Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 23 of 91
Found at i:4041230 original size:104 final size:104
Alignment explanation
Indices: 4041109--4041316 Score: 344
Period size: 104 Copynumber: 2.0 Consensus size: 104
4041099 TATAAAAAGA
*
4041109 TATATATAGCTAAAACATCAAATCTGACAAATCCCATGATATCTTAGAGATAATAATAAATTATC
1 TATATATAGCTAAAACATCAAATCTGACAAATCCCATGATATCTTAGAGATAATAATAAATTACC
*
4041174 TAAAAATCTTCTAACAATAAATGAAAACTACCAAGTAGT
66 TAAAAATCCTCTAACAATAAATGAAAACTACCAAGTAGT
* *
4041213 TATATATAGCTAAAACATCAAATCTGATAAATCTCATGATATCTTAGAGATAATAATAAATTACC
1 TATATATAGCTAAAACATCAAATCTGACAAATCCCATGATATCTTAGAGATAATAATAAATTACC
* * * *
4041278 TGAAAATCCTCTAATAATAAATGGAAACTACTAAGTAGT
66 TAAAAATCCTCTAACAATAAATGAAAACTACCAAGTAGT
4041317 AATTTGGTCA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (104 bp):
TATATATAGCTAAAACATCAAATCTGACAAATCCCATGATATCTTAGAGATAATAATAAATTACC
TAAAAATCCTCTAACAATAAATGAAAACTACCAAGTAGT
Found at i:4047150 original size:2 final size:2
Alignment explanation
Indices: 4047145--4047191 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
4047135 AATGTATGTA
*
4047145 TG TG TG TG AG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4047187 TG TG T
1 TG TG T
4047192 ACACACACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:4047230 original size:2 final size:2
Alignment explanation
Indices: 4047223--4047273 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
4047213 TATGTATGTG
* * * *
4047223 TA TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA TA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4047265 TA TA TA TA T
1 TA TA TA TA T
4047274 GCATGTGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:4047244 original size:16 final size:16
Alignment explanation
Indices: 4047223--4047273 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
4047213 TATGTATGTG
* *
4047223 TATATATATATACATA
1 TATATACATATATATA
4047239 TATATACATATATATA
1 TATATACATATATATA
*
4047255 TATATACACATATATA
1 TATATACATATATATA
4047271 TAT
1 TAT
4047274 GCATGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATACATATATATA
Found at i:4047299 original size:4 final size:4
Alignment explanation
Indices: 4047292--4047319 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4047282 GTGTGTGTGA
4047292 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
4047320 CACAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4051164 original size:10 final size:10
Alignment explanation
Indices: 4051151--4051182 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4051141 TCATTTTTAC
4051151 TTTTTTTA-T
1 TTTTTTTATT
4051160 TTTTTTTATT
1 TTTTTTTATT
4051170 TTTTTTTATT
1 TTTTTTTATT
4051180 TTT
1 TTT
4051183 AATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:4051166 original size:19 final size:19
Alignment explanation
Indices: 4051144--4051182 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4051134 TTATTTCTCA
4051144 TTTTTA-CTTTTTTTATTT
1 TTTTTATCTTTTTTTATTT
*
4051162 TTTTTATTTTTTTTTATTT
1 TTTTTATCTTTTTTTATTT
4051181 TT
1 TT
4051183 AATTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTATCTTTTTTTATTT
Found at i:4051171 original size:17 final size:17
Alignment explanation
Indices: 4051144--4051189 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
4051134 TTATTTCTCA
4051144 TTTTTACTTTTTTTATT-T
1 TTTTTA-TTTTTTT-TTAT
4051162 TTTTTATTTTTTTTTAT
1 TTTTTATTTTTTTTTAT
*
4051179 TTTTAATTTTT
1 TTTTTATTTTT
4051190 ATTGGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 18 0.69
18 6 0.23
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTTTTTAT
Found at i:4053218 original size:29 final size:29
Alignment explanation
Indices: 4053171--4053226 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4053161 TTTCATTATC
*
4053171 CAAGAAGCAGAAGCTCTGCTAACAAGTAA
1 CAAGAAGCAGAAACTCTGCTAACAAGTAA
*
4053200 CAAGAAGCAGTAAAC-CTGCTACCAAGT
1 CAAGAAGCAG-AAACTCTGCTAACAAGT
4053227 TACAGATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (29 bp):
CAAGAAGCAGAAACTCTGCTAACAAGTAA
Found at i:4055240 original size:9 final size:9
Alignment explanation
Indices: 4055226--4055265 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
4055216 TCACAGTATC
4055226 CAACATTTG
1 CAACATTTG
4055235 CAACATTTG
1 CAACATTTG
4055244 CAACATTTG
1 CAACATTTG
4055253 CAACATTTG
1 CAACATTTG
4055262 CAAC
1 CAAC
4055266 CTTGAGCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (9 bp):
CAACATTTG
Found at i:4061168 original size:33 final size:30
Alignment explanation
Indices: 4061123--4061182 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
4061113 AATCGAATCA
*
4061123 AATTCAATTTAAATCTTATAAAAATTTTATTTG
1 AATTCAAATTAAA--TT-TAAAAATTTTATTTG
4061156 AATTCAAATTAAATTTAAAAATTTTAT
1 AATTCAAATTAAATTTAAAAATTTTAT
4061183 AATTTTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
31 2 0.08
33 12 0.46
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (30 bp):
AATTCAAATTAAATTTAAAAATTTTATTTG
Found at i:4069145 original size:210 final size:211
Alignment explanation
Indices: 4068763--4069187 Score: 574
Period size: 210 Copynumber: 2.0 Consensus size: 211
4068753 ATAAAAGGCA
* * * *
4068763 TTTTATAGTAGAAGACTCCTTTAATAATTCCTAAAATTTTTAGTGAAAAAATTTTGAAGGCGTCT
1 TTTTACAGTAAAAGACACCTTTAATAATTCCTAAAATTTTTAGTGAAAAAATTTTGAAGGCATCT
* * *
4068828 GTTATTAATAAACGCCTTCAATAATGAATTACTAAGTTTAAACGTATATTGAAGGCGCTTTTTCA
66 GTTATTAACAAACACCTTCAATAATGAATTACTAAGTTTAAACGTATATTAAAGGCGCTTTTTCA
* * *
4068893 AATAAATACCTTTTATAACCATCATGGTATATTGAAGGCGTGTCATAATAAAAGATGCCTTTAAT
131 AATAAATACCTTTCATAACCATCAGGGTATATTGAAGGCGTGTCATAATAAAAGATACCTTTAAT
4068958 AA-TTCGAGAAAATTT
196 AATTTCGAGAAAATTT
* * *
4068973 TTTTACAGTAAAAGACACCTTTAATAATT-CTCAAAATTTTTA-TTAGAAAAATTTTGAGGGTAT
1 TTTTACAGTAAAAGACACCTTTAATAATTCCT-AAAATTTTTAGTGA-AAAAATTTTGAAGGCAT
* * *
4069036 CTGTTATTAACAAACACCTTCAATAATGGATTACTAAGTTTAAATGTATATTAAAGGTGTCTTTT
64 CTGTTATTAACAAACACCTTCAATAATGAATTACTAAGTTTAAACGTATATTAAAGGCG-CTTTT
* * * *
4069101 T-GAATAAAT-GCTTTCCATAACTATCGGGGTATATT-AAGGGCGTGTCATAATAAAAGATACCT
128 TCAAATAAATACCTTT-CATAACCATCAGGGTATATTGAA-GGCGTGTCATAATAAAAGATACCT
*
4069163 TTAATAATTTGGAGAAAATTT
191 TTAATAATTTCGAGAAAATTT
4069184 TTTT
1 TTTT
4069188 TGGAAATTAT
Statistics
Matches: 188, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
209 10 0.05
210 156 0.83
211 22 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (211 bp):
TTTTACAGTAAAAGACACCTTTAATAATTCCTAAAATTTTTAGTGAAAAAATTTTGAAGGCATCT
GTTATTAACAAACACCTTCAATAATGAATTACTAAGTTTAAACGTATATTAAAGGCGCTTTTTCA
AATAAATACCTTTCATAACCATCAGGGTATATTGAAGGCGTGTCATAATAAAAGATACCTTTAAT
AATTTCGAGAAAATTT
Found at i:4082150 original size:29 final size:30
Alignment explanation
Indices: 4082093--4082152 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
4082083 CGAAATTACA
4082093 TATATATAAATTATTTATTTATATATATAAAT
1 TATATATAAATTA--TATTTATATATATAAAT
4082125 TATATATAAATTA-ATTTATATATATAAA
1 TATATATAAATTATATTTATATATATAAA
4082153 AATTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.54
32 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATATATAAATTATATTTATATATATAAAT
Found at i:4082170 original size:29 final size:29
Alignment explanation
Indices: 4082109--4082165 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4082099 TAAATTATTT
* *
4082109 ATTTATATATATAAATTATATATAAATTA
1 ATTTATATATATAAATAATATAAAAATTA
4082138 ATTTATATATATAAA-AAT-TAAAAATTA
1 ATTTATATATATAAATAATATAAAAATTA
4082165 A
1 A
4082166 AATTTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 2 0.08
29 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTATATATATAAATAATATAAAAATTA
Found at i:4083530 original size:20 final size:18
Alignment explanation
Indices: 4083493--4083533 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
4083483 AAAATATAAA
*
4083493 ATAATTTAATTATCATAT
1 ATAATTTAATTATAATAT
4083511 ATAATATTATATTATAATAT
1 ATAAT-TTA-ATTATAATAT
4083531 ATA
1 ATA
4083534 TAAAAATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 12 0.60
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTAATTATAATAT
Found at i:4083715 original size:23 final size:24
Alignment explanation
Indices: 4083689--4083745 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4083679 ATATATAATT
* *
4083689 TTATCCTAATTTAAA-TTTAAAAA
1 TTATCATAAATTAAATTTTAAAAA
*
4083712 TTATTATAAATTAAATTTTAAAAA
1 TTATCATAAATTAAATTTTAAAAA
* *
4083736 ATATGATAAA
1 TTATCATAAA
4083746 AAATTTGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
TTATCATAAATTAAATTTTAAAAA
Found at i:4083972 original size:14 final size:14
Alignment explanation
Indices: 4083951--4083993 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4083941 AAAATAATTT
4083951 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
** *
4083965 CCAAAAAGGAAAAG
1 AAAAAAAGAAAAAG
*
4083979 AAAAAAACAAAAAG
1 AAAAAAAGAAAAAG
4083993 A
1 A
4083994 GGAGGAGTAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:4083989 original size:20 final size:20
Alignment explanation
Indices: 4083954--4083992 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4083944 ATAATTTAAA
**
4083954 AAAAGAAAAAGCCAAAAAGG
1 AAAAGAAAAAAACAAAAAGG
4083974 AAAAGAAAAAAACAAAAAG
1 AAAAGAAAAAAACAAAAAG
4083993 AGGAGGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAACAAAAAGG
Found at i:4088123 original size:23 final size:22
Alignment explanation
Indices: 4088087--4088130 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4088077 CCACCTGTAC
4088087 CTTTTCCTTTATTTTAATTTTG
1 CTTTTCCTTTATTTTAATTTTG
* *
4088109 CTTTTCTTGTTATTTTATTTTT
1 CTTTTCCT-TTATTTTAATTTT
4088131 TATTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (22 bp):
CTTTTCCTTTATTTTAATTTTG
Found at i:4091557 original size:23 final size:21
Alignment explanation
Indices: 4091518--4091565 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
4091508 AATAATATAA
*
4091518 AAAAATTATTTTAAAATTTTAAT
1 AAAAATTATTATAAAA--TTAAT
4091541 AAAAATTA-TATATAAATTAAT
1 AAAAATTATTATA-AAATTAAT
4091562 AAAA
1 AAAA
4091566 TCAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATTATTATAAAATTAAT
Found at i:4091616 original size:25 final size:24
Alignment explanation
Indices: 4091587--4091640 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4091577 TTTTATATTT
4091587 TATAT-TTTTATATAAAAAATTATAA
1 TATATATTTT-TATAAAAAA-TATAA
*
4091612 TATATAATTTTTATATAAAATATAA
1 TATAT-ATTTTTATAAAAAATATAA
