Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 331 of 345
Found at i:110762426 original size:1 final size:1
Alignment explanation
Indices: 110762420--110762452 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
110762410 CGAGTTTCAG
110762420 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
110762453 GAGAGAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:110763707 original size:28 final size:26
Alignment explanation
Indices: 110763660--110763712 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
110763650 AAATATCTAC
*
110763660 AAATTAAAAATATTATAAATGGAATA
1 AAATTAAAAATATTAAAAATGGAATA
*
110763686 AAATATAAAAATTATTAAAAATTGAAT
1 AAAT-TAAAAA-TATTAAAAATGGAAT
110763713 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 6 0.26
28 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
AAATTAAAAATATTAAAAATGGAATA
Found at i:110763874 original size:17 final size:17
Alignment explanation
Indices: 110763854--110763887 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110763844 GCATAAATTT
110763854 GTTAATAAAATAATTAA
1 GTTAATAAAATAATTAA
* *
110763871 GTTATTAAAATCATTAA
1 GTTAATAAAATAATTAA
110763888 TGACATTTTT
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:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (17 bp):
GTTAATAAAATAATTAA
Found at i:110764493 original size:14 final size:14
Alignment explanation
Indices: 110764474--110764510 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
110764464 AAAATTATCC
110764474 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
110764488 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
*
110764501 -TCCTATTATT
1 CTCCTTTTATT
110764511 TCCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:110766615 original size:13 final size:14
Alignment explanation
Indices: 110766581--110766617 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
110766571 AAAATTATCC
110766581 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
110766595 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
110766608 -TCCTTTTATT
1 CTCCTTTTATT
110766618 TCTTACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 4 0.18
ACGTcount: A:0.14, C:0.27, G:0.00, T:0.59
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:110770175 original size:15 final size:15
Alignment explanation
Indices: 110770157--110770185 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
110770147 TATTTCACCT
110770157 AATTATATTAATTAG
1 AATTATATTAATTAG
110770172 AATTATATTAATTA
1 AATTATATTAATTA
110770186 AAATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AATTATATTAATTAG
Found at i:110771255 original size:27 final size:27
Alignment explanation
Indices: 110771225--110771278 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
110771215 TTGCTCTCAG
110771225 AATACAAATGCTTAAAGCTACTAGCTA
1 AATACAAATGCTTAAAGCTACTAGCTA
110771252 AATACAAATGCTTAAAGCTACTAGCTA
1 AATACAAATGCTTAAAGCTACTAGCTA
110771279 TCCCCTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (27 bp):
AATACAAATGCTTAAAGCTACTAGCTA
Found at i:110773775 original size:18 final size:19
Alignment explanation
Indices: 110773740--110773781 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
110773730 ATTTAATAGA
* *
110773740 ATTTTTTAATAAAGTTTAC
1 ATTTTATAACAAAGTTTAC
110773759 ATTTTATAACAAA-TTTAC
1 ATTTTATAACAAAGTTTAC
110773777 ATTTT
1 ATTTT
110773782 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTTATAACAAAGTTTAC
Found at i:110776761 original size:25 final size:25
Alignment explanation
Indices: 110776727--110776777 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
110776717 TAACATTTAG
110776727 TAGAAAGCATGTCACAGATAAACAA
1 TAGAAAGCATGTCACAGATAAACAA
110776752 TAGAAAGCATGTCACAGATAAACAA
1 TAGAAAGCATGTCACAGATAAACAA
110776777 T
1 T
110776778 CTGATGTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (25 bp):
TAGAAAGCATGTCACAGATAAACAA
Found at i:110780867 original size:72 final size:73
Alignment explanation
Indices: 110780742--110780931 Score: 208
Period size: 72 Copynumber: 2.6 Consensus size: 73
110780732 TAATCATAGA
* * * *
110780742 ATTG-TTAACAGAATAAAGAAATCAATGATCAATCCAATTCACTGATTTGATTACAGACTATCAA
1 ATTGATTAAAAGAATAAAG-AATCAATGATCAATCTAATTCACTGATTTAATTACAGACTACCAA
*
110780806 TCAAATTCT
65 TCAAACTCT
* * **
110780815 ATTGATTAAAAGAATAAA-ACT-AATGATCTTATCTAATTCA-TCGATTTAATTACAGTTTACCA
1 ATTGATTAAAAGAATAAAGAATCAATGATC-AATCTAATTCACT-GATTTAATTACAGACTACCA
* **
110780877 ATTATCCTCT
64 ATCAAACTCT
*
110780887 ATTGATTAACAGAATAAAGAATCAATGATCAATCTAATTCACTGA
1 ATTGATTAAAAGAATAAAGAATCAATGATCAATCTAATTCACTGA
110780932 ATTACAGGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
71 8 0.08
72 50 0.52
73 18 0.19
74 20 0.21
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (73 bp):
ATTGATTAAAAGAATAAAGAATCAATGATCAATCTAATTCACTGATTTAATTACAGACTACCAAT
CAAACTCT
Found at i:110787043 original size:49 final size:49
Alignment explanation
Indices: 110786966--110787196 Score: 233
Period size: 49 Copynumber: 4.8 Consensus size: 49
110786956 GGGTAAAGAA
*
110786966 TCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATCCATCATGAGA-G
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCA-CACGAGACG
* * * *
110787015 TCCCCTGTAAG-CCATGTCTGGGACATGGCATGGGCACGAGACGAGA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCACACGAGACG
* * * * *
110787061 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-ACACGAGACG
* * * *
110787111 TCCCCTATAAGACCATGTCT-GGACAT-GCATGGGCACCATCACGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-CACGAG-ACG
*
110787160 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
110787197 TGTTATTATC
Statistics
Matches: 149, Mismatches: 24, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
46 10 0.07
47 29 0.19
48 29 0.19
49 50 0.34
50 24 0.16
51 7 0.05
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCACACGAGACG
Found at i:110787141 original size:95 final size:98
Alignment explanation
Indices: 110786962--110787189 Score: 308
Period size: 95 Copynumber: 2.3 Consensus size: 98
110786952 ATTTGGGTAA
* *
110786962 AGAATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATCCATCATGAGAGTCCCCTGTAAG
1 AGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCATCATGAGAGTCCCCTATAAG
* *
110787026 CCATGTCTGGGACATGGCATGGGCACGA-GACG
66 CCATGTCTGGGACATGGCATGGGCACCATCACG
* *
110787058 AG-ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCA-CCGA-GATGAGAGGTCCCCTATA
1 AGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCC-ATCATGAGA-GTCCCCTATA
110787120 AGACCATGTCT-GGACAT-GCATGGGCACCATCACG
64 AG-CCATGTCTGGGACATGGCATGGGCACCATCACG
110787154 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-A-ATCCCATGTAAGACCATGTCTGGGACATGGC
110787190 TTTGGCATGT
Statistics
Matches: 118, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
95 40 0.34
96 39 0.33
97 8 0.07
99 31 0.26
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (98 bp):
AGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCATCATGAGAGTCCCCTATAAG
CCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:110790339 original size:25 final size:25
Alignment explanation
Indices: 110790305--110790353 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
110790295 CAGTTATGAC
110790305 AGCTCAGAGGTGTGTTAGAAAAGGT
1 AGCTCAGAGGTGTGTTAGAAAAGGT
110790330 AGCTCAGAGGTGTGTTAGAAAAGG
1 AGCTCAGAGGTGTGTTAGAAAAGG
110790354 GTATGATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.37, T:0.22
Consensus pattern (25 bp):
AGCTCAGAGGTGTGTTAGAAAAGGT
Found at i:110794180 original size:29 final size:30
Alignment explanation
Indices: 110794121--110794178 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110794111 TCCGAGCCTT
*
110794121 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
110794151 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
110794179 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:110794621 original size:50 final size:50
Alignment explanation
Indices: 110794508--110794749 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
110794498 ATTTGGGTAA
* * *
110794508 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
110794564 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
110794614 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
110794664 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
110794714 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
110794750 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:110794697 original size:100 final size:103
Alignment explanation
Indices: 110794508--110794757 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
110794498 ATTTGGGTAA
110794508 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
110794573 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
110794614 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
110794676 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
110794714 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
