Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 53 of 160
Found at i:11313899 original size:15 final size:15
Alignment explanation
Indices: 11313846--11313925 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
11313836 AAAATTAGTC
11313846 AAATAAAATAAATAACAA
1 AAATAAAAT--ATAA-AA
*
11313864 AAATGAAATA-AAAA
1 AAATAAAATATAAAA
**
11313878 ACTTAAAATATAAAA
1 AAATAAAATATAAAA
** *
11313893 TGATAAAATAAAAAA
1 AAATAAAATATAAAA
*
11313908 AAATAAAAAATAAAA
1 AAATAAAATATAAAA
11313923 AAA
1 AAA
11313926 CCTACAATTA
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
14 9 0.18
15 31 0.63
16 1 0.02
18 8 0.16
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATAAAATATAAAA
Found at i:11314714 original size:10 final size:10
Alignment explanation
Indices: 11314695--11314732 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
11314685 GATTAGGAAG
11314695 AAAAAGAAAA-
1 AAAAA-AAAAT
11314705 AAAATAAAAAT
1 AAAA-AAAAAT
11314716 AAAAAAAAAT
1 AAAAAAAAAT
11314726 AAAAAAA
1 AAAAAAA
11314733 TATTATATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:11314751 original size:5 final size:5
Alignment explanation
Indices: 11314743--11314792 Score: 57
Period size: 5 Copynumber: 9.4 Consensus size: 5
11314733 TATTATATGG
11314743 TATAA TATAA TAATAA TGATAA TATAA TATAA TA-ATA TAATAA TATAA
1 TATAA TATAA T-ATAA T-ATAA TATAA TATAA TATA-A T-ATAA TATAA
11314791 TA
1 TA
11314793 ATATCTCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
4 1 0.03
5 25 0.62
6 13 0.32
7 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:11314757 original size:3 final size:3
Alignment explanation
Indices: 11314744--11314894 Score: 93
Period size: 3 Copynumber: 52.3 Consensus size: 3
11314734 ATTATATGGT
*
11314744 ATA AT- ATA ATA ATA ATG ATA AT- ATA AT- ATA ATA AT- ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
11314787 ATA ATA ATA TCTC ATA CT- ATA CT- ATA CTA ATA ATA ACA ATA ATG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
11314831 A-A ATA ATA ACAA ATA ATA CTA ATA CTA ATA ACA ATA ACA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
11314876 ATA GTA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
11314895 AACTCGATCC
Statistics
Matches: 108, Mismatches: 30, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
2 13 0.12
3 92 0.85
4 3 0.03
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11314757 original size:8 final size:8
Alignment explanation
Indices: 11314744--11314796 Score: 67
Period size: 8 Copynumber: 6.9 Consensus size: 8
11314734 ATTATATGGT
11314744 ATAATATA
1 ATAATATA
11314752 AT-A-ATA
1 ATAATATA
*
11314758 ATGATA-A
1 ATAATATA
11314765 TATAATATA
1 -ATAATATA
11314774 ATAATATA
1 ATAATATA
11314782 ATAATATA
1 ATAATATA
11314790 ATAATAT
1 ATAATAT
11314797 CTCATACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 5 0.12
7 3 0.08
8 31 0.77
9 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:11315400 original size:2 final size:2
Alignment explanation
Indices: 11315393--11315427 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11315383 TATTAGAAAA
*
11315393 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11315428 AAGCAAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11322335 original size:13 final size:12
Alignment explanation
Indices: 11322308--11322332 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11322298 TTTTTTACCA
11322308 TCATAATTTTTT
1 TCATAATTTTTT
11322320 TCATAATTTTTT
1 TCATAATTTTTT
11322332 T
1 T
11322333 TCAATTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TCATAATTTTTT
Found at i:11325005 original size:54 final size:56
Alignment explanation
Indices: 11324907--11325035 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 56
11324897 AAATATATAT
*
11324907 TTTTGGAATATTTTTA-TTTAAGAGAAATTAATAATTCAACTTTTCCTT-AAA-ATACC
1 TTTTGAAAT-TTTTTATTTTAAGAGAAATTAATAATTCAACTTTT-CTTCAAACAT-CC
* ** **
11324963 TTTTGAAATTTTTTATTTTAAGA-AAATTGATCTTTCAA-TTTTCTTCAAACATTT
1 TTTTGAAATTTTTTATTTTAAGAGAAATTAATAATTCAACTTTTCTTCAAACATCC
*
11325017 TTTTGAAAATTTTTATTTT
1 TTTTGAAATTTTTTATTTT