4091637 TATA
1 TATA
4091641 AATATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 14 0.54
26 8 0.31
27 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATATTTTTATAAAAAATATAA
Found at i:4091630 original size:28 final size:31
Alignment explanation
Indices: 4091590--4091649 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 31
4091580 TATATTTTAT
*
4091590 ATTTTTATATAAAA-A-ATTAT-AATATATA
1 ATTTTTATATAAAATATAATATAAATATATA
4091618 ATTTTTATATAAAATATAATATAAATATATA
1 ATTTTTATATAAAATATAATATAAATATATA
4091649 A
1 A
4091650 AATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 14 0.50
29 1 0.04
30 4 0.14
31 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTTTTATATAAAATATAATATAAATATATA
Found at i:4091634 original size:18 final size:19
Alignment explanation
Indices: 4091607--4091669 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
4091597 TATAAAAAAT
* *
4091607 TATAATATATAAT-TTTTA
1 TATAAAATATAATATTATA
*
4091625 TATAAAATATAATATAAATA
1 TATAAAATATAATAT-TATA
*
4091645 TATAAAATATTAATATTGTA
1 TATAAAATA-TAATATTATA
4091665 TATAA
1 TATAA
4091670 TACAAATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 12 0.32
19 1 0.03
20 18 0.49
21 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATAAAATATAATATTATA
Found at i:4091924 original size:1 final size:1
Alignment explanation
Indices: 4091918--4091945 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4091908 GCAGAAACAC
4091918 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
4091946 CCCTCCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4095140 original size:25 final size:27
Alignment explanation
Indices: 4095104--4095161 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
4095094 TTTAAAATAT
4095104 AAATATAAAATTAAATAAAT-A-TAAA
1 AAATATAAAATTAAATAAATAATTAAA
* *
4095129 AAATATATAATTAAATAATTAATTAAA
1 AAATATAAAATTAAATAAATAATTAAA
4095156 AAATAT
1 AAATAT
4095162 TATATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 18 0.62
26 1 0.03
27 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATATAAAATTAAATAAATAATTAAA
Found at i:4104741 original size:56 final size:57
Alignment explanation
Indices: 4104617--4104942 Score: 547
Period size: 56 Copynumber: 5.7 Consensus size: 57
4104607 TTTTTGTAGA
*
4104617 GAAAATTGAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT-TCAAG
1 GAAAATTG-ATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAA-TTT-ATTTCT-AAG
4104677 GAAAATTGATACTTTCAA-TTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
4104733 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAATTTATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
4104789 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT-GAAATTTATTTCTAAG
4104848 GAAAATTGATACTTTCAACTTTT-CCTAAAAATA-TTTTTTGAAATTTATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
4104903 GAAAATTGATACTTTCAACTTTTCCCT-AAAATATTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
4104943 TTAATTTTTA
Statistics
Matches: 258, Mismatches: 1, Indels: 18
0.93 0.00 0.06
Matches are distributed among these distances:
55 45 0.17
56 96 0.37
57 19 0.07
58 41 0.16
59 49 0.19
60 8 0.03
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
Found at i:4104829 original size:115 final size:115
Alignment explanation
Indices: 4104617--4104944 Score: 551
Period size: 115 Copynumber: 2.9 Consensus size: 115
4104607 TTTTTGTAGA
*
4104617 GAAAATTGAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT-TCAAGGAAA
1 GAAAATTG-ATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAA-TTT-ATTTCT-AAGGAAA
4104681 ATTGATACTTTCAA-TTTTCCCTAAAAATA--TTTTTTTGAAATTTATTTCTAAG
61 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAG
4104733 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
*
4104798 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAG
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAG
4104848 GAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
4104912 TACTTTCAACTTTTCCCT-AAAATATTTTTTTTT
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
4104945 AATTTTTATT
Statistics
Matches: 205, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
112 25 0.12
113 33 0.16
114 69 0.34
115 70 0.34
116 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (115 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAG
Found at i:4104910 original size:114 final size:114
Alignment explanation
Indices: 4104617--4104943 Score: 556
Period size: 114 Copynumber: 2.9 Consensus size: 114
4104607 TTTTTGTAGA
*
4104617 GAAAATTGAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT-TCAAGGAAA
1 GAAAATTG-ATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAA-TTT-ATTTCT-AAGGAAA
4104681 ATTGATACTTTCAA-TTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAAG
61 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAG
4104733 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
4104798 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAG
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTTCTAAG
4104848 GAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
4104912 TACTTTCAACTTTTCCCT-AAAATATTTTTTTT
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTTT
4104944 TAATTTTTAT
Statistics
Matches: 206, Mismatches: 1, Indels: 11
0.94 0.00 0.05
Matches are distributed among these distances:
112 25 0.12
113 33 0.16
114 76 0.37
115 64 0.31
116 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (114 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAG
Found at i:4105047 original size:23 final size:22
Alignment explanation
Indices: 4105008--4105065 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
4104998 TAATAAATAA
* *
4105008 AAAATAAAATAAACAAATAAACA
1 AAAATAAAA-AAACAAAGAAAAA
*
4105031 AAAATAAAAAATTCAAAGAAAAA
1 AAAATAAAAAA-ACAAAGAAAAA
*
4105054 AAAAAAAAAAAA
1 AAAATAAAAAAA
4105066 ACCTGGAGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 27 0.93
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAATAAAAAAACAAAGAAAAA
Found at i:4105064 original size:30 final size:30
Alignment explanation
Indices: 4105002--4105065 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
4104992 CTAATCTAAT
* * *
4105002 AAATAAAAAATAAAATAAACAAATAAACAA
1 AAATAAAAAATAAAAGAAACAAAAAAAAAA
* *
4105032 AAATAAAAAATTCAAAGAAAAAAAAAAAAAA
1 AAATAAAAAA-TAAAAGAAACAAAAAAAAAA
4105063 AAA
1 AAA
4105066 ACCTGGAGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.11
Consensus pattern (30 bp):
AAATAAAAAATAAAAGAAACAAAAAAAAAA
Found at i:4106072 original size:35 final size:39
Alignment explanation
Indices: 4106014--4106113 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 39
4106004 ATATATATAT
*
4106014 ATAATAAATAATA-AATTACACATAAATATTA-ACAA-AATA
1 ATAATAAATAATACAA-T--ACATAAATAATACACAATAATA
* * * *
4106053 A-ATTAAATAATA-TATACATATATAATACATAATAATA
1 ATAATAAATAATACAATACATAAATAATACACAATAATA
4106090 ATAATAAATAATACAATACATAAA
1 ATAATAAATAATACAATACATAAA
4106114 ATACAAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
35 10 0.20
36 3 0.06
37 6 0.12
38 21 0.43
39 9 0.18
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (39 bp):
ATAATAAATAATACAATACATAAATAATACACAATAATA
Found at i:4106092 original size:13 final size:13
Alignment explanation
Indices: 4106058--4106116 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
4106048 AAATAAATTA
4106058 AATAATATATACAT
1 AATAATA-ATACAT
4106072 -AT-ATAATACAT
1 AATAATAATACAT
4106083 AATAATAATA-AT
1 AATAATAATACAT
4106095 AAATAATACAATACAT
1 -AATAAT--AATACAT
4106111 AA-AATA
1 AATAATA
4106117 CAAAAGAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
11 6 0.15
12 8 0.21
13 14 0.36
14 3 0.08
15 6 0.15
16 2 0.05
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATACAT
Found at i:4106092 original size:28 final size:27
Alignment explanation
Indices: 4106057--4106116 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
4106047 AAAATAAATT
* *
4106057 AAATAATATATACAT-ATATAATACATA
1 AAATAATA-ATAAATAATACAATACATA
4106084 ATAATAATAATAAATAATACAATACATA
1 A-AATAATAATAAATAATACAATACATA
4106112 AAATA
1 AAATA
4106117 CAAAAGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (27 bp):
AAATAATAATAAATAATACAATACATA
Found at i:4106097 original size:58 final size:58
Alignment explanation
Indices: 4105934--4106099 Score: 155
Period size: 58 Copynumber: 2.9 Consensus size: 58
4105924 GATAAATAAT
* * * *
4105934 AATAAAAA-A-AATATATAGATATATAATTAGATAAGTAAAAATACA-AAA-ATGAATAA
1 AATAAAAAGATAATATATACATATATAA-TAAATAA-TAATAATACATAAATATGAACAA
* * * * *
4105990 AATAAAAAGATAAAATATATATATATAATAAATAATAAATTACACATAAATATTAACAA
1 AATAAAAAGATAATATATACATATATAATAAATAAT-AATAATACATAAATATGAACAA
*
4106049 AATAAATTAA-ATAATATATACATATATAATACATAATAATAATA-ATAAATA
1 AATAAA--AAGATAATATATACATATATAATAAATAATAATAATACATAAATA
4106100 ATACAATACA
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
56 9 0.10
57 13 0.14
58 25 0.28
59 17 0.19
60 24 0.27
61 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (58 bp):
AATAAAAAGATAATATATACATATATAATAAATAATAATAATACATAAATATGAACAA
Found at i:4106304 original size:1 final size:1
Alignment explanation
Indices: 4106300--4106377 Score: 93
Period size: 1 Copynumber: 78.0 Consensus size: 1
4106290 ATTTTTTTGG
* ** * * * *
4106300 TTTTTTGTTTTTTTTTGGTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTATTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4106365 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
4106378 ACCAAAGCTC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.01, C:0.00, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:4106305 original size:8 final size:8
Alignment explanation
Indices: 4106291--4106377 Score: 97
Period size: 8 Copynumber: 10.8 Consensus size: 8
4106281 CAACTCAACA
4106291 TTTTTTTGG
1 TTTTTTT-G
*
4106300 TTTTTTGTT
1 TTTTTT-TG
4106309 TTTTTTTGG
1 TTTTTTT-G
4106318 TTTTTTTG
1 TTTTTTTG
*
4106326 TTTTTTTT
1 TTTTTTTG
*
4106334 TTTTTTTT
1 TTTTTTTG
4106342 TTTTTTTG
1 TTTTTTTG
*
4106350 -TTTTTTA
1 TTTTTTTG
4106357 TTTTTTTG
1 TTTTTTTG
4106365 TTTTTTT-
1 TTTTTTTG
4106372 TTTTTT
1 TTTTTT
4106378 ACCAAAGCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
7 12 0.17
8 37 0.54
9 19 0.28
10 1 0.01
ACGTcount: A:0.01, C:0.00, G:0.09, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:4106314 original size:18 final size:16
Alignment explanation
