Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 39 of 130
Found at i:9460937 original size:3 final size:3
Alignment explanation
Indices: 9460925--9461145 Score: 96
Period size: 3 Copynumber: 78.7 Consensus size: 3
9460915 CAACAACAAC
* * * * * * *
9460925 AAT AAC AAT AAT AAT AGT AGT AGT AGT AGT AAT AAT AAT -GT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
9460971 ACT -AT AAT AAT AAT -AT AAT -AT AAT AGT AAT AAT AAT AA- GAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
9461015 -AT AA- AAT AAT AAT AAC AAT AAT AAT AAT AA- AAT -AT AGT -AT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** * * *
9461058 AAT -GT AAT GAT AAT AA- AAT AAT ATAT CAT -AT TGT ACT AGT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
9461101 AAT AAT AA- AAT AAT ACT AAT ATT AAT AAC AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9461146 AAACAGAGTC
Statistics
Matches: 165, Mismatches: 36, Indels: 34
0.70 0.15 0.14
Matches are distributed among these distances:
2 26 0.16
3 137 0.83
4 2 0.01
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9461007 original size:46 final size:48
Alignment explanation
Indices: 9460925--9461043 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 48
9460915 CAACAACAAC
* * * * * * *
9460925 AATAACAATAATAATAGTAGTAGTAGTAGTAATAATAATG-TAATATAC
1 AATAATAATAACAATAATAATAATAGTAATAATAATAA-GATAATATAA
* * *
9460973 TATAATAATAA-TATAAT-ATAATAGTAATAATAATAAGATACTATAA
1 AATAATAATAACAATAATAATAATAGTAATAATAATAAGATAATATAA
9461019 AATAATAATAACAATAATAATAATA
1 AATAATAATAACAATAATAATAATA
9461044 AAATATAGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.02
46 32 0.56
47 9 0.16
48 15 0.26
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (48 bp):
AATAATAATAACAATAATAATAATAGTAATAATAATAAGATAATATAA
Found at i:9461033 original size:100 final size:102
Alignment explanation
Indices: 9460925--9461147 Score: 251
Period size: 100 Copynumber: 2.2 Consensus size: 102
9460915 CAACAACAAC
* * * * *
9460925 AATAACAATAATAATAGTAGTAGTAGTAGTAATAATAATGTAAT-ATACTATAATAATA-AT-AT
1 AATAACAATAATAATAATA-AAATA-TAGT-ATAATAATGTAATGATAATAAAATAATATATCAT
* * *
9460987 AATATAATAGTAATAATAATAAGATACTA-TAA-AATAAT
63 AATATAATAGTAACAATAATAAAATAATACTAATAATAAT
* *
9461025 AATAACAATAATAATAATAAAATATAGTATGATAATGTAATGATAATAAAATAATATATCATATT
1 AATAACAATAATAATAATAAAATATAGTATAATAATGTAATGATAATAAAATAATATATCATAAT
* * *
9461090 GTACTAGTAACAATAATAAAATAATACTAATATTAAT
66 ATAATAGTAACAATAATAAAATAATACTAATAATAAT
*
9461127 AACAA-AATAATAATAATAAAA
1 AATAACAATAATAATAATAAAA
9461148 ACAGAGTCTG
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
97 12 0.12
98 16 0.15
99 5 0.05
100 43 0.41
101 19 0.18
102 9 0.09
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (102 bp):
AATAACAATAATAATAATAAAATATAGTATAATAATGTAATGATAATAAAATAATATATCATAAT
ATAATAGTAACAATAATAAAATAATACTAATAATAAT
Found at i:9461092 original size:29 final size:29
Alignment explanation
Indices: 9461033--9461092 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
9461023 ATAATAACAA
*
9461033 TAATAATAATAAAATATAGTATGATAATG
1 TAATAATAATAAAATATAGTATCATAATG
* *
9461062 TAATGATAATAAAATAATA-TATCATATTG
1 TAATAATAATAAAAT-ATAGTATCATAATG
9461091 TA
1 TA
9461093 CTAGTAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (29 bp):
TAATAATAATAAAATATAGTATCATAATG
Found at i:9461117 original size:23 final size:23
Alignment explanation
Indices: 9461091--9461145 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9461081 TATCATATTG
* *
9461091 TACTAGTAACAATAATAAAATAA
1 TACTAATAACAATAACAAAATAA
**
9461114 TACTAATATTAATAACAAAATAA
1 TACTAATAACAATAACAAAATAA
*
9461137 TAATAATAA
1 TACTAATAA
9461146 AAACAGAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
TACTAATAACAATAACAAAATAA
Found at i:9461128 original size:20 final size:20
Alignment explanation
Indices: 9461103--9461141 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9461093 CTAGTAACAA
*
9461103 TAATAA-AATAATACTAATAT
1 TAATAACAA-AATAATAATAT
9461123 TAATAACAAAATAATAATA
1 TAATAACAAAATAATAATA
9461142 ATAAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATAACAAAATAATAATAT
Found at i:9461928 original size:47 final size:47
Alignment explanation
Indices: 9461850--9461939 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 47
9461840 GAATTGGGGC
** * * * *
9461850 TTTATAAATGTAATTTGTTAAGATGAGCTCTTTTATCGAACTAAACT
1 TTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTAAACT
* *
9461897 TTTATAAAAATAATTTGTCGAGATAACCTCTTTTGTCAAACTA
1 TTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTA
9461940 TTTTTTCAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (47 bp):
TTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTAAACT
Found at i:9462444 original size:138 final size:139
Alignment explanation
Indices: 9462196--9462473 Score: 522
Period size: 138 Copynumber: 2.0 Consensus size: 139
9462186 TTAAACAATG
**
9462196 GATGAGAAAGCAAAATTAAGTCATATTGTCTTCGGAAAGAATAGTAGAAGTTTAAAATATACATA
1 GATGAGAAAGCAAAATTAAGTCATATTGTCTAAGGAAAGAATAGTAGAAGTTTAAAATATACATA
9462261 AATAAATCAACAAGATAAATATGATTCCAAGGTTGCAACAGCTTTATGTTTGGT-AAAAAAAAAA
66 AATAAATCAACAAGATAAATATGATTCCAAGGTTGCAACAGCTTTATGTTTGGTAAAAAAAAAAA
9462325 ATTTATTCA
131 ATTTATTCA
9462334 GATGAGAAAGCAAAATTAAGTCATATTGTCTAAGGAAAGAATAGTAGAAGTTTAAAATATACATA
1 GATGAGAAAGCAAAATTAAGTCATATTGTCTAAGGAAAGAATAGTAGAAGTTTAAAATATACATA
9462399 AATAAATCAACAAGATAAATATGATTCCAAGGTTGCAACAGCTTTATGTTTGGTAAAAAAAAAAA
66 AATAAATCAACAAGATAAATATGATTCCAAGGTTGCAACAGCTTTATGTTTGGT-AAAAAAAAAA
9462464 AATTTATTCA
130 AATTTATTCA
9462474 CATAGGATCT
Statistics
Matches: 136, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
138 117 0.86
140 19 0.14
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.28
Consensus pattern (139 bp):
GATGAGAAAGCAAAATTAAGTCATATTGTCTAAGGAAAGAATAGTAGAAGTTTAAAATATACATA
AATAAATCAACAAGATAAATATGATTCCAAGGTTGCAACAGCTTTATGTTTGGTAAAAAAAAAAA
ATTTATTCA
Found at i:9465012 original size:16 final size:16
Alignment explanation
Indices: 9464987--9465023 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9464977 ACTAATCACT
9464987 AAAA-AGTGGAAAATC
1 AAAATAGTGGAAAATC
9465002 AAAATAGTGGAAAATC
1 AAAATAGTGGAAAATC
9465018 AAAATA
1 AAAATA
9465024 TATTGGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.62, C:0.05, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAATAGTGGAAAATC
Found at i:9465331 original size:22 final size:22
Alignment explanation
Indices: 9465303--9465344 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9465293 TGCATATTTA
*
9465303 TATTTGTATCTCTAGAATTATG
1 TATTTGTATCCCTAGAATTATG
9465325 TATTTGTATCCCTAGAATTA
1 TATTTGTATCCCTAGAATTA
9465345 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTATG
Found at i:9468245 original size:22 final size:22
Alignment explanation
Indices: 9468219--9468262 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9468209 TCTCTATTTA
* *
9468219 TATTTGTATCTCTAGAATTAAG
1 TATTTGTAACCCTAGAATTAAG
9468241 TATTTGTAACCCTAGAATTAAG
1 TATTTGTAACCCTAGAATTAAG
9468263 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGTAACCCTAGAATTAAG
Found at i:9475108 original size:26 final size:25
Alignment explanation
Indices: 9475060--9475108 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9475050 TCTCTTTTAT
* **
9475060 GTTTTTTTTCTTTTTTTTTTCTGCA
1 GTTTTTTTTCTATTTTTCATCTGCA
9475085 GTTTTTTTTCATATTTTTCATCTG
1 GTTTTTTTTC-TATTTTTCATCTG
9475109 TATTCTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (25 bp):
GTTTTTTTTCTATTTTTCATCTGCA
Found at i:9484309 original size:9 final size:9
Alignment explanation
Indices: 9484295--9484345 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
9484285 AAAGCAAACC
9484295 AAAAAAATGA
1 AAAAAAAT-A
9484305 AAAAAAATAA
1 AAAAAAAT-A
9484315 AAAAAAATA
1 AAAAAAATA
*
9484324 AGATAAAA-A
1 A-AAAAAATA
*
9484333 ATAAAAATA
1 AAAAAAATA
9484342 AAAA
1 AAAA
9484346 TAAAAAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 4 0.12
9 8 0.24
10 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:9484311 original size:13 final size:12
Alignment explanation
Indices: 9484304--9484352 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
9484294 CAAAAAAATG
9484304 AAAAAAAAT--A
1 AAAAAAAATAAA
*
9484314 AAAAAAAATAAG
1 AAAAAAAATAAA
*
9484326 ATAAAAAATAAA
1 AAAAAAAATAAA
*
9484338 AATAAAAATAAA
1 AAAAAAAATAAA
9484350 AAA
1 AAA
9484353 TGAAGGAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 9 0.29
12 22 0.71
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:9484316 original size:6 final size:6
Alignment explanation
Indices: 9484307--9484351 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
9484297 AAAAATGAAA
*
9484307 AAAAAT -AAAA- AAAAAT -AAGAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
9484352 ATGAAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
5 12 0.36
6 17 0.52
7 4 0.12
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:9485411 original size:49 final size:49
Alignment explanation
Indices: 9485302--9485414 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 49
9485292 AAGAAAAGAA
*
9485302 AAACAAGATTTTTAAAGTTTCAAAGCCTCTATTTAGGGAGAGCCATTTC
1 AAACAAGATTTTTAAAGTTTCAAAGCCTCTATTAAGGGAGAGCCATTTC
* * * * *
9485351 AAATAAGATTTTTAAAGTTTCAAATCCTTTGTTAAGGG-GAGCCATTTTT
1 AAACAAGATTTTTAAAGTTTCAAAGCCTCTATTAAGGGAGAGCCA-TTTC
*
9485400 AAACAACATTTTTAA
1 AAACAAGATTTTTAA
9485415 CCTCTATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 6 0.11
49 49 0.89
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (49 bp):
AAACAAGATTTTTAAAGTTTCAAAGCCTCTATTAAGGGAGAGCCATTTC
Found at i:9494688 original size:3 final size:3
Alignment explanation
Indices: 9494676--9494930 Score: 116
Period size: 3 Copynumber: 90.7 Consensus size: 3
9494666 CAACAACAAC
* * * * * * *
9494676 AAT AAC AAT AAT AAT AGT AGT AGT AGT AGT AAT AAT AAT -GT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9494722 ACT -AT AAT AAT AAT -AT AAT -AT AAT -AT AAT ATAT TAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * *
9494763 AAT AAT AAT AAT -AT AAT AGT AAT AAT AAT AA- GAT ACT -AT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
9494807 AAT AAT AAC AAT AAT AAT AA- AAA AAT -AT AGT -AT GAT AAT -GT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
9494851 GAT AAT AA- AAT AAT ATAT CAT ACT -GT ACT AGT AAC AAT AAT AA-
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
9494894 AAT AAT ACT AAT ATT AAT AAC AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9494931 AAACAGAGTC
Statistics
Matches: 191, Mismatches: 40, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