11325036 TGAGGAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 3 0.05
54 25 0.40
55 20 0.32
56 15 0.24
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (56 bp):
TTTTGAAATTTTTTATTTTAAGAGAAATTAATAATTCAACTTTTCTTCAAACATCC
Found at i:11325078 original size:58 final size:57
Alignment explanation
Indices: 11324869--11325119 Score: 162
Period size: 57 Copynumber: 4.4 Consensus size: 57
11324859 TATTTTTTTC
* * *
11324869 AAAAAATAGATACTTCAACTTTTTCTTAAAATATATATTTTTGGAATATT-TTTA--TTTAAG
1 AAAAATTA-ATACTTCAACTTTTTCTTCAAACAT-T-TTTTT--AA-ATTCTTTATTTTTAAG
* * * * * ** * *
11324929 AGAAATTAATAATTCAACTTTTCCTTAAAATACCTTTTGAAATTTTTTA-TTTTAAG
1 AAAAATTAATACTTCAACTTTTTCTTCAAACATTTTTTTAAATTCTTTATTTTTAAG
* *
11324985 -AAAATTGAT-CTTTCAA--TTTTCTTCAAACATTTTTTTGAAAATT-TTTATTTTTGAG
1 AAAAATTAATAC-TTCAACTTTTTCTTCAAACATTTTTTT--AAATTCTTTATTTTTAAG
* ** * * *
11325040 GAAAATTGGTACTTCAGCTTTTTC-TCAAAACCTTTTTTTTAATTCTTTATTTTTAAG
1 AAAAATTAATACTTCAACTTTTTCTTC-AAACATTTTTTTAAATTCTTTATTTTTAAG
11325097 AAAAATTAATACTTCAACTTTTT
1 AAAAATTAATACTTCAACTTTTT
11325120 TCTTGTTTTT
Statistics
Matches: 153, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
53 14 0.09
54 7 0.05
55 29 0.19
56 22 0.14
57 37 0.24
58 16 0.10
59 22 0.14
60 6 0.04
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (57 bp):
AAAAATTAATACTTCAACTTTTTCTTCAAACATTTTTTTAAATTCTTTATTTTTAAG
Found at i:11326748 original size:21 final size:21
Alignment explanation
Indices: 11326722--11326761 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11326712 AGGATAGAAA
11326722 TTTTT-ATATCTTTATTTTTAT
1 TTTTTAAT-TCTTTATTTTTAT
*
11326743 TTTTTAATTTTTTATTTTT
1 TTTTTAATTCTTTATTTTT
11326762 TTTAGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTAATTCTTTATTTTTAT
Found at i:11326752 original size:14 final size:14
Alignment explanation
Indices: 11326720--11326762 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
11326710 AAAGGATAGA
*
11326720 AATTTTTATATCTTT
1 AATTTTTAT-TTTTT
11326735 -ATTTTTATTTTTT
1 AATTTTTATTTTTT
11326748 AATTTTTTATTTTTT
1 AA-TTTTTATTTTTT
11326763 TTAGAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 12 0.48
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
AATTTTTATTTTTT
Found at i:11327781 original size:19 final size:18
Alignment explanation
Indices: 11327732--11327782 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
11327722 TAGATTGAGC
11327732 AAAAAGAAAATAAAAAAT
1 AAAAAGAAAATAAAAAAT
*
11327750 AAAAATAAGAATAAAAAAT
1 AAAAAGAA-AATAAAAAAT
* *
11327769 GATAAGAATAATAA
1 AAAAAGAA-AATAA
11327783 TAATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (18 bp):
AAAAAGAAAATAAAAAAT
Found at i:11327783 original size:3 final size:3
Alignment explanation
Indices: 11327747--11327946 Score: 102
Period size: 3 Copynumber: 68.3 Consensus size: 3
11327737 GAAAATAAAA
* * * *
11327747 AAT AAA AAT AAG AAT AA- AA- AAT GAT AAG AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11327792 AGT AAT AAT -AT AAT AAT AAT AAT AAT AGT -AT AAT AA- AAGC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * **
11327835 -AT GAT ATAT ACAT AAT -AT GAT -AT ACT -AT AAT ATAT AAC AAT GGT
1 AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
*
11327879 AAT AAAT ATAT AAT AAT AAT -AT AAT ATAT AAT AAA AAT AAT AAT -AT
1 AAT -AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
11327925 AAT ATAT ACT -AT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT A
11327947 TCTAATATAT
Statistics
Matches: 151, Mismatches: 27, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
2 23 0.15
3 105 0.70
4 23 0.15
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11327785 original size:28 final size:30
Alignment explanation
Indices: 11327747--11327816 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
11327737 GAAAATAAAA
*
11327747 AATAAAAATAAGAATA-A-AA-AATGATAAG
1 AATAATAATAAGAATATAGAATAAT-ATAAG
* *
11327775 AATAATAATAATAATATAGTAATAATATAAT
1 AATAATAATAAGAATATAG-AATAATATAAG
11327806 AATAATAATAA
1 AATAATAATAA
11327817 TAGTATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 14 0.40