Indices: 4106291--4106377 Score: 115
Period size: 15 Copynumber: 5.4 Consensus size: 16
4106281 CAACTCAACA
*
4106291 TTTTTTTGGTTTTTTGT
1 TTTTTTTTGTTTTTT-T
4106308 TTTTTTTTGGTTTTTTT
1 TTTTTTTT-GTTTTTTT
4106325 GTTTTTTTT-TTTTTTT
1 -TTTTTTTTGTTTTTTT
4106341 TTTTTTTTG-TTTTTT
1 TTTTTTTTGTTTTTTT
*
4106356 ATTTTTTTGTTTTTTT
1 TTTTTTTTGTTTTTTT
4106372 TTTTTT
1 TTTTTT
4106378 ACCAAAGCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
15 22 0.35
16 18 0.29
17 8 0.13
18 15 0.24
ACGTcount: A:0.01, C:0.00, G:0.09, T:0.90
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTT
Found at i:4106343 original size:32 final size:31
Alignment explanation
Indices: 4106290--4106377 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
4106280 TCAACTCAAC
4106290 ATTTTTTTGGTTTTTTGTTTTTTTTTGGTTTTTTT
1 ATTTTTTT--TTTTTT-TTTTTTTTTGG-TTTTTT
* *
4106325 GTTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
1 ATTTTTTTTTTTTTTTTTTTTTTGGTTTTTT
*
4106356 ATTTTTTTGTTTTTTTTTTTTT
1 ATTTTTTTTTTTTTTTTTTTTT
4106378 ACCAAAGCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 26 0.53
32 10 0.20
33 6 0.12
35 7 0.14
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (31 bp):
ATTTTTTTTTTTTTTTTTTTTTTGGTTTTTT
Found at i:4106344 original size:39 final size:39
Alignment explanation
Indices: 4106291--4106377 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
4106281 CAACTCAACA
** * *
4106291 TTTTTTTGGTTTTTTGTTTT-TTTTTGGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTGTTTTTGATTTTTTTGTTT
*
4106329 TTTTTTTTTTTTTTTTTTTTGTTTTTTATTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTGTTTTTGATTTTTTTGTTT
4106368 TTTTTTTTTT
1 TTTTTTTTTT
4106378 ACCAAAGCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 17 0.40
39 26 0.60
ACGTcount: A:0.01, C:0.00, G:0.09, T:0.90
Consensus pattern (39 bp):
TTTTTTTTTTTTTTTTTTTTGTTTTTGATTTTTTTGTTT
Found at i:4106702 original size:161 final size:160
Alignment explanation
Indices: 4106384--4106944 Score: 917
Period size: 161 Copynumber: 3.5 Consensus size: 160
4106374 TTTTACCAAA
4106384 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGA
4106448 ACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAAGTAAATTGCTCCT
63 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCT
4106510 CTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
127 CTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
*
4106545 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
4106610 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATTGCTCCT
62 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
4106673 CTAAACAGAGGCAACGAACTTTG-AAAGTAAATT
127 CTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
4106706 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
*
4106770 TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACCACGACTTTGAAAAGTAAATTGCTCCTCT
65 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCACGACTTTGAAAAGTAAATTGCTCCTCT
4106835 AAACAGAGGCAACGAACTTTGGAAAAGTAAATT
129 AAACAGAGGCAACGAACTTT-GAAAAGTAAATT
4106868 GCTCCTCTAAACAGAGGCAACGACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
1 GCTCCTCTAAACAGAGGCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
4106932 TTGAAAAGTAAAT
66 TTGAAAAGTAAAT
4106945 ACTCCTAGAC
Statistics
Matches: 384, Mismatches: 4, Indels: 24
0.93 0.01 0.06
Matches are distributed among these distances:
157 3 0.01
158 34 0.09
159 47 0.12
160 40 0.10
161 143 0.37
162 50 0.13
163 58 0.15
164 1 0.00
165 8 0.02
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (160 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACT
TTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
ACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:4106950 original size:39 final size:39
Alignment explanation
Indices: 4106384--4106944 Score: 871
Period size: 41 Copynumber: 14.0 Consensus size: 39
4106374 TTTTACCAAA
*
4106384 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
4106425 GCTCCTCTAAACAGAGGCACACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-ACGACTTTGAAAAGTAAATT
4106464 GCTCCTCTAAACAGAGGCAACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTT-GAAAAGTAAATT
4106504 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
4106545 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
4106586 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
4106627 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
4106667 GCTCCTCTAAACAGAGGCAACGAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
4106706 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
4106745 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
4106785 GCTCCTCTAAACAGAGGCAACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGC-A--ACGACTTTGAAAAGTAAATT
4106827 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTT-GAAAAGTAAATT
4106868 GCTCCTCTAAACAGAGGCAACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
4106906 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAAT
4106945 ACTCCTAGAC
Statistics
Matches: 503, Mismatches: 3, Indels: 29
0.94 0.01 0.05
Matches are distributed among these distances:
38 46 0.09
39 116 0.23
40 117 0.23
41 179 0.36
42 42 0.08
43 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:4108222 original size:13 final size:13
Alignment explanation
Indices: 4108187--4108224 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4108177 CATTTTCTCA
* *
4108187 TTTTTTCCCCTTT
1 TTTTTTCTCTTTT
4108200 TTTTTT-TCTTTT
1 TTTTTTCTCTTTT
4108212 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
4108225 CTCATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:4111553 original size:55 final size:56
Alignment explanation
Indices: 4111416--4111686 Score: 316
Period size: 58 Copynumber: 4.7 Consensus size: 56
4111406 TTTTTGTAGA
* * *
4111416 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTA-TTATGAGG
1 AAAATTGATACTTTCAAC-TTTCCCTAAAAATA---TTTTTTGGAAATTTATTTCTAAGG
* * ** *
4111475 -AAATTGATACTGTCAACTCTTCCCCAAAAATATTTTTTAAAAATTTATATCTAAGG
1 AAAATTGATACTTTCAACT-TTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
4111531 AAAA-TGATACTTTCAACTTTCCCTAAAAATATATTTTTTTGGAAATTTATTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTCCCT-AAAA-ATA-TTTTTTGGAAATTTA-TTTC---TAAGG
*
4111593 AAAATTGATACTTTCAACTTTTCCTAAAAATA-TTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
4111648 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAAC-TTTCCCTAAAAATATTTTTT
4111687 TTTGGAATTT
Statistics
Matches: 185, Mismatches: 14, Indels: 28
0.81 0.06 0.12
Matches are distributed among these distances:
55 41 0.22
56 35 0.19
57 12 0.06
58 45 0.24
59 17 0.09
61 3 0.02
62 13 0.07
63 19 0.10
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:4112662 original size:27 final size:26
Alignment explanation
Indices: 4112632--4112769 Score: 86
Period size: 25 Copynumber: 5.3 Consensus size: 26
4112622 GATATTATAG
4112632 GATAAATAATAATAAAAAAAAATATCA
1 GATAAATAATAATAAAAAAAAATA-CA
* **
4112659 GATATATAATTAGATAAGTAAAAATACA
1 GATAAATAA-TA-ATAAAAAAAAATACA
* * * *
4112687 AATGAATAA-AATAAAATAAAATATA
1 GATAAATAATAATAAAAAAAAATACA
* * * *
4112712 TATATATAATAA-ATAATAAAATACA
1 GATAAATAATAATAAAAAAAAATACA
* * *
4112737 CATAAATATTAACAAAAAATAAATA-A
1 GATAAATAATAATAAAAAA-AAATACA
4112763 -ATAAATA
1 GATAAATA
4112770 TATACATATA
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
25 44 0.51
26 8 0.09
27 13 0.15
28 10 0.12
29 11 0.13
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (26 bp):
GATAAATAATAATAAAAAAAAATACA
Found at i:4112793 original size:35 final size:35
Alignment explanation
Indices: 4112681--4112803 Score: 91
Period size: 35 Copynumber: 3.6 Consensus size: 35
4112671 GATAAGTAAA
* *
4112681 AATACA-AATGAATAAAATAAAATA-AAATATA-T
1 AATACATAATAAATAAAATAAAATATACATATATT
* *
4112713 -ATATATAATAAAT--AATAAAATACACATAAATATT
1 AATACATAATAAATAAAATAAAATATACAT--ATATT
* * *
4112747 AACAAAAAATAAAT-AAATAAATATATACATATATT
1 AATACATAATAAATAAAATAAA-ATATACATATATT
4112782 AATACATAAT-AATAATAATAAA
1 AATACATAATAAATAA-AATAAA
4112804 TAATACAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
30 9 0.13
31 7 0.10
32 6 0.08
33 3 0.04
34 4 0.06
35 23 0.32
36 12 0.17
37 7 0.10
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (35 bp):
AATACATAATAAATAAAATAAAATATACATATATT
Found at i:4112813 original size:12 final size:12
Alignment explanation
Indices: 4112717--4112818 Score: 52
Period size: 12 Copynumber: 8.3 Consensus size: 12
4112707 ATATATATAT
4112717 ATAATA-AATAA
1 ATAATACAATAA
*
4112728 TAAAATACACATAA
1 -ATAATACA-ATAA
* *
4112742 ATATTAACAAAAA
1 ATAAT-ACAATAA
4112755 ATAAATA-AATAA
1 AT-AATACAATAA
4112767 ATATATAC-ATATA
1 ATA-ATACAATA-A
*
4112780 TTAATAC-AT-A
1 ATAATACAATAA
*
4112790 ATAATAATAATAA
1 ATAAT-ACAATAA
*
4112803 ATAATACAATAC
1 ATAATACAATAA
4112815 ATAA
1 ATAA
4112819 AATACAAAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.07
11 2 0.03
12 34 0.49
13 19 0.28
14 9 0.13
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATACAATAA
Found at i:4114340 original size:2 final size:2
Alignment explanation
Indices: 4114333--4114361 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4114323 AATCTCTTAA
4114333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4114362 AATCAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4116538 original size:9 final size:8
Alignment explanation
Indices: 4116524--4116577 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
4116514 ATTTGCTTGA
4116524 AAAAAATGG
1 AAAAAAT-G
4116533 AAAAAAT-
1 AAAAAATG
4116540 AGAAAAATG
1 A-AAAAATG
4116549 -AAAAATG
1 AAAAAATG
4116556 AAAAAATG
1 AAAAAATG
4116564 AAAAAA-G
1 AAAAAATG
4116571 AAAAAAT
1 AAAAAAT
4116578 AGTGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 15 0.37
8 19 0.46
9 7 0.17
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4116546 original size:10 final size:9
Alignment explanation
Indices: 4116521--4116595 Score: 63
Period size: 8 Copynumber: 8.8 Consensus size: 9
4116511 ATGATTTGCT
4116521 TGAAAAAAA
1 TGAAAAAAA
*
4116530 TGGAAAAAA
1 TGAAAAAAA
*
4116539 T-AGAAAAA
1 TGAAAAAAA
4116547 TG--AAAAA
1 TGAAAAAAA
4116554 TG-AAAAAA
1 TGAAAAAAA
4116562 TG-AAAAAA
1 TGAAAAAAA
4116570 -GAAAAAATA
1 TGAAAAAA-A
4116579 GTGAAAAAAA
1 -TGAAAAAAA
*
4116589 GGAAAAA
1 TGAAAAA
4116596 GGAACAAGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
7 8 0.14
