786 AGAAAAATATTAGATTTTTCAATTCATTT
1 AGAAAAATATTAGATTTTTCAATTCATTT
110911815 AGAAAAATATTAGA-TTTTCAATTCATTT
1 AGAAAAATATTAGATTTTTCAATTCATTT
110911843 GCCACCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (29 bp):
AGAAAAATATTAGATTTTTCAATTCATTT
Found at i:110928130 original size:18 final size:19
Alignment explanation
Indices: 110928096--110928135 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
110928086 AACACAACTA
*
110928096 AAATTAATAATAATAAAAT
1 AAATGAATAATAATAAAAT
110928115 AAATGAATAA-AATAAAAT
1 AAATGAATAATAATAAAAT
110928133 AAA
1 AAA
110928136 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATGAATAATAATAAAAT
Found at i:110935608 original size:14 final size:13
Alignment explanation
Indices: 110935591--110935633 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
110935581 TTTAGTTTCA
110935591 TTTATTTATTTATT
1 TTTATTT-TTTATT
* *
110935605 TTTATTTCTTACT
1 TTTATTTTTTATT
110935618 TTTATTTTTTTATT
1 TTTA-TTTTTTATT
110935632 TT
1 TT
110935634 AGTTTTAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:110937164 original size:13 final size:12
Alignment explanation
Indices: 110937146--110937196 Score: 66
Period size: 12 Copynumber: 4.1 Consensus size: 12
110937136 TCTGAGTTCA
110937146 TTTATTTTATTTT
1 TTTATTTT-TTTT
*
110937159 TTTATTTTTGTT
1 TTTATTTTTTTT
*
110937171 TTTATTTTTTCT
1 TTTATTTTTTTT
110937183 TTTATTTATTTTT
1 TTTATTT-TTTTT
110937196 T
1 T
110937197 GAAGACTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 20 0.61
13 13 0.39
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTATTTTTTTT
Found at i:110950641 original size:20 final size:19
Alignment explanation
Indices: 110950618--110950660 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
110950608 TGTTATTATA
*
110950618 TTATATTATTTTATATTTGT
1 TTATATTATTTTAT-TTTCT
*
110950638 TTATTTTATTTTATTTTCT
1 TTATATTATTTTATTTTCT
110950657 TTAT
1 TTAT
110950661 CAACTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATATTATTTTATTTTCT
Found at i:110951715 original size:11 final size:10
Alignment explanation
Indices: 110951699--110951764 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
110951689 ATGATTTTTC
110951699 AAAAAATTAT
1 AAAAAATTAT
*
110951709 AAAAAAATAT
1 AAAAAATTAT
110951719 AAAAAATTATT
1 AAAAAATTA-T
*
110951730 AAGAAA-TAT
1 AAAAAATTAT
* *
110951739 GAGAAATTAT
1 AAAAAATTAT
*
110951749 TAAAAATTAAT
1 AAAAAATT-AT
110951760 AAAAA
1 AAAAA
110951765 TATTTAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
9 6 0.13
10 28 0.61
11 12 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:110951724 original size:20 final size:20
Alignment explanation
Indices: 110951699--110951764 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
110951689 ATGATTTTTC
*
110951699 AAAAAATTATAAAAAAATAT
1 AAAAAATTATTAAAAAATAT
*
110951719 AAAAAATTATTAAGAAATAT
1 AAAAAATTATTAAAAAATAT
* * *
110951739 GAGAAATTATTAAAAATTAAT
1 AAAAAATTATTAAAAAAT-AT
110951760 AAAAA
1 AAAAA
110951765 TATTTAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 32 0.86
21 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAATTATTAAAAAATAT
Found at i:110952184 original size:30 final size:31
Alignment explanation
Indices: 110952133--110952222 Score: 112
Period size: 30 Copynumber: 2.9 Consensus size: 31
110952123 TGCTAATAAG
* *
110952133 AAAGGCTTAATTAATTTTTAAATTATTTTGC
1 AAAGACTTAATTAATTTTTAAATTATTTTAC
*
110952164 -AAGAACTTAATTAA-TTTTAAATTATTTTAT
1 AAAG-ACTTAATTAATTTTTAAATTATTTTAC
*
110952194 AAAGATTTAATTAATTTTTTAAATTATTT
1 AAAGACTTAATTAA-TTTTTAAATTATTT
110952223 AAGACTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
30 26 0.51
31 12 0.24
32 13 0.25
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (31 bp):
AAAGACTTAATTAATTTTTAAATTATTTTAC
Found at i:110952560 original size:9 final size:9
Alignment explanation
Indices: 110952538--110952589 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
110952528 TAAATATATG
110952538 TTTTTAT-A
1 TTTTTATAA
110952546 -TTTTATAA
1 TTTTTATAA
*
110952554 TTTTTATTA
1 TTTTTATAA
*
110952563 TTTTAATAA
1 TTTTTATAA
110952572 TTTTTATATA
1 TTTTTATA-A
*
110952582 ATTTTATA
1 TTTTTATA
110952590 TAACTCTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 6 0.17
8 1 0.03
9 21 0.58
10 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:110952599 original size:12 final size:10
Alignment explanation
Indices: 110952549--110952604 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
110952539 TTTTATATTT
110952549 TATAATTTT-
1 TATAATTTTA
*
110952558 TATTATTTTA
1 TATAATTTTA
110952568 -ATAATTTTTA
1 TATAA-TTTTA
110952578 TATAATTTTA
1 TATAATTTTA
110952588 TATAACTCTTTA
1 TATAA-T-TTTA
110952600 TATAA
1 TATAA
110952605 AATTTATCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 11 0.28
10 15 0.38
11 5 0.12
12 9 0.22
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TATAATTTTA
Found at i:110952608 original size:24 final size:20
Alignment explanation
Indices: 110952545--110952609 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 20
110952535 ATGTTTTTAT
*
110952545 ATTTT-ATAATTTTTAT--T
1 ATTTTAATAATTTTTATAAA
*
110952562 ATTTTAATAATTTTTATATA
1 ATTTTAATAATTTTTATAAA
110952582 ATTTTATATAACTCTTTATATAAA
1 ATTTTA-ATAA-T-TTT-TATAAA
110952606 ATTT
1 ATTT
110952610 ATCAAAATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.13
18 11 0.28
20 6 0.15
21 4 0.10
22 1 0.03
23 3 0.08
24 9 0.23
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTAATAATTTTTATAAA
Found at i:110952850 original size:9 final size:9
Alignment explanation
Indices: 110952836--110952924 Score: 58
Period size: 9 Copynumber: 9.9 Consensus size: 9
110952826 ATTATCTATG
110952836 ATTTTTTAT
1 ATTTTTTAT
110952845 A-TTTTTAT
1 ATTTTTTAT
*
110952853 AATTTTTTTT
1 -ATTTTTTAT
*
110952863 ATAATTTTA-
1 AT-TTTTTAT
**
110952872 ATAATTTAT
1 ATTTTTTAT
*
110952881 ATTTTCTAT
1 ATTTTTTAT
110952890 -TTTTTTAT
1 ATTTTTTAT
*
110952898 AGTTTTTAT
1 ATTTTTTAT
**
110952907 AACTTTTAT
1 ATTTTTTAT
110952916 AATTTTTTA
1 -ATTTTTTA
110952925 AACTTGTTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
8 19 0.31
9 26 0.43
10 16 0.26
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:110952859 original size:18 final size:18
Alignment explanation
Indices: 110952836--110952922 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
110952826 ATTATCTATG
110952836 ATTTTTTATATTTTTATA
1 ATTTTTTATATTTTTATA
* *
110952854 ATTTTTTTTATAATTT-TA
1 ATTTTTTATAT-TTTTATA
**
110952872 ATAATTTATATTTTCTAT-
1 ATTTTTTATATTTT-TATA
110952890 -TTTTTTATAGTTTTTATA
1 ATTTTTTATA-TTTTTATA
*
110952908 A-CTTTTATAATTTTT
1 ATTTTTTAT-ATTTTT
110952923 TAAACTTGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 12 0.23
18 36 0.68
19 5 0.09
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (18 bp):
ATTTTTTATATTTTTATA
Found at i:110952863 original size:12 final size:12
Alignment explanation
Indices: 110952846--110952870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110952836 ATTTTTTATA
110952846 TTTTTATAATTT
1 TTTTTATAATTT
110952858 TTTTTATAATTT
1 TTTTTATAATTT
110952870 T
1 T
110952871 AATAATTTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:110952928 original size:18 final size:19
Alignment explanation
Indices: 110952900--110952944 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
110952890 TTTTTTATAG
110952900 TTTTTATAACTT-TTATAAT
1 TTTTTA-AACTTGTTATAAT
110952919 TTTTTAAACTTGTTATAAT
1 TTTTTAAACTTGTTATAAT
*
110952938 ATTTTAA
1 TTTTTAA
110952945 TAATATTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAACTTGTTATAAT
Found at i:110956243 original size:25 final size:25
Alignment explanation
Indices: 110956215--110956277 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
110956205 ATATACAAAT
*
110956215 ATAAGTATAAGTATAAGTATAT-ATA
1 ATAAGTATAA-TATAACTATATAATA
* *
110956240 ATAAATATAATA-ATCTATATAATA
1 ATAAGTATAATATAACTATATAATA
110956264 AT-AGTATAATATAA
1 ATAAGTATAATATAA
110956278 AATATTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 14 0.45
24 8 0.26
25 9 0.29
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
ATAAGTATAATATAACTATATAATA
Found at i:110963095 original size:33 final size:33
Alignment explanation
Indices: 110963040--110963114 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
110963030 TAGTCCAACT
** * *
110963040 ATGGTCTTACACTTGTATTGCCATGA-CCCAGCC
1 ATGGTCTTACACACGTAGTGCCAT-ATCCCAGAC
* *
110963073 ATGGTCTTACTCACGTAGTGCCATATCCCAGAT
1 ATGGTCTTACACACGTAGTGCCATATCCCAGAC
110963106 ATGGTCTTA
1 ATGGTCTTA
110963115 TCATCTTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACACGTAGTGCCATATCCCAGAC
Found at i:110966722 original size:3 final size:3
Alignment explanation
Indices: 110966714--110966787 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
110966704 TATGTATGTA
110966714 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110966762 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
110966788 AGAACAAATC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:110971922 original size:3 final size:3
Alignment explanation
Indices: 110971903--110971943 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
110971893 GTATATGCAT
*
110971903 ATA ATA AAA ATA TATA ATA ATA CATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA
110971944 TGAAAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110971924 original size:16 final size:15
Alignment explanation
Indices: 110971903--110971941 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
110971893 GTATATGCAT
110971903 ATAATAAAAATATATA
1 ATAATAAAAATA-ATA
*
110971919 ATAATACATAATAATA
1 ATAATA-AAAATAATA
110971935 ATAATAA
1 ATAATAA
110971942 TATGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.71
17 5 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAAAAATAATA
Found at i:110973613 original size:45 final size:45
Alignment explanation
Indices: 110973553--110973697 Score: 227
Period size: 45 Copynumber: 3.2 Consensus size: 45
110973543 CACTGCGACC
* * *
110973553 TCAGGGATACCAGACTTGGAACTTTTGACCGGCTCCACTGCAGCT
1 TCAGGGAGACAAGACTTGCAACTTTTGACCGGCTCCACTGCAGCT
*
110973598 TCAGGGAGACAAGACTTGCAACTTTTGATCGGCTCCACTGCAGCT
1 TCAGGGAGACAAGACTTGCAACTTTTGACCGGCTCCACTGCAGCT
* *
110973643 TCAGGGAGACAAGACTTGTAACTTTTGACCGGCTCCACTGCAGTT
1 TCAGGGAGACAAGACTTGCAACTTTTGACCGGCTCCACTGCAGCT
*
110973688 TTAGGGAGAC
1 TCAGGGAGAC
110973698 CAAGTCTGGT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (45 bp):
TCAGGGAGACAAGACTTGCAACTTTTGACCGGCTCCACTGCAGCT
Found at i:110974097 original size:109 final size:102
Alignment explanation
Indices: 110973916--110974124 Score: 285
Period size: 109 Copynumber: 2.0 Consensus size: 102
110973906 CATATGACCC
* * *
110973916 AAGGCTCAACTCACTTCTCGCAATATGGGTGGATTTTTGAAAAACAAAAAGGTACAACTCACCTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTGGATTTTTGAAAAAAAAAAAGGTACAACTCACCTC
*
110973981 TCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAA
66 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
110974018 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAGGCT-CAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTGGA-TTTTTG-AAAA-A-AAA---AAAGG-TACAA
*
110974082 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATT
58 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
110974125 GGAAAGTAGA
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
102 30 0.32
103 6 0.06
104 4 0.04
105 1 0.01
106 2 0.02
109 49 0.53
110 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (102 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTGGATTTTTGAAAAAAAAAAAGGTACAACTCACCTC
TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:110974130 original size:55 final size:54
Alignment explanation
Indices: 110973916--110974130 Score: 282
Period size: 55 Copynumber: 4.1 Consensus size: 54
110973906 CATATGACCC
* * *
110973916 AAGGCTCAACTCACTTCTCGCAATATGGGTGGATTTTTGAAAAAC---AA---A
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGA
* *
110973964 AAGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAA
1 AAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGA
* *
110974018 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGA
*
110974073 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTGGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-GA
110974128 AAG
1 AAG
110974131 TAGAAATTGA
Statistics
Matches: 146, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.01
48 39 0.27
51 2 0.01
54 47 0.32
55 57 0.39
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGA
Found at i:110974249 original size:71 final size:70
Alignment explanation
Indices: 110974134--110974271 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 70
110974124 TGGAAAGTAG
* *
110974134 AAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AAATTGAAAATACCTCAACGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGA
110974199 AACAT
66 AACAT
* **
110974204 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGG
1 AAATTGAAAATACCTCAACGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGG
110974269 AAA
65 AAA
110974272 AGTAAAAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 20 0.32
71 42 0.68
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (70 bp):
AAATTGAAAATACCTCAACGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGA
AACAT
Found at i:110974457 original size:173 final size:170
Alignment explanation
Indices: 110974132--110974535 Score: 526
Period size: 173 Copynumber: 2.4 Consensus size: 170
110974122 ATTGGAAAGT
110974132 AGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
110974197 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGGTG
*
110974262 ATTTTGGAAAAGTAAAAATTAAAGACAGGATTTGAACAAG
131 ATTTTGGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
* * *
110974302 AGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
110974367 TTTGAAGCATAAATTGAAATTACCTCAACGTGTCTTGAGGCTGAACTCACCTCTCGCAATATGAG
63 TTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
110974432 GTGATTTTCTGAAAA-CATGAATTAAA-A-A--A----AGCAA-
128 GTGATTTT-GGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
* * *
110974466 A-AAA-TGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGCGTGC---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
110974529 TCTGAAA
63 TTTGAAA
110974536 GCAGAAGTAA
Statistics
Matches: 210, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
161 1 0.00
162 24 0.11
163 2 0.01
164 34 0.16
165 4 0.02
169 1 0.00
170 22 0.10
171 36 0.17
172 1 0.00
173 80 0.38
174 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (170 bp):
AGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGGTG
ATTTTGGAAAAGCAAAAATTAAAGACAGGATTTGAACAAG
Found at i:110977570 original size:3 final size:3
Alignment explanation
Indices: 110977562--110977632 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
110977552 TGTATATGAT
110977562 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
110977610 AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
110977633 TGAAAATACA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:110978117 original size:19 final size:19
Alignment explanation
Indices: 110978095--110978133 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
110978085 GAAGGGGAGA
110978095 AAGAAAAAAAAAGGAGAGG
1 AAGAAAAAAAAAGGAGAGG
110978114 AAGAAAAAAAAAGGAGAGG
1 AAGAAAAAAAAAGGAGAGG
110978133 A
1 A
110978134 GAAGAGAGAA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAAAGGAGAGG
Found at i:110978124 original size:21 final size:20
Alignment explanation
Indices: 110978098--110978158 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
110978088 GGGGAGAAAG
*
110978098 AAAAAAAAAGGAGAGGA-AG
1 AAAAAAAAAGGAGAGGAGAA
110978117 AAAAAAAAAGGAGAGGAGAA
1 AAAAAAAAAGGAGAGGAGAA
* * *
110978137 GAGAGAAAAGGGAGAGGAGAA
1 -AAAAAAAAAGGAGAGGAGAA
110978158 A
1 A
110978159 GGAGAGAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.47
20 2 0.06
21 17 0.47
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGGAGAGGAGAA
Found at i:110978163 original size:21 final size:21
Alignment explanation
Indices: 110978102--110978157 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
110978092 AGAAAGAAAA
110978102 AAAAAGGAGAGGAAGAA-A-A-
1 AAAAAGGAGAGG-AGAAGAGAG
110978121 AAAAAGGAGAGGAGAAGAGAG
1 AAAAAGGAGAGGAGAAGAGAG
*
110978142 AAAAGGGAGAGGAGAA
1 AAAAAGGAGAGGAGAA
110978158 AGGAGAGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 4 0.12
19 13 0.39
20 1 0.03
21 15 0.45
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (21 bp):
AAAAAGGAGAGGAGAAGAGAG
Found at i:110985116 original size:166 final size:169
Alignment explanation
Indices: 110984800--110985131 Score: 526
Period size: 166 Copynumber: 2.0 Consensus size: 169
110984790 CACAATGCGA
* *
110984800 AATGTCCGGACCAGTCGGGCCTTCTAGGCCTGCAAATGTTTTAGCCCAATATATAATCTTATTTT
1 AATGTCCGGACCAGTCGGGCCTTCTAGGCCTGCAAATATTTTAGCCCAATACATAATCTTATTTT
* * * *
110984865 CTTTCCTCAGCAGAACTTATCAATTTGGAATTAAAAAGGAGTTAATGGCTTATTTAACTCAAACA
66 CTTTCCTCAACAGAACTTATCAATTTGGAATTAAAAAAGAGTTAATAGCTCATTTAACTCAAACA
110984930 TTAATTTGGGATTAATGGCTCATTAATTAACAGACATAT
131 TTAATTTGGGATTAATGGCTCATTAATTAACAGACATAT
* *