110794758 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:110807035 original size:22 final size:22
Alignment explanation
Indices: 110807018--110807059 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
110807008 CATAATTTTC
*
110807018 TTTTGTTGTTTATTTAATTTAA
1 TTTTGTTATTTATTTAATTTAA
*
110807040 TTTTTTTATTTATTT-ATTTA
1 TTTTGTTATTTATTTAATTTA
110807060 TTGCAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTGTTATTTATTTAATTTAA
Found at i:110810316 original size:135 final size:135
Alignment explanation
Indices: 110810074--110810344 Score: 542
Period size: 135 Copynumber: 2.0 Consensus size: 135
110810064 AGCGATTGTG
110810074 TTGGATACGTACTCATATCCGATGCTTCCTTTGTTACTCAGACTGAGTAAGCAGAAATGAAGAGC
1 TTGGATACGTACTCATATCCGATGCTTCCTTTGTTACTCAGACTGAGTAAGCAGAAATGAAGAGC
110810139 CAGAGCACACAGATTTCAACTGTTGCAGGATTTTCTATATTACATTGATTTATGTTGCTCCGATT
66 CAGAGCACACAGATTTCAACTGTTGCAGGATTTTCTATATTACATTGATTTATGTTGCTCCGATT
110810204 CTTTA
131 CTTTA
110810209 TTGGATACGTACTCATATCCGATGCTTCCTTTGTTACTCAGACTGAGTAAGCAGAAATGAAGAGC
1 TTGGATACGTACTCATATCCGATGCTTCCTTTGTTACTCAGACTGAGTAAGCAGAAATGAAGAGC
110810274 CAGAGCACACAGATTTCAACTGTTGCAGGATTTTCTATATTACATTGATTTATGTTGCTCCGATT
66 CAGAGCACACAGATTTCAACTGTTGCAGGATTTTCTATATTACATTGATTTATGTTGCTCCGATT
110810339 CTTTA
131 CTTTA
110810344 T
1 T
110810345 ATTTCTCTTT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (135 bp):
TTGGATACGTACTCATATCCGATGCTTCCTTTGTTACTCAGACTGAGTAAGCAGAAATGAAGAGC
CAGAGCACACAGATTTCAACTGTTGCAGGATTTTCTATATTACATTGATTTATGTTGCTCCGATT
CTTTA
Found at i:110816737 original size:9 final size:9
Alignment explanation
Indices: 110816707--110816738 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
110816697 TCAAAGAGAA
110816707 GATGGCGAG
1 GATGGCGAG
*
110816716 GATAGCGAG
1 GATGGCGAG
110816725 GATGGCGAG
1 GATGGCGAG
110816734 GATGG
1 GATGG
110816739 ATCAAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.53, T:0.12
Consensus pattern (9 bp):
GATGGCGAG
Found at i:110817789 original size:23 final size:23
Alignment explanation
Indices: 110817763--110817837 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
110817753 TAAATTTTAA
*
110817763 ATTTTGAATTATTTAGTAATAAT
1 ATTTAGAATTATTTAGTAATAAT
*
110817786 ATTTAGAATTATTTAATAATAAT
1 ATTTAGAATTATTTAGTAATAAT
* *
110817809 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTAATAAT
110817832 ATTTAG
1 ATTTAG
110817838 GAAAAATCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:110817790 original size:13 final size:13
Alignment explanation
Indices: 110817772--110817837 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
110817762 AATTTTGAAT
110817772 TATTTAGTAATAA
1 TATTTAGTAATAA
110817785 TATTTAG-AAT--
1 TATTTAGTAATAA
*
110817795 TATTTAATAATAA
1 TATTTAGTAATAA
*
110817808 TATTTAG-GAT--
1 TATTTAGTAATAA
*
110817818 TATTTAGTGATAA
1 TATTTAGTAATAA
110817831 TATTTAG
1 TATTTAG
110817838 GAAAAATCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 13 0.30
11 6 0.14
12 5 0.11
13 20 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:110819111 original size:43 final size:43
Alignment explanation
Indices: 110819062--110819149 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
110819052 ATCCTTCAAA
*
110819062 AACAGATGAAGAGTCGGAGTAATATAGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGAAGTAATATAGTTTTAATCCATATGAG
*
110819105 AACAGATGAAGAGTCGAAGTAATATCGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGAAGTAATATAGTTTTAATCCATATGAG
110819148 AA
1 AA
110819150 ACAGGCAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (43 bp):
AACAGATGAAGAGTCGAAGTAATATAGTTTTAATCCATATGAG
Found at i:110821099 original size:18 final size:18
Alignment explanation
Indices: 110821051--110821100 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
110821041 TGTTCGTTCT
*
110821051 AGGATTTCTCCTCCTCCC
1 AGGATTTCTCCTTCTCCC
110821069 AGGATTTCTCCTTCTCCC
1 AGGATTTCTCCTTCTCCC
**
110821087 ATTATTTCTCCTTC
1 AGGATTTCTCCTTC
110821101 CATGTTTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.12, C:0.38, G:0.08, T:0.42
Consensus pattern (18 bp):
AGGATTTCTCCTTCTCCC
Found at i:110822842 original size:41 final size:39
Alignment explanation
Indices: 110822762--110822849 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 39
110822752 TTTAAAAAAA
*
110822762 TTAAAAATATTTTTATAATATTTTTAATGGTTTTCAATTT
1 TTAAAAATATTTTTATAATATTTTTAAT-GTTTTAAATTT
110822802 TTAAAAATATTTTTTATAA-ATTTTTTGAAT-TTTTAAAATTT
1 TTAAAAATA-TTTTTATAATA-TTTTT-AATGTTTT-AAATTT
*
110822843 TGAAAAA
1 TTAAAAA
110822850 CTAATTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
40 14 0.33
41 25 0.60
42 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (39 bp):
TTAAAAATATTTTTATAATATTTTTAATGTTTTAAATTT
Found at i:110836457 original size:14 final size:14
Alignment explanation
Indices: 110836438--110836477 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
110836428 TTGATTGCTA
110836438 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
110836452 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
110836466 GGAAAATGTTTT
1 GTAAAATGTTTT
110836478 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:110836490 original size:34 final size:35
Alignment explanation
Indices: 110836446--110836512 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
110836436 TAGTAAAATG
* *
110836446 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
110836480 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
110836513 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:110836498 original size:20 final size:20
Alignment explanation
Indices: 110836461--110836500 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110836451 CGTAAAATGA
**
110836461 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
110836481 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
110836501 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:110838842 original size:19 final size:19
Alignment explanation
Indices: 110838818--110838857 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
110838808 AAACCAAATC
110838818 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
110838837 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
110838856 AA
1 AA
110838858 CAAAACCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:110839157 original size:14 final size:13
Alignment explanation
Indices: 110839138--110839174 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
110839128 AAACAAAAAA
110839138 AATAGTAACAATAT
1 AATAGTAA-AATAT
110839152 AATAGT-AAA-AT
1 AATAGTAAAATAT
110839163 AATAGTAAAATA
1 AATAGTAAAATA
110839175 ACAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 5 0.24
13 2 0.10
14 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (13 bp):
AATAGTAAAATAT
Found at i:110839166 original size:11 final size:11
Alignment explanation
Indices: 110839150--110839175 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
110839140 TAGTAACAAT
110839150 ATAATAGTAAA
1 ATAATAGTAAA
110839161 ATAATAGTAAA
1 ATAATAGTAAA
110839172 ATAA
1 ATAA
110839176 CAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (11 bp):
ATAATAGTAAA
Found at i:110839180 original size:25 final size:25
Alignment explanation
Indices: 110839133--110839180 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
110839123 TATCCAAACA
*
110839133 AAAAAAATAGTAACAATATAATAGT
1 AAAAAAATAGTAACAATACAATAGT
*
110839158 AAAATAATAGTAA-AATAACAATA
1 AAAAAAATAGTAACAAT-ACAATA
110839181 AAAAAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (25 bp):
AAAAAAATAGTAACAATACAATAGT
Found at i:110839186 original size:25 final size:24
Alignment explanation
Indices: 110839132--110839186 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
110839122 ATATCCAAAC
*
110839132 AAAAAAAATAGTAACAATATAATA
1 AAAAAAAATAGTAACAATACAATA
* *
110839156 GTAAAATAATAGTAA-AATAACAATA
1 -AAAAAAAATAGTAACAAT-ACAATA
110839181 AAAAAA
1 AAAAAA
110839187 GTTTAAGCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAAAAAATAGTAACAATACAATA
Found at i:110842712 original size:36 final size:36
Alignment explanation
Indices: 110842665--110842743 Score: 158
Period size: 36 Copynumber: 2.2 Consensus size: 36
110842655 ACGAAACTGC
110842665 GCTTCATTCTCGTAAACAAAGTTGTTGTTGCGATTA
1 GCTTCATTCTCGTAAACAAAGTTGTTGTTGCGATTA
110842701 GCTTCATTCTCGTAAACAAAGTTGTTGTTGCGATTA
1 GCTTCATTCTCGTAAACAAAGTTGTTGTTGCGATTA
110842737 GCTTCAT
1 GCTTCAT
110842744 ACAAAACATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (36 bp):
GCTTCATTCTCGTAAACAAAGTTGTTGTTGCGATTA
Found at i:110847946 original size:4 final size:4
Alignment explanation
Indices: 110847937--110847986 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
110847927 ACCTTGACCC
* * * *
110847937 CATA CATA CATA CATA CGTG CATA CATA CATG CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
110847985 CA
1 CA
110847987 ATAATGGATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:110847960 original size:12 final size:12
Alignment explanation