8 24 0.43
9 16 0.29
10 1 0.02
11 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:4116559 original size:6 final size:7
Alignment explanation
Indices: 4116534--4116575 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
4116524 AAAAAATGGA
4116534 AAAAATAG
1 AAAAAT-G
4116542 AAAAATG
1 AAAAATG
4116549 AAAAATG
1 AAAAATG
4116556 AAAAAATG
1 -AAAAATG
*
4116564 AAAAAAG
1 AAAAATG
4116571 AAAAA
1 AAAAA
4116576 ATAGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 19 0.59
8 13 0.41
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:4116576 original size:15 final size:15
Alignment explanation
Indices: 4116524--4116577 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
4116514 ATTTGCTTGA
*
4116524 AAAAAATGGAAAAAAT
1 AAAAAAT-GAAAAAAG
*
4116540 AGAAAAATGAAAAATG
1 A-AAAAATGAAAAAAG
4116556 AAAAAATGAAAAAAG
1 AAAAAATGAAAAAAG
4116571 AAAAAAT
1 AAAAAAT
4116578 AGTGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 20 0.59
16 8 0.24
17 6 0.18
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (15 bp):
AAAAAATGAAAAAAG
Found at i:4117675 original size:40 final size:40
Alignment explanation
Indices: 4117603--4118242 Score: 748
Period size: 40 Copynumber: 15.9 Consensus size: 40
4117593 GTCTAGGAGT
4117603 ATTTA-TTTT-CAAAGTTCGTTGCCTCTGTTTTAGAGGA-CA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTG-TTTAGAGGAGCA
*
4117642 ATTTACTTTTCCAAAGTCGTGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT-TGCCTCTGTTTAGAGGAGCA
* *
4117683 ATTTACTTTTCC-AAGTCGTGGTACTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTTG-CCTCTGTTTAGAGGAGCA
4117723 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGG-AGCA
*
4117764 A-TTACTTTTCCAAAGTCGTGTTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTC--GTTGCCTCTGTTTAGAGGAGCA
4117805 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGA-GAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
* *
4117844 A-TTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
4117885 ATTTA--TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
4117924 A-TTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
4117965 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
* * *
4118005 ATTTATTTTTCAAAATTCCGTTGCCT-TGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGT-CGTTGCCTCTGTTTAGAGGAGCA
* *
4118045 ATTTAC-TTTCCAAAGTCGTGGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT---TGCCTCTGTTTAGAGGAGCA
* * * *
4118087 ATCTA-TTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
4118128 ATTTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
4118168 ATTTA-TTTT-CAAAGTTCGTTG-CTCTGTTTAGA-GAGCA
1 ATTTACTTTTCCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
4118205 ATTTATTTTTCC-AAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTACTTTTCCAAAGTCGT--TGCCTCTGTTTAGAGGA
4118243 ACTTCGGCAA
Statistics
Matches: 533, Mismatches: 27, Indels: 80
0.83 0.04 0.12
Matches are distributed among these distances:
37 14 0.03
38 36 0.07
39 64 0.12
40 207 0.39
41 137 0.26
42 75 0.14
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:4118195 original size:282 final size:281
Alignment explanation
Indices: 4117603--4118242 Score: 926
Period size: 282 Copynumber: 2.3 Consensus size: 281
4117593 GTCTAGGAGT
*
4117603 ATTTATTTTCAAAGTTCGTTGCCTCTGTTTTAGAGGA-CAATTTACTTTTCCAAAGTCGT-GTAC
1 ATTTATTTTCAAAGTTCGTTGCCTCTG-TTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGC
*
4117666 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTCGTGGTACTCTGTTTAGAGGAGCAATTTACTT
64 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACTCTGTTTAGAGGAGCAATTTACTT
* * *
4117731 TTCAAAGTTCGTTGCCTCTGTTTAGAGGAAGCAATTACTTTTCCAAAGTCGTGTTACCTCTGTTT
129 TTCAAAATTCGTTGCCTCTGTTTAGAGGAAGCAATTACTTTTCCAAAGTCGTGGTACCTCTGTTG
* * * *
4117796 AGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGAGCAATTACTTTTTCAAAGTC
194 AGAGGAGCAATCTACTTTTCAAAGTTCGTTACCTCTGTTGAGAGAGCAATTACTTTTCCAAAGTC
4117861 GTGGTACCTCTGTTTAGAGGAGCA
259 GT-GTACCTCTGTTTAGAGGAGCA
*
4117885 ATTTATTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAA-TTACTTTTCAAAAGTCGTGGTGCC
1 ATTTATTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCC
* * *
4117949 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTG-CCTCTGTTTAGAGGAGCAATTTATTT
65 TCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTACTCTGTTTAGAGGAGCAATTTACTT
4118013 TTCAAAATTCCGTTGCCT-TGTTTAGAGG-AGCAATTTAC-TTTCCAAAGTCGTGGGTACCTCTG
129 TTCAAAATT-CGTTGCCTCTGTTTAGAGGAAGCAA-TTACTTTTCCAAAGTCGT-GGTACCTCTG
*
4118075 TTGAGAGGAGCAATCTATTTTTCAAAG-TCGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTC
191 TTGAGAGGAGCAATCTACTTTTCAAAGTTCGT--TACCTCTGTTGAGA-GAGCAA-TTACTTTTC
*
4118138 CAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
252 CAAAG-TCGTGTACCTCTGTTTAGAGGAGCA
* *
4118168 ATTTATTTTCAAAGTTCGTTG-CTCTGTTTAGA-GAGCAATTTATTTTTCCAAGTCGTGGTGCCT
1 ATTTATTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
4118231 CTGTTTAGAGGA
66 CTGTTTAGAGGA
4118243 ACTTCGGCAA
Statistics
Matches: 327, Mismatches: 18, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
280 1 0.00
281 79 0.24
282 161 0.49
283 64 0.20
284 14 0.04
285 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (281 bp):
ATTTATTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACTCTGTTTAGAGGAGCAATTTACTTTT
CAAAATTCGTTGCCTCTGTTTAGAGGAAGCAATTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
AGGAGCAATCTACTTTTCAAAGTTCGTTACCTCTGTTGAGAGAGCAATTACTTTTCCAAAGTCGT
GTACCTCTGTTTAGAGGAGCA
Found at i:4118272 original size:8 final size:8
Alignment explanation
Indices: 4118250--4118309 Score: 90
Period size: 8 Copynumber: 7.8 Consensus size: 8
4118240 GGAACTTCGG
4118250 CAAAAAAA
1 CAAAAAAA
4118258 -AACAAAAA
1 CAA-AAAAA
4118266 CAAAAAAA
1 CAAAAAAA
4118274 C-AAAAAA
1 CAAAAAAA
4118281 CAAAAAAA
1 CAAAAAAA
4118289 CAAAAAAA
1 CAAAAAAA
4118297 C-AAAAAA
1 CAAAAAAA
4118304 CAAAAA
1 CAAAAA
4118310 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.33
8 30 0.62
9 2 0.04
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:4118272 original size:15 final size:14
Alignment explanation
Indices: 4118251--4118309 Score: 91
Period size: 15 Copynumber: 4.1 Consensus size: 14
4118241 GAACTTCGGC
4118251 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
*
4118265 ACAAAAAAACAAAA
1 AAAAAAAAACAAAA
4118279 AACAAAAAAACAAAA
1 AA-AAAAAAACAAAA
4118294 AAACAAAAAACAAAA
1 AAA-AAAAAACAAAA
4118309 A
1 A
4118310 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
14 15 0.37
15 26 0.63
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:4118319 original size:23 final size:23
Alignment explanation
Indices: 4118250--4118309 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
4118240 GGAACTTCGG
*
4118250 CAAAAAAAAACAAAAACAAAAAAA
1 CAAAAAACAA-AAAAACAAAAAAA
4118274 CAAAAAACAAAAAAACAAAAAAA
1 CAAAAAACAAAAAAACAAAAAAA
4118297 CAAAAAACAAAAA
1 CAAAAAACAAAAA
4118310 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 26 0.74
24 9 0.26
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (23 bp):
CAAAAAACAAAAAAACAAAAAAA
Found at i:4118329 original size:1 final size:1
Alignment explanation
Indices: 4118251--4118309 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
4118241 GAACTTCGGC
* * * * * * *
4118251 AAAAAAAAACAAAAACAAAAAAACAAAAAACAAAAAAACAAAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4118310 TTTTAAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4119632 original size:13 final size:14
Alignment explanation
Indices: 4119614--4119647 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
4119604 TTTTTCTTTG
4119614 TTTATTTGTTTA-T
1 TTTATTTGTTTATT
4119627 TTTATTTGTTTATT
1 TTTATTTGTTTATT
4119641 TTTATTT
1 TTTATTT
4119648 ATTAGATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTATTTGTTTATT
Found at i:4119768 original size:27 final size:27
Alignment explanation
Indices: 4119738--4119828 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
4119728 AAAAAAATAT
4119738 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * ** **
4119765 ATTTTCCTCAGAAATAAATTTCAAAAAAAAA
1 ATTTT--T-AGGGA-AAAGTTGAAAGTATCA
4119796 TATTTTTAGGGAAAAGTTGAAAGTATCA
1 -ATTTTTAGGGAAAAGTTGAAAGTATCA
4119824 ATTTT
1 ATTTT
4119829 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 16, Indels: 10
0.62 0.23 0.14
Matches are distributed among these distances:
27 10 0.23
28 10 0.23
29 4 0.09
30 4 0.09
31 10 0.23
32 5 0.12
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:4119791 original size:59 final size:57
Alignment explanation
Indices: 4119728--4120072 Score: 419
Period size: 59 Copynumber: 5.7 Consensus size: 57
4119718 AAAAAATTCT
4119728 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAATAAATTTC
1 AAAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATAAATTTC
4119787 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 -AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-T---AG-AAAATAAATTT-C
*
4119852 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTC
4119912 AAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTTC
1 -AAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC-TAGAAAATAAA-TTTC
* * *
4119972 AAAAAAGA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
1 AAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTC
*
4120031 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
4120073 CTAAAAAAAA
Statistics
Matches: 257, Mismatches: 10, Indels: 37
0.85 0.03 0.12
Matches are distributed among these distances:
57 2 0.01
58 39 0.15
59 88 0.34
60 21 0.08
61 49 0.19
62 4 0.02
63 1 0.00
64 52 0.20
65 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (57 bp):
AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAATTTC
Found at i:4122364 original size:2 final size:2
Alignment explanation
Indices: 4122357--4122381 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4122347 AATCTCTTAA
4122357 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4122382 AATCAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4124930 original size:26 final size:25
Alignment explanation
Indices: 4124863--4124930 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 25
4124853 TGCATATGTT
*
4124863 GATAATTTTTTTAAATGAC--ACATAA
1 GATAATTTTTTT-AAT-ACAAATATAA
4124888 GATAA-TTTTTT-A-A-AAATATAA
1 GATAATTTTTTTAATACAAATATAA
4124909 GATAATTTTTTTAATTACAAAT
1 GATAATTTTTTTAA-TACAAAT