110984969 AATGTCTGGACCAGTTGGGCCTTCTAGGCCTGCAAATATTTTAGCCCAATACATAATCTT-TTTT
1 AATGTCCGGACCAGTCGGGCCTTCTAGGCCTGCAAATATTTTAGCCCAATACATAATCTTATTTT
* * *
110985033 -TTT-CTCAACAGAATTTATCAGTTTGGAATTAAAAAAGAGTTAATAGCTCATTTAATTCAAACA
66 CTTTCCTCAACAGAACTTATCAATTTGGAATTAAAAAAGAGTTAATAGCTCATTTAACTCAAACA
* *
110985096 TTAATTTGGGATTAATGGCTCCTTAATTCACAGACA
131 TTAATTTGGGATTAATGGCTCATTAATTAACAGACA
110985132 CATTATTGGC
Statistics
Matches: 150, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
166 87 0.58
167 3 0.02
168 4 0.03
169 56 0.37
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (169 bp):
AATGTCCGGACCAGTCGGGCCTTCTAGGCCTGCAAATATTTTAGCCCAATACATAATCTTATTTT
CTTTCCTCAACAGAACTTATCAATTTGGAATTAAAAAAGAGTTAATAGCTCATTTAACTCAAACA
TTAATTTGGGATTAATGGCTCATTAATTAACAGACATAT
Found at i:110986354 original size:27 final size:27
Alignment explanation
Indices: 110986289--110986405 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 27
110986279 ACGGGCTTTC
* * *
110986289 CCCATATTAGATAGACCTCACAGACTT
1 CCCACATTAGATAGTCCTAACAGACTT
** *
110986316 -CCACAGAAGATGGTCCTAACAGACTT
1 CCCACATTAGATAGTCCTAACAGACTT
* * *
110986342 CCCACATTAGATGGTCCTAACTGGCTT
1 CCCACATTAGATAGTCCTAACAGACTT
* * * *
110986369 CCCACAGTAGATAGTCCTGACGGGCTT
1 CCCACATTAGATAGTCCTAACAGACTT
110986396 CCCACATTAG
1 CCCACATTAG
110986406 TTAGATTGGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 20 0.27
27 54 0.73
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (27 bp):
CCCACATTAGATAGTCCTAACAGACTT
Found at i:110987390 original size:2 final size:2
Alignment explanation
Indices: 110987383--110987414 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
110987373 CAATTAAGTA
110987383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110987415 TTTGTGAAGC
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):
AT
Found at i:110988474 original size:21 final size:21
Alignment explanation
Indices: 110988435--110988490 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
110988425 AACAACCTGT
* * *
110988435 ATCATCATAATAATAATCACA
1 ATCATAATAATAGTCATCACA
*
110988456 ATCATAATAATAGTCATCACT
1 ATCATAATAATAGTCATCACA
110988477 AT--TAA-AATAGTCAT
1 ATCATAATAATAGTCAT
110988491 TTTTATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 9 0.29
19 3 0.10
21 19 0.61
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (21 bp):
ATCATAATAATAGTCATCACA
Found at i:110992348 original size:3 final size:3
Alignment explanation
Indices: 110992328--110992457 Score: 77
Period size: 3 Copynumber: 42.7 Consensus size: 3
110992318 TTTGTTTTTC
* *
110992328 TAT TAT CAT TAT TA- TAT TAT TAT TAT TAT TCAT GTACA TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TA-T TAT TAT TAT
* * * * * *
110992374 ATAT TAT TTT TAT GAT TAT TAT T-G TATT TAT TTT TAC TAC TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
110992420 TTT TAT TAT TAG TAT TAG TAT TAT AAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
110992458 CACTTATATA
Statistics
Matches: 95, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
2 4 0.04
3 82 0.86
4 8 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:110992450 original size:39 final size:39
Alignment explanation
Indices: 110992375--110992457 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
110992365 ATATTATTTA
* **
110992375 TATTATTTTTATGATTATTATTGTATTTATTTTTACTAC
1 TATTATTTTTATGATTAGTATTGTATTTATAATTACTAC
* *
110992414 TATTATTTTTATTATTAGTATTAGTA-TTATAATTACTAT
1 TATTATTTTTATGATTAGTATT-GTATTTATAATTACTAC
110992453 TATTA
1 TATTA
110992458 CACTTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (39 bp):
TATTATTTTTATGATTAGTATTGTATTTATAATTACTAC
Found at i:110992646 original size:14 final size:14
Alignment explanation
Indices: 110992627--110992653 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110992617 CATCATGTTT
110992627 TTTTAATACTATAC
1 TTTTAATACTATAC
110992641 TTTTAATACTATA
1 TTTTAATACTATA
110992654 TTATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAATACTATAC
Found at i:110992734 original size:64 final size:59
Alignment explanation
Indices: 110992654--110992776 Score: 140
Period size: 64 Copynumber: 2.0 Consensus size: 59
110992644 TAATACTATA
* *
110992654 TTATGTATATA-TTTTTACATGTATTATGGACATATTTTCAATAACTATATCATATGTATATATT
1 TTATGTACATACTTTTAACAT-TATTATGGACATATTTT---TAA-TATAT-ATATGTATATATT
* **
110992718 TTATGTACATACTTTTAACATTATTATGTATTTATTTTTAATATATATATGTATATATT
1 TTATGTACATACTTTTAACATTATTATGGACATATTTTTAATATATATATGTATATATT
110992777 CATGTAGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
59 13 0.25
60 5 0.09
61 3 0.06
64 24 0.45
65 8 0.15
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (59 bp):
TTATGTACATACTTTTAACATTATTATGGACATATTTTTAATATATATATGTATATATT
Found at i:110992756 original size:23 final size:23
Alignment explanation
Indices: 110992719--110992776 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
110992709 GTATATATTT
* *
110992719 TATGTACATACTTTTAACAT-TA
1 TATGTATATATTTTTAACATATA
* *
110992741 TTATGTATTTATTTTTAATATATA
1 -TATGTATATATTTTTAACATATA
110992765 TATGTATATATT
1 TATGTATATATT
110992777 CATGTAGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TATGTATATATTTTTAACATATA
Found at i:110992986 original size:27 final size:26
Alignment explanation
Indices: 110992939--110993032 Score: 100
Period size: 27 Copynumber: 3.6 Consensus size: 26
110992929 ATTATATTAC
* *
110992939 ATTTTTTACATATTATCTTATGTATAT
1 ATTTTTTA-ATACTATATTATGTATAT
*
110992966 ATTTTTTAATAACTATATTATGTATGT
1 ATTTTTTAAT-ACTATATTATGTATAT
** * *
110992993 ATTTTTTAACGCTATATTATGTACAC
1 ATTTTTTAATACTATATTATGTATAT
110993019 A-TTTTTAATACTAT
1 ATTTTTTAATACTAT
110993033 GTATATACCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 11 0.20
26 15 0.27
27 30 0.54
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (26 bp):
ATTTTTTAATACTATATTATGTATAT
Found at i:110993142 original size:19 final size:19
Alignment explanation
Indices: 110993100--110993142 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
110993090 TCATATATCG
**
110993100 TTATTATTAGTTTTTTATA
1 TTATTATTAGTTTTCAATA
110993119 TTATTATT-GTTTTCAATA
1 TTATTATTAGTTTTCAATA
110993137 TATATT
1 T-TATT
110993143 GTATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATTATTAGTTTTCAATA
Found at i:110996890 original size:27 final size:28
Alignment explanation
Indices: 110996860--110996912 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
110996850 TGAAATCAAC
110996860 ACTAAAATTCTTGCAT-ATTTATTCATG
1 ACTAAAATTCTTGCATCATTTATTCATG
* * *
110996887 ACTAACATTCTTTCGTCATTTATTCA
1 ACTAAAATTCTTGCATCATTTATTCA
110996913 ACATTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (28 bp):
ACTAAAATTCTTGCATCATTTATTCATG
Found at i:110996915 original size:22 final size:22
Alignment explanation
Indices: 110996890--110996944 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
110996880 ATTCATGACT
110996890 AACATTC-TTTCGTCATTTATTC
1 AACATTCATTT-GTCATTTATTC
110996912 AACATTCATTTGTCATTTATTC
1 AACATTCATTTGTCATTTATTC
*
110996934 ATTCATTCATT
1 A-ACATTCATT
110996945 CATTGCATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (22 bp):
AACATTCATTTGTCATTTATTC
Found at i:111004363 original size:41 final size:41
Alignment explanation
Indices: 111004318--111004398 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
111004308 ATTATGCTTG
*
111004318 AAAAAAGAA-AATCAAGATGAAAAACCGAAAAGGGCATCTT
1 AAAAAAAAAGAATCAAGATGAAAAACCGAAAAGGGCATCTT
* * * *
111004358 AAAAAAAAAGGATCAAGGTGAAAACCCGAAAAGGGCGTCTT
1 AAAAAAAAAGAATCAAGATGAAAAACCGAAAAGGGCATCTT
111004399 GATTAACACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 8 0.23
41 27 0.77
ACGTcount: A:0.53, C:0.14, G:0.21, T:0.12
Consensus pattern (41 bp):
AAAAAAAAAGAATCAAGATGAAAAACCGAAAAGGGCATCTT
Found at i:111017898 original size:135 final size:134
Alignment explanation
Indices: 111016918--111017871 Score: 1297
Period size: 133 Copynumber: 7.1 Consensus size: 134
111016908 GATTACAGAT
* *
111016918 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGACCAGGCTAA-ATACTAGATCTTATCTTCACT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATATACCAGATCTTATCTTCACT
* *
111016982 GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGAT
66 GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGAT
111017047 TCCA
131 TCCA
* * * *
111017051 ATCATCAGCCTTATCTTCACTAAGCAGGAGTGGGGCAGGCTAA-ATACTAGATCTTATCTTCGCT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATATACCAGATCTTATCTTCACT
* * * * * *
111017115 GAGTAAGAGTGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
66 GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGAT
*
111017180 TTCA
131 TCCA
* * * *
111017184 ACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-ATATACTAGATCTTATCTTCGCT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATATACCAGATCTTATCTTCACT
** * * ** *
111017248 GAGCAGGAGCAAAGCAGATCAAATTTT-GATGAATCTTATCTTCATGTATTGGTAATGGAGCAGA
66 GAGCAGGAGTGAAGCAGATCGAATTTTGGA-GAATCTTATCTCCATGTACCGGCAATGGAGCAGA
111017312 TTCCA
130 TTCCA
*
111017317 ATCATCAGCCTTATCTTCACTGAGCAAGAGTGGAGCAGGCTAA-ATACCAGATCTTATCTTCACT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATATACCAGATCTTATCTTCACT
*
111017381 GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCAATGGAGCAGAT
66 GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGAT
*
111017446 TCTA
131 TCCA
* * * *
111017450 ATCATCAACCTTATCTTCACTGTGCAGGAGTAGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AATATACCAGATCTTATCTTCAC
* * * **
111017515 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAAAATCTTATCTCTACGTACCGGTGATGGAGCAGA
65 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGA
111017580 TTCCA
130 TTCCA
* * **
111017585 ATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTTGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AATATACCAGATCTTATCTTCAC
* * * * * * * *
111017650 TGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCTATGTATCGACAATGGAGCAGG
65 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGA
*
111017715 TTTCA
130 TTCCA
** * * * *
111017720 GCCACCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATATACCAGATCTTATCTTCAT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AATATACCAGATCTTATCTTCAC
**
111017785 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGTGATGGAGCAGA
65 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGA
111017850 TTCCA
130 TTCCA
*
111017855 ATCATCAGCTTTATCTT
1 ATCATCAGCCTTATCTT
111017872 TACTAAACAG
Statistics
Matches: 718, Mismatches: 97, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
132 2 0.00
133 386 0.54
134 5 0.01
135 325 0.45
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (134 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATATACCAGATCTTATCTTCACT
GAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCAATGGAGCAGAT
TCCA
Found at i:111017974 original size:85 final size:85
Alignment explanation
Indices: 111017874--111018071 Score: 317
Period size: 85 Copynumber: 2.3 Consensus size: 85
111017864 TTTATCTTTA
*
111017874 CTAAACAGTAGGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGATGGAGCAAGT
1 CTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGATGGAGCAAGT
111017939 CGAAGA-TCCGCCTTAACCCC
66 CGAAGACT-CGCCTTAACCCC
* * *
111017959 CTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCCTGGCTCTCCGAGCAGTGGTGGAGCAGGT
1 CTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGATGGAGCAAGT
*
111018024 CGAAGACTCGCCTTAATCCC
66 CGAAGACTCGCCTTAACCCC
* *
111018044 CTAAGCAATAGGGTAACAGGTTAAAATT
1 CTAAGCAGTAGGGTAACAGGCTAAAATT
111018072 GCAGATCTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 104 0.99
86 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (85 bp):
CTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCTGGCTCTCCGAGCAGTGATGGAGCAAGT
CGAAGACTCGCCTTAACCCC
Found at i:111021734 original size:3 final size:3
Alignment explanation
Indices: 111021714--111021843 Score: 68
Period size: 3 Copynumber: 42.7 Consensus size: 3
111021704 TTTGTTTTTC
* * *
111021714 TAT TAT CAT TAT TA- TAT TAT TAT TAT TTT TCAT GTACA TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TA-T TAT TAT TAT
* * * * * *
111021760 ATAT TAT TTT TAT GAT TAT TAT T-G TATT TAT TTT TAC TAC TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
111021806 TTT TAT TAT TAG TAT TAG TAT TAT AAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111021844 CACTTATATA
Statistics
Matches: 93, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
2 4 0.04
3 81 0.87
4 7 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:111021777 original size:12 final size:12
Alignment explanation
Indices: 111021752--111021866 Score: 67
Period size: 12 Copynumber: 9.0 Consensus size: 12
111021742 TTCATGTACA
111021752 TATTATTTATAT
1 TATTATTTATAT
111021764 TATT-TTTATGAT
1 TATTATTTAT-AT
111021776 TATTATTGTAT-T
1 TATTATT-TATAT
*
111021788 TATT-TTTACTAC
1 TATTATTTA-TAT
*
111021800 TATTATTTTTAT
1 TATTATTTATAT
111021812 TATTAGTATTAGTAT
1 TATTA-T-TTA-TAT
*
111021827 TA-TAATTACTAT
1 TATTATTTA-TAT
*
111021839 TATTACACTTATAT
1 TATT--ATTTATAT
111021853 ATATATATTTATAT
1 -TAT-TATTTATAT
111021867 GTAAAATTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
10 2 0.02
11 8 0.10
12 34 0.42
13 7 0.09
14 17 0.21
15 12 0.15
16 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:111021779 original size:24 final size:24
Alignment explanation
Indices: 111021716--111021815 Score: 87
Period size: 24 Copynumber: 4.0 Consensus size: 24
111021706 TGTTTTTCTA
*
111021716 TTATCATTATTATATTATTATTATTT
1 TTATGATTATTAT-TTA-TATTATTT
*
111021742 TTCATGTACATATTATTTATATTATTT
1 TT-ATG-A-TTATTATTTATATTATTT
111021769 TTATGATTATTATTGTAT-TTATTT
1 TTATGATTATTATT-TATATTATTT
* *
111021793 TTACT-ACTATTATTTTTATTATT
1 TTA-TGATTATTATTTATATTATT
111021816 AGTATTAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.03
24 29 0.46
25 5 0.08
26 5 0.08
27 12 0.19
28 4 0.06
29 6 0.10
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (24 bp):
TTATGATTATTATTTATATTATTT
Found at i:111021836 original size:39 final size:39
Alignment explanation
Indices: 111021761--111021843 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
111021751 ATATTATTTA
* **
111021761 TATTATTTTTATGATTATTATTGTATTTATTTTTACTAC
1 TATTATTTTTATGATTAGTATTGTATTTATAATTACTAC
* *
111021800 TATTATTTTTATTATTAGTATTAGTA-TTATAATTACTAT
1 TATTATTTTTATGATTAGTATT-GTATTTATAATTACTAC
111021839 TATTA
1 TATTA
111021844 CACTTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (39 bp):
TATTATTTTTATGATTAGTATTGTATTTATAATTACTAC
Found at i:111022034 original size:14 final size:14
Alignment explanation
Indices: 111022015--111022041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
111022005 CATCATGTTT
111022015 TTTTAATACTATAG
1 TTTTAATACTATAG
111022029 TTTTAATACTATA
1 TTTTAATACTATA
111022042 TTATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTAATACTATAG
Found at i:111022133 original size:23 final size:23
Alignment explanation
Indices: 111022101--111022158 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
111022091 TCATATGTAT
111022101 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
111022123 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
111022146 ATA-TATATATGTA
1 ATATTAT-TATGTA
111022159 TATATTCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:111022164 original size:23 final size:23
Alignment explanation
Indices: 111022024--111022107 Score: 53
Period size: 25 Copynumber: 3.3 Consensus size: 23
111022014 TTTTTAATAC
*
111022024 TATAGTTTTAATACTATATTATGTA
1 TATATTTTTAATA-TATA-TATGTA
* *
111022049 TATATTTTTACATGTAT-TATGGA
1 TATATTTTTA-ATATATATATGTA
*
111022072 CATATTTTCAATAACTATATCATATGTA
1 TATATTTT---TAA-TATAT-ATATGTA
111022100 TATATTTT
1 TATATTTT
111022108 ATGTACATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
23 12 0.27
25 13 0.29
26 8 0.18
28 12 0.27
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTTTTAATATATATATGTA
Found at i:111022258 original size:21 final size:21
Alignment explanation
Indices: 111022232--111022342 Score: 63
Period size: 21 Copynumber: 5.4 Consensus size: 21
111022222 ACTTTAATAC
111022232 TATATTATGTATACATTTCTA
1 TATATTATGTATACATTTCTA
* * * *
111022253 TATATTACGTATATATATCTT
1 TATATTATGTATACATTTCTA
* *
111022274 TTTAATATTGTAT---TTT-TA
1 TATATTA-TGTATACATTTCTA
*
111022292 TATATGTCATGTATATATTTCTA
1 TATAT-T-ATGTATACATTTCTA
* *
111022315 -ATATTATAT-TACATTTTTTA
1 TATATTATGTATACA-TTTCTA
111022335 TATATTAT
1 TATATTAT
111022343 CTTATGTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
18 4 0.06
19 11 0.16
20 9 0.13
21 30 0.45
22 11 0.16
23 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATTATGTATACATTTCTA
Found at i:111022374 original size:27 final size:26
Alignment explanation
Indices: 111022327--111022420 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 26
111022317 ATTATATTAC
* *
111022327 ATTTTTTATATATTATCTTATGTATAT
1 ATTTTTTATA-ACTATATTATGTATAT
*
111022354 ATTTTTTAATAACTATATTATGTATGT
1 ATTTTTT-ATAACTATATTATGTATAT
** * *
111022381 ATTTTTTATCGCTATATTATGTACAC
1 ATTTTTTATAACTATATTATGTATAT
*
111022407 ATTTTTAAT-ACTAT
1 ATTTTTTATAACTAT
111022421 GTATATACCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.07