Indices: 110847937--110847986 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
110847927 ACCTTGACCC
*
110847937 CATACATACATA
1 CATACATGCATA
*
110847949 CATACGTGCATA
1 CATACATGCATA
110847961 CATACATGCATA
1 CATACATGCATA
110847973 CATACATGCATA
1 CATACATGCATA
110847985 CA
1 CA
110847987 ATAATGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (12 bp):
CATACATGCATA
Found at i:110854155 original size:11 final size:11
Alignment explanation
Indices: 110854141--110854181 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
110854131 TGTTTTCTCC
110854141 CTATTTTGCTA
1 CTATTTTGCTA
*
110854152 CTATTTTACTA
1 CTATTTTGCTA
* *
110854163 TTATGTTGCTA
1 CTATTTTGCTA
110854174 CTATTTTG
1 CTATTTTG
110854182 TTATTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:110854228 original size:16 final size:16
Alignment explanation
Indices: 110854207--110854238 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
110854197 TATTGTATAA
110854207 AATTTATTTTATTGTT
1 AATTTATTTTATTGTT
110854223 AATTTATTTTATTGTT
1 AATTTATTTTATTGTT
110854239 TTAAACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
AATTTATTTTATTGTT
Found at i:110854271 original size:30 final size:31
Alignment explanation
Indices: 110854218--110854281 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
110854208 ATTTATTTTA
* *
110854218 TTGTTAATTTATTTTATTGTTTTAAACA-CAT
1 TTGTTAATTTATGTTATTATTTTAAA-AGCAT
110854249 TTGTTAATTT-TGTTATTATTTTAAAAGCAT
1 TTGTTAATTTATGTTATTATTTTAAAAGCAT
110854279 TTG
1 TTG
110854282 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 19 0.63
31 10 0.33
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTATGTTATTATTTTAAAAGCAT
Found at i:110854426 original size:12 final size:12
Alignment explanation
Indices: 110854405--110854438 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
110854395 TATATATTTT
*
110854405 AAAATTATATAA
1 AAAATAATATAA
110854417 AAAATAATATAA
1 AAAATAATATAA
*
110854429 AAATTAATAT
1 AAAATAATAT
110854439 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:110863435 original size:21 final size:21
Alignment explanation
Indices: 110863409--110863449 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110863399 ATCTGCTCAA
* *
110863409 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110863430 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110863450 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110867719 original size:58 final size:58
Alignment explanation
Indices: 110867621--110867852 Score: 432
Period size: 58 Copynumber: 4.0 Consensus size: 58
110867611 AATGAGATTG
*
110867621 TTAAATATATATACTGCATT-GATGATTGACGTGACAAATTTATTATATGTATTGTTT
1 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
110867678 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
1 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
110867736 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
1 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
*
110867794 TTAAATATATATATTGCATTAGATGATTGACGCGACAAATTTATTATATGTATT-TTT
1 TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
110867851 TT
1 TT
110867853 CTATTTAAAA
Statistics
Matches: 172, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
57 25 0.15
58 147 0.85
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (58 bp):
TTAAATATATATACTGCATTAGATGATTGACGCGACAAATTTATTATATGTATTGTTT
Found at i:110868771 original size:26 final size:26
Alignment explanation
Indices: 110868736--110868787 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
110868726 TATTAAGAAA
110868736 AATAATATTTAT-CTTACTGATAATTT
1 AATAATATTTATGCTTA-TGATAATTT
*
110868762 AATAATATTTATGTTTATGATAATTT
1 AATAATATTTATGCTTATGATAATTT
110868788 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
AATAATATTTATGCTTATGATAATTT
Found at i:110879692 original size:45 final size:48
Alignment explanation
Indices: 110879623--110879726 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 48
110879613 GCTTTCCCTG
*
110879623 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGG-A-GG-TGGCAGCGGCA
1 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAATGGATGGCAGCGGCA
110879668 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCA
1 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGG-AATGG--ATGGCAGCGGCA
110879719 GTGGCTGG
1 GTGGCTGG
110879727 AGTGGCAGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
45 30 0.58
47 1 0.02
48 2 0.04
51 19 0.37
ACGTcount: A:0.19, C:0.14, G:0.45, T:0.21
Consensus pattern (48 bp):
GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAATGGATGGCAGCGGCA
Found at i:110879784 original size:78 final size:78
Alignment explanation
Indices: 110879664--110879810 Score: 249
Period size: 78 Copynumber: 1.9 Consensus size: 78
110879654 AGGTGGCAGC
110879664 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGAG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGAG
110879729 TGGCAGTGGCGGT
66 TGGCAGTGGCGGT
* ** * *
110879742 GGCAGTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCAGCGGCAGTGGTTGGGG
1 GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGAG
110879807 TGGC
66 TGGC
110879811 GGTAGTGGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.18, C:0.14, G:0.48, T:0.20
Consensus pattern (78 bp):
GGCAGTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCAGCGGCAGTGGCTGGAG
TGGCAGTGGCGGT
Found at i:110879791 original size:45 final size:45
Alignment explanation
Indices: 110879623--110879791 Score: 139
Period size: 45 Copynumber: 4.0 Consensus size: 45
110879613 GCTTTCCCTG
**
110879623 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAGCGGCA
1 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCA
* **
110879668 GTGGCTGGGGTGCTTCTGGAACTGAAAGTGGAAATGGCAATGGCA
1 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCA
* ** * **
110879713 -------GCG-GC-AGTGG--CTG-GAGTGGCA-GTGGCGGTGGCA
1 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGG-AGGTGGCAATGGCA
110879746 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCA
1 GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCA
110879791 G
1 G
110879792 CGGCAGTGGT
Statistics
Matches: 92, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
33 14 0.15
34 4 0.04
36 3 0.03
37 2 0.02
38 2 0.02
40 2 0.02
41 2 0.02
42 3 0.03
44 4 0.04
45 56 0.61
ACGTcount: A:0.19, C:0.14, G:0.46, T:0.21
Consensus pattern (45 bp):
GTGGTTGGGGTGCTTCTGGAACTGAAAGTGGAGGTGGCAATGGCA
Found at i:110884655 original size:52 final size:52
Alignment explanation
Indices: 110884598--110884702 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
110884588 AAAATTTATG
*
110884598 AAAAAAATATTCAAAAAAATGTTTATATAATTTTAAGAGAATAACATGAAGT
1 AAAAAAATATTCAAAAAAATATTTATATAATTTTAAGAGAATAACATGAAGT
110884650 AAAAAAATATTCAAAAAAATATTTATATAATTTTAAGAGAATAACATGAAGT
1 AAAAAAATATTCAAAAAAATATTTATATAATTTTAAGAGAATAACATGAAGT
110884702 A
1 A
110884703 CATGTGGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (52 bp):
AAAAAAATATTCAAAAAAATATTTATATAATTTTAAGAGAATAACATGAAGT
Found at i:110887758 original size:21 final size:17
Alignment explanation
Indices: 110887713--110887749 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
110887703 CAATAATATC
110887713 GATAAATTCAATGGTTG
1 GATAAATTCAATGGTTG
110887730 GATAAATTCAATGGTTG
1 GATAAATTCAATGGTTG
110887747 GAT
1 GAT
110887750 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (17 bp):
GATAAATTCAATGGTTG
Found at i:110901254 original size:25 final size:23
Alignment explanation
Indices: 110901224--110901270 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
110901214 GCGTATATAT
*
110901224 ATAAAAATAAAGAACGTATAAAAAA
1 ATAAAAAAAAAGAAC-TA-AAAAAA
110901249 ATAAAAAAAAAGAACTAAAAAA
1 ATAAAAAAAAAGAACTAAAAAA
110901271 GTACCCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 2 0.10
25 14 0.67
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (23 bp):
ATAAAAAAAAAGAACTAAAAAAA
Found at i:110901874 original size:37 final size:37
Alignment explanation
Indices: 110901814--110901916 Score: 100
Period size: 37 Copynumber: 2.7 Consensus size: 37
110901804 GTCCTTTTTG
* *
110901814 TTTATTTTCATTACT-TTATTATTATTATTATTATTA
1 TTTATTGTCATTACTATTATTATTATTACTATTATTA
* *
110901850 TTTTCTATTGTCATTACTATTATTATTCTTGCTATTATTA
1 --TT-TATTGTCATTACTATTATTATTATTACTATTATTA
* * * *
110901890 TTTATCGTTATTCCTATTATTAATATT
1 TTTATTGTCATTACTATTATTATTATT
110901917 GTGTTTTGCC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
37 20 0.37
38 4 0.07
39 12 0.22
40 18 0.33
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTATTGTCATTACTATTATTATTATTACTATTATTA
Found at i:110901910 original size:3 final size:3
Alignment explanation
Indices: 110901829--110901891 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
110901819 TTTCATTACT
* * * *
110901829 TTA TTA TTA TTA TTA TTA TTA TTT TCTA TTG TCA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
110901875 TTC TTG CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
110901892 TATCGTTATT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:110902379 original size:30 final size:27