4124931 TAGATACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
20 1 0.03
21 10 0.29
22 7 0.20
23 1 0.03
24 6 0.17
25 6 0.17
26 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (25 bp):
GATAATTTTTTTAATACAAATATAA
Found at i:4124935 original size:24 final size:23
Alignment explanation
Indices: 4124863--4124941 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
4124853 TGCATATGTT
*
4124863 GATAATTTTTTTAAATGACACATAA
1 GATAATTTTTTT-AAT-ACAAATAA
4124888 GATAA-TTTTTTAA-A-AATATAA
1 GATAATTTTTTTAATACAA-ATAA
*
4124909 GATAATTTTTTTAATTACAAATTA
1 GATAATTTTTTTAA-TACAAATAA
*
4124933 GATACTTTT
1 GATAATTTT
4124942 AAATTTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.02
21 10 0.22
22 8 0.17
23 2 0.04
24 18 0.39
25 7 0.15
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (23 bp):
GATAATTTTTTTAATACAAATAA
Found at i:4125147 original size:30 final size:30
Alignment explanation
Indices: 4125076--4125148 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
4125066 AAAATTATCC
*
4125076 TTTTAAAAAATTTATGTAAAATATTAAAAA
1 TTTTAAAAATTTTATGTAAAATATTAAAAA
* * * * *
4125106 -ATCAAGTAATTTTATGTAAGATTTTAAAAA
1 TTTTAA-AAATTTTATGTAAAATATTAAAAA
4125136 TTTTAAAAATTTT
1 TTTTAAAAATTTT
4125149 CATATTAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
29 3 0.09
30 26 0.81
31 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTAAAAATTTTATGTAAAATATTAAAAA
Found at i:4134496 original size:22 final size:23
Alignment explanation
Indices: 4134453--4134496 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
4134443 TAAATAAAAA
* *
4134453 TTTTAAGTAAAGATTATGAAATT
1 TTTTAAGTAAAAATAATGAAATT
*
4134476 TTTTAA-TAAAAATAATTAAAT
1 TTTTAAGTAAAAATAATGAAAT
4134497 AAAATTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TTTTAAGTAAAAATAATGAAATT
Found at i:4137548 original size:2 final size:2
Alignment explanation
Indices: 4137541--4137567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4137531 ACTTTGACTT
4137541 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4137568 TTCAAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4144705 original size:24 final size:24
Alignment explanation
Indices: 4144670--4144715 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4144660 TGAACTTATG
*
4144670 CAGCCACGTCTCTCTATCTTTGTA
1 CAGCCACATCTCTCTATCTTTGTA
4144694 CAGCCACATCTCTCTATCTTTG
1 CAGCCACATCTCTCTATCTTTG
4144716 AGTATACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.35, G:0.11, T:0.37
Consensus pattern (24 bp):
CAGCCACATCTCTCTATCTTTGTA
Found at i:4148175 original size:19 final size:19
Alignment explanation
Indices: 4148141--4148195 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
4148131 AAGAAAAAAT
*
4148141 ATTTTTTTTATT-TTTTTAG
1 ATTTTTTTT-TTGTTTTGAG
4148160 -TGTTTTTTTTTGTTTTGAG
1 AT-TTTTTTTTTGTTTTGAG
*
4148179 ATTTTTTGTTTGTTTTG
1 ATTTTTTTTTTGTTTTG
4148196 TTTTGTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 3 0.10
19 27 0.87
20 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (19 bp):
ATTTTTTTTTTGTTTTGAG
Found at i:4149814 original size:12 final size:12
Alignment explanation
Indices: 4149789--4149832 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4149779 TAGTTTAGTA
*
4149789 TTATTATTAAAT
1 TTATTTTTAAAT
*
4149801 TTATTTTTATAT
1 TTATTTTTAAAT
*
4149813 TTGTTTTTAAAGT
1 TTATTTTTAAA-T
4149826 TTATTTT
1 TTATTTT
4149833 AAAAATTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTTTTAAAT
Found at i:4150905 original size:29 final size:28
Alignment explanation
Indices: 4150843--4150915 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
4150833 GAGGATGTGT
* *
4150843 GGTAGGGCATAGTGGTCAGAGGGGTGGAA
1 GGTAGGGCATGGTGGTCAGAAGGGTGG-A
4150872 GGTAGGGCATGGTGGTCAGAAGGGTAGG-
1 GGTAGGGCATGGTGGTCAGAAGGGT-GGA
*
4150900 GTGTAGGGCCTGGTGG
1 G-GTAGGGCATGGTGG
4150916 CAGTGCTACC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 36 0.92
30 2 0.05
ACGTcount: A:0.19, C:0.08, G:0.53, T:0.19
Consensus pattern (28 bp):
GGTAGGGCATGGTGGTCAGAAGGGTGGA
Found at i:4151004 original size:9 final size:9
Alignment explanation
Indices: 4150984--4151060 Score: 63
Period size: 9 Copynumber: 8.9 Consensus size: 9
4150974 TTTTTATTAT
4150984 TATTTTTGTA
1 TATTTTT-TA
4150994 TATTTTTTA
1 TATTTTTTA
*
4151003 TATTTTGTA
1 TATTTTTTA
* *
4151012 T-TATTTCA
1 TATTTTTTA
4151020 TATTTTTT-
1 TATTTTTTA
* *
4151028 TGTATTTTA
1 TATTTTTTA
4151037 TA--TTTTA
1 TATTTTTTA
*
4151044 TATTTTATA
1 TATTTTTTA
4151053 TATTTTTT
1 TATTTTTT
4151061 TTGGACAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
7 7 0.13
8 11 0.21
9 27 0.52
10 7 0.13
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.73
Consensus pattern (9 bp):
TATTTTTTA
Found at i:4151022 original size:17 final size:17
Alignment explanation
Indices: 4150977--4151058 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 17
4150967 GTTCTATTTT
4150977 TTATTATTAT-TTTTGTA
1 TTATT-TTATATTTTGTA
*
4150994 TATTTTTTATATTTTGTA
1 T-TATTTTATATTTTGTA
* *
4151012 TTATTTCATATTTT-TT
1 TTATTTTATATTTTGTA
*
4151028 TGTATTTTATATTTTATA
1 T-TATTTTATATTTTGTA
*
4151046 TT-TTATATATTTT
1 TTATTTTATATTTT
4151059 TTTTGGACAA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
16 12 0.22
17 29 0.54
18 13 0.24
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (17 bp):
TTATTTTATATTTTGTA
Found at i:4151063 original size:34 final size:34
Alignment explanation
Indices: 4150998--4151061 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
4150988 TTTGTATATT
*
4150998 TTTTATATTTTGTATTATTTCATATTTTTTTGTA
1 TTTTATATTTTATATTATTTCATATTTTTTTGTA
4151032 TTTTATATTTTATATT-TTAT-ATATTTTTTT
1 TTTTATATTTTATATTATT-TCATATTTTTTT
4151062 TGGACAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (34 bp):
TTTTATATTTTATATTATTTCATATTTTTTTGTA
Found at i:4155064 original size:24 final size:23
Alignment explanation
Indices: 4155037--4155095 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
4155027 AATATGCATG
* *
4155037 AATATTAATAATAAAATTTATAAT
1 AATATTAATAAAAAAATTCA-AAT
4155061 AATA-TATATAAAAAAATTCAAAT
1 AATATTA-ATAAAAAAATTCAAAT
4155084 AAT-TTAA-AAAAA
1 AATATTAATAAAAA
4155096 TTACCTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 5 0.16
22 1 0.03
23 10 0.32
24 15 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AATATTAATAAAAAAATTCAAAT
Found at i:4158676 original size:9 final size:9
Alignment explanation
Indices: 4158657--4158694 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
4158647 AAAAGCTACC
4158657 AAAAAGAGAA
1 AAAAAG-GAA
4158667 AAAAAGG-A
1 AAAAAGGAA
4158675 AAAAAGGAA
1 AAAAAGGAA
4158684 AAAAA-GAA
1 AAAAAGGAA
4158692 AAA
1 AAA
4158695 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 14 0.52
9 7 0.26
10 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAGGAA
Found at i:4158684 original size:17 final size:17
Alignment explanation
Indices: 4158657--4158694 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
4158647 AAAAGCTACC
4158657 AAAAAGAGAAAAAAAGGA
1 AAAAAGAGAAAAAAA-GA
4158675 AAAAAG-GAAAAAAAGA
1 AAAAAGAGAAAAAAAGA
4158691 AAAA
1 AAAA
4158695 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 8 0.40
18 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAAAGA
Found at i:4158708 original size:9 final size:9
Alignment explanation
Indices: 4158657--4158709 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
4158647 AAAAGCTACC
4158657 AAAAAGAGAA
1 AAAAAGA-AA
*
4158667 AAAAAGGAA
1 AAAAAGAAA
*
4158676 AAAAGGAAA
1 AAAAAGAAA
*
4158685 AAAAGAAAAA
1 AAAA-AGAAA
4158695 GAAAAAGAAA
1 -AAAAAGAAA
4158705 AAAAA
1 AAAAA
4158710 TAATTAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 18 0.51
10 13 0.37
11 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:4159098 original size:50 final size:50
Alignment explanation
Indices: 4158981--4159113 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
4158971 TTAAGCAAAT
**
4158981 GCTCAACAATTTTAAAGAA-TTATCTTG-GAAAAAACTCTTCTAAGTAGAG
1 GCTCAACAATTTTAAA-AATTTATCTTGAGAAAAAACTCTTCTAAACAGAG
* * *
4159030 GCTCAACAACTTTAAAAAATTTATCTTGAGAAAAATCTCTTTTAAACAGAG
1 GCTCAACAA-TTTTAAAAATTTATCTTGAGAAAAAACTCTTCTAAACAGAG
* * *
4159081 GCTCAACGATTTTAAAAATTCATTTTGA-AAAAA
1 GCTCAACAATTTTAAAAATTTATCTTGAGAAAAA
4159114 GCTTCTCTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 16 0.22
50 30 0.42
51 26 0.36
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (50 bp):
GCTCAACAATTTTAAAAATTTATCTTGAGAAAAAACTCTTCTAAACAGAG
Found at i:4159132 original size:48 final size:49
Alignment explanation
Indices: 4158972--4159344 Score: 271
Period size: 48 Copynumber: 7.6 Consensus size: 49
4158962 AAAACTCCTT
* *
4158972 TAAGCAAATGCTCAACAATTTTAAAGAATT-ATCTTGGAAAAAA-C-TCTTC
1 TAAGCAGAGGCTCAACAATTTTAAA-AATTCATCTT-GAAAAAAGCTTC-TC
* * * * *
4159021 TAAGTAGAGGCTCAACAACTTTAAAAAATTTATCTTGAGAAAAATC-TCTTT
1 TAAGCAGAGGCTCAACAA-TTTTAAAAATTCATCTTGA-AAAAAGCTTC-TC
* * *
4159072 TAAACAGAGGCTCAACGATTTTAAAAATTCATTTTGAAAAAAGCTTCTC
1 TAAGCAGAGGCTCAACAATTTTAAAAATTCATCTTGAAAAAAGCTTCTC
* ** * **
4159121 TAAG-AGAGGCTCCACAACTTAAAAAAAAATCATCTTGGGAAAAGCTTCTC
1 TAAGCAGAGGCTCAACAA-TT-TTAAAAATTCATCTTGAAAAAAGCTTCTC
* * ** * *
4159171 TAAG-AGAGGCTCCATAACTTAAAAAAAAAATCATCTTG-AAAAAGCTCCTC
1 TAAGCAGAGGCTCAACAA-TT--TTAAAAATTCATCTTGAAAAAAGCTTCTC
* * *
4159221 TAAGCAGAAGCTCAACAAATTTAAAAATCCATCTTG-AAAAAGC-TCATC
1 TAAGCAGAGGCTCAACAATTTTAAAAATTCATCTTGAAAAAAGCTTC-TC
* * * *
4159269 TTAGCAGAGGCTTAACAACTTTAAAAATTCATCTT-AAAAAAGCTCCTC
1 TAAGCAGAGGCTCAACAATTTTAAAAATTCATCTTGAAAAAAGCTTCTC
* * * *
4159317 TAGGTAGAGACTCAACAACTTTAAAAAT
1 TAAGCAGAGGCTCAACAATTTTAAAAAT
4159345 CTAGAGGCTC
Statistics
Matches: 267, Mismatches: 45, Indels: 25
0.79 0.13 0.07
Matches are distributed among these distances:
47 1 0.00
48 94 0.35
49 34 0.13
50 91 0.34
51 47 0.18
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (49 bp):
TAAGCAGAGGCTCAACAATTTTAAAAATTCATCTTGAAAAAAGCTTCTC
Found at i:4159148 original size:100 final size:100
Alignment explanation
Indices: 4158981--4159163 Score: 239
Period size: 100 Copynumber: 1.8 Consensus size: 100
4158971 TTAAGCAAAT
*
4158981 GCTCAACAATTTTAAAGAATTATCTTGGAAAAAACTCTTCTAAGTAGAGGCTCAACAACTTTAAA
1 GCTCAACAATTTTAAAGAATTATCTTGGAAAAAACTCTTCTAAGTAGAGGCTCAACAACTTAAAA
* *
4159046 AAATTTATCTTGAGAAAAATCTCTTTTAAACAGAG
66 AAAATCATCTTGAGAAAAATCTCTTTTAAACAGAG
* * *
4159081 GCTCAACGATTTTAAA-AATTCAT-TTTGAAAAAAGCT-TCTCTAAG-AGAGGCTCCACAACTTA