26 22 0.39
27 27 0.48
28 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (26 bp):
ATTTTTTATAACTATATTATGTATAT
Found at i:111022524 original size:18 final size:18
Alignment explanation
Indices: 111022487--111022529 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
111022477 TTCATATATC
*
111022487 ATTATTATTAGTTTTTAT
1 ATTATTATTAGTTTTAAT
111022505 ATTATTATT-GTTTTCAAT
1 ATTATTATTAGTTTT-AAT
111022523 ATATATT
1 AT-TATT
111022530 GTATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTATTATTAGTTTTAAT
Found at i:111023118 original size:17 final size:18
Alignment explanation
Indices: 111023081--111023118 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
111023071 CTCGGCCTTC
*
111023081 TTTTTGTTTAAAAAATAA
1 TTTTTGTTTAAAAAAGAA
*
111023099 TTTTT-TTTAAAAAAGGA
1 TTTTTGTTTAAAAAAGAA
111023116 TTT
1 TTT
111023119 ATTAGGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTTTGTTTAAAAAAGAA
Found at i:111023881 original size:26 final size:24
Alignment explanation
Indices: 111023841--111023900 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
111023831 TTATTTCATT
* * *
111023841 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
111023865 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
111023891 AAATAAATAT
1 AAATAAATAT
111023901 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:111023912 original size:22 final size:22
Alignment explanation
Indices: 111023871--111023929 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
111023861 ATAATAAATC
* *
111023871 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
111023891 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
111023913 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
111023930 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:111024006 original size:15 final size:16
Alignment explanation
Indices: 111023976--111024008 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
111023966 AAATAGTTAT
111023976 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
111023993 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
111024008 A
1 A
111024009 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:111024525 original size:25 final size:25
Alignment explanation
Indices: 111024475--111024525 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
111024465 GCAATTTGAA
*
111024475 TTTTTTTCTTTTTTTTAATTTTTCT
1 TTTTTTTCTTTTTTTTAATTTATCT
*
111024500 TTTTTTTCTTTCTTTTTCA-TTATCT
1 TTTTTTTCTTT-TTTTTAATTTATCT
111024525 T
1 T
111024526 CTGCTCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTTCTTTTTTTTAATTTATCT
Found at i:111025101 original size:23 final size:24
Alignment explanation
Indices: 111025061--111025118 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
111025051 GAAGAAAATG
*
111025061 AAAAA-AAAAAGTTAAAATAACAT-
1 AAAAAGAAAAAATTAAAATAAC-TC
*
111025084 AAAAAGAAAAAATT-AAATTACTC
1 AAAAAGAAAAAATTAAAATAACTC
*
111025107 AAAACGAAAAAA
1 AAAAAGAAAAAA
111025119 ATATAGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 22 0.73
24 7 0.23
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (24 bp):
AAAAAGAAAAAATTAAAATAACTC
Found at i:111028648 original size:52 final size:52
Alignment explanation
Indices: 111028591--111028690 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
111028581 CTAAAGAAAA
111028591 TAAATATTTGACATATAAATATTATACATAAAGAAAAAAATATATATAATAT
1 TAAATATTTGACATATAAATATTATACATAAAGAAAAAAATATATATAATAT
*
111028643 TAAATATTTGACATATAAATATTATACATAAAGAAAAATATATATATA
1 TAAATATTTGACATATAAATATTATACATAAAGAAAAAAATATATATA
111028691 TAAAAAATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (52 bp):
TAAATATTTGACATATAAATATTATACATAAAGAAAAAAATATATATAATAT
Found at i:111028671 original size:15 final size:16
Alignment explanation
Indices: 111028628--111028672 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
111028618 ATAAAGAAAA
111028628 AAATATATATA-ATATT
1 AAATAT-TATACATATT
111028644 AAATATT-TGACATA-T
1 AAATATTAT-ACATATT
111028659 AAATATTATACATA
1 AAATATTATACATA
111028673 AAGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 15 0.58
16 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (16 bp):
AAATATTATACATATT
Found at i:111028683 original size:25 final size:25
Alignment explanation
Indices: 111028603--111028689 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
111028593 AATATTTGAC
111028603 ATATAAATATTATACATAAAGAAAA
1 ATATAAATATTATACATAAAGAAAA
* * * * * * *
111028628 AAATATATATAATA-TTAAATATTTGAC
1 ATATAAATATTATACATAAAGA---AAA
111028655 ATATAAATATTATACATAAAGAAAA
1 ATATAAATATTATACATAAAGAAAA
*
111028680 ATATATATAT
1 ATATAAATAT
111028690 ATAAAAAATG
Statistics
Matches: 43, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
24 5 0.12
25 21 0.49
27 12 0.28
28 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATAAATATTATACATAAAGAAAA
Found at i:111028685 original size:27 final size:26
Alignment explanation
Indices: 111028603--111028691 Score: 65
Period size: 27 Copynumber: 3.4 Consensus size: 26
111028593 AATATTTGAC
111028603 ATATAAATATTATACATAAAGAAAAA
1 ATATAAATATTATACATAAAGAAAAA
* * * * ** *
111028629 A-ATATATATAATA-TTAAATATTTGAC
1 ATATAAATATTATACATAAAGA--AAAA
111028655 ATATAAATATTATACATAAAGAAAAA
1 ATATAAATATTATACATAAAGAAAAA
*
111028681 TATATATATAT
1 -ATATAAATAT
111028692 AAAAAATGAG
Statistics
Matches: 43, Mismatches: 15, Indels: 9
0.64 0.22 0.13
Matches are distributed among these distances:
24 5 0.12
25 10 0.23
26 4 0.09
27 19 0.44
28 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (26 bp):
ATATAAATATTATACATAAAGAAAAA
Found at i:111031710 original size:43 final size:44
Alignment explanation
Indices: 111031600--111031721 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 44
111031590 AAATAGGATT
* * *
111031600 CCGATATGTGATTTACGTGTAAGACCATGTCTGGGACATCGACA
1 CCGATATGTGAGTTACATGTAAGACCCTGTCTGGGACATCGACA
* * * *
111031644 TCG-TATATAAGTT-CATGTAAGACCCTGTCTGGGACAGT-GGCA
1 CCGATATGTGAGTTACATGTAAGACCCTGTCTGGGACA-TCGACA
111031686 CCGATATGTGA-TTACATGTAAGACCAC-GTCTGGGAC
1 CCGATATGTGAGTTACATGTAAGACC-CTGTCTGGGAC
111031722 GTTGGCGTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.44
43 33 0.52
44 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CCGATATGTGAGTTACATGTAAGACCCTGTCTGGGACATCGACA
Found at i:111033393 original size:20 final size:20
Alignment explanation
Indices: 111033356--111033393 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111033346 AAAAAGTGTG
*
111033356 AATTTGGCTTGATGTTTGCA
1 AATTTGGCTTGATATTTGCA
111033376 AATTTGG-TTGAGTATTTG
1 AATTTGGCTTGA-TATTTG
111033394 TAAAGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.21, C:0.05, G:0.26, T:0.47
Consensus pattern (20 bp):
AATTTGGCTTGATATTTGCA
Found at i:111034583 original size:46 final size:46
Alignment explanation
Indices: 111034521--111034818 Score: 328
Period size: 46 Copynumber: 6.9 Consensus size: 46
111034511 TTTGACATGA
* * * * * * *
111034521 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
* *** * *
111034567 TGTCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
111034613 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
111034659 TGCC-----A------AACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
111034694 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
111034740 TGCCATGGTATCTTTCAACCATGGTCTTACAC--------TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
111034778 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
111034819 TAGAGAGCAC
Statistics
Matches: 217, Mismatches: 16, Indels: 38
0.80 0.06 0.14
Matches are distributed among these distances:
35 33 0.15
38 38 0.18
40 1 0.00
41 1 0.00
46 144 0.66
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
Found at i:111034675 original size:35 final size:35
Alignment explanation
Indices: 111034629--111034698 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
111034619 GGTATCTTTC
111034629 AACCATGGTCTTACACATTTCATATCAGGTTGCCA
1 AACCATGGTCTTACACATTTCATATCAGGTTGCCA
*
111034664 AACCATGGTCTTACACATTTTATATCAGGTTGCCA
1 AACCATGGTCTTACACATTTCATATCAGGTTGCCA
111034699 TGGTATCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (35 bp):
AACCATGGTCTTACACATTTCATATCAGGTTGCCA
Found at i:111034718 original size:81 final size:78
Alignment explanation
Indices: 111034583--111034818 Score: 287
Period size: 81 Copynumber: 2.9 Consensus size: 78
111034573 GGTATCTTTC
*** * *
111034583 AACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 AACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
111034648 TCATATCAGGTTG