Alignment explanation
Indices: 110902326--110902381 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 27
110902316 TGTATTTTCA
110902326 TTCTTAAAATTATATATTGTATGTATT
1 TTCTTAAAATTATATATTGTATGTATT
110902353 TTCTTAATAATTATATTATATGTATGTAT
1 TTCTTAA-AATTATA-TAT-TGTATGTAT
110902382 AGTGTGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.27
28 7 0.27
29 3 0.12
30 9 0.35
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (27 bp):
TTCTTAAAATTATATATTGTATGTATT
Found at i:110914934 original size:9 final size:9
Alignment explanation
Indices: 110914920--110914949 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
110914910 GATCAAGTAA
110914920 AATTAAATT
1 AATTAAATT
*
110914929 AATTAAATC
1 AATTAAATT
110914938 AATTAAATT
1 AATTAAATT
110914947 AAT
1 AAT
110914950 ATGATATTTT
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:110915472 original size:62 final size:63
Alignment explanation
Indices: 110915403--110915524 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 63
110915393 AAGTGATTAT
* * *
110915403 TTTAATATTAAATTAAAT-TAAATTTTTATCTTG-TAGATA-AGTATTCTATTATTTTAATAAGA
1 TTTAATATTAAATTAAATAT-AATATTTATCTTGATAAATATA-TATTATATTATTTTAATAAGA
*
110915465 TTTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTATATTATTTTAAT
1 TTTAATATTAAATTAAATATAATATTTATCTTGATAAATA-TATATTATATTATTTTAAT
110915525 CTTAAAGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
62 29 0.56
63 6 0.12
64 16 0.31
65 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (63 bp):
TTTAATATTAAATTAAATATAATATTTATCTTGATAAATATATATTATATTATTTTAATAAGA
Found at i:110916506 original size:54 final size:53
Alignment explanation
Indices: 110916448--110916827 Score: 413
Period size: 52 Copynumber: 7.3 Consensus size: 53
110916438 ACAAAAAATT
* *
110916448 AGTATTTTAAATTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTC
1 AGTA-TTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
* * *
110916502 AGTATTTTAA--TTTTTTTT-GTGCTAGCCTG-CAATGGCCGGCACCAAACT-
1 AGTATTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
* ** * * *
110916550 AGTATTTTAATTTTTTTTTTGGTATTAGCCTGTCAATGGCCGGCACTAAACTC
1 AGTATTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
* * * *
110916603 AGTATTTAAATTTTTTTTTTTGGTTCTGGCTTGTCAATGGCTGACACCAGACTC
1 AGTATTTAAA-TTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
* * * *
110916657 AGTATTT-AATTTTTTTTTATGGTCCTGGCCTGTCAACGGCCGACACTAGACT-
1 AGTATTTAAATTTTTTTTT-TGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
** * *
110916709 AGTATTTAAA-TTTTTTTTTGGTGCTGGGTTGTCAATTGCCGGCACCAAACTC
1 AGTATTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
* * *
110916761 AGTATTTAAA-TTTTTTTTTGGTGTTAGCCTGTCAATGGCCGGTACCAGACTC
1 AGTATTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
*
110916813 AATATTT--ATTTTTTT
1 AGTATTTAAATTTTTTT
110916828 AAAATAATAA
Statistics
Matches: 278, Mismatches: 38, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
48 10 0.04
49 17 0.06
50 18 0.06
51 48 0.17
52 93 0.33
53 46 0.17
54 46 0.17
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
AGTATTTAAATTTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGACTC
Found at i:110916567 original size:155 final size:158
Alignment explanation
Indices: 110916441--110916827 Score: 369
Period size: 155 Copynumber: 2.5 Consensus size: 158
110916431 CTGGTATACA
*
110916441 AAAAATTAGTATTTTAAA-TTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTCAGT
1 AAAAATCAGTA-TTTAAATTTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTCAGT
* * * *
110916505 ATTTTAA-TTTTTTT-T-GTGCTAGCCTG-CAATGGCCGGCACCAAACTAGTATTTTAATTTTTT
65 A-TTTAATTTTTTTTATGGTCCTAGCCTGTCAACGGCCGACACCAAACTAGTATTTAAATTTTTT
** * * *
110916566 TTTTGGTATTAGCCTGTCAATGGCCGGCAC
129 TTTTGGTAAAAGCCTATCAATGGCAGACAC
* * * *
110916596 TAAACTCAGTATTTAAATTTTTTTTTTTGGTTCTGGCTTGTCAATGGCTGACACCAGACTCAGTA
1 AAAAATCAGTATTTAAATTTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTCAGTA
* * *
110916661 TTTAATTTTTTTTTATGGTCCTGGCCTGTCAACGGCCGACACTAGACTAGTATTTAAA-TTTTTT
66 TTTAA-TTTTTTTTATGGTCCTAGCCTGTCAACGGCCGACACCAAACTAGTATTTAAATTTTTTT
**** ** * * * *
110916725 TTTGGTGCTGGGTTGTCAATTGCCGGCAC
130 TTTGGTAAAAGCCTATCAATGGCAGACAC
* * * * * ** *
110916754 CAAACTCAGTATTTAAA--TTTTTTTTTGGTGTTAGCCTGTCAATGGCCGGTACCAGACTCAATA
1 AAAAATCAGTATTTAAATTTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTCAGTA
110916817 TTT-ATTTTTTT
66 TTTAATTTTTTT
110916828 AAAATAATAA
Statistics
Matches: 199, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
154 18 0.09
155 54 0.27
156 48 0.24
157 1 0.01
158 54 0.27
159 24 0.12
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.42
Consensus pattern (158 bp):
AAAAATCAGTATTTAAATTTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGACACCAGACTCAGTA
TTTAATTTTTTTTATGGTCCTAGCCTGTCAACGGCCGACACCAAACTAGTATTTAAATTTTTTTT
TTGGTAAAAGCCTATCAATGGCAGACAC
Found at i:110919551 original size:17 final size:17
Alignment explanation
Indices: 110919529--110919562 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
110919519 AATCTCTTTC
110919529 TTTAGGGACATGTCTAA
1 TTTAGGGACATGTCTAA
110919546 TTTAGGGACATGTCTAA
1 TTTAGGGACATGTCTAA
110919563 CTATCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
TTTAGGGACATGTCTAA
Found at i:110920070 original size:21 final size:21
Alignment explanation
Indices: 110920046--110920096 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
110920036 ACTATAGGGG
*
110920046 TGAGATTAGCTACCATAGTGA
1 TGAGATTAACTACCATAGTGA
* *
110920067 TGAGATTAATTACTATAGTGA
1 TGAGATTAACTACCATAGTGA
110920088 TGAGATTAA
1 TGAGATTAA
110920097 AATCAATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (21 bp):
TGAGATTAACTACCATAGTGA
Found at i:110920105 original size:21 final size:21
Alignment explanation
Indices: 110920046--110920108 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
110920036 ACTATAGGGG
** *
110920046 TGAGATTAGCTACCATAGTGA
1 TGAGATTAAATACAATAGTGA
* *
110920067 TGAGATTAATTACTATAGTGA
1 TGAGATTAAATACAATAGTGA
110920088 TGAGATTAAA-ATCAATAGTGA
1 TGAGATTAAATA-CAATAGTGA
110920109 GATGTGTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (21 bp):
TGAGATTAAATACAATAGTGA
Found at i:110921157 original size:22 final size:19
Alignment explanation
Indices: 110921132--110921180 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
110921122 TTAAAATTTT
110921132 TAAAAAATCTAAAGAATATATA
1 TAAAAAATCT-AA-AATA-ATA
*
110921154 TAAAAAAT-TAAAATAATC
1 TAAAAAATCTAAAATAATA
110921172 TAAAAAATC
1 TAAAAAATC
110921181 ATTTTTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 2 0.08
21 1 0.04
22 8 0.32
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAATCTAAAATAATA
Found at i:110926922 original size:46 final size:46
Alignment explanation
Indices: 110926846--110926936 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
110926836 ATATCAAATA
* * * *
110926846 TAATTTTAATGAGAACCAAATTTCATACATAAATAATTAAAATATG
1 TAATTTTAATAAAAACCAAAATTCACACATAAATAATTAAAATATG
*
110926892 TAATTTTAATAAAAACTAAAATTCACACATAAATAATTAAAATAT
1 TAATTTTAATAAAAACCAAAATTCACACATAAATAATTAAAATAT
110926937 ATTTTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (46 bp):
TAATTTTAATAAAAACCAAAATTCACACATAAATAATTAAAATATG
Found at i:110927165 original size:21 final size:21
Alignment explanation
Indices: 110927136--110927180 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
110927126 AGTCAATTAC
* *
110927136 ATTATTTATTTATTTTTTATA
1 ATTAATTATTCATTTTTTATA
110927157 ATTAATTATTCATTTTTTATA
1 ATTAATTATTCATTTTTTATA
110927178 ATT
1 ATT
110927181 TCAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTAATTATTCATTTTTTATA
Found at i:110928398 original size:17 final size:17
Alignment explanation
Indices: 110928376--110928411 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
110928366 ATAACACATG
*
110928376 AATTATGTATGCTGTTA
1 AATTATGTATGCTATTA
110928393 AATTATGTATGCTATTA
1 AATTATGTATGCTATTA
110928410 AA
1 AA
110928412 ATGAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (17 bp):
AATTATGTATGCTATTA
Found at i:110929195 original size:13 final size:14
Alignment explanation
Indices: 110929163--110929205 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
110929153 ATCCTAGTGA
*
110929163 AGGAAAAAGGGTCC
1 AGGAAAAAGGGTAC
*
110929177 AGGAAAAAGGGTAT
1 AGGAAAAAGGGTAC
* *
110929191 AGAAAAAAAGGTAC
1 AGGAAAAAGGGTAC
110929205 A
1 A
110929206 CATATCTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.09
Consensus pattern (14 bp):
AGGAAAAAGGGTAC
Found at i:110934789 original size:28 final size:29
Alignment explanation
Indices: 110934758--110934817 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
110934748 AAAGTGATTT
*
110934758 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
110934786 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
110934815 TTG
1 TTG
110934818 TAAAAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:110934823 original size:29 final size:26