1 GCTCAACAATTTTAAAGAATT-ATCTTGGAAAAAA-CTCT-TCTAAGTAGAGGCTCAACAACTT-
*
4159142 AAAAAAAATCATCTTGGGAAAA
62 AAAAAAAATCATCTTGAGAAAA
4159164 GCTTCTCTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
99 29 0.40
100 43 0.60
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (100 bp):
GCTCAACAATTTTAAAGAATTATCTTGGAAAAAACTCTTCTAAGTAGAGGCTCAACAACTTAAAA
AAAATCATCTTGAGAAAAATCTCTTTTAAACAGAG
Found at i:4159355 original size:25 final size:25
Alignment explanation
Indices: 4159321--4159372 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
4159311 CTCCTCTAGG
4159321 TAGAGACTCAACAACTTTAAAAATC
1 TAGAGACTCAACAACTTTAAAAATC
* *
4159346 TAGAGGCTCAATAACTTTAAAAATC
1 TAGAGACTCAACAACTTTAAAAATC
4159371 TA
1 TA
4159373 TCTTGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (25 bp):
TAGAGACTCAACAACTTTAAAAATC
Found at i:4159424 original size:48 final size:48
Alignment explanation
Indices: 4159346--4159866 Score: 586
Period size: 48 Copynumber: 10.8 Consensus size: 48
4159336 TTTAAAAATC
* * *
4159346 TAGAGGCTCAATAACTTTAAAAA-TCTATCTTGGAAAAGCTCTTTTCAG
1 TAGAGGCTCAACAACTTTAAAAATTC-ATCTTGAAAAAGCTCTTCTCAG
* * * *
4159394 CAGAAGCTCAACAACTTTAAAAATTCATCTTGGAAAAAGCTCATCTAAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTT-GAAAAAGCTCTTCTCAG
* * * * **
4159443 CAGATGCTTAACAACTTTAAAAATTTATCTTGAAAAATTTCTTCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTCAG
* * * * *
4159491 CAGAGGCTCGATAACTTTAAAAA-TCTATATTTG-AAAAGCTCATCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTC-AT-CTTGAAAAAGCTCTTCTCAG
* *
4159539 TAGAGGTTCAACAACTTTAAAAATTCATCTTAGAAAAATCTCTTCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTT-GAAAAAGCTCTTCTCAG
* * *
4159588 TAAAGGCTCAACAACTTTAAAAATTCATCTTAAAAAAATCTCTTCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTT-GAAAAAGCTCTTCTCAG
* *
4159637 TAGAGGCTCAATAA-TTTAAAAATTTATCTTGAAAAAGCT-TCTCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCT-TCTCAG
* *
4159684 TAGAGACTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCTTCTAAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTG-AAAAAGCTCTTCTCAG
* * * * * * *
4159733 CATAGGCTTAACAATTTTAAAAATTCATCTTGGAAAAGTTCATCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTCAG
*
4159781 TAGAGGTTCAACAACTTTAAAAATTCATCTTGAAAAAGCT-TCTCTCAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCT-TCTCAG
* *
4159829 TAGAGGCTCAATAACTTTAAAAATTCATCTTAAAAAAG
1 TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
4159867 GGTTCCCCTA
Statistics
Matches: 399, Mismatches: 62, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.00
47 28 0.07
48 210 0.53
49 159 0.40
50 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (48 bp):
TAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTCAG
Found at i:4159509 original size:170 final size:168
Alignment explanation
Indices: 4159196--4159517 Score: 457
Period size: 170 Copynumber: 1.9 Consensus size: 168
4159186 AACTTAAAAA
4159196 AAAAATCATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAAATTTAAAAATCCATCTTGAAAA
1 AAAAATCATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAAATTTAAAAATCCATCTTGAAAA
* *
4159261 AGCTCATCTTAGCAGAGGCTTAACAACTTTAAAAATTCATCTTAAAAAAGCTCCTCTAGGTAGAG
66 AGCTCATCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTAAAAAAGCTCCTCTAGGCAGAG
4159326 ACTCAACAACTTTAAAAATCTAGAGGCTCAATAACTTT
131 ACTCAACAACTTTAAAAATCTAGAGGCTCAATAACTTT
* * * * * *
4159364 AAAAATCTATCTTGGAAAAGCTCTTTTCAGCAGAAGCTCAACAACTTTAAAAATTCATCTTGGAA
1 AAAAATC-ATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAAATTTAAAAATCCATCTT-GAA
* * * ** *
4159429 AAAGCTCATCTAAGCAGATGCTTAACAACTTTAAAAATTTATCTTGAAAAATTTCTTCTCA-GCA
64 AAAGCTCATCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTAAAAAAGCTCCTCT-AGGCA
* * *
4159493 GAGGCTCGATAACTTTAAAAATCTA
128 GAGACTCAACAACTTTAAAAATCTA
4159518 TATTTGAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
168 7 0.05
169 47 0.35
170 79 0.59
171 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (168 bp):
AAAAATCATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAAATTTAAAAATCCATCTTGAAAA
AGCTCATCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTAAAAAAGCTCCTCTAGGCAGAG
ACTCAACAACTTTAAAAATCTAGAGGCTCAATAACTTT
Found at i:4159527 original size:97 final size:96
Alignment explanation
Indices: 4159346--4159866 Score: 545
Period size: 97 Copynumber: 5.4 Consensus size: 96
4159336 TTTAAAAATC
* * * * * * *
4159346 TAGAGGCTCAATAACTTTAAAAA-TCTATCTTGGAAAAGCTCTTTTCAGCAGAAGCTCAACAACT
1 TAGAGGCTTAACAACTTTAAAAATTC-ATCTTGAAAAAGTTCTTCTCAGTAGAGGCTCAACAACT
* *
4159410 TTAAAAATTCATCTTGGAAAAAGCTCATCTAAG
65 TTAAAAATTCAT-TTTGAAAAAGCTCATCTCAG
* * * * * * *
4159443 CAGATGCTTAACAACTTTAAAAATTTATCTTGAAAAATTTCTTCTCAGCAGAGGCTCGATAACTT
1 TAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAGTTCTTCTCAGTAGAGGCTCAACAACTT
4159508 TAAAAA-TCTATATTTG-AAAAGCTCATCTCAG
66 TAAAAATTC-AT-TTTGAAAAAGCTCATCTCAG
*
4159539 TAGAGG-TTCAACAACTTTAAAAATTCATCTTAGAAAAA-TCTCTTCTCAGTAAAGGCTCAACAA
1 TAGAGGCTT-AACAACTTTAAAAATTCATCTT-GAAAAAGT-TCTTCTCAGTAGAGGCTCAACAA
** * *
4159602 CTTTAAAAATTCATCTTAAAAAAATCTCTTCTCAG
63 CTTTAAAAATTCAT-TTTGAAAAAGCTCATCTCAG
* * * *
4159637 TAGAGGCTCAATAA-TTTAAAAATTTATCTTGAAAAAGCTTC-TCTCAGTAGAGACTCAACAACT
1 TAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAG-TTCTTCTCAGTAGAGGCTCAACAACT
* * *
4159700 TTAAAAATTCATCTTGAAAAAAGCTCTTCTAAG
65 TTAAAAATTCATTTTG-AAAAAGCTCATCTCAG
* * * * * *
4159733 CATAGGCTTAACAATTTTAAAAATTCATCTTGGAAAAGTTCATCTCAGTAGAGGTTCAACAACTT
1 TAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAGTTCTTCTCAGTAGAGGCTCAACAACTT
*
4159798 TAAAAATTCATCTTGAAAAAGCTTC-TCTCAG
66 TAAAAATTCATTTTGAAAAAGC-TCATCTCAG
* * *
4159829 TAGAGGCTCAATAACTTTAAAAATTCATCTTAAAAAAG
1 TAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAG
4159867 GGTTCCCCTA
Statistics
Matches: 357, Mismatches: 53, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
95 3 0.01
96 150 0.42
97 176 0.49
98 27 0.08
99 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (96 bp):
TAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAGTTCTTCTCAGTAGAGGCTCAACAACTT
TAAAAATTCATTTTGAAAAAGCTCATCTCAG
Found at i:4159610 original size:145 final size:145
Alignment explanation
Indices: 4159346--4159907 Score: 665
Period size: 145 Copynumber: 3.9 Consensus size: 145
4159336 TTTAAAAATC
* * * * *
4159346 TAGAGGCTCAATAACTTTAAAAATCTAT-CTTGGAAAAGC-TCTTTTCAGCAGAAGCTCAACAAC
1 TAGAGGCTCAATAACTTTAAAAAT-TATATTTGAAAAAGCTTC-TCTCAGTAGAGGCTCAACAAC
* * * * *
4159409 TTTAAAAATTCATCTTGGAAAAAGCTCATCTAAGCAGATGCTTAACAACTTTAAAAATTTATCTT
64 TTTAAAAATTCATCTTAGAAAAAGCTCTTCTAAGCAAAGGCTTAACAACTTTAAAAATTCATCTT
4159474 GAAAAATTTCTTCTCAG
129 GAAAAATTTCTTCTCAG
* * *
4159491 CAGAGGCTCGATAACTTTAAAAATCTATATTTG-AAAAGC-TCATCTCAGTAGAGGTTCAACAAC
1 TAGAGGCTCAATAACTTTAAAAAT-TATATTTGAAAAAGCTTC-TCTCAGTAGAGGCTCAACAAC
* * * *
4159554 TTTAAAAATTCATCTTAGAAAAATCTCTTCTCAGTAAAGGCTCAACAACTTTAAAAATTCATCTT
64 TTTAAAAATTCATCTTAGAAAAAGCTCTTCTAAGCAAAGGCTTAACAACTTTAAAAATTCATCTT
* *
4159619 AAAAAAATCTCTTCTCAG
129 -GAAAAATTTCTTCTCAG
*
4159637 TAGAGGCTCAATAA-TTTAAAAATT-TATCTTGAAAAAGCTTCTCTCAGTAGAGACTCAACAACT
1 TAGAGGCTCAATAACTTTAAAAATTATAT-TTGAAAAAGCTTCTCTCAGTAGAGGCTCAACAACT
* *
4159700 TTAAAAATTCATCTT-GAAAAAAGCTCTTCTAAGCATAGGCTTAACAATTTTAAAAATTCATCTT
65 TTAAAAATTCATCTTAG-AAAAAGCTCTTCTAAGCAAAGGCTTAACAACTTTAAAAATTCATCTT
* * *
4159764 GGAAAAGTTCATCTCAG
129 GAAAAATTTCTTCTCAG
* * * *
4159781 TAGAGGTTCAACAACTTTAAAAATTCAT-CTTGAAAAAGCTTCTCTCAGTAGAGGCTCAATAACT
1 TAGAGGCTCAATAACTTTAAAAATT-ATATTTGAAAAAGCTTCTCTCAGTAGAGGCTCAACAACT
* ** *
4159845 TTAAAAATTCATCTTA-AAAAAGGGTTCCCCTAAGCAAAGGCTTCACAACTTTAAAAATCTCAT
65 TTAAAAATTCATCTTAGAAAAA--GCTCTTCTAAGCAAAGGCTTAACAACTTTAAAAAT-TCAT
4159908 ATGTTCTTGA
Statistics
Matches: 359, Mismatches: 45, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
143 3 0.01
144 34 0.09
145 256 0.71
146 61 0.17
147 5 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (145 bp):
TAGAGGCTCAATAACTTTAAAAATTATATTTGAAAAAGCTTCTCTCAGTAGAGGCTCAACAACTT
TAAAAATTCATCTTAGAAAAAGCTCTTCTAAGCAAAGGCTTAACAACTTTAAAAATTCATCTTGA
AAAATTTCTTCTCAG
Found at i:4166352 original size:2 final size:2
Alignment explanation
Indices: 4166345--4166371 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4166335 ACTTTGACTT
4166345 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4166372 TTCAAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4167876 original size:28 final size:29
Alignment explanation
Indices: 4167832--4167895 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
4167822 TGATTTAAAA
* *
4167832 ATAATTAAAAGTAAATT-AATAAAGCAAG
1 ATAATTAAAAATAAATTAAATAAAACAAG
4167860 ATAATTGAAAAAT-AATTAAAATAAAACAAG
1 ATAATT-AAAAATAAATT-AAATAAAACAAG
4167890 ATAATT
1 ATAATT
4167896 CATGTATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.32
29 5 0.16
30 16 0.52
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (29 bp):
ATAATTAAAAATAAATTAAATAAAACAAG
Found at i:4168892 original size:9 final size:9
Alignment explanation
Indices: 4168880--4168908 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4168870 TTTCCTTTCA
4168880 TTTCTTTTT
1 TTTCTTTTT
4168889 TTTCTTTTT
1 TTTCTTTTT
4168898 TTT-TTTTT
1 TTTCTTTTT
4168906 TTT
1 TTT
4168909 TTGCATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:4172157 original size:8 final size:8
Alignment explanation
Indices: 4172146--4172175 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4172136 AATTAATTAA
4172146 TTTTTTCT
1 TTTTTTCT
*
4172154 TTTTTTTT
1 TTTTTTCT
4172162 TTTTTTCT
1 TTTTTTCT
4172170 TTTTTT
1 TTTTTT
4172176 TTTCTCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4172162 original size:11 final size:11
Alignment explanation
Indices: 4172146--4172180 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4172136 AATTAATTAA
*
4172146 TTTTTTCTTTTT
1 TTTTTT-TTTTC
4172158 TTTTTTTTTTC
1 TTTTTTTTTTC
4172169 TTTTTTTTTTC
1 TTTTTTTTTTC
4172180 T
1 T
4172181 CCTTTTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:4172167 original size:16 final size:16
Alignment explanation
Indices: 4172146--4172178 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4172136 AATTAATTAA
4172146 TTTTTTCTTTTTTTTT
1 TTTTTTCTTTTTTTTT
4172162 TTTTTTCTTTTTTTTT
1 TTTTTTCTTTTTTTTT
4172178 T
1 T
4172179 CTCCTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:4180805 original size:27 final size:27