2 31 0.16
3 156 0.82
4 4 0.02
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9494713 original size:24 final size:22
Alignment explanation
Indices: 9494682--9494793 Score: 98
Period size: 20 Copynumber: 5.4 Consensus size: 22
9494672 CAACAATAAC
* *
9494682 AATAATAATAGTAGTAGTAGTAGT
1 AATAATAATAGTAATA-TACTA-T
9494706 AATAATAAT-GTAATATACTAT
1 AATAATAATAGTAATATACTAT
*
9494727 AATAATAATA-TAATATAATAT
1 AATAATAATAGTAATATACTAT
*
9494748 AAT-ATATTA-TAATATA--AT
1 AATAATAATAGTAATATACTAT
9494766 AATAATAATA-TAATAGTA--AT
1 AATAATAATAGTAATA-TACTAT
9494786 AATAATAA
1 AATAATAA
9494794 GATACTATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.06
19 10 0.12
20 24 0.30
21 23 0.29
22 4 0.05
23 5 0.06
24 9 0.11
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (22 bp):
AATAATAATAGTAATATACTAT
Found at i:9494739 original size:5 final size:5
Alignment explanation
Indices: 9494705--9494792 Score: 90
Period size: 5 Copynumber: 17.0 Consensus size: 5
9494695 GTAGTAGTAG
* * *
9494705 TAATAA TAATG TAATA TACTA TAATAA TAATA TAATA TAATA TAATA TATTA
1 TAAT-A TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA
9494757 TAATA T-A-A TAATAA TAATA TAATA GTAATAA TAATA
1 TAATA TAATA TAAT-A TAATA TAATA -TAAT-A TAATA
9494793 AGATACTATA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 43 0.61
6 22 0.31
7 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:9494803 original size:39 final size:40
Alignment explanation
Indices: 9494682--9494813 Score: 148
Period size: 39 Copynumber: 3.3 Consensus size: 40
9494672 CAACAATAAC
* * *
9494682 AATAATAATAGTAGTAGTAGTAGTAATAATAATG-TAATAT
1 AATAATAATAATA-TAATAGTAATAATAATAATGATAATAT
*
9494722 ACTATAATAATAATATAATA-TAAT-ATAATATATTATAATAT
1 A--ATAATAATAATATAATAGTAATAATAATA-ATGATAATAT
*
9494763 AATAATAATAATATAATAGTAATAATAATAA-GATACTAT
1 AATAATAATAATATAATAGTAATAATAATAATGATAATAT
9494802 AA-AATAATAATA
1 AATAATAATAATA
9494814 ACAATAATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
38 10 0.12
39 31 0.39
40 11 0.14
41 17 0.21
42 11 0.14
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (40 bp):
AATAATAATAATATAATAGTAATAATAATAATGATAATAT
Found at i:9494825 original size:39 final size:38
Alignment explanation
Indices: 9494705--9494932 Score: 175
Period size: 38 Copynumber: 6.0 Consensus size: 38
9494695 GTAGTAGTAG
* *
9494705 TAATAATAATGTAATATACTATAATAATAAT-ATAATA
1 TAATAATAATATAATATACTATAATAATAATAATAAAA
* * *
9494742 TAAT-ATAATATATTATAATATAATAATAATAATATAA
1 TAATAATAATATAATATACTATAATAATAATAATAAAA
* *
9494779 TAGTAATAATAATAAGATACTATAA-AATAATAATAACAA
1 TAATAATAAT-ATAATATACTATAATAATAATAATAA-AA
* * * * * *
9494818 TAATAATAAAAAAATATAGTATGATAAT-GTAATGATAA
1 TAATAATAATATAATATACTATAATAATAATAAT-AAAA
* *
9494856 TAA-AATAATAT-ATCATACTGTACTAGTAACAATAATAAAA
1 TAATAATAATATAAT-ATAC--TA-TAATAATAATAATAAAA
* *
9494896 TAATACTAATATTAATA-AC-AAAATAATAATAATAAAA
1 TAATAATAATA-TAATATACTATAATAATAATAATAAAA
9494933 ACAGAGTCTG
Statistics
Matches: 147, Mismatches: 30, Indels: 28
0.72 0.15 0.14
Matches are distributed among these distances:
36 25 0.17
37 34 0.23
38 35 0.24
39 27 0.18
40 10 0.07
41 12 0.08
42 2 0.01
43 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (38 bp):
TAATAATAATATAATATACTATAATAATAATAATAAAA
Found at i:9494857 original size:77 final size:76
Alignment explanation
Indices: 9494683--9494845 Score: 177
Period size: 77 Copynumber: 2.1 Consensus size: 76
9494673 AACAATAACA
* * * * *
9494683 ATAATAATAGTAGTAGTAGTAGTAATAATAATGTAATATACTATAATAATAATATAATATAATAT
1 ATAATAATAATAATA-TAATAGTAATAATAA-GTAAGATACTATAATAATAATATAAAATAATAT
* * *
9494748 AATATATTATAAT
64 AAAAAAATATAAT
9494761 ATAATAATAATAATATAATAGTAATAATAA-TAAGATACTATAA-AATAATAATAACAATAATAA
1 ATAATAATAATAATATAATAGTAATAATAAGTAAGATACTATAATAATAAT-ATAA-AATAAT-A
*
9494824 TAAAAAAATATAGT
63 TAAAAAAATATAAT
*
9494838 ATGATAAT
1 ATAATAAT
9494846 GTAATGATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
74 6 0.08
75 16 0.22
76 5 0.07
77 32 0.44
78 13 0.18
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (76 bp):
ATAATAATAATAATATAATAGTAATAATAAGTAAGATACTATAATAATAATATAAAATAATATAA
AAAAATATAAT
Found at i:9494902 original size:23 final size:23
Alignment explanation
Indices: 9494876--9494930 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9494866 TATCATACTG
* *
9494876 TACTAGTAACAATAATAAAATAA
1 TACTAATAACAATAACAAAATAA
**
9494899 TACTAATATTAATAACAAAATAA
1 TACTAATAACAATAACAAAATAA
*
9494922 TAATAATAA
1 TACTAATAA
9494931 AAACAGAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
TACTAATAACAATAACAAAATAA
Found at i:9495220 original size:29 final size:30
Alignment explanation
Indices: 9495188--9495339 Score: 80
Period size: 30 Copynumber: 5.1 Consensus size: 30
9495178 TTTAAAGTAT
* * *
9495188 TTTGGCCGAGTTGATCCTTTGTGAAA-GAA
1 TTTGGCCAAGTTAATCCTTTATGAAAGGAA
* *
9495217 TTTGGTCAAGTTAATTCTTTATGAAAGGAA
1 TTTGGCCAAGTTAATCCTTTATGAAAGGAA
** * * *
9495247 TTTAACTAAGCTAATCCTTTAT-AAAGGCAT
1 TTTGGCCAAGTTAATCCTTTATGAAAGG-AA
* * * *
9495277 TTTGACCTAGCTGAA-CCTTTAT-AAAGGTAT
1 TTTGGCCAAG-TTAATCCTTTATGAAAGG-AA
* * *
9495307 TTTGGCCTA-TCTAATCCTTGATGAAAGAAA
1 TTTGGCCAAGT-TAATCCTTTATGAAAGGAA
9495337 TTT
1 TTT
9495340 AACTGAGCTG
Statistics
Matches: 94, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
28 1 0.01
29 28 0.30
30 59 0.63
31 6 0.06
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (30 bp):
TTTGGCCAAGTTAATCCTTTATGAAAGGAA
Found at i:9495267 original size:30 final size:31
Alignment explanation
Indices: 9495228--9495362 Score: 86
Period size: 30 Copynumber: 4.5 Consensus size: 31
9495218 TTGGTCAAGT
*
9495228 TAATTCTTTATGAAAGG-AATTT-AACTAAGC
1 TAATCCTTTATGAAAGGCAATTTGAACT-AGC
* *
9495258 TAATCCTTTAT-AAAGGCATTTTGACCTAGC
1 TAATCCTTTATGAAAGGCAATTTGAACTAGC
* * ** *
9495288 TGAA-CCTTTAT-AAAGGTATTTTGGCCTATC
1 T-AATCCTTTATGAAAGGCAATTTGAACTAGC
* *
9495318 TAATCCTTGATGAAA-GAAATTT-AACTGAGC
1 TAATCCTTTATGAAAGGCAATTTGAACT-AGC
* *
9495348 TGATCATTTATGAAA
1 TAATCCTTTATGAAA
9495363 AAAATTTGGC
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
29 9 0.11
30 67 0.80
31 8 0.10
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (31 bp):
TAATCCTTTATGAAAGGCAATTTGAACTAGC
Found at i:9495533 original size:30 final size:30
Alignment explanation
Indices: 9495389--9495535 Score: 89
Period size: 30 Copynumber: 4.9 Consensus size: 30
9495379 GTTCATTTTT
* * * *
9495389 AAGGAAATTTGGTCCAATTAAGCCTTTATA
1 AAGGAAATTTGGTCAAACTAATCTTTTATA
** ** * ** *
9495419 AATAAAATTTGGTTGAGCTAATAGTTAATGA
1 AAGGAAATTTGGTCAAACTAATCTTTTAT-A
* * *
9495450 AA-GAAATTTGGTCGAGCTAAGCTTTTATA
1 AAGGAAATTTGGTCAAACTAATCTTTTATA
* * * *
9495479 AATGTATTTTGGTCAAACTGATCTTTTATA
1 AAGGAAATTTGGTCAAACTAATCTTTTATA
* *
9495509 AAGGAAATTTCGTCTAACTAATCTTTT
1 AAGGAAATTTGGTCAAACTAATCTTTT
9495536 TGTGAAAAAT
Statistics
Matches: 87, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
29 3 0.03
30 81 0.93
31 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (30 bp):
AAGGAAATTTGGTCAAACTAATCTTTTATA
Found at i:9495712 original size:47 final size:47
Alignment explanation
Indices: 9495633--9495723 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
9495623 TGAATTGGGG
** * * * *
9495633 CTTTATAAATGTAATTTGTTAAGATGAGCTCTTTTATCGAACTAAAC
1 CTTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTAAAC
* *
9495680 CTTTATAAAAATAATTTGTCGAGATAACCTCTTTTGTCAAACTA
1 CTTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTA
9495724 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (47 bp):
CTTTATAAAAATAATTTGTCAAGATAACCTCTTTTATCAAACTAAAC
Found at i:9498944 original size:22 final size:22
Alignment explanation
Indices: 9498919--9498960 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9498909 TACATATTTA
*
9498919 TATTTGTATCTCTAGAATTATG
1 TATTTGTATCCCTAGAATTATG
9498941 TATTTGTATCCCTAGAATTA
1 TATTTGTATCCCTAGAATTA
9498961 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTATG
Found at i:9501829 original size:22 final size:22
Alignment explanation
Indices: 9501801--9501844 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9501791 TCTATATTTA
* *
9501801 TATTTGTATCTCTAGAATTAAG
1 TATTTGTAACCCTAGAATTAAG
9501823 TATTTGTAACCCTAGAATTAAG
1 TATTTGTAACCCTAGAATTAAG
9501845 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGTAACCCTAGAATTAAG
Found at i:9505602 original size:7 final size:7
Alignment explanation
Indices: 9505590--9505628 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
9505580 GAAAAATACA
9505590 AAGAGGG
1 AAGAGGG
9505597 AAGAGGG
1 AAGAGGG
9505604 AAGAGGG
1 AAGAGGG
9505611 AAGAGGG
1 AAGAGGG
9505618 -AGAGAGG
1 AAGAG-GG
9505625 AAGA
1 AAGA
9505629 AAGTGACAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 4 0.13
7 23 0.77
8 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (7 bp):
AAGAGGG
Found at i:9508708 original size:26 final size:25
Alignment explanation
Indices: 9508660--9508708 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9508650 TCTCTTTTAT
* **
9508660 GTTTTTTTTCTTTTTTTTTTCTGCA
1 GTTTTTTTTCTATTTTTCATCTGCA
9508685 GTTTTTTTTCATATTTTTCATCTG
1 GTTTTTTTTC-TATTTTTCATCTG
9508709 TATTCTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (25 bp):
GTTTTTTTTCTATTTTTCATCTGCA
Found at i:9520166 original size:16 final size:16
Alignment explanation
Indices: 9520142--9520176 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9520132 ATATAAGCTC
*
9520142 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
*
9520158 ATACTAATTGTTAAAG
1 ATACCAATTGTTAAAG
9520174 ATA
1 ATA
9520177 TATCATCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:9520518 original size:11 final size:11
Alignment explanation
Indices: 9520502--9520534 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
9520492 GCTATCTTAT
9520502 CCAAAAACTCA
1 CCAAAAACTCA
9520513 CCAAAAACTCA
1 CCAAAAACTCA
9520524 CCAAAAACTCA
1 CCAAAAACTCA
9520535 TATGTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.09
Consensus pattern (11 bp):
CCAAAAACTCA
Found at i:9520939 original size:19 final size:19
Alignment explanation
Indices: 9520912--9520948 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9520902 TATCCATGTT
9520912 CAAAGATTCATGCATTAAC
1 CAAAGATTCATGCATTAAC
*
9520931 CAAATATTCATGCATTAA
1 CAAAGATTCATGCATTAA
9520949 AACTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (19 bp):
CAAAGATTCATGCATTAAC
Found at i:9529968 original size:130 final size:132
Alignment explanation
Indices: 9529763--9530018 Score: 419
Period size: 130 Copynumber: 2.0 Consensus size: 132
9529753 TTATTCTATC
*