29 1 0.03
31 17 0.49
32 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (30 bp):
AATAATAATAAGAATATAGAATAATATAAG
Found at i:11327799 original size:14 final size:14
Alignment explanation
Indices: 11327780--11327827 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
11327770 ATAAGAATAA
11327780 TAATAATAATATAG
1 TAATAATAATATAG
11327794 TAATAAT-ATA-A-
1 TAATAATAATATAG
11327805 TAATAATAATAATAG
1 TAATAATAAT-ATAG
11327820 T-ATAATAA
1 TAATAATAA
11327828 AAGCAATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 4 0.13
14 15 0.50
15 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
TAATAATAATATAG
Found at i:11327850 original size:64 final size:66
Alignment explanation
Indices: 11327775--11327946 Score: 156
Period size: 67 Copynumber: 2.6 Consensus size: 66
11327765 AAATGATAAG
* * *
11327775 AATAATAATAATAATATAGTAATAATATAATAATAATAAT-AATAGTATAATAA-AA-GCAATAT
1 AATAAAAATAATAATATAATAATAATATAATAATAATAATAAATA-TATAATAATAATACAATAT
11327837 GAT
65 -AT
* * * ** *
11327840 ATATACATAAT-ATGATATACTATAAT-ATATAACAATGGTAATAAATATATAATAATAATATAA
1 A-ATA-AAAATAATAATATA--ATAATAATATAATAATAATAATAAATATATAATAATAATACAA
11327903 TATAT
62 TATAT
*
11327908 AATAAAAATAATAATATAATATATACTATAATAATAATA
1 AATAAAAATAATAATATAATA-ATAATATAATAATAATA
11327947 TCTAATATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
65 4 0.05
66 16 0.19
67 46 0.55
68 13 0.15
69 5 0.06
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (66 bp):
AATAAAAATAATAATATAATAATAATATAATAATAATAATAAATATATAATAATAATACAATATA
T
Found at i:11327926 original size:29 final size:29
Alignment explanation
Indices: 11327878--11327955 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
11327868 ATAACAATGG
*
11327878 TAATAAATAT-ATAATAATAATATAATA-TA
1 TAATAAAAATAATAAT-ATAATAT-ATACTA
11327907 TAATAAAAATAATAATATAATATATACTA
1 TAATAAAAATAATAATATAATATATACTA
* *
11327936 TAATAATAATATCTAATATA
1 TAATAAAAATA-ATAATATA
11327956 TAGTATATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.07
29 28 0.65
30 12 0.28
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
TAATAAAAATAATAATATAATATATACTA
Found at i:11333293 original size:34 final size:34
Alignment explanation
Indices: 11333249--11333340 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
11333239 TTCACAAAAA
* **
11333249 TTTTCGAAAATAAATTTTTGAAAATTCATA-AAC
1 TTTTCAAAAATAAATTTTCCAAAATTCATATAAC
**
11333282 TTTTCCAAAAATGTATTTTCCAAAATTCATATAAC
1 TTTT-CAAAAATAAATTTTCCAAAATTCATATAAC
* *
11333317 TTTTCAAAAATAGATTTTCAAAAA
1 TTTTCAAAAATAAATTTTCCAAAA
11333341 ATTATAAGCC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 4 0.08
34 38 0.78
35 7 0.14
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (34 bp):
TTTTCAAAAATAAATTTTCCAAAATTCATATAAC
Found at i:11333451 original size:34 final size:34
Alignment explanation
Indices: 11333381--11333485 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
11333371 TAAAAGTTAA
* * * ** * *
11333381 ATTTTTGAAGAAGTTTATAACTTTGCACAAATTT
1 ATTTTTGAAAAATTTTATGACTTTTTAAAAAATT
11333415 ATTTTTGAAAAATTTTATGACTTTTTAAAAAATT
1 ATTTTTGAAAAATTTTATGACTTTTTAAAAAATT
* * * *
11333449 ATTTTTAAAAAATTGTATGATTTTTTTTAAAAATT
1 ATTTTTGAAAAATTTTATGA-CTTTTTAAAAAATT
11333484 AT
1 AT
11333486 AAAATTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
34 45 0.76
35 14 0.24
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.50
Consensus pattern (34 bp):
ATTTTTGAAAAATTTTATGACTTTTTAAAAAATT
Found at i:11333455 original size:14 final size:14
Alignment explanation
Indices: 11333436--11333462 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11333426 ATTTTATGAC
11333436 TTTTTAAAAAATTA
1 TTTTTAAAAAATTA
11333450 TTTTTAAAAAATT
1 TTTTTAAAAAATT
11333463 GTATGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTTAAAAAATTA
Found at i:11333492 original size:21 final size:21
Alignment explanation
Indices: 11333443--11333493 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
11333433 GACTTTTTAA
*
11333443 AAAATTATTTTTAAAAAATTGT
1 AAAATT-TTTTTAAAAAATTAT
** *
11333465 ATGATTTTTTTTAAAAATTAT