Alignment explanation
Indices: 4180775--4180856 Score: 155
Period size: 27 Copynumber: 3.0 Consensus size: 27
4180765 TGGAATTTTA
*
4180775 AATCCCTAATTGCTTTCTATGAGCATT
1 AATCTCTAATTGCTTTCTATGAGCATT
4180802 AATCTCTAATTGCTTTCTATGAGCATT
1 AATCTCTAATTGCTTTCTATGAGCATT
4180829 AATCTCTAATTGCTTTCTATGAGCATT
1 AATCTCTAATTGCTTTCTATGAGCATT
4180856 A
1 A
4180857 GGAGATCTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.43
Consensus pattern (27 bp):
AATCTCTAATTGCTTTCTATGAGCATT
Found at i:4185486 original size:49 final size:48
Alignment explanation
Indices: 4185289--4185761 Score: 472
Period size: 48 Copynumber: 9.8 Consensus size: 48
4185279 TTAGGGGAAC
* *
4185289 CTTTTTTAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAGGAG
1 CTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * *
4185337 CTTTTTCAAGATAAATTTTTAAAGTTATTGAACCTCTACTGAGATGAG
1 CTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * * * * * *
4185385 CTTTTCCAAGATGAATTTTTAAAATTGTTAAGCCTATGCT-TGAAGAG
1 CTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * *
4185432 CTTTTTTCAAGATGAATTTTTAAAGTTGTTAAACCTCTACTGAGAAGAG
1 C-TTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * *
4185481 ATTTTTTTAAGATGAATTTTTAAAATTATTGAGCCTCTACTGAGAAGAG
1 -CTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * * * *
4185530 ATTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGA-TAAGAGGAA
1 CTTTTTC-AAGATGAATTTTTAAAGTTATTGAGCCTCT-ACTGAGAAGAG
* *
4185579 C-TTTTCAAAGAT-AGATTTTTAAAGTTATTGAGCCTCTGCTAAGAAGAG
1 CTTTTTC-AAGATGA-ATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * * * * * * * *
4185627 CTTTTCCAAGATAAAATTTTAAAGTTGA-TAAGCATCTGCTTATATGAG
1 CTTTTTCAAGATGAATTTTTAAAGTT-ATTGAGCCTCTACTGAGAAGAG
* *
4185675 CTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAAGAG
1 C-TTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
* * *
4185724 CTTTTCCAAGAT-AGATTTTTAAAGTTATTAAACCTCTA
1 CTTTTTCAAGATGA-ATTTTTAAAGTTATTGAGCCTCTA
4185762 GATTTTTAAA
Statistics
Matches: 351, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
47 8 0.02
48 217 0.62
49 125 0.36
50 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (48 bp):
CTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
Found at i:4185597 original size:97 final size:96
Alignment explanation
Indices: 4185249--4185749 Score: 440
Period size: 97 Copynumber: 5.2 Consensus size: 96
4185239 TCGAGAACAT
* * * * *
4185249 ATGAGATTTTTAAAGTTG-TGAAGCCTTTGCTTAGGGGAACCTTTTTTAAGATGAATTTTTAAAG
1 ATGA-ATTTTTAAAGTTGTTG-AGCCTCTGATGAGAGGAA-CTTTTCTAAGATGAATTTTTAAAG
*
4185313 TTATTGAGCCTCTACTGAGAGGAGCTTTTT-CAAG
63 TTATTGAGCCTCTACTGAGAAGAG-TTTTTCCAAG
* * * * * * *
4185347 ATAAATTTTTAAAGTTATTGAACCTCT-ACTGAGATGAGCTTTTCCAAGATGAATTTTTAAAATT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGA-TGAGAGGAACTTTTCTAAGATGAATTTTTAAAGTT
* * * * * *
4185411 GTTAAGCCTATGCT-TGAAGAGCTTTTTTCAAG
65 ATTGAGCCTCTACTGAGAAGAG-TTTTTCCAAG
* * * * * *
4185443 ATGAATTTTTAAAGTTGTTAAACCTCT-ACTGAGAAGAGATTTTTTTAAGATGAATTTTTAAAAT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGA-TGAGAGGA-ACTTTTCTAAGATGAATTTTTAAAGT
*
4185507 TATTGAGCCTCTACTGAGAAGAGATTTTTCTAAG
64 TATTGAGCCTCTACTGAGAAGAG-TTTTTCCAAG
* *
4185541 ATGAATTTTTAAAGTTGTTGAGCCTCTGATAAGAGGAACTTTTCAAAGAT-AGATTTTTAAAGTT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGATGAGAGGAACTTTTCTAAGATGA-ATTTTTAAAGTT
* * *
4185605 ATTGAGCCTCTGCTAAGAAGAGCTTTTCCAAG
65 ATTGAGCCTCTACTGAGAAGAGTTTTTCCAAG
* * * * * * * * * * *
4185637 ATAAAATTTTAAAGTTGATAAGCATCTGCTTATATGAGCTTTTTTCAAGATGAATTTTTAAAGTT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGATGAGAGGAACTTTTCT-AAGATGAATTTTTAAAGTT
* * *
4185702 GTTGAGCTTCTACTGAGAAGAGCTTTTCCAAG
65 ATTGAGCCTCTACTGAGAAGAGTTTTTCCAAG
4185734 AT-AGATTTTTAAAGTT
1 ATGA-ATTTTTAAAGTT
4185750 ATTAAACCTC
Statistics
Matches: 330, Mismatches: 63, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
95 11 0.03
96 113 0.34
97 154 0.47
98 51 0.15
99 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (96 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTGATGAGAGGAACTTTTCTAAGATGAATTTTTAAAGTTA
TTGAGCCTCTACTGAGAAGAGTTTTTCCAAG
Found at i:4185819 original size:48 final size:48
Alignment explanation
Indices: 4185763--4186226 Score: 311
Period size: 48 Copynumber: 9.6 Consensus size: 48
4185753 AAACCTCTAG
*
4185763 ATTTTTAAAGTTGTTGAGCCTCTACCTAAAGGAGTTTTTTCAAGATGA
1 ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGTTTTTTCAAGATGA
* * * *
4185811 ATTTTTAAAGTTGTTGAGCCTCT-GTTGAGAGGAGGTTTTTCAAGATGG
1 ATTTTTAAAGTTGTTGAGCCTCTACTT-AAAGGAGTTTTTTCAAGATGA
* * * * *
4185859 ATTTTTAAATTTGTTGAGCTTCTACTTAGAA-AAGCTTTTTCATGATGA
1 ATTTTTAAAGTTGTTGAGCCTCTACTTA-AAGGAGTTTTTTCAAGATGA
* * ** * * *
4185907 CTTTTTAAAGTTGTTGAACCTCTGTTTAGAGGAGCTTTTCCAAGATGA
1 ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGTTTTTTCAAGATGA
* * * * * **
4185955 TTTTTTTTTTTAAGTTGTGGAGCCTCT-CTTAGAGAAGCTTTTCCCAAGATGA
1 ----ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAG-TTTTTTCAAGATGA
* * * * ** *
4186007 TTTTTTTAAAGTT-ATGAAACCTCTACTTAGAGGAACTTTTTCAAAATG-
1 -ATTTTTAAAGTTGTTG-AGCCTCTACTTAAAGGAGTTTTTTCAAGATGA
* * * *
4186055 ATTTTTAAAATCGTTGAGCCTCTGCTTAAAGGAGATTTTTCTCAAGATAA
1 ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAG-TTTTT-TCAAGATGA
* * * *
4186105 ATTTTTTAAAGTTGTTGAGTCTCTACTTAGAAGAACTTTTTCCAAGAT-A
1 A-TTTTTAAAGTTGTTGAGCCTCTACTTA-AAGGAGTTTTTTCAAGATGA
* * * * *
4186154 ATTCTTTAAAATTGTTGAGCATATGCTTAAAGGAGTTTTTT---TAT--
1 ATT-TTTAAAGTTGTTGAGCCTCTACTTAAAGGAGTTTTTTCAAGATGA
*
4186198 ATTTTTAAAAGTAGTTGAGCCTCTACTTA
1 ATTTTT-AAAGTTGTTGAGCCTCTACTTA
4186227 TATGAGCCTT
Statistics
Matches: 324, Mismatches: 73, Indels: 42
0.74 0.17 0.10
Matches are distributed among these distances:
43 3 0.01
44 20 0.06
45 2 0.01
47 25 0.08
48 130 0.40
49 58 0.18
50 15 0.05
51 36 0.11
52 35 0.11
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (48 bp):
ATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGTTTTTTCAAGATGA
Found at i:4185883 original size:169 final size:170
Alignment explanation
Indices: 4185590--4185929 Score: 436
Period size: 169 Copynumber: 2.0 Consensus size: 170
4185580 TTTTCAAAGA
*
4185590 TAGATTTTTAAAGTTATTGAGCCTCTGCTAAGAAGAGCTTTTCCAAGATAAAATTTTAAAGTTGA
1 TAGATTTTTAAAGTTATTGAGCCTCTCCTAAGAAGAGCTTTTCCAAGATAAAATTTTAAAGTTGA
* * *
4185655 TAAGCATCTGCTTATATGAGCTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTGAGA
66 TAAGCATCTGCTTAGAGGAGCGTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTGAGA
*
4185720 AGAGCTTTTCCAAGATAGA-TTTTTAAAGTTATTAAACCTC
131 AAAGCTTTTCCAAGAT-GACTTTTTAAAGTTATTAAACCTC
* * * * * *
4185760 TAGATTTTTAAAGTTGTTGAGCCTCTACCTAA-AGGAGTTTTTTCAAGATGAATTTTTAAAGTTG
1 TAGATTTTTAAAGTTATTGAGCCTCT-CCTAAGAAGAGCTTTTCCAAGATAAAATTTTAAAGTTG
* * * * * *
4185824 TTGAGCCTCTG-TTGAGAGGAG-GTTTTTCAAGATGGATTTTTAAATTTGTTGAGCTTCTACTTA
65 ATAAGCATCTGCTT-AGAGGAGCGTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTGA
* * * *
4185887 GAAAAGCTTTTTCATGATGACTTTTTAAAGTTGTTGAACCTC
129 GAAAAGCTTTTCCAAGATGACTTTTTAAAGTTATTAAACCTC
4185929 T
1 T
4185930 GTTTAGAGGA
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
168 2 0.01
169 75 0.51
170 65 0.45
171 4 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (170 bp):
TAGATTTTTAAAGTTATTGAGCCTCTCCTAAGAAGAGCTTTTCCAAGATAAAATTTTAAAGTTGA
TAAGCATCTGCTTAGAGGAGCGTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTGAGA
AAAGCTTTTCCAAGATGACTTTTTAAAGTTATTAAACCTC
Found at i:4186002 original size:52 final size:52
Alignment explanation
Indices: 4185908--4186060 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
4185898 TCATGATGAC
* * *
4185908 TTTTTAAAGTTGTTGAACCTCTGTTTAGAGGAGCTTTTCCAAGATGATTTTT
1 TTTTTAAAGTTGTGGAACCTCTGCTTAGAGAAGCTTTTCCAAGATGATTTTT
* *
4185960 TTTTTTAAGTTGTGGAGCCTCT-CTTAGAGAAGCTTTTCCCAAGATGA---TT
1 TTTTTAAAGTTGTGGAACCTCTGCTTAGAGAAGCTTTT-CCAAGATGATTTTT
* * * * *
4186009 TTTTTAAAGTTATGAAACCTCTACTTAGAGGAA-CTTTTTCAAAATGATTTTT
1 TTTTTAAAGTTGTGGAACCTCTGCTTAGA-GAAGCTTTTCCAAGATGATTTTT
4186061 AAAATCGTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
49 27 0.32
50 11 0.13
51 16 0.19
52 30 0.36
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (52 bp):
TTTTTAAAGTTGTGGAACCTCTGCTTAGAGAAGCTTTTCCAAGATGATTTTT
Found at i:4186029 original size:101 final size:100
Alignment explanation
Indices: 4185860--4186060 Score: 235
Period size: 101 Copynumber: 2.0 Consensus size: 100
4185850 TCAAGATGGA
* * * * * *
4185860 TTTTTAAATTTGTTGAGCTTCTACTTAGAAAAGCTTTTTCATGATGACTTTTTAAAGTTGTTGAA
1 TTTTTAAAGTTGTGGAGCCTCTACTTAGAAAAGCTTTTCCAAGATGACTTTTTAAAGTTGATGAA
** * *
4185925 CCTCTGTTTAGAGGAGCTTTTCCAAGATGATTTTT
66 CCTCTACTTAGAGGAACTTTTCCAAAATGATTTTT
* * *
4185960 TTTTTTAAGTTGTGGAGCCTCT-CTTAGAGAAGCTTTTCCCAAGATGATTTTTTTAAAGTT-ATG
1 TTTTTAAAGTTGTGGAGCCTCTACTTAGAAAAGCTTTT-CCAAGATGA-CTTTTTAAAGTTGATG
*
4186023 AAACCTCTACTTAGAGGAACTTTTTCAAAATGATTTTT
64 -AACCTCTACTTAGAGGAACTTTTCCAAAATGATTTTT
4186061 AAAATCGTTG
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
99 14 0.17
100 27 0.32
101 43 0.51
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (100 bp):
TTTTTAAAGTTGTGGAGCCTCTACTTAGAAAAGCTTTTCCAAGATGACTTTTTAAAGTTGATGAA
CCTCTACTTAGAGGAACTTTTCCAAAATGATTTTT
Found at i:4186194 original size:49 final size:50
Alignment explanation
Indices: 4186058--4186194 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 50
4186048 CAAAATGATT
* *
4186058 TTTAAAATCGTTGAGCCTCTGCTTAAAGGAGATTTTTCTCAAGATAAATTT
1 TTTAAAATTGTTGAG-CTCTGCTTAAAGGAGATTTTTCTCAAGATAAATTC
* *
4186109 TTTAAAGTTGTTGAGTCTCTACTTAGAA-GA-ACTTTTTC-CAAGAT-AATTC
1 TTTAAAATTGTTGAG-CTCTGCTTA-AAGGAGA-TTTTTCTCAAGATAAATTC
* *
4186158 TTTAAAATTGTTGAGCATATGCTTAAAGGAGTTTTTT
1 TTTAAAATTGTTGAGC-TCTGCTTAAAGGAGATTTTT
4186195 TATATTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
48 3 0.04
49 31 0.43
50 7 0.10
51 29 0.40
52 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.42
Consensus pattern (50 bp):
TTTAAAATTGTTGAGCTCTGCTTAAAGGAGATTTTTCTCAAGATAAATTC
Found at i:4186283 original size:44 final size:44
Alignment explanation
Indices: 4186190--4186290 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
4186180 TTAAAGGAGT
* * * *
4186190 TTTTTTATATTTTTAAAAGTAGTTGAGCCTCTACTTATATGAGC
1 TTTTTTAAATTTTCAAAAGTAGTTGAGCCTCTACTTAGAAGAGC
* *
4186234 CTTTTTAAATTTTCAAAAGTCA-TTGAGCTTCTA-TTGAGAAGAGC