9529763 TCTTCCCTCTTTCTTTTAACTGAGCTCTTAGCTTTTTTGTTTTCTAAATGCAAATCCTTAAGGTC
1 TCTTCCCTCTTTCTTTTAACTGAGCTCTTAGCTCTTTTGTTTTCTAAATGCAAATCCTTAAGGTC
**
9529828 ATCTCTAGCCACATCTCTTTCCTTTACAACTTTTTCAAACTTGTCTTTCTACATATGTTCCTTAA
66 ATCTAGAGCCACATCTCTTTCCTTTACAACTTTTTCAAACTTGTCTTTCTACATATGTTCCTTAA
9529893 GG
131 GG
* *
9529895 TCTTCCTTCTTTCTTTTAATTGAGCTCTTAGC-CTTTT-TTTTCTAAATGCAAATCCTTCAA-GT
1 TCTTCCCTCTTTCTTTTAACTGAGCTCTTAGCTCTTTTGTTTTCTAAATGCAAATCCTT-AAGGT
* *
9529957 CATCTAGAGCCACATCTCTTTTCTTTACAACTTTTTCAAACTTGTCTTTCTGCATATGTTCC
65 CATCTAGAGCCACATCTCTTTCCTTTACAACTTTTTCAAACTTGTCTTTCTACATATGTTCC
9530019 CTGTACCTCA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
130 80 0.69
131 6 0.05
132 30 0.26
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (132 bp):
TCTTCCCTCTTTCTTTTAACTGAGCTCTTAGCTCTTTTGTTTTCTAAATGCAAATCCTTAAGGTC
ATCTAGAGCCACATCTCTTTCCTTTACAACTTTTTCAAACTTGTCTTTCTACATATGTTCCTTAA
GG
Found at i:9533327 original size:11 final size:11
Alignment explanation
Indices: 9533311--9533347 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
9533301 TCCTTTATCT
9533311 TTTTTTATTGA
1 TTTTTTATTGA
9533322 TTTTTTATTGA
1 TTTTTTATTGA
9533333 TTTTTT-TT-A
1 TTTTTTATTGA
9533342 TTTTTT
1 TTTTTT
9533348 TGCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTTATTGA
Found at i:9544604 original size:126 final size:122
Alignment explanation
Indices: 9544403--9544635 Score: 297
Period size: 126 Copynumber: 1.9 Consensus size: 122
9544393 ATTTTTGGGA
** * * *
9544403 TTATTAAAGGATCTTCTATAGAAAATGCCTTTAATATTACACTACTAAAATTTTAGAGGTTATTG
1 TTATTAAAGGATCTTCTATAGAAAACACCTTCAATATTACACTACTAAAATTTTAAAGGTTACTG
* * *
9544468 AAGGCGTTTATTCTAGAAAAATGCCTTGAGTAATTCATTTTATTTTTTTGAAGGAAT
66 AAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCATTTTATTTTTTTGAAGGAAT
* * *
9544525 TTATTAAAGGCATCTTCTAGT-GCAAAACACCTTCAATATTCCACTGCTCAAATTTTAAAATGGT
1 TTATTAAAGG-ATCTTCTA-TAG-AAAACACCTTCAATATTACACTACTAAAATTTT-AAA-GGT
* *
9544589 TACTGAAGGCATTTATTGTAGAAAAATGCCTTCACTAATTCCTTTTA
61 TACTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCATTTTA
9544636 ATTTATGTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 10 0.11
123 9 0.10
124 28 0.30
125 2 0.02
126 44 0.47
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (122 bp):
TTATTAAAGGATCTTCTATAGAAAACACCTTCAATATTACACTACTAAAATTTTAAAGGTTACTG
AAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCATTTTATTTTTTTGAAGGAAT
Found at i:9545026 original size:187 final size:186
Alignment explanation
Indices: 9544525--9545480 Score: 966
Period size: 187 Copynumber: 5.1 Consensus size: 186
9544515 TTGAAGGAAT
* ** * * * *
9544525 TTATTAAAGGCATCTTCTAGTGCA-AAACACCTTCAATATTCC-ACTGCTCAAATTTTAAAATGG
1 TTATTAAAGGCGTCTTCTAGTAAACAAACGCCTTCAATATACCGA-TACTCAAATTTTAAGATGG
* * *
9544588 TTACTGAAGGCATTTATTGTAGAAAAATGCCTTCACTAATTCCTTTT-AATTTATGTACATAATT
65 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT-CTTTTAAATTT-TGTACATAATT
* * **** *
9544652 ATTGTAGGTGTTTTTTGAGAACAAACATATTCAATAATTTCTTTTTAAAATTTTTG-GTA
128 ATTGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTCTTTTAAAAATTTTTGAG-A
* * * *
9544711 TTATTAAAGGCGTCTT-TCAGT-GACAAACGCCTTCAATATTCC-ACTAATTAAATTTTAAGATG
1 TTATTAAAGGCGTCTTCT-AGTAAACAAACGCCTTCAATATACCGA-TACTCAAATTTTAAGATG
* * *
9544773 GTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTGATTCCATTT-AATTTATGTACATAAT
64 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT-CTTTTAAATTT-TGTACATAAT
* *
9544837 TATTGAAGGCATTTTTTTAGAACAAATGCCTTCAATAATTTCATTTTAAAAATTTTTGAGA
127 TATTGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTC-TTTTAAAAATTTTTGAGA
* * *
9544898 TTATTAAAGACGTCTTCTAGTAAAC-AATGCTTTCAATATACCGATACTCAAATTTTAAGATGGT
1 TTATTAAAGGCGTCTTCTAGTAAACAAACGCCTTCAATATACCGATACTCAAATTTTAAGATGGT
* * * * *
9544962 TAGTGAAGGCGTTTATTCCAGAAAAATACCTTCAATAATTCTTTTAAAATTTTATACCTAATTAT
66 TAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTT-AAATTTTGTACATAATTAT
* * *
9545027 TGAAGGTATTTTTTGATAGCCAATGCCTTCAATAATTTCTTTCTAAAAATTTTT-AGAA
130 TGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTCTTT-TAAAAATTTTTGAG-A
* * * ** * * * * **
9545085 TTATTAAAGGCATCTTCTAGTGAA-AAATGTATTTAATATACTGTTACTTAAATTTTAAGACAGT
1 TTATTAAAGGCGTCTTCTAGTAAACAAACGCCTTCAATATACCGATACTCAAATTTTAAGATGGT
* * * * * * *
9545149 TAGTGAACGTGTTTATTCCAAAAAAATGCATTTAAC-AATTTTTTTAAAATTTTGTACATAATTA
66 TAGTGAAGGCGTTTATTCTAGAAAAATGC-CTTCACTAATTCTTTT-AAATTTTGTACATAATTA
* * * *
9545213 TTGAAAGTATTTTTTGATAACAAATGCCTTCAATTATTTTCTTTTAAAAAATTTTGAGA
129 TTGAAGGTATTTTTTGAGAACAAATGCCTTCAA-TAATTTCTTTTAAAAATTTTTGAGA
* ** * * * *
9545272 TTATTAAAAGCGTCTTCTA-TTGACAAACACCTTCAATATACCAATACTCAAAATTTAAGATGAT
1 TTATTAAAGGCGTCTTCTAGTAAACAAACGCCTTCAATATACCGATACTCAAATTTTAAGATGGT
* * * *
9545336 TAGTAAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTTGTTTTAATTTTTGTACATAATTAT
66 TAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAA-TTCTTTTAAATTTTGTACATAATTAT
* * * * *
9545401 TGAAGGTAATTTTTGAGTACAAATGCCTTCAATAATTTCCTTTAAAAAAATTTTGGGA
130 TGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTT-CTTTTAAAAATTTTTGAGA
* * *
9545459 TCAATAAAGGCGTCTTTTAGTA
1 TTATTAAAGGCGTCTTCTAGTA
9545481 TAAAACACCT
Statistics
Matches: 645, Mismatches: 105, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
185 2 0.00
186 165 0.26
187 447 0.69
188 31 0.05
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (186 bp):
TTATTAAAGGCGTCTTCTAGTAAACAAACGCCTTCAATATACCGATACTCAAATTTTAAGATGGT
TAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCTTTTAAATTTTGTACATAATTATT
GAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTCTTTTAAAAATTTTTGAGA
Found at i:9545496 original size:374 final size:372
Alignment explanation
Indices: 9544525--9545496 Score: 1071
Period size: 374 Copynumber: 2.6 Consensus size: 372
9544515 TTGAAGGAAT
* * * * * *
9544525 TTATTAAAGGCATCTTCTAGTG-CAAAACACCTTCAATATTCCACTGCTCAAATTTTAAAATGGT
1 TTATTAAAAGCGTCTTCTAGTGAC-AAACACCTTCAATATACCAATACTCAAATTTTAAGATGGT
* * * * * *
9544589 TACTGAAGGCATTTATTGTAGAAAAATGCCTTCACTAATTCCTTTTAATTTATGTACATAATTAT
65 TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATT-TTTTTAATTTTTGTACATAATTAT
* * * **** * *
9544654 TGTAGGTGTTTTTTGAGAACAAACATATTCAATAATTTCTTTTTAAAATTTTTGGTATTATTAAA
129 TGAAGGTATTTTTTGAGTACAAATGCCTTCAATAATTTCTTTTAAAAATTTTTGGAATTATTAAA
* * * * ** *
9544719 GGCGTCTTTCAGTGACAAACGCCTTCAATATTCCACTAATTAAATTTTAAGATGGTTAGTGAAGG
194 GGCGTCTTTTAGTGAAAAACGCCTTTAATATACCACTAATTAAATTTTAAGACAGTTAGTGAACG
* * * * *
9544784 CATTTATTCTAGAAAAATGCCTTCACTGATTCCATTTAATTTATGTACATAATTATTGAAGGCAT
259 CATTTATTCCAAAAAAATGCCTTAACTAATTCCATTTAATTTATGTACATAATTATTGAAAGCAT
* *
9544849 TTTTTTAGAACAAATGCCTTCAATAATTTCATTTTAAAAATTTTTGAGA
324 TTTTTGAGAACAAATGCCTTCAATAATTTCATTTTAAAAAATTTTGAGA
* ** * *
9544898 TTATT-AAAGACGTCTTCTAGT-AAACAATGCTTTCAATATACCGATACTCAAATTTTAAGATGG
1 TTATTAAAAG-CGTCTTCTAGTGACA-AACACCTTCAATATACCAATACTCAAATTTTAAGATGG
* * * * * *
9544961 TTAGTGAAGGCGTTTATTCCAGAAAAATACCTTCAATAATTCTTTTAAAATTTTATACCTAATTA
64 TTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATT-TTTTTAATTTTTGTACATAATTA
* *
9545026 TTGAAGGTATTTTTTGA-TAGCCAATGCCTTCAATAATTTCTTTCTAAAAATTTTTAGAATTATT
128 TTGAAGGTATTTTTTGAGTA-CAAATGCCTTCAATAATTTCTTT-TAAAAATTTTTGGAATTATT
* * * ** *** *
9545090 AAAGGCATCTTCTAGTGAAAAATGTATTTAATATACTGTTACTTAAATTTTAAGACAGTTAGTGA
191 AAAGGCGTCTTTTAGTGAAAAACGCCTTTAATATACCACTAATTAAATTTTAAGACAGTTAGTGA
** * **
9545155 ACGTGTTTATTCCAAAAAAATGCATTTAAC-AATT-TTTTTAAAATTT-TGTACATAATTATTGA
256 ACGCATTTATTCCAAAAAAATGC-CTTAACTAATTCCATTT--AATTTATGTACATAATTATTGA
* * *
9545217 AAGTATTTTTTGATAACAAATGCCTTCAATTATTTTC-TTTTAAAAAATTTTGAGA
318 AAGCATTTTTTGAGAACAAATGCCTTCAA-TAATTTCATTTTAAAAAATTTTGAGA
* * *
9545272 TTATTAAAAGCGTCTTCTATTGACAAACACCTTCAATATACCAATACTCAAAATTTAAGATGATT
1 TTATTAAAAGCGTCTTCTAGTGACAAACACCTTCAATATACCAATACTCAAATTTTAAGATGGTT
*
9545337 AGTAAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTTGTTTTAATTTTTGTACATAATTATT
66 AGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTT-TTTTAATTTTTGTACATAATTATT
* * * * * *
9545402 GAAGGTAATTTTTGAGTACAAATGCCTTCAATAATTTCCTTTAAAAAAATTTTGGGATCAATAAA
130 GAAGGTATTTTTTGAGTACAAATGCCTTCAATAATTT-CTTTTAAAAATTTTTGGAATTATTAAA
*
9545467 GGCGTCTTTTAGT-ATAAAACACCTTTAATA
194 GGCGTCTTTTAGTGA-AAAACGCCTTTAATA
9545497 ATGTTAATGG
Statistics
Matches: 490, Mismatches: 94, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
372 5 0.01
373 136 0.28
374 322 0.66
375 27 0.06
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (372 bp):
TTATTAAAAGCGTCTTCTAGTGACAAACACCTTCAATATACCAATACTCAAATTTTAAGATGGTT
AGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTTTTTTAATTTTTGTACATAATTATTG
AAGGTATTTTTTGAGTACAAATGCCTTCAATAATTTCTTTTAAAAATTTTTGGAATTATTAAAGG
CGTCTTTTAGTGAAAAACGCCTTTAATATACCACTAATTAAATTTTAAGACAGTTAGTGAACGCA
TTTATTCCAAAAAAATGCCTTAACTAATTCCATTTAATTTATGTACATAATTATTGAAAGCATTT
TTTGAGAACAAATGCCTTCAATAATTTCATTTTAAAAAATTTTGAGA
Found at i:9546227 original size:12 final size:12
Alignment explanation
Indices: 9546210--9546256 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
9546200 TATGATATTG
9546210 GTATGCTGAATT
1 GTATGCTGAATT
*
9546222 GTATGCTAAATT
1 GTATGCTGAATT
* *
9546234 GTATGTTGAATC
1 GTATGCTGAATT
9546246 GTATGCTGAAT
1 GTATGCTGAAT
9546257 CATATGCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (12 bp):
GTATGCTGAATT
Found at i:9546257 original size:12 final size:12
Alignment explanation
Indices: 9546210--9546264 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
9546200 TATGATATTG
*
9546210 GTATGCTGAATT
1 GTATGCTGAATC
* *
9546222 GTATGCTAAATT
1 GTATGCTGAATC
*
9546234 GTATGTTGAATC
1 GTATGCTGAATC
9546246 GTATGCTGAATC
1 GTATGCTGAATC
*
9546258 ATATGCT
1 GTATGCT
9546265 AAATGATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (12 bp):
GTATGCTGAATC
Found at i:9546276 original size:12 final size:12
Alignment explanation
Indices: 9546261--9546304 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
9546251 CTGAATCATA
*
9546261 TGCTAAATGATT
1 TGCTAAATGGTT
9546273 TGCTAAATGGTGT
1 TGCTAAATGGT-T
* *
9546286 TTCTGAATGGTT
1 TGCTAAATGGTT
9546298 TGCTAAA
1 TGCTAAA
9546305 AGGTGTGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (12 bp):
TGCTAAATGGTT
Found at i:9549819 original size:125 final size:123
Alignment explanation
Indices: 9549686--9549916 Score: 288
Period size: 124 Copynumber: 1.9 Consensus size: 123
9549676 ACTAAAATTG
* ** * *
9549686 CCTTTAATAAT-CCCACTAAAAAAAATATTGTATTGAATATTAAAGGCG-TTTTGAGCAAAAAAG
1 CCTTTAATAATGCCAACTAAAAAAAA-ATTAAATGGAATATTAAAGGCGCTTTCGA-C-AAAAAG
*