1 AAAATTTTTTTAAAAAATTAT
11333486 AAAATTTT
1 AAAATTTT
11333494 AAAAAGTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
AAAATTTTTTTAAAAAATTAT
Found at i:11334133 original size:6 final size:6
Alignment explanation
Indices: 11334124--11334167 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
11334114 AATAAAAATA
* * *
11334124 TTTTCT TTTTCT TCTTCT TTTTCT TTTT-T TTTTTT TTTTAT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
11334168 CCTTGCACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:11334154 original size:9 final size:9
Alignment explanation
Indices: 11334124--11334167 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11334114 AATAAAAATA
11334124 TTTTCTTTT
1 TTTTCTTTT
* *
11334133 TCTTCTTCT
1 TTTTCTTTT
11334142 TTTTCTTTT
1 TTTTCTTTT
11334151 TTTT-TTTT
1 TTTTCTTTT
*
11334159 TTTTATTTT
1 TTTTCTTTT
11334168 CCTTGCACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:11339131 original size:268 final size:266
Alignment explanation
Indices: 11338654--11339675 Score: 1098
Period size: 268 Copynumber: 3.9 Consensus size: 266
11338644 AACTCAAATG
* * * *
11338654 GATATTATATTTAATTAAATATAAATGTATCAAATAATTAATTAGAGAATCGACTATTTTATAAT
1 GATATTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAAT
*
11338719 TATAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAAATAAGAA
66 TGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAAATAAGAA
** * * *
11338784 ATTTAAAAAATTTTAATAT-TTTTAATATAAATTAAATTGAGAATAATTTAAAATCAATAATAGA
131 ATTTTTAAAATTTTAAT-TCTTTTAATAT-AATTAAATTGAGAGTGATTTAAAATCAATAATAAA
11338848 AACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATTTACATATGAAATACAT
194 AACATAAATATAATCAATTTA-TTTTTTGAATTATATTTGCTTTATATTTACATATGAAATACAT
11338913 CAATTACTT
258 CAATTACTT
11338922 GATATTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAAT
1 GATATTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAAT
* * * *
11338987 TGTAATTGTAATATTTATTAATTTATTAATTTTATGTTGATTGATTTAATTTATCAAATTAAGAA
66 TGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAAATAAGAA
* * * *
11339052 ATTTTTAAAATTTTAATTCTTTTAATATCAATTAAATTGTGAGTGATTTAAGATTAATAATATAA
131 ATTTTTAAAATTTTAATTCTTTTAATAT-AATTAAATTGAGAGTGATTTAAAATCAATAATAAAA
* * *** ** ** * * *
11339117 ATATAAATATAATCAATTTATTTTTTGAATTATTTTTAAATTA-A-AAATGTATTAAATAAAATA
195 ACATAAATATAATCAATTTATTTTTTGAATTATATTTGCTTTATATTTACATATGAAAT-ACATC
* *
11339180 AAATGCATT
259 AATTAC-TT
* * * * ** * * * *** * *
11339189 --TATTAGATGTCATGATTTTTAAA-ACCATC-AAT-ATAGGATT---TTTTTCA-T-TTTTGTC
1 GATATTATATTTAATCAAATATAAATA-TATCAAATAAT-TGATTAGAGAATCCACTATTTTAT-
* * * * *
11339244 AA---AAAGCTT-TGGTTTTTA-TATATTTATATAACATTATATATTGATTGATTTAATTTGTCG
63 AATTGTAA--TTGTAGTATTTATTA-ATTTAT-T-A-ATTATATATTGATTGATTTAATTTATCA
* * *
11339304 AAATAA-AAAATTTTAATACTTTTAATACTTTT-A-ATAATTAAATTGAGAGTGATTTAAAATCA
122 AAATAAGAAATTTTTAA-AATTTTAATTCTTTTAATATAATTAAATTGAGAGTGATTTAAAATCA
* * *
11339366 ATAATAAAAATATAAATATAATAAATTTAGTTTTTTGAATTATATTTGCTTTATATTTACTTATG
186 ATAATAAAAACATAAATATAATCAATTTA-TTTTTTGAATTATATTTGCTTTATATTTACATATG
11339431 AAATACATCAATTA-TT
250 AAATACATCAATTACTT
* * * * *
11339447 GGATACTATATTTAATCAAATATAAATGTATTAAATAATTGATTAGAGAATCAATTATTTTATAA
1 -GATATTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAA
* *
11339512 TTGTAATTGTAGTATTTATTAATTTATTAATTCTATATTGATTGATTTAATTTGTCAAAATAAGA
65 TTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAAATAAGA
** *
11339577 AATTTTTAAAATTTTAATTCTTTTAATATTAATTAAATTGAGAGTGATTTAAGGTTAATAATAAA
130 AATTTTTAAAATTTTAATTCTTTTAATA-TAATTAAATTGAGAGTGATTTAAAATCAATAATAAA
* *
11339642 AACATAAATATAATCCATTTAATTTTTGAATTAT
194 AACATAAATATAATCAATTTATTTTTTGAATTAT
11339676 TTTTAAATTA
Statistics
Matches: 609, Mismatches: 109, Indels: 73
0.77 0.14 0.09
Matches are distributed among these distances:
257 4 0.01
258 65 0.11
259 29 0.05
260 21 0.03
261 70 0.11
262 7 0.01
263 4 0.01
264 8 0.01
265 74 0.12
266 22 0.04
267 43 0.07
268 258 0.42
269 4 0.01
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (266 bp):
GATATTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAAT
TGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAAATAAGAA
ATTTTTAAAATTTTAATTCTTTTAATATAATTAAATTGAGAGTGATTTAAAATCAATAATAAAAA
CATAAATATAATCAATTTATTTTTTGAATTATATTTGCTTTATATTTACATATGAAATACATCAA
TTACTT
Found at i:11339328 original size:9 final size:9
Alignment explanation
Indices: 11339314--11339339 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11339304 AAATAAAAAA
11339314 TTTTAATAC
1 TTTTAATAC
11339323 TTTTAATAC
1 TTTTAATAC
11339332 TTTTAATA
1 TTTTAATA
11339340 ATTAAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTAATAC
Found at i:11339467 original size:526 final size:529
Alignment explanation
Indices: 11338747--11339726 Score: 1635
Period size: 526 Copynumber: 1.9 Consensus size: 529
11338737 TAATTTATTA
* *
11338747 ATTATATATTGATTGATTTAATTTATCAAAATAAGAAATTTAAAAAATTTTAATATTTTTAATAT
1 ATTATATATTGATTGATTTAATTTATCAAAATAAAAAATTTAAAAAATTTTAATACTTTTAATAT
* *
11338812 AAATTAAATTGAGAATAATTTAAAATCAATAATAGAAACATAAATATAATCAATTTAGTTTTTTG
66 AAATTAAATTGAGAATAATTTAAAATCAATAATAAAAACATAAATATAATAAATTTAGTTTTTTG
*
11338877 AATTATATTTGCTTTATATTTACATATGAAATACATCAATTACTTGATATTATATTTAATCAAAT
131 AATTATATTTGCTTTATATTTACATATGAAATACATCAATTACTTGATACTATATTTAATCAAAT
*
11338942 ATAAATATATCAAATAATTGATTAGAGAATCCACTATTTTATAATTGTAATTGTAATATTTATTA
196 ATAAATATATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAATATTTATTA
* * *
11339007 ATTTATTAATTTTATGTTGATTGATTTAATTTATCAAATTAAGAAATTTTTAAAATTTTAATTCT
261 ATTTATTAATTCTATATTGATTGATTTAATTTATCAAAATAAGAAATTTTTAAAATTTTAATTCT
* * *
11339072 TTTAATATCAATTAAATTGTGAGTGATTTAAGATTAATAATATAAATATAAATATAATCAATTTA
326 TTTAATATCAATTAAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATCAATTTA
* *
11339137 TTTTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATGCATTTATTAGATGTCAT
391 ATTTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATACATTTATTAGATGTCAT
11339202 GATTTTTAAAACCATCAATATAGGATTTTTTTCATTTTTGTCAAAAAGCTTTGGTTTTTATATAT
456 GATTTTTAAAACCATCAATATAGGATTTTTTTCATTTTTGTCAAAAAGCTTTGGTTTTTATATAT
11339267 TTATATAAC
521 TTATATAAC
* * * * *
11339276 ATTATATATTGATTGATTTAATTTGTCGAAATAAAAAATTTTAATACTTTTAATACTTTT-A-AT
1 ATTATATATTGATTGATTTAATTTATCAAAATAAAAAATTTAAAAAATTTTAATACTTTTAATAT
* * *
11339339 -AATTAAATTGAGAGTGATTTAAAATCAATAATAAAAATATAAATATAATAAATTTAGTTTTTTG
66 AAATTAAATTGAGAATAATTTAAAATCAATAATAAAAACATAAATATAATAAATTTAGTTTTTTG
*
11339403 AATTATATTTGCTTTATATTTACTTATGAAATACATCAATTA-TTGGATACTATATTTAATCAAA
131 AATTATATTTGCTTTATATTTACATATGAAATACATCAATTACTT-GATACTATATTTAATCAAA
* * * *
11339467 TATAAATGTATTAAATAATTGATTAGAGAATCAATTATTTTATAATTGTAATTGTAGTATTTATT
195 TATAAATATATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAATATTTATT
*
11339532 AATTTATTAATTCTATATTGATTGATTTAATTTGTCAAAATAAGAAATTTTTAAAATTTTAATTC
260 AATTTATTAATTCTATATTGATTGATTTAATTTATCAAAATAAGAAATTTTTAAAATTTTAATTC
* * *
11339597 TTTTAATATTAATTAAATTGAGAGTGATTTAAGGTTAATAATAAAAACATAAATATAATCCATTT
325 TTTTAATATCAATTAAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATCAATTT
*
11339662 AATTTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATATATTTATTAGATGTCA
390 AATTTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATACATTTATTAGATGTCA
11339727 CATGACCATT
Statistics
Matches: 418, Mismatches: 32, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
525 2 0.00
526 360 0.86
527 2 0.00
528 1 0.00
529 53 0.13
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (529 bp):
ATTATATATTGATTGATTTAATTTATCAAAATAAAAAATTTAAAAAATTTTAATACTTTTAATAT
AAATTAAATTGAGAATAATTTAAAATCAATAATAAAAACATAAATATAATAAATTTAGTTTTTTG
AATTATATTTGCTTTATATTTACATATGAAATACATCAATTACTTGATACTATATTTAATCAAAT
ATAAATATATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAATATTTATTA
ATTTATTAATTCTATATTGATTGATTTAATTTATCAAAATAAGAAATTTTTAAAATTTTAATTCT
TTTAATATCAATTAAATTGAGAGTGATTTAAGATTAATAATAAAAACATAAATATAATCAATTTA
ATTTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATACATTTATTAGATGTCAT
GATTTTTAAAACCATCAATATAGGATTTTTTTCATTTTTGTCAAAAAGCTTTGGTTTTTATATAT
TTATATAAC