66 TCATATCAGGTTG
111034661 CCAAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ---AACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
111034726 ATTTTATATCAGGTTG
63 ATTTCATATCAGGTTG
* *
111034742 --CCATGGTATCTTTCAACCATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 AACCATGG--TCTTAC-A-CAT--T-TTATA-TCAGGTTGCCATGGTATCTTTCAACCATGGTCT
111034805 TACACATTTCATAT
58 TACACATTTCATAT
111034819 TAGAGAGCAC
Statistics
Matches: 138, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
76 6 0.04
78 5 0.04
79 1 0.01
80 3 0.02
81 72 0.52
82 1 0.01
83 4 0.03
84 46 0.33
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (78 bp):
AACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
TCATATCAGGTTG
Found at i:111034767 original size:127 final size:127
Alignment explanation
Indices: 111034541--111034771 Score: 372
Period size: 127 Copynumber: 1.8 Consensus size: 127
111034531 TCTTTCAACT
* * * * * ***
111034541 ATGGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTGTTCATTTCAT
1 ATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
111034606 ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCAAACC
66 ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCAAACC
*
111034668 ATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTAT
1 ATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
*
111034733 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
66 ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
111034772 TCAGGTTGCC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (127 bp):
ATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCAAACC
Found at i:111034785 original size:38 final size:38
Alignment explanation
Indices: 111034734--111034809 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
111034724 ACATTTTATA
111034734 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
111034772 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
111034810 ATTTCATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:111036970 original size:11 final size:11
Alignment explanation
Indices: 111036954--111037005 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
111036944 TATACTAAAT
111036954 AAATAATAATA
1 AAATAATAATA
*
111036965 AAATAAT-ATT
1 AAATAATAATA
* *
111036975 AAATATCTCATA
1 AAATA-ATAATA
*
111036987 AAATATTAATA
1 AAATAATAATA
111036998 AAATAATA
1 AAATAATA
111037006 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:111038217 original size:20 final size:20
Alignment explanation
Indices: 111038134--111038218 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
111038124 AGATGCAAAA
*
111038134 CAGGGGCACAGATGTGCAAT
1 CAGGGGCACCGATGTGCAAT
* * *
111038154 CAAGGGTATCGATGTGCAAAT
1 CAGGGGCACCGATGTGC-AAT
* * *
111038175 -AGGGGTACCGATGTGAAAA
1 CAGGGGCACCGATGTGCAAT
111038194 CAGGGGCA-CGATTGTGCAAT
1 CAGGGGCACCGA-TGTGCAAT
111038214 CAGGG
1 CAGGG
111038219 ATACTAAAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 5 0.10
20 43 0.84
21 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.35, T:0.18
Consensus pattern (20 bp):
CAGGGGCACCGATGTGCAAT
Found at i:111040403 original size:22 final size:22
Alignment explanation
Indices: 111040375--111040429 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
111040365 AATTTGTATA
111040375 TTTCAACTAATAATATTATTAG
1 TTTCAACTAATAATATTATTAG
111040397 TTTCAACTAATAATATTATTAG
1 TTTCAACTAATAATATTATTAG
111040419 TTTCAACTAAT
1 TTTCAACTAAT
111040430 TGCTTTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTCAACTAATAATATTATTAG
Found at i:111040845 original size:24 final size:25
Alignment explanation
Indices: 111040805--111040855 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
111040795 AATCCCTCTG
*
111040805 TTCGGATCCCTCGGTTTCTCCCACT
1 TTCGGATCCCTCCGTTTCTCCCACT
*
111040830 TTCGGAT-CCTCCGTTTCTCCCTCT
1 TTCGGATCCCTCCGTTTCTCCCACT
111040854 TT
1 TT
111040856 TTCGCCGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.06, C:0.39, G:0.14, T:0.41
Consensus pattern (25 bp):
TTCGGATCCCTCCGTTTCTCCCACT
Found at i:111041614 original size:34 final size:34
Alignment explanation
Indices: 111041575--111041666 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
111041565 ACTTAGGAAC
* * *
111041575 TTGTGAATGAGTAATGGTTTACTGTGGAGGAAAG
1 TTGTGAATGAGTGATGGTTTACTCTGAAGGAAAG
* *
111041609 TTGTGACTGAGTGATGTTTTACTCTGAAGGAAAG
1 TTGTGAATGAGTGATGGTTTACTCTGAAGGAAAG
* * *
111041643 TCGTTAATGATTGATGGTTTACTC
1 TTGTGAATGAGTGATGGTTTACTC
111041667 CAGGGTCTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (34 bp):
TTGTGAATGAGTGATGGTTTACTCTGAAGGAAAG
Found at i:111073368 original size:6 final size:6
Alignment explanation
Indices: 111073354--111073395 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
111073344 TTGAGTCCGA
* *
111073354 TTATTT TTATGT TTATGT TTATCTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT TTATT
111073396 CTTCTTGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:111079215 original size:20 final size:21
Alignment explanation
Indices: 111079185--111079224 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
111079175 TTTATTTTTT
*
111079185 AAAATTATTAAGAATTATAAG
1 AAAATTATTAAAAATTATAAG
111079206 AAAA-TATTAAAAATTATAA
1 AAAATTATTAAAAATTATAA
111079225 TAAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAATTATTAAAAATTATAAG
Found at i:111081529 original size:13 final size:13
Alignment explanation
Indices: 111081511--111081536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111081501 TTCAACAAGC
111081511 TTCTATATTTATA
1 TTCTATATTTATA
111081524 TTCTATATTTATA
1 TTCTATATTTATA
111081537 GTTTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTATATTTATA
Found at i:111083995 original size:13 final size:13
Alignment explanation
Indices: 111083977--111084035 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
111083967 CAAATTACTA
111083977 AATAATATCCCAT
1 AATAATATCCCAT
111083990 AATAATAT-CC-T
1 AATAATATCCCAT
*
111084001 -ATCATATCCCAT
1 AATAATATCCCAT
*
111084013 AAAAATAT--CAT
1 AATAATATCCCAT
111084024 -ATAATATCCCAT
1 AATAATATCCCAT
111084036 TAGGAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
10 12 0.32
11 6 0.16
12 6 0.16
13 13 0.35
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATATCCCAT
Found at i:111084011 original size:23 final size:23
Alignment explanation
Indices: 111083978--111084035 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
111083968 AAATTACTAA
* *
111083978 ATAATATCCCATAATAATATCCT
1 ATAATATCCCATAAAAATATCAT
*
111084001 ATCATATCCCATAAAAATATCAT
1 ATAATATCCCATAAAAATATCAT
111084024 ATAATATCCCAT
1 ATAATATCCCAT
111084036 TAGGAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAATATCCCATAAAAATATCAT
Found at i:111085968 original size:16 final size:15
Alignment explanation
Indices: 111085949--111085983 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
111085939 TACATTTTAT
111085949 AAACAAAATCCAAAAC
1 AAACAAAATCC-AAAC
*
111085965 AAACCAAATCCAAAC
1 AAACAAAATCCAAAC
111085980 AAAC
1 AAAC
111085984 CAAACCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (15 bp):
AAACAAAATCCAAAC
Found at i:111085981 original size:15 final size:16
Alignment explanation
Indices: 111085949--111085987 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
111085939 TACATTTTAT
*
111085949 AAACAAAATCCAAAAC
1 AAACCAAATCCAAAAC
111085965 AAACCAAATCC-AAAC
1 AAACCAAATCCAAAAC
111085980 AAACCAAA
1 AAACCAAA
111085988 CCTAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.05
Consensus pattern (16 bp):
AAACCAAATCCAAAAC
Found at i:111097573 original size:44 final size:43
Alignment explanation
Indices: 111097504--111097938 Score: 248
Period size: 44 Copynumber: 9.7 Consensus size: 43
111097494 TATTATGGCG
** ** *
111097504 AATCTTATCTCTTTGAAGTTGTAGTGGAGCAGATTAAATCCATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAT-TATA
* * * * *
111097548 AACCTTATCTCCCTGAAGTTATAGTGGAGTAGGTTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAATTATA
* ** * *
111097592 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAA-GATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATTATA
* * * ** * *
111097634 GCGAATCTTATTTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTACAAATTACA
1 ---AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-T-----T--AAATTATA
* *
111097688 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAATTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAATTATA
* * * * * * * **
111097732 GATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGAAGA-TAGCG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAA-ATTA-TA