9549749 GCCTTCAAGAATCTATTCTA-ACTTTTTTGTATGGATTATTGAAGGTATTTTAAAAAAAACCA
63 GCCTTCAAGAATCTATTCCATA-TTTTTTGTATGGATTATT-AAGGTATTTTAAAAAAAACCA
** * * *
9549811 CCTTTAATAATGCCAACTAAAAATTAATTAAATGGATTATTGAAGGCGCTTTCGACAAAAATGCC
1 CCTTTAATAATGCCAACTAAAAAAAAATTAAATGGAATATTAAAGGCGCTTTCGACAAAAAGGCC
*
9549876 TTCAATAATCTATTCCATATTTTTTGTATGGATTATTAAGG
66 TTCAAGAATCTATTCCATATTTTTTGTATGGATTATTAAGG
9549917 GCATTTTTCT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
123 4 0.04
124 41 0.45
125 30 0.33
126 16 0.18
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (123 bp):
CCTTTAATAATGCCAACTAAAAAAAAATTAAATGGAATATTAAAGGCGCTTTCGACAAAAAGGCC
TTCAAGAATCTATTCCATATTTTTTGTATGGATTATTAAGGTATTTTAAAAAAAACCA
Found at i:9561624 original size:29 final size:29
Alignment explanation
Indices: 9561587--9561644 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
9561577 AAAAAAAGAG
* *
9561587 AGGAAAAAGCAAGAAA-AAAGAAAGGAAAA
1 AGGAAAAAG-AAAAAAGAAAAAAAGGAAAA
9561616 AGGAAAAAGAAAAAAGAAAAAAAGGAAAA
1 AGGAAAAAGAAAAAAGAAAAAAAGGAAAA
9561645 TGTTTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (29 bp):
AGGAAAAAGAAAAAAGAAAAAAAGGAAAA
Found at i:9561627 original size:13 final size:13
Alignment explanation
Indices: 9561597--9561636 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
9561587 AGGAAAAAGC
9561597 AAGAAAAAAG-AA
1 AAGAAAAAAGAAA
* *
9561609 AGGAAAAAGGAAA
1 AAGAAAAAAGAAA
9561622 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
9561635 AA
1 AA
9561637 AAGGAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:9561629 original size:14 final size:15
Alignment explanation
Indices: 9561602--9561644 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9561592 AAAGCAAGAA
9561602 AAAAGAAAGGAAAAAG
1 AAAA-AAAGGAAAAAG
* *
9561618 -GAAAAAGAAAAAAG
1 AAAAAAAGGAAAAAG
9561632 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
9561645 TGTTTTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAGGAAAAAG
Found at i:9561637 original size:22 final size:24
Alignment explanation
Indices: 9561597--9561644 Score: 73
Period size: 22 Copynumber: 2.0 Consensus size: 24
9561587 AGGAAAAAGC
9561597 AAGAAAAAAGAAAGGAAAAAGGAAA
1 AAGAAAAAAGAAA-GAAAAAGGAAA
9561622 AAGAAAAAAG-AA-AAAAAGGAAA
1 AAGAAAAAAGAAAGAAAAAGGAAA
9561644 A
1 A
9561645 TGTTTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.48
24 2 0.09
25 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAGAAAAAAGAAAGAAAAAGGAAA
Found at i:9562812 original size:10 final size:9
Alignment explanation
Indices: 9562793--9562835 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
9562783 GAATCCACTC
9562793 AATGAAAAA
1 AATGAAAAA
*
9562802 AATTAAAAA
1 AATGAAAAA
9562811 AATGAAAAA
1 AATGAAAAA
9562820 AATGAATAAA
1 AATGAA-AAA
9562830 AA-GAAA
1 AATGAAA
9562836 GAAAGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 1 0.03
9 25 0.81
10 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (9 bp):
AATGAAAAA
Found at i:9562816 original size:18 final size:19
Alignment explanation
Indices: 9562793--9562855 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
9562783 GAATCCACTC
*
9562793 AATGAAAAAAATTAA-AAA
1 AATGAAAAAAATGAATAAA
9562811 AATGAAAAAAATGAATAAA
1 AATGAAAAAAATGAATAAA
*
9562830 AA-GAAAGAAA-GAATAACA
1 AATGAAAAAAATGAATAA-A
*
9562848 AAGGAAAA
1 AATGAAAA
9562856 GAAAGAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.15
18 24 0.62
19 9 0.23
ACGTcount: A:0.75, C:0.02, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGAAAAAAATGAATAAA
Found at i:9562858 original size:20 final size:18
Alignment explanation
Indices: 9562808--9562877 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
9562798 AAAAAATTAA
9562808 AAAAATGAAAA-AAATGAAT
1 AAAAA-GAAAAGAAA-GAAT
9562827 AAAAAG-AAAGAAAGAAT
1 AAAAAGAAAAGAAAGAAT
9562844 AACAAAGGAAAAGAAAGAA-
1 AA-AAA-GAAAAGAAAGAAT
*
9562863 AAGAAAGAGAAGAAA
1 AA-AAAGAAAAGAAA
9562878 AGAAGTGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.20
18 15 0.33
19 11 0.24
20 10 0.22
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAAGAAAGAAT
Found at i:9562865 original size:9 final size:9
Alignment explanation
Indices: 9562829--9562877 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
9562819 AAATGAATAA
9562829 AAAG-AAAG
1 AAAGAAAAG
*
9562837 AAAGAATAAC
1 AAAGAA-AAG
9562847 AAAGGAAAAG
1 AAA-GAAAAG
9562857 AAAGAAAAG
1 AAAGAAAAG
*
9562866 AAAGAGAAG
1 AAAGAAAAG
9562875 AAA
1 AAA
9562878 AGAAGTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 4 0.11
9 18 0.51
10 10 0.29
11 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:9563919 original size:73 final size:73
Alignment explanation
Indices: 9563839--9564302 Score: 256
Period size: 72 Copynumber: 6.4 Consensus size: 73
9563829 TATTCTCTAA
* * *
9563839 TTACGGTATTGTCTCAG-TCATTTTTTAATTACTTGACTTATGGTTCAATCTCGATTGTTCTTTA
1 TTACGGTATTGTCTCAGATCATTCTTT-ATTACTTGACTCATGGTTCAATCTCGATCGTTCTTTA
**
9563903 TTTTTTGAC
65 TTTTTCAAC
* * * * ** ** * * *
9563912 TTACGGTATCGTC-CTGATCATGCTTTTATTACTTAACTTGTTATTCAATCTTGGTCGCTCTTTA
1 TTACGGTATTGTCTCAGATCATTC-TTTATTACTTGACTCATGGTTCAATCTCGATCGTTCTTTA
*
9563976 TTTTCCAAC
65 TTTTTCAAC
* * * *
9563985 TTA-GAGTGTTGTCACAG-TCATTCTTTATTGCTTGACTCATGGTTCAATCTCAATCGTTCTTTA
1 TTACG-GTATTGTCTCAGATCATTCTTTATTACTTGACTCATGGTTCAATCTCGATCGTTCTTTA
*
9564048 TTTTTCGAC
65 TTTTTCAAC
* * * * * * * *
9564057 TTATGGTGTTGTCTC-GATCGTTCTGTAATTACTTGACCCATGGTTTTAATCTTGATTGTTCTTT
1 TTACGGTATTGTCTCAGATCATTCT-TTATTACTTGACTCATGG-TTCAATCTCGATCGTTCTTT
*
9564121 ATTTTTTAAC
64 ATTTTTCAAC
** *
9564131 TTGCAATGTCATT-T-T-AG-TCATTCTTTATTACTTGACT-A-GCAGTTCAATCTC-AGTCATT
1 TT--ACGGT-ATTGTCTCAGATCATTCTTTATTACTTGACTCATG--GTTCAATCTCGA-TCGTT
* *
9564189 CTTTATTTTACAAT
60 CTTTATTTTTCAAC
* ** * * * ** * *
9564203 TTGCGGTATCATC-CCGTTCGTTCTTTATTACTTGACTTGTGGTTCAATC-CGGTTGTTCTTTAT
1 TTACGGTATTGTCTCAGATCATTCTTTATTACTTGACTCATGGTTCAATCTCGATCGTTCTTTAT
*
9564266 TTTTCGAC
66 TTTTCAAC
* * * * *
9564274 TTGCGATGTTATCTC-GATCATTTTTTATT
1 TTACGGTATTGTCTCAGATCATTCTTTATT
9564303 TTTTAACTTT
Statistics
Matches: 294, Mismatches: 74, Indels: 48
0.71 0.18 0.12
Matches are distributed among these distances:
69 2 0.01
70 3 0.01
71 40 0.14
72 110 0.37
73 93 0.32
74 38 0.13
75 2 0.01
76 4 0.01
77 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (73 bp):
TTACGGTATTGTCTCAGATCATTCTTTATTACTTGACTCATGGTTCAATCTCGATCGTTCTTTAT
TTTTCAAC
Found at i:9564275 original size:35 final size:36
Alignment explanation
Indices: 9564187--9564278 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 36
9564177 ATCTCAGTCA
* * *
9564187 TTCTTTATTTTACAATTTGCGGTATCATCCCGTTCG
1 TTCTTTATTTTTCGACTTGCGGTATCATCCCGTTCG
* * *
9564223 TTCTTTATTACTT-GACTTGTGGT-TCAATCCGGTT-G
1 TTCTTTATT-TTTCGACTTGCGGTATC-ATCCCGTTCG
9564258 TTCTTTATTTTTCGACTTGCG
1 TTCTTTATTTTTCGACTTGCG
9564279 ATGTTATCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
34 2 0.04
35 19 0.42
36 23 0.51
37 1 0.02
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.50
Consensus pattern (36 bp):
TTCTTTATTTTTCGACTTGCGGTATCATCCCGTTCG
Found at i:9566622 original size:3 final size:3
Alignment explanation
Indices: 9566614--9566648 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9566604 CATTTTCGAT
9566614 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9566649 CAAATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9566851 original size:26 final size:26
Alignment explanation
Indices: 9566816--9566874 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
9566806 AAAATAAAAG
*
9566816 ATAAATAAAGAATAATA-ATAAATTTT
1 ATAAATAAAG-ATAATATATAAATATT
9566842 AATAAA-AAAGATAATATATAAATATT
1 -ATAAATAAAGATAATATATAAATATT
9566868 ATAAATA
1 ATAAATA
9566875 TTAATTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.38
26 13 0.45
27 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAAATAAAGATAATATATAAATATT
Found at i:9566879 original size:35 final size:36
Alignment explanation
Indices: 9566811--9566879 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
9566801 ATAAAAAAAT
*
9566811 AAAAGATAAATAAAGAATAATAATAAATTTTAATAA
1 AAAAGATAAATAAAGAATAATAATAAATATTAATAA
* *
9566847 AAAAGATAATATATA-AAT-ATTATAAATATTAAT
1 AAAAGATAA-ATAAAGAATAATAATAAATATTAAT
9566880 TTTTGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 13 0.45
36 12 0.41
37 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (36 bp):
AAAAGATAAATAAAGAATAATAATAAATATTAATAA
Found at i:9567001 original size:12 final size:12
Alignment explanation
Indices: 9566965--9567035 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
9566955 TCTGTAAAAT
9566965 CCTAAATTGAAAC
1 CCTAAATT-AAAC
*
9566978 CCT-CATTAAAAC
1 CCTAAATT-AAAC
9566990 CCTAAATTAAAC
1 CCTAAATTAAAC
* *
9567002 CGTAAATCGAAAC
1 CCTAAAT-TAAAC
* *
9567015 TCTAAAATTAAAA
1 CCT-AAATTAAAC
9567028 CCTAAATT
1 CCTAAATT
9567036 GAAGCCTTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
12 25 0.56
13 16 0.36
14 4 0.09
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (12 bp):
CCTAAATTAAAC
Found at i:9567096 original size:26 final size:26
Alignment explanation
Indices: 9567061--9567132 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
9567051 AACTTAATTA
* *
9567061 AAACCTTAAATAAAACCCTAAGGTTG
1 AAACATTAAATAAAACCCTAAGGTCG
*
9567087 AAAC-TCTAAATAAAACCCCAAGGTCG
1 AAACAT-TAAATAAAACCCTAAGGTCG
9567113 AAACATTAAAT--AACCCTAAG
1 AAACATTAAATAAAACCCTAAG
9567133 ATCAAAACCC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.20
25 1 0.02
26 31 0.76
27 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (26 bp):
AAACATTAAATAAAACCCTAAGGTCG
Found at i:9567424 original size:11 final size:10
Alignment explanation
Indices: 9567408--9567442 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9567398 AATAAAGATA
9567408 AAAAAATAAT
1 AAAAAATAAT
9567418 AATAAAATAAT
1 AA-AAAATAAT
*
9567429 AAGAAATAAT
1 AAAAAATAAT
9567439 AAAA
1 AAAA
9567443 TGAGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:9578380 original size:18 final size:18
Alignment explanation
Indices: 9578352--9578415 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
9578342 AATAAAATGT
9578352 AAATAGAACTTGTATTGAA
1 AAAT-GAACTTGTATTGAA
*
9578371 AAATGAACTT-TA-AGAA
1 AAATGAACTTGTATTGAA
* *
9578387 AACAAGAATTTGTATTGAA
1 AA-ATGAACTTGTATTGAA
*
9578406 AATTGAACTT
1 AAATGAACTT
9578416 TGAAAAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
16 5 0.14
17 8 0.23
18 13 0.37
19 9 0.26
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.31
Consensus pattern (18 bp):
AAATGAACTTGTATTGAA
Found at i:9578401 original size:35 final size:35
Alignment explanation