Found at i:11348350 original size:22 final size:22
Alignment explanation
Indices: 11348324--11348389 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
11348314 TGTATATTTA
*
11348324 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11348346 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11348368 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11348390 GAAGATTTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:11348793 original size:18 final size:18
Alignment explanation
Indices: 11348770--11348804 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11348760 ATGTTCTTTG
*
11348770 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
11348788 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
11348805 TCATGGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:11352269 original size:22 final size:21
Alignment explanation
Indices: 11352243--11352308 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 21
11352233 TGTATATTTA
11352243 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATC-CTAGAATTAAG
11352265 TATTTGTATCCCTAGAATTAAG
1 TATTTGTAT-CCTAGAATTAAG
11352287 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCC-TAGAATTAAG
11352309 GAAGATTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.05
22 39 0.93
23 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (21 bp):
TATTTGTATCCTAGAATTAAG
Found at i:11353235 original size:6 final size:6
Alignment explanation
Indices: 11353224--11353251 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11353214 AATGATCTCA
11353224 AAAAGG AAAAGG AAAAGG AAAAGG AAAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAA
11353252 AAATAAGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:11357702 original size:27 final size:27
Alignment explanation
Indices: 11357672--11357729 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
11357662 AAATATCAGT
* * *
11357672 AAAATCTTTAACATAGCTTTCGACCAA
1 AAAACCTTCAACATAGCTTTCAACCAA
*
11357699 AAAACCTTCAACATTGCTTTCAACCAA
1 AAAACCTTCAACATAGCTTTCAACCAA
11357726 AAAA
1 AAAA
11357730 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAACCTTCAACATAGCTTTCAACCAA
Found at i:11361236 original size:27 final size:26
Alignment explanation
Indices: 11361183--11361269 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
11361173 GACCATTTAC
11361183 ATATTATTTTATTATTAAAATAATAAA
1 ATATTATTTTATTATTAAAATAAT-AA
* ** *
11361210 ATATTATTTTA-TATTAACATCTTTA
1 ATATTATTTTATTATTAAAATAATAA
*
11361235 A-A-TATTTTATTATTACAATTTAATAA
1 ATATTATTTTATTATTA-AA-ATAATAA
11361261 ATATATATT
1 ATAT-TATT
11361270 ATTTATTGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
23 7 0.16
24 6 0.13
25 3 0.07
26 13 0.29
27 12 0.27
29 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTATTTTATTATTAAAATAATAA
Found at i:11361237 original size:26 final size:27
Alignment explanation
Indices: 11361177--11361249 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
11361167 CAACTTGACC
*
11361177 ATTTACATATTATTTTATTATTAAAAT
1 ATTTAAATATTATTTTATTATTAAAAT
* * *
11361204 AATAAAATATTATTTTA-TATTAACAT
1 ATTTAAATATTATTTTATTATTAAAAT
*
11361230 CTTTAAATATT-TTATTATTA
1 ATTTAAATATTATT-TTATTA
11361250 CAATTTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.05
26 19 0.51
27 16 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTAAATATTATTTTATTATTAAAAT
Found at i:11362605 original size:44 final size:44
Alignment explanation
Indices: 11362539--11362622 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
11362529 CAGCCAAATG
* *
11362539 AGAGCTAAGTGCTACATCGTGGGATCCACTTCTAGAATCCTACA
1 AGAGCTAAGTGCTACATCGTGGGAGCCACCTCTAGAATCCTACA
*
11362583 AGAGCTAAGTGCTACA-CTGTGGGAGCCCCCTCTAGAATCC
1 AGAGCTAAGTGCTACATC-GTGGGAGCCACCTCTAGAATCC
11362623 CAACTTCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (44 bp):
AGAGCTAAGTGCTACATCGTGGGAGCCACCTCTAGAATCCTACA
Found at i:11366628 original size:136 final size:135
Alignment explanation
Indices: 11366405--11366678 Score: 413
Period size: 136 Copynumber: 2.0 Consensus size: 135
11366395 ACCAGCATTT
*