1 TTTTTTAAATTTTCAAAAGT-AGTTGAGCCTCTACTT-AGAAGAGC
4186278 TTTTTTAAATTTT
1 TTTTTTAAATTTT
4186291 TTTAAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 45 0.94
45 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.48
Consensus pattern (44 bp):
TTTTTTAAATTTTCAAAAGTAGTTGAGCCTCTACTTAGAAGAGC
Found at i:4194792 original size:11 final size:11
Alignment explanation
Indices: 4194772--4194800 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4194762 AAAAATTAAC
4194772 AATA-TATAAA
1 AATATTATAAA
4194782 AATATTATAAA
1 AATATTATAAA
4194793 AATATTAT
1 AATATTAT
4194801 TTATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATTATAAA
Found at i:4195803 original size:56 final size:56
Alignment explanation
Indices: 4195715--4195826 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
4195705 GCAGCTAGAC
*
4195715 TGATTGACTGGTTTCTACCTTTGGTCCTTTTTGGATTAATGACAATCATTCAATCA
1 TGATTGACTGGTTTCTACCTTTGGTCCCTTTTGGATTAATGACAATCATTCAATCA
4195771 TGATTGACTGGTTTCTACCTTTGGTCCCTTTTGGATTAATGACAATCATTCAATCA
1 TGATTGACTGGTTTCTACCTTTGGTCCCTTTTGGATTAATGACAATCATTCAATCA
4195827 ACCTTACTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (56 bp):
TGATTGACTGGTTTCTACCTTTGGTCCCTTTTGGATTAATGACAATCATTCAATCA
Found at i:4197334 original size:1 final size:1
Alignment explanation
Indices: 4197328--4197355 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4197318 GGCTAAAATG
4197328 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
4197356 GGAGTGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4201198 original size:31 final size:31
Alignment explanation
Indices: 4201161--4201222 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4201151 TAAGTAAAGA
4201161 TTATGAAATTTTTTAATAAAAATAAATAAAT
1 TTATGAAATTTTTTAATAAAAATAAATAAAT
4201192 TTATGAAATTTTTTAATAAAAATAAATAAAT
1 TTATGAAATTTTTTAATAAAAATAAATAAAT
4201223 AAAATTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
TTATGAAATTTTTTAATAAAAATAAATAAAT
Found at i:4202181 original size:105 final size:105
Alignment explanation
Indices: 4201999--4202211 Score: 390
Period size: 105 Copynumber: 2.0 Consensus size: 105
4201989 TCTTGAAATG
* *
4201999 TTAAATTATTAATAAATTTTTATTTAATTTTAATTTTAAAATATTTTAATAGTTTTTATGAAAAT
1 TTAAATTATTAATAAATTTTTATTTAATTTTAATTTAAAAATATTTTAATAATTTTTATGAAAAT
*
4202064 GTTGGATTTCTTAAATTCGATGGACCTATCAAGCTAGGTT
66 GTTGGATTTCTTAAATTCGATGGACCAATCAAGCTAGGTT
4202104 TTAAATTATTAATAAATTTTTATTTAATTTTAATTTAAAAATATTTTAATAATTTTTATGAAAAT
1 TTAAATTATTAATAAATTTTTATTTAATTTTAATTTAAAAATATTTTAATAATTTTTATGAAAAT
*
4202169 TTTGGATTTCTTAAATTCGATGGACCAATCAAGCTAGGTT
66 GTTGGATTTCTTAAATTCGATGGACCAATCAAGCTAGGTT
4202209 TTA
1 TTA
4202212 GATAAAATTT
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (105 bp):
TTAAATTATTAATAAATTTTTATTTAATTTTAATTTAAAAATATTTTAATAATTTTTATGAAAAT
GTTGGATTTCTTAAATTCGATGGACCAATCAAGCTAGGTT
Found at i:4204031 original size:22 final size:23
Alignment explanation
Indices: 4204005--4204075 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 23
4203995 TATATATATC
4204005 TAATAAATAAATTTTTATTAAA-
1 TAATAAATAAATTTTTATTAAAT
*
4204027 TAAT--ATAAATTATTATTTTAAAT
1 TAATAAATAAATT-TT-TATTAAAT
4204050 TAATTAAATTAATATATTTTATTAAA
1 TAA-TAAA-TAA-AT-TTTTATTAAA
4204076 GAAATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
20 7 0.18
21 2 0.05
22 10 0.26
23 3 0.08
24 1 0.03
26 1 0.03
27 9 0.24
28 4 0.11
29 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAAATAAATTTTTATTAAAT
Found at i:4204036 original size:20 final size:19
Alignment explanation
Indices: 4204006--4204043 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4203996 ATATATATCT
*
4204006 AATAAATAAATTTTTATTA
1 AATAAATAAATTATTATTA
4204025 AATAATATAAATTATTATT
1 AATAA-ATAAATTATTATT
4204044 TTAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAAATAAATTATTATTA
Found at i:4204093 original size:28 final size:26
Alignment explanation
Indices: 4204051--4204121 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
4204041 ATTTTAAATT
*
4204051 AATTAAATTAATATAT-TTTATTAAAGA
1 AATTATATTAATATATATTTA-TAAA-A
4204078 AATATATATTAATATATATTTATAAAA
1 AAT-TATATTAATATATATTTATAAAA
4204105 AATTAT-TTAAATATATA
1 AATTATATT-AATATATA
4204122 AGATAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 2 0.05
26 11 0.28
27 7 0.17
28 16 0.40
29 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
AATTATATTAATATATATTTATAAAA
Found at i:4221764 original size:6 final size:6
Alignment explanation
Indices: 4221753--4221790 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
4221743 TATATAACGA
*
4221753 TATTTT TATTTT TAATTTT TATTTT TAATTT TATTTT T
1 TATTTT TATTTT T-ATTTT TATTTT TATTTT TATTTT T
4221791 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:4221772 original size:13 final size:13
Alignment explanation
Indices: 4221754--4221790 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4221744 ATATAACGAT
4221754 ATTTTTATTTTTA
1 ATTTTTATTTTTA
4221767 ATTTTTATTTTTA
1 ATTTTTATTTTTA
4221780 A-TTTTATTTTT
1 ATTTTTATTTTT
4221791 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTTATTTTTA
Found at i:4221777 original size:19 final size:19
Alignment explanation
Indices: 4221753--4221792 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4221743 TATATAACGA
*
4221753 TATTTTTATTTTTAATTTT
1 TATTTTTAATTTTAATTTT
*
4221772 TATTTTTAATTTTATTTTT
1 TATTTTTAATTTTAATTTT
4221791 TA
1 TA
4221793 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTTTTAATTTTAATTTT
Found at i:4221791 original size:13 final size:13
Alignment explanation
Indices: 4221756--4221794 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
4221746 ATAACGATAT
4221756 TTTTA-TTTTTAA
1 TTTTATTTTTTAA
4221768 TTTT-TATTTTTAA
1 TTTTAT-TTTTTAA
4221781 TTTTATTTTTTAA
1 TTTTATTTTTTAA
4221794 T
1 T
4221795 AAAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.17
13 19 0.79
14 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:4230641 original size:20 final size:21
Alignment explanation
Indices: 4230590--4230641 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
4230580 TATGTAGTAA
*
4230590 ATAAAATTTTTATTAAATAAT
1 ATAAAATTATTATTAAATAAT
4230611 AT-AAATTATTATTTTAAATTAAT
1 ATAAAATTATTA--TTAAA-TAAT
4230634 -TAAAATTA
1 ATAAAATTA
4230642 ATATGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 6 0.23
23 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATTATTATTAAATAAT
Found at i:4230700 original size:22 final size:22
Alignment explanation
Indices: 4230675--4230739 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
4230665 TATTAATATA
4230675 AAATTTATAAAAAAAATTATTT
1 AAATTTATAAAAAAAATTATTT
* *
4230697 AAATATATAAGATAAAAA-T-TTA
1 AAATTTATAA-A-AAAAATTATTT
4230719 AAATTTA-AAAAAAAATTATTT
1 AAATTTATAAAAAAAATTATTT
4230740 TTTTTAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 4 0.11
22 17 0.49
23 2 0.06
24 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATTTATAAAAAAAATTATTT
Found at i:4230844 original size:18 final size:16
Alignment explanation
Indices: 4230823--4230857 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
4230813 AAATATTTAT
4230823 TAAATATGAATATGAAAA
1 TAAATAT-AATAT-AAAA
4230841 TAAATATAATATAAAA
1 TAAATATAATATAAAA
4230857 T
1 T
4230858 TTTGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAATATAATATAAAA
Found at i:4231263 original size:115 final size:115
Alignment explanation
Indices: 4231061--4231406 Score: 674
Period size: 115 Copynumber: 3.0 Consensus size: 115
4231051 TTTTCTAAAG
*
4231061 CAACTTCGACGAAAGGGGTAGTGCTTCCATTTGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
1 CAACTTCGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
4231126 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
66 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
*
4231176 CAACTTTGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
1 CAACTTCGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
4231241 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
66 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
4231291 CAACTTCGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
1 CAACTTCGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
4231356 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
66 AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
4231406 C
1 C
4231407 TCTCTTCCAA
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 228 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (115 bp):
CAACTTCGACGAAAGGGGTAGTGCTTCCATTGGACTTCTCTCCTTCGAGTCTATGGAAATCAGAA
AACGAAAAAAGCAGCAAAAATCCAATTGTCAAAGTGACTCCCTATCACAA
Found at i:4235596 original size:20 final size:24
Alignment explanation
Indices: 4235571--4235624 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4235561 CGATTCATGT
4235571 ATTTTTTT-T-TA-ATTATT-TAA
1 ATTTTTTTATATATATTATTATAA
4235591 ATTTTTTTATATATATTATTATAA
1 ATTTTTTTATATATATTATTATAA
*
4235615 ATTTTATTAT
1 ATTTTTTTAT
4235625 TAATATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 1 0.03
22 2 0.07
23 6 0.21
24 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTTTTATATATATTATTATAA
Found at i:4235621 original size:12 final size:12
Alignment explanation
Indices: 4235583--4235624 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4235573 TTTTTTTTAA
4235583 TTATT-TAAATT
1 TTATTATAAATT
* * *
4235594 TTTTTATATATA
1 TTATTATAAATT
4235606 TTATTATAAATT
1 TTATTATAAATT
4235618 TTATTAT
1 TTATTAT
4235625 TAATATTCAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATAAATT
Found at i:4237394 original size:18 final size:18
Alignment explanation
Indices: 4237371--4237413 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4237361 TGTCTAATAC
4237371 AAAATA-AAATAAAACAAA
1 AAAATATAAA-AAAACAAA
* *
4237389 AAAATATCAAAACACAAA
1 AAAATATAAAAAAACAAA
4237407 AAAATAT
1 AAAATAT
4237414 TTTTTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAATATAAAAAAACAAA
Found at i:4237400 original size:16 final size:14
Alignment explanation
Indices: 4237369--4237412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
4237359 TATGTCTAAT
4237369 ACAAAATAAAATAAA
1 ACAAAA-AAAATAAA
4237384 ACAAAAAAATATCAAA
1 ACAAAAAAA-AT-AAA
4237400 ACACAAAAAAATA
1 ACA-AAAAAAATA
4237413 TTTTTTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 8 0.31
17 6 0.23
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (14 bp):
ACAAAAAAAATAAA
Done.