Indices: 9578356--9578428 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
9578346 AAATGTAAAT
9578356 AGAACTTGTATTGAAAAATGAACTTT-AAGAAAACA
1 AGAACTTGTATTGAAAAATGAACTTTGAA-AAAACA
* *
9578391 AGAATTTGTATTGAAAATTGAACTTTGAAAAAACA
1 AGAACTTGTATTGAAAAATGAACTTTGAAAAAACA
9578426 AGA
1 AGA
9578429 GACTGTTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (35 bp):
AGAACTTGTATTGAAAAATGAACTTTGAAAAAACA
Found at i:9587486 original size:25 final size:25
Alignment explanation
Indices: 9587458--9587510 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
9587448 AAATAAACAT
* * *
9587458 AATCAAATATATGCATGTTAAGCAC
1 AATCAAACATATACATGTCAAGCAC
9587483 AATCAAACATATACATGTCAAGCAC
1 AATCAAACATATACATGTCAAGCAC
9587508 AAT
1 AAT
9587511 GATATTTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (25 bp):
AATCAAACATATACATGTCAAGCAC
Found at i:9593022 original size:16 final size:16
Alignment explanation
Indices: 9592982--9593014 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9592972 ATATAGACTT
9592982 TAAAGTTCTAAAATTC
1 TAAAGTTCTAAAATTC
9592998 TAAAGTTCTAAAATTC
1 TAAAGTTCTAAAATTC
9593014 T
1 T
9593015 TAATTTCTTT
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:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAAGTTCTAAAATTC
Found at i:9594992 original size:48 final size:48
Alignment explanation
Indices: 9594924--9595030 Score: 187
Period size: 48 Copynumber: 2.2 Consensus size: 48
9594914 ATCTTGTAAG
* *
9594924 GACACGTTATTAACACAACTTGCCAACAGAGCACCCTTTACCTTGCAGT
1 GACATGTTA-TAACACAACTTGCCAACAGAGCACCCTTCACCTTGCAGT
9594973 GACATGTTATAACACAACTTGCCAACAGAGCACCCTTCACCTTGCAGT
1 GACATGTTATAACACAACTTGCCAACAGAGCACCCTTCACCTTGCAGT
9595021 GACATGTTAT
1 GACATGTTAT
9595031 CAAAATAGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
48 48 0.86
49 8 0.14
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (48 bp):
GACATGTTATAACACAACTTGCCAACAGAGCACCCTTCACCTTGCAGT
Found at i:9596064 original size:2 final size:2
Alignment explanation
Indices: 9596057--9596092 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9596047 CTTTTATTTA
*
9596057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9596093 GAGTCTGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9603810 original size:16 final size:15
Alignment explanation
Indices: 9603785--9603816 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
9603775 CATTCTTTTC
9603785 TTTTTTTAAAAAATT
1 TTTTTTTAAAAAATT
9603800 TTTTATTTAAAAAATT
1 TTTT-TTTAAAAAATT
9603816 T
1 T
9603817 CAAATAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTTTAAAAAATT
Found at i:9604056 original size:50 final size:53
Alignment explanation
Indices: 9603948--9604072 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 53
9603938 TGAATAAATC
* *
9603948 TTTTAGTCATTTTCAATTATTTATTAACAAAGTTATTATTTGAAATCAAAATAA
1 TTTTAGTAATTTTCAA-TATTTATTAAAAAAGTTATTATTTGAAATCAAAATAA
* *
9604002 TTTTAGTAATTTTC-A-ATTTATTAAAAAAG-TATTATTTGATAT-ATAAATGA
1 TTTTAGTAATTTTCAATATTTATTAAAAAAGTTATTATTTGAAATCA-AAATAA
*
9604052 TTTTAATACATTTT-AATATTT
1 TTTTAGTA-ATTTTCAATATTT
9604073 TTATTAACAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
49 1 0.02
50 24 0.39
51 19 0.31
52 4 0.06
53 1 0.02
54 13 0.21
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.50
Consensus pattern (53 bp):
TTTTAGTAATTTTCAATATTTATTAAAAAAGTTATTATTTGAAATCAAAATAA
Found at i:9605257 original size:22 final size:22
Alignment explanation
Indices: 9605229--9605272 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9605219 CTAAATCTTC
*
9605229 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9605251 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9605273 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9608977 original size:23 final size:25
Alignment explanation
Indices: 9608922--9608979 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
9608912 AAAAGGTTTG
* * *
9608922 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
9608947 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
9608970 GCAATGAAGG
1 GCAATGAAGG
9608980 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 13 0.43
24 1 0.03
25 16 0.53
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:9609156 original size:22 final size:22
Alignment explanation
Indices: 9609128--9609171 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9609118 CTAAATCTTC
*
9609128 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9609150 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9609172 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9613989 original size:31 final size:35
Alignment explanation
Indices: 9613924--9613996 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
9613914 AGGTGAAGAA
*
9613924 AGAATCAGTTAGAGGAAAGGGTGCAGACAAAGGAG
1 AGAAACAGTTAGAGGAAAGGGTGCAGACAAAGGAG
9613959 AGAAACAGTTAGAGGAAA-GG-G-AG-CAAAGGAG
1 AGAAACAGTTAGAGGAAAGGGTGCAGACAAAGGAG
9613990 AGAAACA
1 AGAAACA
9613997 ATCCAAAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 15 0.41
32 2 0.05
33 1 0.03
34 2 0.05
35 17 0.46
ACGTcount: A:0.48, C:0.08, G:0.36, T:0.08
Consensus pattern (35 bp):
AGAAACAGTTAGAGGAAAGGGTGCAGACAAAGGAG
Found at i:9616772 original size:3 final size:3
Alignment explanation
Indices: 9616766--9616797 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9616756 TTTATTATGG
9616766 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9616798 TACAAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9617775 original size:13 final size:14
Alignment explanation
Indices: 9617754--9617786 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9617744 GTAATTGAGG
*
9617754 AATTGTTTGTCC-T
1 AATTTTTTGTCCTT
9617767 AATTTTTTGTCCTT
1 AATTTTTTGTCCTT
9617781 AATTTT
1 AATTTT
9617787 AAGGATACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.61
Consensus pattern (14 bp):
AATTTTTTGTCCTT
Found at i:9617806 original size:22 final size:22
Alignment explanation
Indices: 9617778--9617821 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9617768 ATTTTTTGTC
*
9617778 CTTAATTTTAAGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
*
9617800 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAGGATACAAATA
9617822 TAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATA
Found at i:9621809 original size:22 final size:22
Alignment explanation
Indices: 9621777--9621819 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9621767 TTTTTTATCT
*
9621777 TTAATTTTAGGGATACAAATAC
1 TTAATTCTAGGGATACAAATAC
*
9621799 TTAATTCTAGGGATATAAATA
1 TTAATTCTAGGGATACAAATA
9621820 TAAATATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (22 bp):
TTAATTCTAGGGATACAAATAC
Found at i:9626088 original size:17 final size:16
Alignment explanation
Indices: 9626054--9626098 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
9626044 TTTTATTTTC
9626054 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
9626070 AAAAATAAAATAATGAT
1 AAAAATAAAATAA-AAT
*
9626087 AAAAATAGAATA
1 AAAAATAAAATA
9626099 GATAAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:9626428 original size:29 final size:29
Alignment explanation
Indices: 9626378--9626434 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9626368 ACAAAGATTC
* *
9626378 AAAATTAGAAATTCAAACATTTGCAATTG
1 AAAATTAAAAATTCAAACATTTGAAATTG
*
9626407 AAAATTAAAAAATTCACA-ATTTGAAATT
1 AAAATT-AAAAATTCAAACATTTGAAATT
9626435 TAAAGATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (29 bp):
AAAATTAAAAATTCAAACATTTGAAATTG
Found at i:9626443 original size:22 final size:22
Alignment explanation
Indices: 9626370--9626508 Score: 79
Period size: 22 Copynumber: 6.4 Consensus size: 22
9626360 CAATTGAAAC
* * *
9626370 AAAGATTCAAAATTAGAAATTC
1 AAAGATTCACAATTTGAAATTT
* ** *
9626392 AAACATTTGCAA-TTGAAAATTA
1 AAAGATTCACAATTTG-AAATTT
*
9626414 AAAAATTCACAATTTGAAATTT
1 AAAGATTCACAATTTGAAATTT
* * *
9626436 AAAGATTC-CTAATTTTAAGTTC
1 AAAGATTCAC-AATTTGAAATTT
**
9626458 AAA-AGTTTTCAATTTGAAATTT
1 AAAGA-TTCACAATTTGAAATTT
* *
9626480 -AATATTCTCAATTTGAAATTT
1 AAAGATTCACAATTTGAAATTT
*
9626501 AAATATTC
1 AAAGATTC
9626509 GTAAATTATT
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
21 22 0.24
22 65 0.71
23 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAGATTCACAATTTGAAATTT
Found at i:9626491 original size:21 final size:22
Alignment explanation
Indices: 9626408--9626508 Score: 91
Period size: 22 Copynumber: 4.6 Consensus size: 22
9626398 TTGCAATTGA
* * *
9626408 AAATTAAAAAATTCACAATTTG
1 AAATTTAAATATTCTCAATTTG
* *
9626430 AAATTTAAAGATTC-CTAATTTT
1 AAATTTAAATATTCTC-AATTTG
* * *
9626452 AAGTTCAAA-AGTTTTCAATTTG
1 AAATTTAAATA-TTCTCAATTTG
9626474 AAATTT-AATATTCTCAATTTG
1 AAATTTAAATATTCTCAATTTG
9626495 AAATTTAAATATTC
1 AAATTTAAATATTC
9626509 GTAAATTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
21 20 0.31
22 43 0.67
23 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (22 bp):
AAATTTAAATATTCTCAATTTG
Found at i:9626565 original size:19 final size:18
Alignment explanation
Indices: 9626525--9626584 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
9626515 TATTCAAAGG
* *
9626525 TTCGCCAAAAATTGAAAGA
1 TTCGCTAAAGATTGAAA-A
9626544 TTCGCTAAAGATTCGAAAA
1 TTCGCTAAAGATT-GAAAA
*
9626563 TTC-ATAAAAGATTTGAAAA
1 TTCGCT-AAAGA-TTGAAAA
9626582 TTC
1 TTC
9626585 TTGTTAGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 28 0.80
20 6 0.17
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
TTCGCTAAAGATTGAAAA
Found at i:9629070 original size:16 final size:16
Alignment explanation
Indices: 9629049--9629080 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9629039 CAAGCTTATG
*
9629049 CCAATTGTTAAGGATA
1 CCAATTGTTAAAGATA
9629065 CCAATTGTTAAAGATA
1 CCAATTGTTAAAGATA
9629081 TGTTATCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
CCAATTGTTAAAGATA
Found at i:9633006 original size:111 final size:111
Alignment explanation
Indices: 9632873--9633091 Score: 402
Period size: 111 Copynumber: 2.0 Consensus size: 111
9632863 TCTTCAATAG
* *
9632873 CCATGATACATGATGCATGTTGGTTGGTAATTTATCTTTCATGTAACTTATCTAACTTCTTCCAT
1 CCATGAGACATGATGCATGTTGGTTGGTAATTTATCTTTCATGTAACTTATCCAACTTCTTCCAT
*
9632938 ATCTCATTTGAAATGGAGCAATTTGAGACCAAGTTGAGGTTGTGAT
66 ATCTCATTTAAAATGGAGCAATTTGAGACCAAGTTGAGGTTGTGAT
*
9632984 CCATGAGACATGATGCATGTTGGTTGGTAATTTATCTTTCATGTAGCTTATCCAACTTCTTCCAT
1 CCATGAGACATGATGCATGTTGGTTGGTAATTTATCTTTCATGTAACTTATCCAACTTCTTCCAT
9633049 ATCTCATTTAAAATGGAGCAATTTGAGACCAAGTTGAGGTTGT
66 ATCTCATTTAAAATGGAGCAATTTGAGACCAAGTTGAGGTTGT
9633092 AAGAGTCAAG
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (111 bp):