* * *
111097777 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAATTATA
* * *
111097821 GATCTTATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGA-TAGCA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AA-ATTA-TA
* * *
111097866 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TTATA
*
111097910 AA-CGTTATCTCCCTGAAGTTACAATGGAG
1 AATC-TTATCTCCCTGAAGTTACAGTGGAG
111097939 TGGATCGAAG
Statistics
Matches: 301, Mismatches: 67, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.01
43 4 0.01
44 163 0.54
45 97 0.32
50 1 0.00
51 28 0.09
53 3 0.01
54 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATTATA
Found at i:111097739 original size:140 final size:140
Alignment explanation
Indices: 111097551--111097904 Score: 341
Period size: 140 Copynumber: 2.6 Consensus size: 140
111097541 ATCCATAAAC
* * * * * * * **
111097551 CTTATCTCCCTGAAGTTATAGTGGAGTAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAATTATAAGTCTTATCTCCCTAAAATTACAG
* * *
111097616 TGGAGCAGA-CTAAAGATAGCGAATCTTATTTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTAC
66 TAGAGCAGATC-AAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAC
111097680 AAATTACAAAT
130 AAATTACAAAT
* *
111097691 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAATTAT-AGATCTTATCTCTCTAAAATTACA
1 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAATTATAAG-TCTTATCTCCCTAAAATTACA
* * * *
111097755 GTAGAGTAGATCGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT---G----
65 GTAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *
111097813 AAGTTATAGAT
130 AAATTACAAAT
* * * * * * *
111097824 CTTATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGA-TAGCAAATCTTATCTCTCTGAAGTTAC
1 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAA-ATTA-TAAGTCTTATCTCCCTAAAATTAC
*
111097888 AGTAGAGCAGATTAAAG
64 AGTAGAGCAGATCAAAG
111097905 CTATAAACGT
Statistics
Matches: 178, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
133 42 0.24
134 33 0.19
135 1 0.01
137 1 0.01
139 2 0.01
140 98 0.55
141 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (140 bp):
CTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAATTATAAGTCTTATCTCCCTAAAATTACAG
TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACA
AATTACAAAT
Found at i:111097843 original size:89 final size:89
Alignment explanation
Indices: 111097686--111097948 Score: 357
Period size: 89 Copynumber: 3.0 Consensus size: 89
111097676 CTACAAATTA
* * * *
111097686 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAATTATAGATCTTATCTCTCTAAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGATCTTATCTCCCTGAAGT
*
111097751 TACAGTAGAGTAGATCGAAGATAG
66 TACAGTGGAGTAGATCGAAGATAG
* * *
111097775 CGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGATCTTATCTCCCTGAAGT
* *
111097840 TACAGTGGAGAAGATTGAAGATAG
66 TACAGTGGAGTAGATCGAAGATAG
* * * * *
111097864 CAAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATA-AACGTTATCTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGATC-TTATCTCCCTGAAG
* *
111097928 TTACAATGGAGTGGATCGAAG
65 TTACAGTGGAGTAGATCGAAG
111097949 CAACAATTCC
Statistics
Matches: 151, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
88 2 0.01
89 149 0.99
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTATAGATCTTATCTCCCTGAAGT
TACAGTGGAGTAGATCGAAGATAG
Found at i:111097928 original size:133 final size:132
Alignment explanation
Indices: 111097689--111097938 Score: 306
Period size: 133 Copynumber: 1.9 Consensus size: 132
111097679 CAAATTACAA
* * * *
111097689 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAATTATAGATCTTATCTCTCTAAAATTAC
1 ATCTTATCTCCCTGAAGTTACAGTAGAGAAGATTGAAATTACAAATCTTATCTCTCTAAAATTAC
* * * * * *
111097754 AGTAGAGTAGATCGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
66 AGTAGAGCAGATCAAAGATA-CGAAACTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGTTA
111097819 TAG
130 TAG
* * *
111097822 ATCTTATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGA-TAGCAAATCTTATCTCTCTGAAGTT
1 ATCTTATCTCCCTGAAGTTACAGTAGAGAAGATTGAA-ATTA-CAAATCTTATCTCTCTAAAATT
* * *
111097886 ACAGTAGAGCAGATTAAAGCTA-TAAACGTTATCTCCCTGAAGTTACAATGGAG
64 ACAGTAGAGCAGATCAAAGATACGAAAC-TTATCTCCCTGAAGTTACAATGGAG
111097939 TGGATCGAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 3 0.03
133 58 0.59
134 37 0.38
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (132 bp):
ATCTTATCTCCCTGAAGTTACAGTAGAGAAGATTGAAATTACAAATCTTATCTCTCTAAAATTAC
AGTAGAGCAGATCAAAGATACGAAACTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGTTAT
AG
Found at i:111099308 original size:3 final size:3
Alignment explanation
Indices: 111099300--111099386 Score: 51
Period size: 3 Copynumber: 30.7 Consensus size: 3
111099290 TAATTTAATG
* * * **
111099300 TTA TTA TTA CTA TAA TTA -TA TT- TTA TTT TTA TGC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
111099346 -TA TTA TTA -TA TCA TTAA TT- TTA -TA TTA CTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
111099387 CTTGTGTTTC
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
2 12 0.20
3 46 0.75
4 3 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:111099325 original size:22 final size:21
Alignment explanation
Indices: 111099300--111099376 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
111099290 TAATTTAATG
111099300 TTATTATTACTATAATTATATT
1 TTATTATTACTAT-ATTATATT
*
111099322 TTATTTTTATGCT-TATTATTATT
1 TTATTATTA--CTATATTA-TATT
*
111099345 ATATTATTA-TATCATTA-ATT
1 TTATTATTACTAT-ATTATATT
111099365 TTA-TATTACTAT
1 TTATTATTACTAT
111099377 TATCATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
19 5 0.11
20 9 0.20
21 1 0.02
22 16 0.36
23 12 0.27
24 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (21 bp):
TTATTATTACTATATTATATT
Found at i:111099351 original size:11 final size:11
Alignment explanation
Indices: 111099335--111099386 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
111099325 TTTTTATGCT
111099335 TATTATTATTA
1 TATTATTATTA
111099346 TATTATTA-TA
1 TATTATTATTA
111099356 TCATTAATT-TTA
1 T-ATT-ATTATTA
*
111099368 TATTACTATTA
1 TATTATTATTA
111099379 TCATTATT
1 T-ATTATT
111099387 CTTGTGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.15
11 18 0.53
12 11 0.32
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATTATTA
Found at i:111100499 original size:26 final size:26
Alignment explanation
Indices: 111100470--111100629 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
111100460 TGGTACAAAT
111100470 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
111100496 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111100522 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
111100548 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
111100574 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111100600 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111100626 TGAT
1 TGAT
111100630 GGGCATTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 121 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111100532 original size:52 final size:52
Alignment explanation
Indices: 111100470--111100629 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
111100460 TGGTACAAAT
*
111100470 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
111100522 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
111100574 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
111100626 TGAT
1 TGAT
111100630 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:111102145 original size:26 final size:26
Alignment explanation
Indices: 111102115--111102167 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
111102105 TTTATAGTTT
111102115 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
111102141 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
111102167 T
1 T
111102168 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:111107411 original size:16 final size:17
Alignment explanation
Indices: 111107392--111107439 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
111107382 ACTTTAATTT
111107392 AATATAAAAATT-TAAA
1 AATATAAAAATTATAAA
* *
111107408 AATATATAAATTATTAA
1 AATATAAAAATTATAAA
111107425 AATA-ATAAAATTATA
1 AATATA-AAAATTATA
111107440 TTTTAACTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAAAAATTATAAA
Found at i:111108574 original size:28 final size:27
Alignment explanation
Indices: 111108543--111108617 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 27
111108533 TAATATGAAT
111108543 ATATGTATTATATATTTTATAACTATTC
1 ATATGTATTAT-TATTTTATAACTATTC
* ** *
111108571 ATATTGTTATTATCTATTATATATTTTTTC