Alignment explanation
Indices: 110934763--110934824 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 26
110934753 GATTTTTGAC
*
110934763 AAAAATGTCAATTAGGGATTAAATTG
1 AAAAATGTAAATTAGGGATTAAATTG
*
110934789 AGAAAAGTGTAAATTGAGGGGTTAAATTG
1 A-AAAA-TGTAAATT-AGGGATTAAATTG
110934818 TAAAAAT
1 -AAAAAT
110934825 ATGAAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.03
27 4 0.13
28 8 0.27
29 16 0.53
30 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAATGTAAATTAGGGATTAAATTG
Found at i:110935400 original size:43 final size:43
Alignment explanation
Indices: 110935305--110935403 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
110935295 ATCGAGATGT
* * * *
110935305 GATTACATGTAAGACCATGTCTGGGACATCGGCATTGTATTGA
1 GATTACGTGTAAGACCAAGTCTGGGACATCGGCATCGTAATGA
* *
110935348 GATTACGTGTAAGACCAAGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCAAGTCTGGGACATCGGCATCG-TAATGA
*
110935391 GATTTCGTGTAAG
1 GATTACGTGTAAG
110935404 GCCCTATCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 45 0.94
44 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCAAGTCTGGGACATCGGCATCGTAATGA
Found at i:110938055 original size:13 final size:13
Alignment explanation
Indices: 110938037--110938070 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
110938027 AAAAATCAAG
110938037 ATTTTATTAAAGA
1 ATTTTATTAAAGA
*
110938050 ATTTTATTGAAGA
1 ATTTTATTAAAGA
110938063 ATTTTATT
1 ATTTTATT
110938071 CGAAATACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (13 bp):
ATTTTATTAAAGA
Found at i:110939672 original size:65 final size:67
Alignment explanation
Indices: 110939576--110939716 Score: 205
Period size: 65 Copynumber: 2.1 Consensus size: 67
110939566 ATTTAAATAG
* * *
110939576 AATTAAAATTCCATCACTTTTTTTATCTTCTTATCCTAATTTAAAATCATATCTTATCCTTGTTT
1 AATTAAAATTCCATCACTATTTTTATCTTCTTATCCTAATTTAAAATCATAACTTATCATTGTTT
110939641 AA
66 AA
* * *
110939643 AATTAAAATTCCAT-A-TATTTTTATCTTCTTATCCTAATTTGAAATTATAACTTATCATTTTTT
1 AATTAAAATTCCATCACTATTTTTATCTTCTTATCCTAATTTAAAATCATAACTTATCATTGTTT
110939706 AA
66 AA
*
110939708 AATTTAAAT
1 AATTAAAAT
110939717 ATAATTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 52 0.78
66 1 0.01
67 14 0.21
ACGTcount: A:0.35, C:0.14, G:0.01, T:0.50
Consensus pattern (67 bp):
AATTAAAATTCCATCACTATTTTTATCTTCTTATCCTAATTTAAAATCATAACTTATCATTGTTT
AA
Found at i:110940151 original size:21 final size:21
Alignment explanation
Indices: 110940127--110940176 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
110940117 AAGAATTGTA
* *
110940127 ATGTGAACACGTAGAAGTTAT
1 ATGTGAACACATAGAAATTAT
*
110940148 ATGTGAACCCATAGAAATTAT
1 ATGTGAACACATAGAAATTAT
*
110940169 ATGCGAAC
1 ATGTGAAC
110940177 CTTAATTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (21 bp):
ATGTGAACACATAGAAATTAT
Found at i:110943552 original size:30 final size:31
Alignment explanation
Indices: 110943516--110943578 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
110943506 ACTTATTTTA
110943516 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
* * *
110943546 TTGTTAATTTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
110943577 TT
1 TT
110943579 ATTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.62
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGGCAT
Found at i:110944477 original size:33 final size:33
Alignment explanation
Indices: 110944405--110944477 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
110944395 AAATCTACAC
* *
110944405 AAAACAAACCATTGATGTCAATGATATGTACGG
1 AAAATAAACCATTGATGTCAATGATATGTACCG
* *
110944438 AAAATAAACCATTGATGTCAATGATGTGTGCCG
1 AAAATAAACCATTGATGTCAATGATATGTACCG
*
110944471 ATAATAA
1 AAAATAA
110944478 TAATGTGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (33 bp):
AAAATAAACCATTGATGTCAATGATATGTACCG
Found at i:110944749 original size:33 final size:33
Alignment explanation
Indices: 110944712--110944774 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
110944702 AAAATAAGTT
*
110944712 ATTGATGTCAACGATCTATACGGAAAATAAACC
1 ATTGATGCCAACGATCTATACGGAAAATAAACC
* * * *
110944745 ATTGATGCCCATGATGTGTACGGAAAATAA
1 ATTGATGCCAACGATCTATACGGAAAATAA
110944775 CAATAATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (33 bp):
ATTGATGCCAACGATCTATACGGAAAATAAACC
Found at i:110945005 original size:17 final size:17
Alignment explanation
Indices: 110944978--110945016 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
110944968 ATTTTAATTG
*
110944978 AATAA-ATAATATAAAA
1 AATAATATAATACAAAA
*
110944994 TATAATATAATACAAAA
1 AATAATATAATACAAAA
110945011 AATAAT
1 AATAAT
110945017 TTAAACATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATATAATACAAAA
Found at i:110945013 original size:29 final size:29
Alignment explanation
Indices: 110944921--110945021 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
110944911 AATTATTATG
* *
110944921 AAAAATTATATAAAATATAATACAATAC-
1 AAAAATAATATAAAATATAATATAATACA
* * * * **
110944949 GAATATAACATAAAA-ATAAATTTTAATTGA
1 AAAAATAATATAAAATAT-AA-TATAATACA
*
110944979 ATAAATAATATAAAATATAATATAATACA
1 AAAAATAATATAAAATATAATATAATACA
*
110945008 AAAAATAATTTAAA
1 AAAAATAATATAAA
110945022 CATAGCACAC
Statistics
Matches: 52, Mismatches: 17, Indels: 7
0.68 0.22 0.09
Matches are distributed among these distances:
27 2 0.04
28 13 0.25
29 22 0.42
30 13 0.25
31 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAATAATATAAAATATAATATAATACA
Found at i:110946983 original size:22 final size:23
Alignment explanation
Indices: 110946944--110946994 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
110946934 TGTCATATAA
*
110946944 AAAATAAATTAGTCCTTT-T-ATT
1 AAAA-AAATTAGTACTTTATGATT
110946966 AAAAAAATTATGTACTTTATGATT
1 AAAAAAATTA-GTACTTTATGATT
110946990 AAAAA
1 AAAAA
110946995 CTAATTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 1 0.04
24 8 0.32
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAAAAATTAGTACTTTATGATT
Found at i:110949443 original size:29 final size:29
Alignment explanation
Indices: 110949408--110949484 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
110949398 AAGCTTTGGA
*
110949408 TTTAGTCCTTATACTTT-AATTTGATCATT
1 TTTAGTCCTTATACTTTGAA-TTGATCAAT
* * *
110949437 TTTAGTCTTTGTACTTTTTGAATTGGTCAAT
1 TTTAGTCCTTATAC--TTTGAATTGATCAAT
*
110949468 TTTATTCCTTATACTTT
1 TTTAGTCCTTATACTTT
110949485 TTGAAGTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
29 15 0.39
31 21 0.55
32 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTAGTCCTTATACTTTGAATTGATCAAT
Found at i:110949500 original size:31 final size:31
Alignment explanation
Indices: 110949436--110949507 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
110949426 ATTTGATCAT
* * *
110949436 TTTTAGTCTTTGTACTTTTTGAATTGGTCAA
1 TTTTAGTCCTTATACTTTTTGAATTGGTAAA
* *
110949467 TTTTATTCCTTATACTTTTTGAAGTTTG-AAA
1 TTTTAGTCCTTATACTTTTTGAA-TTGGTAAA
110949498 TTTTAGTCCT
1 TTTTAGTCCT
110949508 GTACCAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.21, C:0.11, G:0.12, T:0.56
Consensus pattern (31 bp):
TTTTAGTCCTTATACTTTTTGAATTGGTAAA
Found at i:110950203 original size:178 final size:179
Alignment explanation
Indices: 110949888--110950234 Score: 468
Period size: 178 Copynumber: 1.9 Consensus size: 179
110949878 AGTAATTAAT
* * ** * *
110949888 TTTAACCAAATAGATTTAACTATTATTATTTGGATTAGGACTAAATTTTCAAAATTTTAAAAGTA
1 TTTAACAAAATAGATTTAACTATTACTATTCAGATCAGGACTAAAATTTCAAAATTTTAAAAGTA
** * * *
110949953 CAGGGGCTAAAAGTGACCAATTCAAAAAGCATAGGAATTAAAATTGATCAAATTAAAGTATATGG
66 CAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAAACTAAAATTGATCAAATTAAAGTATATGG
110950018 ACTAAATTCACAACTTTTACAAAGTAAGAGACTAATAGCACAGTTCAAA
131 ACTAAATTCACAACTTTTACAAAGTAAGAGACTAATAGCACAGTTCAAA
* *
110950067 TTTAACAAAATAGTTTTAACTATTACTGTTCAGATCAGGACTAAAATTTC-AAATTTTGAAAAGT
1 TTTAACAAAATAGATTTAACTATTACTATTCAGATCAGGACTAAAATTTCAAAATTTT-AAAAGT
* *
110950131 A-AGTAACTAAAAGTGACCAATTCAAAAAGCACATAAACTAAAATTGATCAAATTGAAA-TATAT
65 ACAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAAACTAAAATTGATCAAATT-AAAGTATAT
* * * *
110950194 AGG-CTAAATTCATAATTTTTGCAAAGTAAGGGACTAATAGC
129 -GGACTAAATTCACAACTTTTACAAAGTAAGAGACTAATAGC
110950235 TAGTTTAACC
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
178 92 0.63
179 54 0.37
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (179 bp):
TTTAACAAAATAGATTTAACTATTACTATTCAGATCAGGACTAAAATTTCAAAATTTTAAAAGTA
CAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAAACTAAAATTGATCAAATTAAAGTATATGG
ACTAAATTCACAACTTTTACAAAGTAAGAGACTAATAGCACAGTTCAAA
Found at i:110952800 original size:9 final size:10
Alignment explanation
Indices: 110952776--110952802 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
110952766 TTTTCTCCTG
110952776 ATTTTTTAAT
1 ATTTTTTAAT
110952786 ATTTTTTAAT
1 ATTTTTTAAT
110952796 ATTTTTT
1 ATTTTTT
110952803 TTCTGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:110952890 original size:12 final size:12
Alignment explanation
Indices: 110952858--110952891 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