CCATGAGACATGATGCATGTTGGTTGGTAATTTATCTTTCATGTAACTTATCCAACTTCTTCCAT
ATCTCATTTAAAATGGAGCAATTTGAGACCAAGTTGAGGTTGTGAT
Found at i:9635274 original size:59 final size:59
Alignment explanation
Indices: 9635143--9635300 Score: 196
Period size: 59 Copynumber: 2.7 Consensus size: 59
9635133 TTCTCAATCA
* * *
9635143 TAAAGATTCATAAATAATTTTAAAGATTCACAAATG-AAATGTCAAAGTTTTGCAATTG
1 TAAAGATTCACAAATAATTTCAAAGATTCACAAATGAAAATCTCAAAGTTTTGCAATTG
* * * *
9635201 TAAATATTCGCAAATAGTTTCAAGGATTCACAAATGAAAATCTCAAA-TATTTGCAATTG
1 TAAAGATTCACAAATAATTTCAAAGATTCACAAATGAAAATCTCAAAGT-TTTGCAATTG
* *
9635260 TAACGATTCACAAATAAAATTCAAAGATTCACAAAT-AAAAT
1 TAAAGATTCACAAAT-AATTTCAAAGATTCACAAATGAAAAT
9635301 TTTAAAGATT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 31 0.37
59 36 0.43
60 17 0.20
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (59 bp):
TAAAGATTCACAAATAATTTCAAAGATTCACAAATGAAAATCTCAAAGTTTTGCAATTG
Found at i:9635288 original size:21 final size:21
Alignment explanation
Indices: 9635264--9635343 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
9635254 CAATTGTAAC
9635264 GATTCACAAATAAAATTCAAA
1 GATTCACAAATAAAATTCAAA
*
9635285 GATTCACAAATAAAATTTTAAA
1 GATTCACAAATAAAA-TTCAAA
*** *
9635307 GATTCACATCCAAAATTCAAT
1 GATTCACAAATAAAATTCAAA
9635328 GATTCACAAA-AAAATT
1 GATTCACAAATAAAATT
9635344 AACATCTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 6 0.12
21 27 0.54
22 17 0.34
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (21 bp):
GATTCACAAATAAAATTCAAA
Found at i:9635310 original size:22 final size:22
Alignment explanation
Indices: 9635255--9635314 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
9635245 AAATATTTGC
* *
9635255 AATTGTAACGATTCACAAATAA
1 AATTTTAAAGATTCACAAATAA
*
9635277 AA-TTCAAAGATTCACAAATAA
1 AATTTTAAAGATTCACAAATAA
9635298 AATTTTAAAGATTCACA
1 AATTTTAAAGATTCACA
9635315 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (22 bp):
AATTTTAAAGATTCACAAATAA
Found at i:9635313 original size:43 final size:42
Alignment explanation
Indices: 9635255--9635343 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
9635245 AAATATTTGC
* *
9635255 AATTGTAACGATTCACAAATAAAATTCAAAGATTCACAAATAA
1 AATTGTAAAGATTCACAAACAAAATTCAAAGATTCACAAA-AA
* ** *
9635298 AATTTTAAAGATTCACATCCAAAATTCAATGATTCACAAAAA
1 AATTGTAAAGATTCACAAACAAAATTCAAAGATTCACAAAAA
9635340 AATT
1 AATT
9635344 AACATCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
AATTGTAAAGATTCACAAACAAAATTCAAAGATTCACAAAAA
Found at i:9635321 original size:22 final size:22
Alignment explanation
Indices: 9635255--9635343 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 22
9635245 AAATATTTGC
* * *
9635255 AATTGTAACGATTCACAAATAA
1 AATTTTAAAGATTCACAAACAA
* *
9635277 AA-TTCAAAGATTCACAAATAA
1 AATTTTAAAGATTCACAAACAA
**
9635298 AATTTTAAAGATTCACATCCAA
1 AATTTTAAAGATTCACAAACAA
* *
9635320 AA-TTCAATGATTCACAAA-AA
1 AATTTTAAAGATTCACAAACAA
9635340 AATT
1 AATT
9635344 AACATCTTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 4 0.07
21 31 0.57
22 19 0.35
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (22 bp):
AATTTTAAAGATTCACAAACAA
Found at i:9640396 original size:94 final size:94
Alignment explanation
Indices: 9640230--9640403 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 94
9640220 CAAATCAATC
* * *
9640230 AAATCTTCCAATAGTTTGGTATGATTTTATTTTCCAAGTAAGATCCTCCAATAGTTTGGAAAGAT
1 AAATCTTCCAATAGTATGGTAAGATTTTATTTTCCAAATAAGATCCTCCAATAGTTTGGAAAGAT
*
9640295 TTGATTTCAACATTTTTCTTTGCTAAAAAA
66 TTAATTTCAA-ATTTTTCTTTGCTAAAAAA
* * ** * *
9640325 AAATCTTCTAGTAGTATGGTAAGATTTTATTTT-CAAATAAGATGTTCCAATA-TGTTGGCAGGA
1 AAATCTTCCAATAGTATGGTAAGATTTTATTTTCCAAATAAGATCCTCCAATAGT-TTGGAAAGA
9640388 TTTAATTTCAAATTTT
65 TTTAATTTCAAATTTT
9640404 ATTTTACAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 6 0.09
94 33 0.49
95 29 0.43
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (94 bp):
AAATCTTCCAATAGTATGGTAAGATTTTATTTTCCAAATAAGATCCTCCAATAGTTTGGAAAGAT
TTAATTTCAAATTTTTCTTTGCTAAAAAA
Found at i:9640779 original size:19 final size:21
Alignment explanation
Indices: 9640743--9640792 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9640733 GAATTAATAT
*
9640743 AAAAATTAATAATTTAAAC-AA
1 AAAAATCAATAA-TTAAACTAA
9640764 AAAAATCAATAA-TAAACTAA
1 AAAAATCAATAATTAAACTAA
*
9640784 AAATATCAA
1 AAAAATCAA
9640793 AAAATCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 11 0.42
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATCAATAATTAAACTAA
Found at i:9651429 original size:21 final size:21
Alignment explanation
Indices: 9651405--9651461 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9651395 AAAAGGTAAA
* * *
9651405 AAGGGATTTGTCACCTTATGT
1 AAGGGATCTATCACCCTATGT
9651426 AAGGGATCTATCACCCTATGT
1 AAGGGATCTATCACCCTATGT
*
9651447 -AGGAGATCGATCACC
1 AAGG-GATCTATCACC
9651462 TTTTTGATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
AAGGGATCTATCACCCTATGT
Found at i:9658234 original size:48 final size:48
Alignment explanation
Indices: 9658090--9658378 Score: 276
Period size: 48 Copynumber: 5.9 Consensus size: 48
9658080 AAAAAAAAGA
* * * * *
9658090 TCCTATAAATATAGGCAGGGAACTTTAAAATTTTTACTTTGAAAAAGGC
1 TCCTATAAACATAGGCAGGGAACTTTAAAAATCTCA-TTTTAAAAAGGC
* * * * * *
9658139 TTCTATAAACATAGACTATGGAACTTTGAAAATCTC-TTTCTGAAAAGGT
1 TCCTATAAACATAGGC-AGGGAACTTTAAAAATCTCATTT-TAAAAAGGC
** * *
9658188 TTTTATAAACATAGGCAGGTAACTTTAAAAATCTCATTTTAGAAAGGC
1 TCCTATAAACATAGGCAGGGAACTTTAAAAATCTCATTTTAAAAAGGC
* * **
9658236 TCCTATAAACATAGGTAGGAAACTTTAAAAATCTCATTGGAAAAAGGC
1 TCCTATAAACATAGGCAGGGAACTTTAAAAATCTCATTTTAAAAAGGC
* ** * *
9658284 TCTTATAAACATAGGCA-TAAGACCTTAAAAATCTCAATTTTGAAAAAGGT
1 TCCTATAAACATAGGCAGGGA-ACTTTAAAAATCTC-ATTTT-AAAAAGGC
* *
9658334 TCCTATAAACATAGGCAGGGAATTTTAAAAATCTCATTTTGAAAA
1 TCCTATAAACATAGGCAGGGAACTTTAAAAATCTCATTTTAAAAA
9658379 CTTTTAAAAT
Statistics
Matches: 194, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.01
48 98 0.51
49 44 0.23
50 49 0.25
51 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (48 bp):
TCCTATAAACATAGGCAGGGAACTTTAAAAATCTCATTTTAAAAAGGC
Found at i:9658361 original size:146 final size:145
Alignment explanation
Indices: 9658090--9658377 Score: 352
Period size: 146 Copynumber: 2.0 Consensus size: 145
9658080 AAAAAAAAGA
* * * * * *
9658090 TCCTATAAATATAGGCAGGGAACTTTAAAATTTTTACTTTGAAAAAGGCTTCTATAAACATAGAC
1 TCCTATAAACATAGGCAGGAAACTTTAAAAATCTCACTTGGAAAAAGGCTTCTATAAACATAGAC
* * * ** *
9658155 TATGGAACTTTGAAAATCTCTTTCTGAAAAGGTTTTTATAAACATAGGCAGGTAACTTTAAAAAT
66 TATAGAACCTTAAAAATCTCTTTCTGAAAAGGTTCCTATAAACATAGGCAGGGAACTTTAAAAAT
9658220 CTCATTTTAGAAAGGC
131 CTCATTTT-GAAAGGC
* *
9658236 TCCTATAAACATAGGTAGGAAACTTTAAAAATCTCA-TTGGAAAAAGGC-TCTTATAAACATAGG
1 TCCTATAAACATAGGCAGGAAACTTTAAAAATCTCACTTGGAAAAAGGCTTC-TATAAACATAGA
*
9658299 C-ATA-AGACCTTAAAAATCTCAATTT-TGAAAAAGGTTCCTATAAACATAGGCAGGGAATTTTA
65 CTATAGA-ACCTTAAAAATCTC--TTTCTG-AAAAGGTTCCTATAAACATAGGCAGGGAACTTTA
9658361 AAAATCTCATTTTGAAA
126 AAAATCTCATTTTGAAA
9658378 ACTTTTAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
143 1 0.01
144 16 0.13
145 29 0.24
146 76 0.62
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (145 bp):
TCCTATAAACATAGGCAGGAAACTTTAAAAATCTCACTTGGAAAAAGGCTTCTATAAACATAGAC
TATAGAACCTTAAAAATCTCTTTCTGAAAAGGTTCCTATAAACATAGGCAGGGAACTTTAAAAAT
CTCATTTTGAAAGGC
Found at i:9658406 original size:23 final size:23
Alignment explanation
Indices: 9658354--9658406 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
9658344 ATAGGCAGGG
9658354 AATTTTAAAAATCTCATTTTGAA
1 AATTTTAAAAATCTCATTTTGAA
*
9658377 AACTTTT-AAAATCTTATCTTTGAA
1 AA-TTTTAAAAATCTCAT-TTTGAA
9658401 AATTTT
1 AATTTT
9658407 GGTTGCATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (23 bp):
AATTTTAAAAATCTCATTTTGAA
Found at i:9667726 original size:12 final size:12
Alignment explanation
Indices: 9667694--9667726 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9667684 TTCTTGTTTG
9667694 ATTTTTTTT-AT
1 ATTTTTTTTCAT
*
9667705 AATTTTTTTCAT
1 ATTTTTTTTCAT
9667717 ATTTTTTTTC
1 ATTTTTTTTC
9667727 TAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTTCAT
Found at i:9671699 original size:6 final size:7
Alignment explanation
Indices: 9671682--9671724 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
9671672 TTTCAAGTAA
9671682 TTTTTTC
1 TTTTTTC
9671689 TTTTTTC
1 TTTTTTC
*
9671696 TTTTTTTA
1 -TTTTTTC
*
9671704 TTTTTTG
1 TTTTTTC
9671711 TTTTTGTC
1 TTTTT-TC
9671719 TTTTTT
1 TTTTTT
9671725 TCATGTATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:9671702 original size:15 final size:15
Alignment explanation
Indices: 9671682--9671724 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
9671672 TTTCAAGTAA
9671682 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
* *
9671697 TTTTTTATTTTTTGT
1 TTTTTTCTTTTTTCT
*
9671712 TTTTGTCTTTTTT
1 TTTTTTCTTTTTT
9671725 TCATGTATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTCTTTTTTCT
Found at i:9678111 original size:7 final size:7
Alignment explanation
Indices: 9678099--9678223 Score: 62
Period size: 7 Copynumber: 18.1 Consensus size: 7
9678089 GATTGTGGCA
9678099 TAGGGTT
1 TAGGGTT
9678106 TAGGGTT
1 TAGGGTT
9678113 T--GGTT
1 TAGGGTT
*
9678118 TATGGTT
1 TAGGGTT
*
9678125 TAAGGTT
1 TAGGGTT
* *
9678132 TGGATGGATG
1 T--A-GGGTT
9678142 TAGGGTT
1 TAGGGTT
**
9678149 T-TTGTT
1 TAGGGTT
9678155 TAGGGTT
1 TAGGGTT
*
9678162 TA-GGCT
1 TAGGGTT
*
9678168 TAAGGTT
1 TAGGGTT
9678175 TAGGGTT
1 TAGGGTT
9678182 TA-GGTT
1 TAGGGTT
9678188 TAGGGTT
1 TAGGGTT
* * *
9678195 CAAGATT
1 TAGGGTT
*
9678202 TAAGGTT
1 TAGGGTT
**
9678209 TAAAGTT
1 TAGGGTT
9678216 TAGGGTT
1 TAGGGTT
9678223 T
1 T
9678224 GGATGGTGGT
Statistics
Matches: 89, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
5 5 0.06
6 15 0.17
7 64 0.72
8 1 0.01
9 1 0.01
10 3 0.03
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:9678174 original size:13 final size:13
Alignment explanation
Indices: 9678158--9678222 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
9678148 TTTTGTTTAG
*
9678158 GGTTTAGGCTTAA
1 GGTTTAGGGTTAA
*
9678171 GGTTTAGGGTTTA
1 GGTTTAGGGTTAA
9678184 GGTTTAGGGTTCAA
1 GGTTTAGGGTT-AA
* *
9678198 GATTTAAGGTTTAA
1 GGTTT-AGGGTTAA
*
9678212 AGTTTAGGGTT
1 GGTTTAGGGTT
9678223 TGGATGGTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 27 0.64
14 10 0.24
15 5 0.12
ACGTcount: A:0.23, C:0.03, G:0.32, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTAA
Found at i:9678175 original size:20 final size:20
Alignment explanation
Indices: 9678152--9678223 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