1 ATA-TG-TATTAT-TATTTTATAACTATTC
*
111108601 ATATATATTATTATTTT
1 ATATGTATTATTATTTT
111108618 CATATTGAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.13
28 9 0.24
29 3 0.08
30 21 0.55
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
ATATGTATTATTATTTTATAACTATTC
Found at i:111108619 original size:18 final size:18
Alignment explanation
Indices: 111108571--111108622 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
111108561 ATAACTATTC
* *
111108571 ATATTGTTATTATC-TAT
1 ATATTATTATTTTCATAT
111108588 -TATATATT-TTTTCATAT
1 ATAT-TATTATTTTCATAT
111108605 ATATTATTATTTTCATAT
1 ATATTATTATTTTCATAT
111108623 TGAATTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 7 0.24
17 10 0.34
18 12 0.41
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTATTATTTTCATAT
Found at i:111115990 original size:47 final size:47
Alignment explanation
Indices: 111115937--111116032 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
111115927 ATTAATGTTG
111115937 TACACGATGAAGGATTGGAGAAAGGAAGCCTCGAGGGCATTCGCCCT
1 TACACGATGAAGGATTGGAGAAAGGAAGCCTCGAGGGCATTCGCCCT
111115984 TACACGATGAAGGATTGGAGAAAGGAAGCCTCGAGGGCATTCGCCCT
1 TACACGATGAAGGATTGGAGAAAGGAAGCCTCGAGGGCATTCGCCCT
111116031 TA
1 TA
111116033 TGAACTAGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (47 bp):
TACACGATGAAGGATTGGAGAAAGGAAGCCTCGAGGGCATTCGCCCT
Found at i:111121076 original size:206 final size:206
Alignment explanation
Indices: 111120716--111121087 Score: 609
Period size: 206 Copynumber: 1.8 Consensus size: 206
111120706 TAGGCCACAG
* * * *
111120716 CATAGCAGATCCAACCTTCAGATGTTTCTGCTGAAGTAGATCTAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * *
111120781 CTTACAAGGAGCAAATCGAAAACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTCT
66 CTTACAAGGAGAAAATCGAAAACATAGCTGATTTGGCTTTCACATGCTTACGCTGAAGCAAATCT
*
111120846 AAGATGATTTGGCATCTTTGTATTGTCAGAGAACAATTTGAAGTTTGGCGTCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAATTTGAAGTTTGGCGTCTCCATATTCGACG
111120911 GAGGGCAGACA
196 GAGGGCAGACA
*
111120922 CATAGCAGATCCAACCTTCATATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * ** *
111120987 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTTGCATGCTTACGCTGAAGCAAATGT
66 CTTACAAGGAGAAAATCGAAAACATAGCTGATTTGGCTTTCACATGCTTACGCTGAAGCAAATCT
111121052 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
111121088 ATCAAAGAAG
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
206 151 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (206 bp):
CATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGGAGAAAATCGAAAACATAGCTGATTTGGCTTTCACATGCTTACGCTGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAATTTGAAGTTTGGCGTCTCCATATTCGACG
GAGGGCAGACA
Found at i:111122855 original size:30 final size:30
Alignment explanation
Indices: 111122801--111122889 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
111122791 TGAATATACG
* * *
111122801 TATTATATATTTTATAATTATTCATATTGT
1 TATTATATATTATATATTTTTTCATATTGT
* * *
111122831 TATTATCTATTATATATTTTTTCATGTATAT
1 TATTATATATTATATATTTTTTCATAT-TGT
*
111122862 TATTATTTA-TAT-TATTATTTTCATATTG
1 TATTATATATTATATATT-TTTTCATATTG
111122890 AATTGATAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.10
30 33 0.69
31 10 0.21
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (30 bp):
TATTATATATTATATATTTTTTCATATTGT
Found at i:111122874 original size:12 final size:12
Alignment explanation
Indices: 111122801--111122881 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 12
111122791 TGAATATACG
111122801 TATTATATATTT-
1 TATTAT-TATTTA
* *
111122813 TATAATTATTCA
1 TATTATTATTTA
*
111122825 TATTGTTA-TTA
1 TATTATTATTTA
* *
111122836 T-CTATTATATA
1 TATTATTATTTA
* *
111122847 T-TTTTTCATGTA
1 TATTATT-ATTTA
111122859 TATTATTATTTA
1 TATTATTATTTA
111122871 TATTATTATTT
1 TATTATTATTT
111122882 TCATATTGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
10 4 0.08
11 13 0.25
12 31 0.60
13 4 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:111124454 original size:4 final size:4
Alignment explanation
Indices: 111124443--111124484 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
111124433 TAAATATTTA
111124443 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAAT -AAT AGAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAA
111124485 AAGTGGAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 6 0.17
4 25 0.71
5 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:111124456 original size:12 final size:13
Alignment explanation
Indices: 111124431--111124484 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
111124421 AAGAATAAAG
**
111124431 AATAAATATTTAA
1 AATAAATAAATAA
111124444 AAT-AATAAAT-A
1 AATAAATAAATAA
111124455 AATAAATAAAT-A
1 AATAAATAAATAA
*
111124467 AATAAAT-AATAG
1 AATAAATAAATAA
111124479 AATAAA
1 AATAAA
111124485 AAGTGGAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.19
12 26 0.72
13 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:111124482 original size:16 final size:16
Alignment explanation
Indices: 111124424--111124484 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
111124414 TAAACTTAAG
111124424 AATAA-AGAATAAATA
1 AATAATAGAATAAATA
** * *
111124439 TTTAAAATAATAAATA
1 AATAATAGAATAAATA
111124455 AATAAATA-AATAAATA
1 AAT-AATAGAATAAATA
111124471 AATAATAGAATAAA
1 AATAATAGAATAAA
111124485 AAGTGGAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
15 7 0.19
16 27 0.73
17 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AATAATAGAATAAATA
Found at i:111128600 original size:21 final size:23
Alignment explanation
Indices: 111128567--111128619 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
111128557 CCATTTTTAT
* *
111128567 TTTTATTACAATT-TAA-TTTTG
1 TTTTATTTCAATTATAATTTTTC
*
111128588 TTTTATTTTAATTACTAATTTTTC
1 TTTTATTTCAATTA-TAATTTTTC
111128612 TTTTATTT
1 TTTTATTT
111128620 GCTTTTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
23 3 0.12
24 12 0.46
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATTTCAATTATAATTTTTC
Found at i:111134031 original size:21 final size:21
Alignment explanation
Indices: 111133992--111134031 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
111133982 GGGAAATGGG
*
111133992 AAAAGAAAGGGGAAGAAAGAA
1 AAAAGAAAGGGGAAAAAAGAA
111134013 AAAAG-AAGGGAGAAAAAAG
1 AAAAGAAAGGG-GAAAAAAG
111134032 GTAGGGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGGGGAAAAAAGAA
Found at i:111134870 original size:8 final size:8
Alignment explanation
Indices: 111134849--111134926 Score: 80
Period size: 7 Copynumber: 10.5 Consensus size: 8
111134839 TTAATATCTG
111134849 AAAATAAT
1 AAAATAAT
111134857 -AAATAAT
1 AAAATAAT
111134864 AAAATAAT
1 AAAATAAT
111134872 AAAATAA-
1 AAAATAAT
111134879 AATAA-AA-
1 AA-AATAAT
111134886 AAAATAA-
1 AAAATAAT
111134893 AAAATAA-
1 AAAATAAT
*
111134900 AAAAAAAT
1 AAAATAAT
111134908 AAAA-AAT
1 AAAATAAT
*
111134915 AAAAAAAT
1 AAAATAAT
111134923 AAAA
1 AAAA
111134927 ATTGGGTTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 10
0.85 0.01 0.13
Matches are distributed among these distances:
6 2 0.03
7 35 0.55
8 27 0.42
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATAAT
Found at i:111134927 original size:8 final size:8
Alignment explanation
Indices: 111134849--111134927 Score: 79
Period size: 8 Copynumber: 9.2 Consensus size: 8
111134839 TTAATATCTG
111134849 AAAATAATA
1 AAAATAA-A
111134858 AATAATAAA
1 AA-AATAAA
*
111134867 ATAATAAAA
1 AAAAT-AAA
111134876 TAAAATAAA
1 -AAAATAAA
111134885 AAAA-ATAA
1 AAAATA-AA
111134893 AAAATAAA
1 AAAATAAA
*
111134901 AAAAAATAA
1 AAAATA-AA
111134910 AAAATAAA
1 AAAATAAA
111134918 AAAATAAA
1 AAAATAAA
111134926 AA
1 AA
111134928 TTGGGTTTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
7 1 0.02
8 32 0.53
9 18 0.30
10 9 0.15
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:111137885 original size:12 final size:12
Alignment explanation
Indices: 111137868--111137900 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
111137858 TTCCCTGTAA
*
111137868 AATAGTAAACAT
1 AATAGTAAAAAT
111137880 AATAGTAAAAAT
1 AATAGTAAAAAT
111137892 AATAGTAAA
1 AATAGTAAA
111137901 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:111138078 original size:17 final size:18
Alignment explanation
Indices: 111138058--111138091 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
111138048 AAGTGAATTG
111138058 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
111138075 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
111138092 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Done.