11366405 CACAAAAGAGAAACTAGACAGTGGGTTGATTTGTACACTGTATATATCAACTAAGGGTCAACTTG
1 CACAAAAGAGAAACTAGACAGTGGGTTGATTGGTACACTGTATATATCAACTAAGGGTCAACTTG
* * *
11366470 CAAATGTGTTGACTAAAGGTCTCAACAATGCAACATTTCGTGAAATTATTTCCAAGCTAGGAATG
66 CAAATGTGTTAACTAAAAGTCTCAACAATGCAACATTTCGAGAAATTATTTCCAAGCTAGGAATG
*
11366535 GTAAA
131 ATAAA
* * * *
11366540 CACAAAGGAGAAACTAGGCAGTGGGTTGATTGGTACATTGTATATATCCAACTAAGGGTCAATTT
1 CACAAAAGAGAAACTAGACAGTGGGTTGATTGGTACACTGTATATAT-CAACTAAGGGTCAACTT
* * ** *
11366605 GCAAATGTGTTAACTAAAAGTCTCAGCAGTGCAATGTTTCGAGAAATTATTTCTAAGCTAGGAAT
65 GCAAATGTGTTAACTAAAAGTCTCAACAATGCAACATTTCGAGAAATTATTTCCAAGCTAGGAAT
11366670 GATAAA
130 GATAAA
11366676 CAC
1 CAC
11366679 CTATTCACCA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
135 43 0.35
136 81 0.65
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (135 bp):
CACAAAAGAGAAACTAGACAGTGGGTTGATTGGTACACTGTATATATCAACTAAGGGTCAACTTG
CAAATGTGTTAACTAAAAGTCTCAACAATGCAACATTTCGAGAAATTATTTCCAAGCTAGGAATG
ATAAA
Found at i:11370888 original size:183 final size:180
Alignment explanation
Indices: 11370575--11370932 Score: 563
Period size: 183 Copynumber: 2.0 Consensus size: 180
11370565 GTAAATGTTT
* **
11370575 AGGGAAATTCCAAACTTCTGATAAAAATTCAAGCCTGCAATGGGCCATATATAAGAGGAAACCAG
1 AGGGAAATTCCAAACTTCTGATAAAAATTCAAGCATAAAATGGGCCATATATAAGAGGAAACCAG
* * *
11370640 GATAAAAGTGACCTTCACCATTCTACATTCGAGACAAAAAGTTCATGCTCACTGAGAAAAATATA
66 GATAAAAGTAACCATCACCATTCTACATTCGAGACAAAAAGTTCATGCTCACAGAGAAAAATATA
* *
11370705 TATCTAGTTGACAAGTAAATCTTGGGTTGTTGATCAGAATTTGGAAAAGTTC
131 TA--TAGTTGACAAGCAAACCTTGGGTTGTTGATCAGAATTTGGAAAAGTTC
*
11370757 AGGGACAATTCCAAACTTCTGATAAAAATTCAAGCATAAAATGGGCCATATATAGGAGGAAACCA
1 AGGGA-AATTCCAAACTTCTGATAAAAATTCAAGCATAAAATGGGCCATATATAAGAGGAAACCA
* * *
11370822 GGATAAAAGTAACCATCACCATTCTACATTTGAGATAAAATGTTCATGCTCACAGAGAAAAATAT
65 GGATAAAAGTAACCATCACCATTCTACATTCGAGACAAAAAGTTCATGCTCACAGAGAAAAATAT
**
11370887 ATATAGTTGACAAGCAAACCTTGGGTTGTTGATCAGGCTTTGGAAA
130 ATATAGTTGACAAGCAAACCTTGGGTTGTTGATCAGAATTTGGAAA
11370933 TCGCCGTATG
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
181 39 0.24
182 5 0.03
183 117 0.73
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (180 bp):
AGGGAAATTCCAAACTTCTGATAAAAATTCAAGCATAAAATGGGCCATATATAAGAGGAAACCAG
GATAAAAGTAACCATCACCATTCTACATTCGAGACAAAAAGTTCATGCTCACAGAGAAAAATATA
TATAGTTGACAAGCAAACCTTGGGTTGTTGATCAGAATTTGGAAAAGTTC
Found at i:11380863 original size:9 final size:8
Alignment explanation
Indices: 11380821--11380866 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
11380811 TAATATTTTG
11380821 AATTTTAA
1 AATTTTAA
11380829 AATTTTAA
1 AATTTTAA
*
11380837 AATATT-A
1 AATTTTAA
11380844 AA-TTTAA
1 AATTTTAA
*
11380851 TATTTTAA
1 AATTTTAA
11380859 ATATTTTA
1 A-ATTTTA
11380867 GTTTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
6 2 0.06
7 5 0.16
8 18 0.58
9 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTTAA
Found at i:11380927 original size:24 final size:23
Alignment explanation
Indices: 11380900--11380955 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
11380890 TTTGAAACTC
11380900 ATTTTTTTTGTAAAACAA-TTCAAA
1 ATTTTTTTT-TAAAA-AATTTCAAA
*
11380924 ATTTTAATTTTTAAAAAATTTCTAA
1 ATTTT--TTTTTAAAAAATTTCAAA
11380949 ATTTTTT
1 ATTTTTT
11380956 AAAAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 15 0.54
26 4 0.14
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTTTTTTAAAAAATTTCAAA
Found at i:11380938 original size:25 final size:26
Alignment explanation
Indices: 11380905--11380953 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
11380895 AACTCATTTT
11380905 TTTTGTAAAACAA-TTCAAAATTTTAA
1 TTTTGTAAAA-AATTTCAAAATTTTAA
*
11380931 TTTT-TAAAAAATTTCTAAATTTT
1 TTTTGTAAAAAATTTCAAAATTTT
11380954 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 15 0.71
26 4 0.19
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTGTAAAAAATTTCAAAATTTTAA
Found at i:11380953 original size:19 final size:18
Alignment explanation
Indices: 11380921--11380967 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