110952848 TGACGACGAG
*
110952858 GAAGATGACGAT
1 GAAGATGATGAT
*
110952870 GACGATGATGAT
1 GAAGATGATGAT
110952882 GAAGATGATG
1 GAAGATGATG
110952892 CCGAAGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:110961689 original size:11 final size:11
Alignment explanation
Indices: 110961673--110961706 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
110961663 ATGTCAAATC
*
110961673 ATCAAAAATAA
1 ATCAAAAACAA
110961684 ATCAAAAACAA
1 ATCAAAAACAA
*
110961695 ATCAAGAACAA
1 ATCAAAAACAA
110961706 A
1 A
110961707 ACTAGATGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (11 bp):
ATCAAAAACAA
Found at i:110962473 original size:22 final size:23
Alignment explanation
Indices: 110962445--110962499 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
110962435 GTGAATAAAC
110962445 CAAATAAACTTTAGTTCTGCA-A
1 CAAATAAACTTTAGTTCTGCAGA
*
110962467 CAAATAAACTTTATTTCTGCAGA
1 CAAATAAACTTTAGTTCTGCAGA
110962490 -AAATAAACTT
1 CAAATAAACTT
110962500 AATATCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (23 bp):
CAAATAAACTTTAGTTCTGCAGA
Found at i:110964814 original size:24 final size:26
Alignment explanation
Indices: 110964782--110964831 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
110964772 TTTTTCTTAT
*
110964782 TTTATTAAAT-AAA-AAATTTAAAAA
1 TTTAATAAATCAAATAAATTTAAAAA
*
110964806 TTTAATAAATCAAATATATTTAAAAA
1 TTTAATAAATCAAATAAATTTAAAAA
110964832 CATAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 10 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTAATAAATCAAATAAATTTAAAAA
Found at i:110964866 original size:21 final size:21
Alignment explanation
Indices: 110964817--110964875 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
110964807 TTAATAAATC
*
110964817 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
110964837 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
110964859 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
110964876 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:110967047 original size:24 final size:24
Alignment explanation
Indices: 110967002--110967048 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
110966992 CATAAAAAAA
*
110967002 ATTAATGATTAATAACCGATCACC
1 ATTAATGATTAATAACCAATCACC
* *
110967026 ATTAATGATTAATTATCAATCAC
1 ATTAATGATTAATAACCAATCAC
110967049 GTTTTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (24 bp):
ATTAATGATTAATAACCAATCACC
Found at i:110969573 original size:126 final size:127
Alignment explanation
Indices: 110969345--110969599 Score: 298
Period size: 126 Copynumber: 2.0 Consensus size: 127
110969335 GTATGAGCTC
* * * * * *
110969345 TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAATGTTATTCGGATATTTAGATCAAACGAA
1 TATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAAA
* * * *
110969410 AAATCGAAACCCAGTACGTTAGGGCACGACTAGTCGAATTTCTAAATACGGAATATTGCCTT
66 AAATCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATATTGCCTT
* * * *
110969472 TATTTTATTTAAAACCCATGTATTTTAA-TTT-AAAAGGATAATCTGTTACTTAGATCAAACAAA
1 TATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAAC-AA
* * * * * * *
110969535 AAAATTGAAACCCAGTATGTTAGGACACTATTTCTCGAATTTCCAAGTACCGAGTATTGCCTT
65 AAAATCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATATTGCCTT
110969598 TA
1 TA
110969600 CTTGAAAAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
125 23 0.22
126 58 0.55
127 25 0.24
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (127 bp):
TATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAAA
AAATCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATATTGCCTT
Found at i:110969774 original size:3 final size:3
Alignment explanation
Indices: 110969760--110970250 Score: 90
Period size: 3 Copynumber: 163.3 Consensus size: 3
110969750 AATAGGACGG
* * * ** * * *
110969760 ATA ATA AAA ATA ATA GTA ATG ATA ATA GGA AAA AT- ATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
110969807 ATA TTA A-A AAA AGTA A-A ATA ATG ATG ATA ATA ATG TTA AAA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
110969851 ATA ATA ATA ATA A-A CA-A ACGA CATA TTA ATG ATA ATA GAAA ATA ACG
1 ATA ATA ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA ATA
* *
110969898 ATA ATA ATA ATA GA-A ACA ATA GTA ATA A-A AGTA ATA ATA A-A ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * * *
110969942 GAAA ATA ACA ATG ATA CATTA ATA ATA ATA A-A ATA CGTG CTA ATA ATA
1 -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * *
110969990 ACA AT- ATA A-A A-A AGA A-A ATA ATA CT- ATA TTA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
110970033 ATA GTA AGTTA ATA ATA ATA GTA ATA AAA AGGTA AAA ATA ATA ATA A-A
1 ATA ATA A--TA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
* * * * * * * * * * *
110970081 ATA ATA AAA ACA CTA TTA CCTTA CTA CTA ATAA ACA AAA AGA A-A AGA
1 ATA ATA ATA ATA ATA ATA --ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * *
110970128 A-A ACA ATA ATG GTA TATA GAATA ATA GTA A-A ACTA ATA AAA ATA AAA
1 ATA ATA ATA ATA ATA -ATA -A-TA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * *
110970175 ATA A-A ATA GTA GA-A ATA ATA AT- ATA AAA ATA A-A ATA GTA GTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
110970217 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110970251 CACTCTTCCC
Statistics
Matches: 351, Mismatches: 95, Indels: 84
0.66 0.18 0.16
Matches are distributed among these distances:
2 39 0.11
3 277 0.79
4 22 0.06
5 13 0.04
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:110970032 original size:23 final size:23
Alignment explanation
Indices: 110970006--110970058 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
110969996 TAAAAAAGAA
110970006 AATAATACTATA-TTAATAAAAAT
1 AATAATACTA-AGTTAATAAAAAT
* *
110970029 AATAATAGTAAGTTAATAATAAT
1 AATAATACTAAGTTAATAAAAAT
*
110970052 AGTAATA
1 AATAATA
110970059 AAAAGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
AATAATACTAAGTTAATAAAAAT
Found at i:110970088 original size:20 final size:20
Alignment explanation
Indices: 110970004--110970090 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
110969994 TATAAAAAAG
* * *
110970004 AAAATAATACTATATTAATA
1 AAAATAATAATAAAATAATA
*
110970024 AAAATAATAATAGTAAGTTAATA
1 AAAATAATAATA--AA-ATAATA
* * *
110970047 ATAATAGTAATAAAA-AGGTA
1 AAAATAATAATAAAATA-ATA
110970067 AAAATAATAATAAAATAATA
1 AAAATAATAATAAAATAATA
110970087 AAAA
1 AAAA
110970091 CACTATTACC
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 32 0.60
21 3 0.06
22 1 0.02
23 16 0.30
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAATAATAATAAAATAATA
Found at i:110970209 original size:28 final size:28
Alignment explanation
Indices: 110970150--110970240 Score: 112
Period size: 28 Copynumber: 3.1 Consensus size: 28
110970140 TATATAGAAT
*
110970150 AATAGTA-AAACTAATAAAAATAAAAATAA
1 AATAGTAGAAA-TAAT-AATATAAAAATAA
110970179 AATAGTAGAAATAATAATATAAAAATAA
1 AATAGTAGAAATAATAATATAAAAATAA
* *
110970207 AATAGTAGTAATAATAATAATAATAATAA
1 AATAGTAGAAATAATAAT-ATAAAAATAA
110970236 TAATA
1 -AATA
110970241 ATAATAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 29 0.52
29 20 0.36
30 7 0.12
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.26
Consensus pattern (28 bp):
AATAGTAGAAATAATAATATAAAAATAA
Found at i:110986469 original size:14 final size:14
Alignment explanation
Indices: 110986450--110986483 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110986440 CGCTGAGGTA
* *
110986450 TTTCAATTTCTGTT
1 TTTCAATTTATATT
110986464 TTTCAATTTATATT
1 TTTCAATTTATATT
110986478 TTTCAA
1 TTTCAA
110986484 AAATCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:110986553 original size:86 final size:86
Alignment explanation
Indices: 110986388--110986735 Score: 369
Period size: 86 Copynumber: 4.0 Consensus size: 86
110986378 TTGATGTTTT
* ** **
110986388 TATTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTA-TT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
110986452 TCAATTTCTGTTTTTCAATTTA
66 TC-ATTTCTGCTTTTCAATTTC
* * * *
110986474 TATTTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGGCACGTTAAGGAATTT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
110986539 TCATTTTTGCTTTTCAATCTC
66 TCATTTCTGCTTTTCAATTTC
** *
110986560 TGCTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCT--GGGTTCACATGCTGA
1 TATTTTTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG--CAC--GCTGA
110986623 GGTATTTTCAGTTTCTGCTTTTCAAATTTC
59 GGTATTTTCA-TTTCTGCTTTTC-AATTTC
* * * * *
110986653 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGGCACGCTGAGATATTT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
110986718 TCAATTTATGTTTTTCAA
66 TC-ATTTCTGCTTTTCAA
110986736 AAATCAATGC
Statistics
Matches: 219, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
86 74 0.34
87 9 0.04
88 28 0.13
89 34 0.16
90 32 0.15
91 17 0.08
92 14 0.06
93 11 0.05
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (86 bp):
TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