9678142 TAGGGTTTTT
*
9678152 GTTTAGGGTTTAGGCTTAAG
1 GTTTAGGGTTTAGGTTTAAG
*
9678172 GTTTAGGGTTTAGGTTTAGG
1 GTTTAGGGTTTAGGTTTAAG
* * * *
9678192 GTTCAAGATTTAAGGTTTAAA
1 GTTTAGGGTTT-AGGTTTAAG
9678213 GTTTAGGGTTT
1 GTTTAGGGTTT
9678224 GGATGGTGGT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (20 bp):
GTTTAGGGTTTAGGTTTAAG
Found at i:9678298 original size:13 final size:14
Alignment explanation
Indices: 9678272--9678302 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9678262 TGGATGGTGA
9678272 TTTGAAATTTTGGG
1 TTTGAAATTTTGGG
*
9678286 TTTGAAATTTGGGG
1 TTTGAAATTTTGGG
9678300 TTT
1 TTT
9678303 CAAGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TTTGAAATTTTGGG
Found at i:9686813 original size:33 final size:30
Alignment explanation
Indices: 9686776--9686855 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 30
9686766 AGAATTAGGT
9686776 GTAAAAGCATGAAAAAAAAAACAAAAAATGAAA
1 GTAAAAG-ATGAAAAAAAAAA-AAAAAATG-AA
*
9686809 GT-AAAGATTTGAAAAAAAAAAGAAAAATGAA
1 GTAAAAGA--TGAAAAAAAAAAAAAAAATGAA
9686840 G-AAATAGAATGAAAAA
1 GTAAA-AG-ATGAAAAA
9686856 CATTTTTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
31 13 0.32
32 13 0.32
33 15 0.37
ACGTcount: A:0.70, C:0.03, G:0.15, T:0.12
Consensus pattern (30 bp):
GTAAAAGATGAAAAAAAAAAAAAAAATGAA
Found at i:9686853 original size:31 final size:33
Alignment explanation
Indices: 9686784--9686855 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
9686774 GTGTAAAAGC
*
9686784 ATGAAAAAAAAAACAAAAAATGAAAGTAAAGAT
1 ATGAAAAAAAAAACAAAAAATGAAAGAAAAGAT
* *
9686817 TTGAAAAAAAAAA-GAAAAATG-AAGAAATAGA-
1 ATGAAAAAAAAAACAAAAAATGAAAGAAA-AGAT
9686848 ATGAAAAA
1 ATGAAAAA
9686856 CATTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 12 0.35
32 10 0.29
33 12 0.35
ACGTcount: A:0.72, C:0.01, G:0.14, T:0.12
Consensus pattern (33 bp):
ATGAAAAAAAAAACAAAAAATGAAAGAAAAGAT
Found at i:9692400 original size:189 final size:190
Alignment explanation
Indices: 9692197--9692551 Score: 477
Period size: 189 Copynumber: 1.9 Consensus size: 190
9692187 GAGTTTTAAC
* *
9692197 AAAAAAAAGGCCTTCAATAATCCTCTTAAATTTTGACAAAGAGATTATTAAAGG-TGTTTTTAAC
1 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGGAT-TTTTTAAC
* * **
9692261 TAAAAACGCGTTCAATAAT-CCCTTTTAATTTTTTA-AAGAAAATTATAGAATGCA-TTTTTTTG
65 TAAAAACACCTTCAATAATACCC-TACAATTTTTTATAA-AAAATTATAGAATGCATTTTTTTTG
*
9692323 TAGAAAATACCTTCAATAATACTCTT-CATTTTTATCAAGGGCATATTTAATGCATTTTACCAA
128 TAGAAAACACCTTCAATAATACT-TTCCATTTTTATCAAGGGCATATTTAATGCATTTTACCAA
* * ** *
9692386 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACGAGGAGATTACTGTAGGCATTTTTTTAC
1 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGG-ATTTTTTAAC
* *
9692451 TAAAAACACCTTCAATAATACCCTACAATTTTTTATAAAAAATTGTTGAATGCATTTTTTTTTGT
65 TAAAAACACCTTCAATAATACCCTACAATTTTTTATAAAAAATTATAGAATGCA-TTTTTTTTGT
* *
9692516 AGAAAACACCTTCAATATTCCTTTCCATTTTTATCA
129 AGAAAACACCTTCAATAATACTTTCCATTTTTATCA
9692552 GGAGATTATT
Statistics
Matches: 143, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
189 48 0.34
190 48 0.34
191 8 0.06
192 39 0.27
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (190 bp):
AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGGATTTTTTAACT
AAAAACACCTTCAATAATACCCTACAATTTTTTATAAAAAATTATAGAATGCATTTTTTTTGTAG
AAAACACCTTCAATAATACTTTCCATTTTTATCAAGGGCATATTTAATGCATTTTACCAA
Found at i:9692581 original size:189 final size:187
Alignment explanation
Indices: 9692197--9692584 Score: 446
Period size: 192 Copynumber: 2.0 Consensus size: 187
9692187 GAGTTTTAAC
* *
9692197 AAAAAAAAGGCCTTCAATAATCCTCTTAAATTTTGACAAAGAGATTATTAAAGGTGTTTTTAACT
1 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGGTGTTTTTAACT
* * **
9692262 AAAAACGCGTTCAATAATCCCTTTTAATTTTTTAAAGAAAATTATAGAATGCATTTTTTTGTAGA
66 AAAAACACCTTCAATAATCCCTTACAATTTTTTAAAGAAAATTATAGAATGCATTTTTTTGTAGA
* * *
9692327 AAATACCTTCAATAATACTCTTCATTTTTATCAAGGGCATATTTAATGCATTTTACCAA
131 AAACACCTTCAATAATACTCTTCATTTTTATCAAGGGCATATTCAAGGCATTTT--CAA
* * ** *
9692386 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACGAGGAGATTACTGTAGGCAT-TTTTTTA
1 AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGG--TGTTTTTAA
* *
9692450 CTAAAAACACCTTCAATAATACCC-TACAATTTTTTATAA-AAAATTGTTGAATGCATTTTTTTT
64 CTAAAAACACCTTCAATAAT-CCCTTACAATTTTTTA-AAGAAAATTATAGAATGCA--TTTTTT
* * * *
9692513 TGTAGAAAACACCTTCAATATTCCT-TTCCATTTTTATC-AGGAG-ATTATTCAAGGTATTTTAT
125 TGTAGAAAACACCTTCAATAATACTCTT-CATTTTTATCAAGG-GCA-TATTCAAGGCATTTT-C
9692575 AA
186 AA
9692577 AAAAAAAA
1 AAAAAAAA
9692585 AAAAAGCCTT
Statistics
Matches: 169, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
189 48 0.28
190 48 0.28
191 22 0.13
192 51 0.30
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (187 bp):
AAAAAAAAGGCCTTCAATAATCCCCTTAAATTTTGACAAAGAGATTACTAAAGGTGTTTTTAACT
AAAAACACCTTCAATAATCCCTTACAATTTTTTAAAGAAAATTATAGAATGCATTTTTTTGTAGA
AAACACCTTCAATAATACTCTTCATTTTTATCAAGGGCATATTCAAGGCATTTTCAA
Found at i:9692605 original size:67 final size:67
Alignment explanation
Indices: 9692524--9692650 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
9692514 GTAGAAAACA
*
9692524 CCTTCAATATTCC-TTTCCATTTTTATC-AGGAGATTATTCAAGGTATTTTATAAAAAAAAAAAA
1 CCTTCAATAGTCCTTTTCC-TTTTTATCAAGG-GATTATTCAAGGTATTTTATAAAAAAAAAAAA
9692587 AAAG
64 AAAG
* *
9692591 CCTTCAATAGTCCTTTTCCTTTTTATCAAGGGATTATTCAAGGTATTTTATCATAAAAAA
1 CCTTCAATAGTCCTTTTCCTTTTTATCAAGGGATTATTCAAGGTATTTTATAAAAAAAAA
9692651 TGCCTTCAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
67 47 0.85
68 8 0.15
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (67 bp):
CCTTCAATAGTCCTTTTCCTTTTTATCAAGGGATTATTCAAGGTATTTTATAAAAAAAAAAAAAA
AG
Found at i:9692803 original size:63 final size:60
Alignment explanation
Indices: 9692583--9692837 Score: 183
Period size: 62 Copynumber: 4.1 Consensus size: 60
9692573 ATAAAAAAAA
* * **** *
9692583 AAAAAAAGCCTTCAATAGTCCTTTTCCTTTTTATCAAGGGATTATTCAAGGTATTTTAT-C
1 AAAAAATGCCTTCAATAATCCTTCAATTTTTTA-CAAGGGATTATTCAAGGTATTTTTTGC
** *
9692643 ATAAAAAATGCCTTCAATAATCCTCTCAAATTTTTTACAAGAAATTATTTAAGGTATTTTTTTTG
1 --AAAAAATGCCTTCAATAATCCT-TC-AATTTTTTACAAGGGATTATTCAAGGTA--TTTTTTG
*
9692708 T
60 C
* * * * *
9692709 AGAAAACGCCTTCATTAATCCCTTTC-A-TTTTTATCAGGGGATTATTAAAGGTATTTTTTGC
1 AAAAAATGCCTTCAATAAT-CC-TTCAATTTTTTA-CAAGGGATTATTCAAGGTATTTTTTGC
* * * * * *
9692770 CAAAAATACCTTCAATAATCTCGTTCAATTTTTTAGAAAGGATTATTCAAGGTGTTTTTTGT
1 AAAAAATGCCTTCAATAATC-C-TTCAATTTTTTACAAGGGATTATTCAAGGTATTTTTTGC
9692832 AAAAAA
1 AAAAAA
9692838 AAAAAAAGCC
Statistics
Matches: 150, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
60 1 0.01
61 25 0.17
62 53 0.35
63 39 0.26
64 22 0.15
65 9 0.06
66 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (60 bp):
AAAAAATGCCTTCAATAATCCTTCAATTTTTTACAAGGGATTATTCAAGGTATTTTTTGC
Found at i:9692829 original size:126 final size:125
Alignment explanation
Indices: 9692585--9692829 Score: 291
Period size: 126 Copynumber: 2.0 Consensus size: 125
9692575 AAAAAAAAAA
* * * *
9692585 AAAAAGCCTTCAATAGTCCTTTTCCTTTTTATCAAGGGATTATTCAAGGTATTTTATCATAAAAA
1 AAAAAGCCTTCAATAATCCCTTTCATTTTTATCAAGGGATTATTAAAGGTATTTTATCA-AAAAA
* * *
9692650 ATGCCTTCAATAATCCTCTCAAATTTTTTACAAGAAATTATTTAAGGTATTTTTTTTGTAG
65 ATACCTTCAATAATCCTCTCAAATTTTTTAAAAGAAATTATTCAAGGTATTTTTTTTGTAG
* * * * *
9692711 AAAACGCCTTCATTAATCCCTTTCATTTTTATCAGGGGATTATTAAAGGTATTTTTTGC-CAAAA
1 AAAAAGCCTTCAATAATCCCTTTCATTTTTATCAAGGGATTATTAAAGGTATTTTAT-CAAAAAA
* *
9692775 ATACCTTCAATAAT-CTCGTTC-AATTTTTTAGAAAG-GATTATTCAAGGTGTTTTTT
65 ATACCTTCAATAATCCTC--TCAAATTTTTTA-AAAGAAATTATTCAAGGTATTTTTT
9692830 GTAAAAAAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
124 3 0.03
125 43 0.43
126 54 0.53
127 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (125 bp):
AAAAAGCCTTCAATAATCCCTTTCATTTTTATCAAGGGATTATTAAAGGTATTTTATCAAAAAAA
TACCTTCAATAATCCTCTCAAATTTTTTAAAAGAAATTATTCAAGGTATTTTTTTTGTAG
Found at i:9693124 original size:187 final size:184
Alignment explanation
Indices: 9692912--9693262 Score: 458
Period size: 187 Copynumber: 1.9 Consensus size: 184
9692902 AATGCTTCAA
9692912 AATTTTCTTTAAAAAATTAAGGGGATTATTGAAGACATTTTTAATAAAAAACACCTTCAATAATC
1 AATTTTCTTTAAAAAATTAAGGGGATTATTGAAGACATTTTTAATAAAAAACACCTTCAATAATC
* ** *** *
9692977 TCCTCGTCAAAATTTAAAGAGG-TTATTAAAGGTGTTTTTTTTTGGTAAAATACCTTGAATAATC
66 TACTCGTCAAAATTTAAA-AGGATTATTAAA-G-GCATTTTTTACCTAAAACACCTTGAATAATC
*
9693041 CCTTGATAAAAA-TCG-AGAGGATTATTGAAGGTGTTTTCTGAAAAAAATACATTTAAT
128 CCTT-A-AAAAATTCGAAGAGGATTATTGAAGGTATTTTCTGAAAAAAATACATTTAAT
* * * * **
9693098 AATTTT-TTTAAAAAAATTAGAGGGGATTATTGAAGGCATTTTTAGTTAAACATGCCTTCAATAA
1 AATTTTCTTT-AAAAAATTA-AGGGGATTATTGAAGACATTTTTAATAAAAAACACCTTCAATAA
* *
9693162 TCTACTTGTCAAAATTTAAAAGGATTATTAAAGGCATTTTTTACCTAAAACACCTTTAATAATCC
64 TCTACTCGTCAAAATTTAAAAGGATTATTAAAGGCATTTTTTACCTAAAACACCTTGAATAATCC
*
9693227 CTTAAAAAATTTGAAGAGGATTATTGAAGGTATTTT
129 CTTAAAAAATTCGAAGAGGATTATTGAAGGTATTTT
9693263 TCGCCAGAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
183 5 0.03
184 3 0.02
185 52 0.36
186 19 0.13
187 64 0.45
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (184 bp):
AATTTTCTTTAAAAAATTAAGGGGATTATTGAAGACATTTTTAATAAAAAACACCTTCAATAATC
TACTCGTCAAAATTTAAAAGGATTATTAAAGGCATTTTTTACCTAAAACACCTTGAATAATCCCT
TAAAAAATTCGAAGAGGATTATTGAAGGTATTTTCTGAAAAAAATACATTTAAT
Found at i:9694323 original size:13 final size:13
Alignment explanation
Indices: 9694307--9694331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9694297 CATGTTCATT
9694307 TTTATATAATTTA
1 TTTATATAATTTA
9694320 TTTATATAATTT
1 TTTATATAATTT
9694332 TGGTCTGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATATAATTTA
Found at i:9697304 original size:253 final size:254
Alignment explanation
Indices: 9696828--9697314 Score: 787
Period size: 253 Copynumber: 1.9 Consensus size: 254
9696818 TTGATTAGGT
*
9696828 TGTTAGTGTTGATCATATTACTCTAGTTAAAAAGGTATATGACAAATGTTTTATACCTTAGGTTT
1 TGTTAGTGTTGATCATATTACTCTAGTTAAAAAGGTATATGACAAATGTTTTATACCTTAGGGTT
* * *
9696893 TTAGGGAGGTTAAAGTCATATTGTTGCAACAAACACTATCCAGAAGGTTCTATTGTTGAAGGATA
66 TTAGGGACGTTAAAGTCATATTATTGCAACAAACACTATCCAGAAGGTTCTATTGCTGAAGGATA
* * * *
9696958 TTTAGTAGAAGAGTGTATGACATTTTGTTCTTATTATTTGAAAGATGTTGAAACGAGATTTAATA
131 TTTAGCAGAAAAGTGTATGACATTTTGTTCTTATTATTTGAAAGATATCGAAACGAGATTTAATA
* * *
9697023 AACCATCAAAAAATGTTGGTATGCAGCATACTGA-CTTTGCCTAGGTTTTTGGGGATAG
196 AACAATCAAAAAATGTCGGTACGCAGCATACTGATCTTTGCCTAGGTTTTTGGGGATAG
*
9697081 TGTTAGTGTTGATCATATTACTCTAGTTAAAAAGGTATATGACAAATGTTTTATGCCTTAGGGTT
1 TGTTAGTGTTGATCATATTACTCTAGTTAAAAAGGTATATGACAAATGTTTTATACCTTAGGGTT
* *
9697146 TTGGGGACGTTAAAGTCATATTATTGCAACAAACACTATCCAGAAGGTTTTATTGCTGAAGGATA
66 TTAGGGACGTTAAAGTCATATTATTGCAACAAACACTATCCAGAAGGTTCTATTGCTGAAGGATA
* *
9697211 TTTAGCAGAAAAGTGTATGACATTTTGTTCTTATTATTTGGAAGATATCGAAATGAGATTTAATA
131 TTTAGCAGAAAAGTGTATGACATTTTGTTCTTATTATTTGAAAGATATCGAAACGAGATTTAATA
* * * *
9697276 GACAATTAAGAAATGTCGGTACGCAGCATAGTGATCTTT
196 AACAATCAAAAAATGTCGGTACGCAGCATACTGATCTTT
9697315 TTGAAAGTTT
Statistics
Matches: 213, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
253 209 0.98
254 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.36
Consensus pattern (254 bp):
TGTTAGTGTTGATCATATTACTCTAGTTAAAAAGGTATATGACAAATGTTTTATACCTTAGGGTT
TTAGGGACGTTAAAGTCATATTATTGCAACAAACACTATCCAGAAGGTTCTATTGCTGAAGGATA
TTTAGCAGAAAAGTGTATGACATTTTGTTCTTATTATTTGAAAGATATCGAAACGAGATTTAATA
AACAATCAAAAAATGTCGGTACGCAGCATACTGATCTTTGCCTAGGTTTTTGGGGATAG
Found at i:9698577 original size:13 final size:13
Alignment explanation
Indices: 9698559--9698595 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9698549 CTTCTCAATG
9698559 TCTTTATATATGT
1 TCTTTATATATGT
*
9698572 TCTTTACATATGT
1 TCTTTATATATGT
*
9698585 TTTTTATATAT
1 TCTTTATATAT
9698596 TCGTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:9700188 original size:162 final size:160
Alignment explanation
Indices: 9699628--9700196 Score: 608
Period size: 161 Copynumber: 3.5 Consensus size: 160
9699618 TTTTGTCCTA
* *
9699628 TTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTGTCCAAATGATTAAACTTGGTTTC
1 TTTTAATAGTTTTGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTAAACTTGTTTTC
* ** * * * * *
9699693 -TACGGTTGATATGTGTGAAAAAGTTATCATTTACATCTATTTAGGACTATTTTTACCGTTAAAA
66 ATA--GTTGATATATGTGAAAAAGTTATTGTTTACCTCTGTTTAAGACTTTTTTTAACGTTAAAA
* * * *
9699757 GGTAAAAATATAAATTTGCTATTACTATT-TT
129 GGCAAAAATACAAATTTGCTATTAATGTTCTT
* * * * *
9699788 ATTTTAATAGTTTGGATGGCTTCAATACATGATATTAAACTTTTTCGAAA-GATTGAACTTGGTT
1 -TTTTAATAGTTTTGATAGCTTCAATACATGATATTAAAC-TTGTCCAAATGATTAAACTT-GTT
* * * **
9699852 TTCATAGTTGATATATGTAAAAAAGTTGTTGTTTACCTCTGTTT-AGAATTTTTTGTGTCGTTAA
63 TTCATAGTTGATATATGTGAAAAAGTTATTGTTTACCTCTGTTTAAGACTTTTTT-TAACGTTAA
* * * **
9699916 AAGGCAAAAATACACATTTGCTGTTAAAGTTCCA
127 AAGGCAAAAATACAAATTTGCTATTAATGTTCTT
* * * * *
9699950 TTTTAATAGTTTAGATAGCTTCAATACATGACATTAAACTTTTTCAAATGATTGAACTTGATTTT
1 TTTTAATAGTTTTGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTAAACTTG-TTTT
* * *
9700015 CATAGTTGATATATGTGAAAAGGTTATTGTTTACCTTTGTTTAAGACTTTTTTTAACGTTAAATG
65 CATAGTTGATATATGTGAAAAAGTTATTGTTTACCTCTGTTTAAGACTTTTTTTAACGTTAAAAG
* * *
9700080 GCAAAAATCCAAAATTGCTATTATTGTTCTGT
130 GCAAAAATACAAATTTGCTATTAATGTTCT-T
* * * *
9700112 TTTTAACAATTTTGATAGCTTCAATACATGATATTAAACTTGTCCAAATGAGTAAATTTAGTTTT
1 TTTTAATAGTTTTGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTAAACTT-GTTTT
*
9700177 CAT-GATTGATATGTGTGAAA
65 CATAG-TTGATATATGTGAAA
9700197 GGCCAAAATG
Statistics
Matches: 338, Mismatches: 59, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
160 15 0.04
161 228 0.67
162 92 0.27
163 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (160 bp):
TTTTAATAGTTTTGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTAAACTTGTTTTC
ATAGTTGATATATGTGAAAAAGTTATTGTTTACCTCTGTTTAAGACTTTTTTTAACGTTAAAAGG
CAAAAATACAAATTTGCTATTAATGTTCTT
Found at i:9700626 original size:18 final size:18
Alignment explanation
Indices: 9700579--9700673 Score: 56
Period size: 18 Copynumber: 5.4 Consensus size: 18
9700569 ATTTGTCCAG
*
9700579 AAAAAA-ACAAAAA-AAC
1 AAAAAATACAAAAATAAT
**
9700595 AAAAAATA-TGAAATAA-
1 AAAAAATACAAAAATAAT
9700611 AAAAAATACCAAAAATAAT
1 AAAAAATA-CAAAAATAAT
* *
9700630 ACAAAATACAAAACAAAAT
1 AAAAAATACAAAA-ATAAT
* * *
9700649 ACAAAACA-AAAAATACAA
1 AAAAAATACAAAAATA-AT
9700667 AAAAAAT
1 AAAAAAT
9700674 TGAACATAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
16 17 0.28
17 5 0.08
18 21 0.34
19 18 0.30
ACGTcount: A:0.78, C:0.11, G:0.01, T:0.11
Consensus pattern (18 bp):
AAAAAATACAAAAATAAT
Found at i:9700637 original size:19 final size:19
Alignment explanation
Indices: 9700613--9700654 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9700603 TGAAATAAAA
*
9700613 AAAATACCAAAA-ATAATAC
1 AAAATA-CAAAACAAAATAC
9700632 AAAATACAAAACAAAATAC
1 AAAATACAAAACAAAATAC
9700651 AAAA
1 AAAA
9700655 CAAAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.74, C:0.14, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAATACAAAACAAAATAC
Found at i:9700663 original size:14 final size:14
Alignment explanation
Indices: 9700632--9700672 Score: 61
Period size: 12 Copynumber: 3.1 Consensus size: 14
9700622 AAAATAATAC
9700632 AAAATACAAAAC--
1 AAAATACAAAACAA
9700644 AAAATACAAAACAA
1 AAAATACAAAACAA
9700658 AAAATACAAAA-AA
1 AAAATACAAAACAA
9700671 AA
1 AA
9700673 TTGAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 11 0.41
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAATACAAAACAA
Found at i:9701060 original size:20 final size:21
Alignment explanation
Indices: 9701016--9701064 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
9701006 CTTCTGCACG
**
9701016 AAAAAAAAGGGGTCAGTTTAA
1 AAAAAAAAGGGGTCAGAATAA
*
9701037 AAAAAAAA-GGGTCAGAATAC
1 AAAAAAAAGGGGTCAGAATAA
9701057 AAAAAAAA
1 AAAAAAAA
9701065 TATATTCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.63, C:0.06, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAAAAAAGGGGTCAGAATAA
Found at i:9703784 original size:33 final size:33
Alignment explanation
Indices: 9703740--9704044 Score: 145
Period size: 33 Copynumber: 9.2 Consensus size: 33
9703730 TTTAGCAACG
* *
9703740 TTTTTCGATACAAATG-TCACTAAATTAGTGGCA
1 TTTTTCTATACAAATGCT-ACTAAATTAGTGACA
* *
9703773 TTTTTCTATACAAATGCTACTAAATTAGTAACG
1 TTTTTCTATACAAATGCTACTAAATTAGTGACA
* *
9703806 TTTTTCTATACAAATGCTACAAAATTAGTGACG
1 TTTTTCTATACAAATGCTACTAAATTAGTGACA
** * * *** *
9703839 TTTCTT-TATATGAATGCCACTAATTTAACAACG
1 TTT-TTCTATACAAATGCTACTAAATTAGTGACA
* * ** * ** *
9703872 GTTTTCTGATATAAATGCCGCTAATTTAGCAATGA
1 TTTTTCT-ATACAAATGCTACTAAATTAGTGA-CA
* * * *
9703907 TTATCCT-TACAAATGCCACTAAATAAAGTGACA
1 TTTTTCTATACAAATGCTACTAAAT-TAGTGACA
* * * *
9703940 TTTTAT-AATACAAACGCCACTAAATTAG-CAGCA
1 TTTT-TCTATACAAATGCTACTAAATTAGTGA-CA
* **
9703973 TTTTTTTTATACAAATGCTACTAAATTAGTAGTGA
1 -TTTTTCTATACAAATGCTACTAAATTAGT-GACA
*** * *
9704008 TTGCACT-TACAAATGCTACTAAATTAGCGGCA
1 TTTTTCTATACAAATGCTACTAAATTAGTGACA
9704040 TTTTT
1 TTTTT
9704045 ATAAAATACT
Statistics
Matches: 207, Mismatches: 52, Indels: 27
0.72 0.18 0.09
Matches are distributed among these distances:
32 7 0.03
33 126 0.61
34 69 0.33
35 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTTTCTATACAAATGCTACTAAATTAGTGACA
Found at i:9703817 original size:66 final size:66
Alignment explanation
Indices: 9703721--9704044 Score: 201
Period size: 67 Copynumber: 4.8 Consensus size: 66
9703711 ACCATAAAAC
* * *
9703721 GCCACTAAATTTAGCAACGTTTTTCGATACAAATGTCACTAAATTAGTGGCATTTTTCTATACAA
1 GCCACTAAA-TTAGTAACGTTTTTCTATACAAATGCCACTAAATTAGTGGCATTTTTCTATACAA
9703786 AT
65 AT
* * * * * **
9703788 GCTACTAAATTAGTAACGTTTTTCTATACAAATGCTACAAAATTAGTGACGTTTCTT-TATATGA
1 GCCACTAAATTAGTAACGTTTTTCTATACAAATGCCACTAAATTAGTGGCATTT-TTCTATACAA
9703852 AT
65 AT
* ** * * * * * *
9703854 GCCACTAATTTAACAACGGTTTTCTGATATAAATGCCGCTAATTTAGCAAT-G-ATTATCCT-TA
1 GCCACTAAATTAGTAACGTTTTTCT-ATACAAATGCCACTAAATTAG---TGGCATTTTTCTATA
9703916 CAAAT
62 CAAAT
* * * * * ** *
9703921 GCCACTAAATAAAGTGACATTTTAT-AATACAAACGCCACTAAATTAGCAGCATTTTTTTTATAC
1 GCCACTAAAT-TAGTAACGTTTT-TCTATACAAATGCCACTAAATTAGTGGCA-TTTTTCTATAC
9703985 AAAT
63 AAAT
* ** *** * *
9703989 GCTACTAAATTAGTAGTGATTGCACT-TACAAATGCTACTAAATTAGCGGCATTTTT
1 GCCACTAAATTAGTAACG-TTTTTCTATACAAATGCCACTAAATTAGTGGCATTTTT
9704045 ATAAAATACT
Statistics
Matches: 188, Mismatches: 55, Indels: 29
0.69 0.20 0.11
Matches are distributed among these distances:
65 1 0.01
66 71 0.38
67 87 0.46
68 27 0.14
69 1 0.01
70 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (66 bp):
GCCACTAAATTAGTAACGTTTTTCTATACAAATGCCACTAAATTAGTGGCATTTTTCTATACAAA
T
Found at i:9704403 original size:19 final size:18
Alignment explanation
Indices: 9704369--9704581 Score: 68
Period size: 19 Copynumber: 11.1 Consensus size: 18
9704359 GTTGGTTTTT
* *
9704369 GGGTTTGGTTAGGGTTTG
1 GGGTTTGGTTAAGGTTTA
9704387 GGGTTTGGCTTAAGGTTTA
1 GGGTTTGG-TTAAGGTTTA
*
9704406 GGGTTTAGGTTAGGGTTTTTA
1 GGGTTT-GGTTAAGG--TTTA
* * *
9704427 -GGTTTAGTTTAGGGTTAA
1 GGGTTT-GGTTAAGGTTTA
* *
9704445 GGGTTTAGTTTATGGTTTA
1 GGGTTT-GGTTAAGGTTTA
** * *
9704464 GGGCTAAGTTTTAGGATTTA
1 GGG-TTTGGTTAAGG-TTTA
* * * *
9704484 AGATTTGGTTTAGGGTTA
1 GGGTTTGGTTAAGGTTTA
* * * *
9704502 TGATTTAGGTTTAGGGTTA
1 GGGTTT-GGTTAAGGTTTA
* * * *
9704521 TGATTTAGGTTTAGAGTTTG
1 GGGTTT-GGTTAAG-GTTTA
*
9704541 GGGTTTGGTTTAAGGTTTG
1 GGGTTTGG-TTAAGGTTTA
9704560 GGGTTTGGTTTTAAGGTTTA
1 GGGTTTGG--TTAAGGTTTA
9704580 GG
1 GG
9704582 ATTAGGGGTT
Statistics
Matches: 160, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
18 19 0.12
19 93 0.58
20 44 0.28
21 4 0.03
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (18 bp):
GGGTTTGGTTAAGGTTTA
Found at i:9704410 original size:7 final size:7
Alignment explanation
Indices: 9704377--9704606 Score: 79
Period size: 7 Copynumber: 35.6 Consensus size: 7
9704367 TTGGGTTTGG
9704377 TTAGGGT
1 TTAGGGT
*
9704384 TTGGGGT
1 TTAGGGT
*
9704391 TT--GGC
1 TTAGGGT
*
9704396 TTAAGGT
1 TTAGGGT
9704403 TTAGGGT
1 TTAGGGT
9704410 TTA-GG-
1 TTAGGGT
9704415 TTAGGGTTT
1 TTAGGG--T
9704424 TTA-GGT
1 TTAGGGT
9704430 TTA--GT
1 TTAGGGT
9704435 TTAGGGT
1 TTAGGGT
*
9704442 TAAGGGT
1 TTAGGGT
9704449 TTA--GT
1 TTAGGGT
*
9704454 TTATGGT
1 TTAGGGT
9704461 TTAGGG-
1 TTAGGGT
* * *
9704467 CTAAGTT
1 TTAGGGT
*
9704474 TTAGGAT
1 TTAGGGT
* *
9704481 TTAAGAT
1 TTAGGGT
9704488 TT--GGT
1 TTAGGGT
9704493 TTAGGG-
1 TTAGGGT
* *
9704499 TTATGAT
1 TTAGGGT
9704506 TTA-GGT
1 TTAGGGT
9704512 TTAGGG-
1 TTAGGGT
* *
9704518 TTATGAT
1 TTAGGGT
9704525 TTA-GGT
1 TTAGGGT
*
9704531 TTAGAGT
1 TTAGGGT
*
9704538 TTGGGGT
1 TTAGGGT
9704545 TT--GGT
1 TTAGGGT
*
9704550 TTAAGGT
1 TTAGGGT
*
9704557 TTGGGGT
1 TTAGGGT
*
9704564 TT-GGTT
1 TTAGGGT
*
9704570 TTAAGGT
1 TTAGGGT
*
9704577 TTA-GGA
1 TTAGGGT
*
9704583 TTAGGGG
1 TTAGGGT
9704590 TTA-GGT
1 TTAGGGT
*
9704596 TTAGGCT
1 TTAGGGT
9704603 TTAG
1 TTAG
9704607 CTTTTAGGTT
Statistics
Matches: 168, Mismatches: 33, Indels: 44
0.69 0.13 0.18
Matches are distributed among these distances:
5 26 0.15
6 44 0.26
7 93 0.55
8 2 0.01
9 3 0.02
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Done.