TCATTTCTGCTTTTCAATTTC
Found at i:110986720 original size:179 final size:176
Alignment explanation
Indices: 110986396--110986735 Score: 452
Period size: 179 Copynumber: 1.9 Consensus size: 176
110986386 TTTATTTTTC
*
110986396 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTATTTCAATTTCT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGATACGCTGAGGTATTTCAATTTCT
* * * *
110986461 GTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGGCA
66 GCTTTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGGCA
* *
110986526 CGTTAAGGAATTTTC-ATTTTTGCTTTTCAATCTCTGCTTTTCAAA
131 CGCTAAGGAATTTTCAATTTATGCTTTTCAATCTCTGCTTTTCAAA
** * * *
110986571 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCT-GGGTTCACATGCTGAGGTATTTTCAGT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGAT-AC--GCTGAGGTA-TTTCAAT
* * *
110986635 TTCTGCTTTTCAAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGATGAGCCTCA
62 TTCTGCTTTTC-AATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCA
* *
110986700 GGGCACGCTGA-GATATTTTCAATTTATGTTTTTCAA
126 GGGCACGCTAAGGA-ATTTTCAATTTATGCTTTTCAA
110986736 AAATCAATGC
Statistics
Matches: 141, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
174 3 0.02
175 36 0.26
177 9 0.06
178 18 0.13
179 62 0.44
180 13 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (176 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAGGATACGCTGAGGTATTTCAATTTCT
GCTTTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGGCA
CGCTAAGGAATTTTCAATTTATGCTTTTCAATCTCTGCTTTTCAAA
Found at i:110986858 original size:77 final size:75
Alignment explanation
Indices: 110986641--110986873 Score: 233
Period size: 77 Copynumber: 3.1 Consensus size: 75
110986631 CAGTTTCTGC
* * * * * * * *
110986641 TTTTCAAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGGCAC
1 TTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCGCAGGTCAC
*
110986706 --G-CTGAGATA
65 ATGTC-GAGGTA
* * * * *
110986715 TTTTCAATTTATGTTTTTCAAAAATCAA-TGCATATTGCTAG-AGATAATTTGAGCCGCGGGTCA
1 TTTTCAATTTATATTTTTCAAAAATCAACT-CATATTGCGAGAAG-TGAGTTGAGCCGCAGGTCA
110986778 CATGTCGAGGTA
64 CATGTCGAGGTA
*
110986790 TTTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCGAAGGTCA
1 TTTTCAATTTATATTTTTC-AAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCGCAGGTCA
*
110986855 CATGTCGAGGAA
64 CATGTCGAGGTA
110986867 TTTTCAA
1 TTTTCAA
110986874 AATCTGTTCT
Statistics
Matches: 131, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
72 2 0.02
73 44 0.34
74 5 0.04
75 24 0.18
76 6 0.05
77 47 0.36
78 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCGCAGGTCACA
TGTCGAGGTA
Found at i:110994967 original size:40 final size:41
Alignment explanation
Indices: 110994899--110994987 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
110994889 ATTTGAGCTG
*
110994899 TTGATTTTTACTAATAAATTTACATATAAATTGA-TGAACTA
1 TTGATTTTTACTAATAAACTTACATATAAATT-ATTGAACTA
* * * *
110994940 TTGATTTTTGCTAA-ATACTTACATATAAATTATTGAATTG
1 TTGATTTTTACTAATAAACTTACATATAAATTATTGAACTA
110994980 TTGATTTT
1 TTGATTTT
110994988 ATGTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 28 0.67
41 13 0.31
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (41 bp):
TTGATTTTTACTAATAAACTTACATATAAATTATTGAACTA
Found at i:110996005 original size:15 final size:15
Alignment explanation
Indices: 110995985--110996018 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
110995975 TTAATTAAAG
110995985 ATTATGGTTTAATTA
1 ATTATGGTTTAATTA
110996000 ATTATGGTTTAATTA
1 ATTATGGTTTAATTA
110996015 ATTA
1 ATTA
110996019 ATATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTATGGTTTAATTA
Found at i:110997099 original size:12 final size:12
Alignment explanation
Indices: 110997082--110997106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110997072 CAGGATGCAC
110997082 TTCGTGCGCCAG
1 TTCGTGCGCCAG
110997094 TTCGTGCGCCAG
1 TTCGTGCGCCAG
110997106 T
1 T
110997107 ATGCACTTTA
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:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (12 bp):
TTCGTGCGCCAG
Found at i:110998527 original size:15 final size:16
Alignment explanation
Indices: 110998496--110998528 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110998486 AGCCATAGGT
110998496 AAGGAAAAAAAAGGAG
1 AAGGAAAAAAAAGGAG
*
110998512 AAGGAAAATAAA-GAG
1 AAGGAAAAAAAAGGAG
110998527 AA
1 AA
110998529 AGAAGAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (16 bp):
AAGGAAAAAAAAGGAG
Found at i:110998677 original size:13 final size:13
Alignment explanation
Indices: 110998659--110998698 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
110998649 GAACATGAAA
110998659 AAAAGAAAAAAGG
1 AAAAGAAAAAAGG
110998672 AAAAGAAAAAA-G
1 AAAAGAAAAAAGG
*
110998684 -AAATAAAAAAGG
1 AAAAGAAAAAAGG
110998696 AAA
1 AAA
110998699 CTAGAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAGG
Found at i:110999960 original size:16 final size:17
Alignment explanation
Indices: 110999926--110999977 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
110999916 CGTGATCCGA
*
110999926 TTGAAAA-ACGAGAATT
1 TTGAAAACACGAAAATT
*
110999942 TTTAAAACACGAAAATT
1 TTGAAAACACGAAAATT
110999959 TTGAAAACACGAAAATT
1 TTGAAAACACGAAAATT
110999976 TT
1 TT
110999978 TGGGATCCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 6 0.19
17 26 0.81
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
TTGAAAACACGAAAATT
Found at i:111000028 original size:17 final size:18
Alignment explanation
Indices: 110999926--111000028 Score: 61
Period size: 18 Copynumber: 5.8 Consensus size: 18
110999916 CGTGATCCGA
*
110999926 TTGAAAA-ACG-AGAATT
1 TTGAAAACACGAAAAATT
*
110999942 TTTAAAACACG-AAAATT
1 TTGAAAACACGAAAAATT
*
110999959 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAAATT
** * ***
110999977 TTGGGATC-CGAATTTTTTT
1 TTGAAAACACGAA--AAATT
*
110999996 TTTAAAACACGAAAAATT
1 TTGAAAACACGAAAAATT
*
111000014 TTGAAAACGCGAAAA
1 TTGAAAACACGAAAA
111000029 GTTTACAACA
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
16 6 0.09
17 22 0.34
18 25 0.39
19 7 0.11
20 4 0.06
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
TTGAAAACACGAAAAATT
Found at i:111000552 original size:26 final size:27
Alignment explanation
Indices: 111000509--111000562 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
111000499 TATGTATACC
*
111000509 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
111000535 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
111000562 A
1 A
111000563 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:111000597 original size:18 final size:17
Alignment explanation
Indices: 111000571--111000624 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
111000561 AATAAGCATA
111000571 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
111000590 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
111000608 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
111000624 A
1 A
111000625 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:111000963 original size:24 final size:24
Alignment explanation
Indices: 111000934--111000979 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
111000924 TAAAGTAAAA
*
111000934 GGAAAATA-ATGAAAGGGAAATACG
1 GGAAAATATAT-AAAAGGAAATACG
111000958 GGAAAATATATAAAAGGAAATA
1 GGAAAATATATAAAAGGAAATA
111000980 AATAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.59, C:0.02, G:0.24, T:0.15
Consensus pattern (24 bp):
GGAAAATATATAAAAGGAAATACG
Found at i:111001052 original size:29 final size:30
Alignment explanation
Indices: 111001020--111001076 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
111001010 ATTACCAGCG
* *
111001020 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
*
111001049 TGAAGATAATAAGAACAACAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
111001077 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:111006053 original size:38 final size:38
Alignment explanation
Indices: 111006002--111006079 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
111005992 AACTTGTTCA
*
111006002 TAGTACTAGATTAATAATAAAATTTAACATAATGAAAT
1 TAGTACTAGATTAATAATAAAATTTAACATAATAAAAT
* *
111006040 TAGTACTAGATTAATAATAGAATTTAACCTAATAAAAT
1 TAGTACTAGATTAATAATAAAATTTAACATAATAAAAT
111006078 TA
1 TA
111006080 ACTGTTAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (38 bp):
TAGTACTAGATTAATAATAAAATTTAACATAATAAAAT
Found at i:111006919 original size:75 final size:75
Alignment explanation
Indices: 111006793--111006945 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
111006783 CTCATTTATG
*
111006793 AAATGAATTATTGTATTTCATCTTAAAACAGAAGAAGGAAATAGCTAGGTAGGTAGCATGTTTCT
1 AAATGAATTATTGGATTTCATCTTAAAACAGAAGAAGGAAATAGCTAGGTAGGTAGCATGTTTCT
111006858 CTTTAAATGA
66 CTTTAAATGA
* *
111006868 AAATGAATTATTGGATTTCATCTTAAAACAGAAGAAGGAAATAGTTTGGTAGGTAGCATGTTTCT
1 AAATGAATTATTGGATTTCATCTTAAAACAGAAGAAGGAAATAGCTAGGTAGGTAGCATGTTTCT
111006933 CTTTAAATGA
66 CTTTAAATGA
111006943 AAA
1 AAA
111006946 CCTTTATGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.33
Consensus pattern (75 bp):
AAATGAATTATTGGATTTCATCTTAAAACAGAAGAAGGAAATAGCTAGGTAGGTAGCATGTTTCT
CTTTAAATGA
Found at i:111011037 original size:3 final size:3
Alignment explanation
Indices: 111011029--111011063 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
111011019 TATCTATACA
111011029 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111011064 AGTTTTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:111015444 original size:96 final size:96
Alignment explanation
Indices: 111015280--111015464 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 96
111015270 AAACATTTGA
* * * *
111015280 AAAATGCATAATTTTGAATTAACATACACATCTCACTCATTTTCTCTCCTCTTATCCTTCCAATT
1 AAAATGCATAATTTTAAACTAACACACACATCTCACTCATTTTCTCTCCTCTCATCCTTCCAATT
*
111015345 TGGAAATATTGGTTTTTAAGCATTAGGATGG
66 TGGAAAGATTGGTTTTTAAGCATTAGGATGG
* * * **
111015376 AAAATGTATAATTTTAAACTAACACACATATCTCTCTCATTTTCTCTCAC-CTCATGGTTCCAAT
1 AAAATGCATAATTTTAAACTAACACACACATCTCACTCATTTTCTCTC-CTCTCATCCTTCCAAT
*
111015440 TTGGAAGGATTGGTTTTTAAGCATT
65 TTGGAAAGATTGGTTTTTAAGCATT
111015465 CACTTTTCCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 76 0.99
97 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (96 bp):
AAAATGCATAATTTTAAACTAACACACACATCTCACTCATTTTCTCTCCTCTCATCCTTCCAATT
TGGAAAGATTGGTTTTTAAGCATTAGGATGG
Found at i:111022420 original size:21 final size:21
Alignment explanation
Indices: 111022395--111022446 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
111022385 TGAAGCCAAG
* *
111022395 GTTGCGACATTGATGTGTTGT
1 GTTGCAACACTGATGTGTTGT
111022416 GTTGCAACACTGATGTGTTGT
1 GTTGCAACACTGATGTGTTGT
111022437 GTTGCAACAC
1 GTTGCAACAC
111022447 CGGTGCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (21 bp):
GTTGCAACACTGATGTGTTGT
Found at i:111026638 original size:7 final size:8
Alignment explanation
Indices: 111026608--111026665 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
111026598 TCATTAAAGA
111026608 TATAATTT
1 TATAATTT
*
111026616 TATCATTT
1 TATAATTT
111026624 TA-ATATTT
1 TATA-ATTT
111026632 TAT-ATTT
1 TATAATTT
111026639 TATAATTTTT
1 TATAA--TTT
*
111026649 TATATTTT
1 TATAATTT
111026657 TATAATTT
1 TATAATTT
111026665 T
1 T
111026666 TAAAAGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.17
8 27 0.66
10 7 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TATAATTT
Found at i:111026649 original size:17 final size:18
Alignment explanation
Indices: 111026624--111026666 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
111026614 TTTATCATTT
*
111026624 TAATATTTTATA-TTTTA
1 TAATTTTTTATATTTTTA
111026641 TAATTTTTTATATTTTTA
1 TAATTTTTTATATTTTTA
111026659 TAATTTTT
1 TAATTTTT
111026667 AAAAGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TAATTTTTTATATTTTTA
Found at i:111026656 original size:8 final size:8
Alignment explanation
Indices: 111026608--111026667 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 8
111026598 TCATTAAAGA
*
111026608 TATAATTT
1 TATATTTT
111026616 TATCATTTT
1 TAT-ATTTT
*
111026625 AATA-TTT
1 TATATTTT
111026632 TATA-TTT
1 TATATTTT
111026639 TATAATTTTT
1 TAT-A-TTTT
111026649 TATATTTT
1 TATATTTT
111026657 TATAATTTT
1 TAT-ATTTT
111026666 TA
1 TA
111026668 AAAGATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
7 12 0.27
8 12 0.27
9 14 0.32
10 6 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TATATTTT
Found at i:111026667 original size:17 final size:16
Alignment explanation
Indices: 111026608--111026665 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
111026598 TCATTAAAGA
111026608 TATAATTTTATCATTTT
1 TATAATTTTAT-ATTTT
*
111026625 AAT-ATTTTATA-TTT
1 TATAATTTTATATTTT
111026639 TATAATTTTTTATATTTT
1 TATAA--TTTTATATTTT
111026657 TATAATTTT
1 TATAATTTT
111026666 TAAAAGATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 5 0.14
15 2 0.06
16 11 0.31
17 9 0.26
18 8 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATAATTTTATATTTT
Found at i:111030726 original size:44 final size:44
Alignment explanation
Indices: 111030677--111030769 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
111030667 TAATGAATTA
*
111030677 TTTATTCATTTTAATTTTTTAATATATTATTTATTTTAAACTGT
1 TTTATTCATTTTAATTTTTTAATATATTATTTATATTAAACTGT
* *
111030721 TTTATTTATTTTAATTTTTTTATATATTATTTATATTAAACTGT
1 TTTATTCATTTTAATTTTTTAATATATTATTTATATTAAACTGT
111030765 TTTAT
1 TTTAT
111030770 ATTATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (44 bp):
TTTATTCATTTTAATTTTTTAATATATTATTTATATTAAACTGT
Found at i:111030815 original size:26 final size:26
Alignment explanation
Indices: 111030722--111031122 Score: 246
Period size: 26 Copynumber: 15.2 Consensus size: 26
111030712 TTAAACTGTT
*
111030722 TTATTTATTTT-AATTTTTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
111030747 TTATTTATATTAAACTG-TTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
*
111030771 TTATTTATTTTTAAATTGTTTTAGATA
1 TTATTTA-TTTTAAATTGTTTTATATA
* *
111030798 TTTTTTATTTTAAATTGTTTCATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
111030824 TTATTTATTTTGAATTGCTTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
* *
111030850 TTATTTTATTTTAAACTGTTATATATA
1 TTA-TTTATTTTAAATTGTTTTATATA
* * *
111030877 TTATTTATTTTAGATTTTTTTCACATA
1 TTATTTATTTTAAATTGTTTT-ATATA
** * * *
111030904 TTATTTCTATTAAAAACTATTTTATGTA
1 TTA-TT-TATTTTAAATTGTTTTATATA
* * *
111030932 TTGTTTATTTCAAATTGCTTTA-A-A
1 TTATTTATTTTAAATTGTTTTATATA
* * * *
111030956 TTATTTATTTCAAACTGTTTTGTATT
1 TTATTTATTTTAAATTGTTTTATATA
* *
111030982 TTATTTGTATT-AATT-TTTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
111031005 TTGTTTATTTTGAACCATTTTTTTGTATTA
1 TTATTTATTTT-AA--ATTGTTTTATA-TA
** *
111031035 TTTATTTTTATTTTTTTTATT-TTTTCACATA
1 -TTA--TTTA--TTTTAAATTGTTTT-ATATA
* *
111031066 TTATTTATTTCAAACT-TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
111031091 TTATTTACTTCAAACTGTTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
111031117 TTATTT
1 TTATTT
111031123 TGTTTCGTTT
Statistics
Matches: 288, Mismatches: 64, Indels: 47
0.72 0.16 0.12
Matches are distributed among these distances:
23 9 0.03
24 35 0.12
25 45 0.16
26 105 0.36
27 42 0.15
28 16 0.06
29 11 0.04
30 5 0.02
31 8 0.03
32 4 0.01
33 4 0.01
35 4 0.01
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.62
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:111031091 original size:25 final size:26
Alignment explanation
Indices: 111031063--111031122 Score: 104
Period size: 25 Copynumber: 2.3 Consensus size: 26
111031053 ATTTTTTCAC
*
111031063 ATATTATTTATTTCAAACT-TTTTAT
1 ATATTATTTACTTCAAACTGTTTTAT
111031088 ATATTATTTACTTCAAACTGTTTTAT
1 ATATTATTTACTTCAAACTGTTTTAT
111031114 ATATTATTT
1 ATATTATTT
111031123 TGTTTCGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
ATATTATTTACTTCAAACTGTTTTAT
Found at i:111032431 original size:17 final size:17
Alignment explanation
Indices: 111032396--111032432 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
111032386 TCAAAGTAAG
*
111032396 AAACAAACCAATTGGGA
1 AAACAAACCAATTAGGA
*
111032413 AAACAAACCAATTATGA
1 AAACAAACCAATTAGGA
111032430 AAA
1 AAA
111032433 ATATTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (17 bp):
AAACAAACCAATTAGGA
Found at i:111034734 original size:3 final size:3
Alignment explanation
Indices: 111034720--111035012 Score: 173
Period size: 3 Copynumber: 98.3 Consensus size: 3
111034710 TAATACATTC
* * * *
111034720 ATT ATT ACT ATT ATT ATT ATT -TT CACT ATT ACT ATT ATT TTCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT AT-T ATT
* * * *
111034766 ATT ATT ATT ATT ATT ATT GTT ACT ATT ATT ATT ATT ATT ACT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
111034814 ACT ATT ATT -TT -TT A-T ATT ATT ATT -TAT ATT GTT GTT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* *
111034856 ATT ATT ATT CTAG ATT -TT ATT ATT AATGT ATT ATT ATT ATT CATT -TT
1 ATT ATT ATT AT-T ATT ATT ATT ATT -AT-T ATT ATT ATT ATT -ATT ATT
* * *
111034903 -TT ATTT ATT ATT -TT CCATT ATT ATC ATT GTT ATT -TT -TT ACT ATT
1 ATT A-TT ATT ATT ATT --ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * **
111034947 ATT ATTT ATT ATC AAT ATT ATT ATT ATC ATT GCT ATT -TT -TT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
111034991 -TCT ATT ACT ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT ATT A
111035013 CATTAATATT
Statistics
Matches: 228, Mismatches: 40, Indels: 44
0.73 0.13 0.14
Matches are distributed among these distances:
2 26 0.11
3 180 0.79
4 19 0.08
5 3 0.01
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:111034735 original size:24 final size:24
Alignment explanation
Indices: 111034708--111034758 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
111034698 TATTATTAAA
*
111034708 ATTAATACATTCATTATTACTATT
1 ATTAATACATTCACTATTACTATT
* **
111034732 ATTATTATTTTCACTATTACTATT
1 ATTAATACATTCACTATTACTATT
111034756 ATT
1 ATT
111034759 TTCTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAATACATTCACTATTACTATT
Done.