11380911 AAAACAATTC
11380921 AAAATTTTAA-TTTTTAA
1 AAAATTTTAATTTTTTAA
11380938 AAAATTTCTAAATTTTTTAA
1 AAAATTT-T-AATTTTTTAA
*
11380958 AAAATATTAA
1 AAAATTTTAA
11380968 GTATTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 3 0.12
20 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTTTAATTTTTTAA
Found at i:11381106 original size:17 final size:18
Alignment explanation
Indices: 11381086--11381127 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11381076 TTCTTTAAAA
11381086 TTTTTTATAAAATTT-TC
1 TTTTTTATAAAATTTATC
**
11381103 TTTTTT-TAATTTTTATC
1 TTTTTTATAAAATTTATC
11381120 TTTTTTAT
1 TTTTTTAT
11381128 GTTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATAAAATTTATC
Found at i:11384922 original size:22 final size:23
Alignment explanation
Indices: 11384873--11384915 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
11384863 AATTTGTTGA
11384873 AATTTGTTTGAGTTTTTATTACC
1 AATTTGTTTGAGTTTTTATTACC
11384896 AATTTG-TTGAGTTTTTATTA
1 AATTTGTTTGAGTTTTTATTA
11384916 GTTATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.58
Consensus pattern (23 bp):
AATTTGTTTGAGTTTTTATTACC
Found at i:11389517 original size:30 final size:30
Alignment explanation
Indices: 11389483--11389541 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11389473 TGGTTTCTGG
*
11389483 ATGGATGTTTTATG-ATGTTTGATAGATGTT
1 ATGGATGTTTTACGTATGTTTGATA-ATGTT
*
11389513 ATGGATGTTTTACGTATGTTTTATAATGT
1 ATGGATGTTTTACGTATGTTTGATAATGT
11389542 ATTATTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (30 bp):
ATGGATGTTTTACGTATGTTTGATAATGTT
Found at i:11389662 original size:19 final size:19
Alignment explanation
Indices: 11389629--11389677 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
11389619 TGTTTAAATT
11389629 ATAATTTATAAGTTTCTTAA
1 ATAA-TTATAAGTTTCTTAA
* *
11389649 ATAATTATAGGTTTTTTAA
1 ATAATTATAAGTTTCTTAA
11389668 ATAATTATAA
1 ATAATTATAA
11389678 ATGTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (19 bp):
ATAATTATAAGTTTCTTAA
Found at i:11389684 original size:19 final size:19
Alignment explanation
Indices: 11389603--11389684 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
11389593 CAATAGAATA
* *
11389603 TTTAAATAATTACATATGT
1 TTTAAATAATTATAAATGT
* *
11389622 TTAAATTATAATTTATAAGT-T
1 TTTAA--ATAA-TTATAAATGT
** *
11389643 TCTTAAATAATTATAGGTTT
1 T-TTAAATAATTATAAATGT
11389663 TTTAAATAATTATAAATGT
1 TTTAAATAATTATAAATGT
11389682 TTT
1 TTT
11389685 TATTTAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
19 29 0.59
20 6 0.12
21 6 0.12
22 8 0.16
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTAAATAATTATAAATGT
Found at i:11389754 original size:20 final size:21
Alignment explanation
Indices: 11389726--11389775 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11389716 TCGATGAAAT
* *
11389726 TTACCGATGAAA-TTTCATTA
1 TTACTGATGAAATTTTCATCA
*
11389746 TTACTGATGAAATTTTGATCA
1 TTACTGATGAAATTTTCATCA
11389767 TTACTGATG
1 TTACTGATG
11389776 GATTACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (21 bp):
TTACTGATGAAATTTTCATCA
Found at i:11392319 original size:18 final size:18
Alignment explanation
Indices: 11392298--11392333 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11392288 TTTTTATTTA
11392298 TGTATAAGTTAGAATAAT
1 TGTATAAGTTAGAATAAT
**
11392316 TGTATTTGTTAGAATAAT
1 TGTATAAGTTAGAATAAT
11392334 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
TGTATAAGTTAGAATAAT
Found at i:11393111 original size:8 final size:8
Alignment explanation
Indices: 11393095--11393136 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
11393085 CATTCAAAAG
*
11393095 AATTCAAC
1 AATTTAAC
11393103 AATTTAAC
1 AATTTAAC
11393111 AATTTAAC
1 AATTTAAC
*
11393119 -ATATAAC
1 AATTTAAC
11393126 AATTTAAC
1 AATTTAAC
11393134 AAT
1 AAT
11393137 GGTTTGGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAC
Found at i:11403180 original size:19 final size:20
Alignment explanation
Indices: 11403156--11403193 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11403146 AATTTTAAAT
11403156 TACAATTAAT-TAATTATAC
1 TACAATTAATATAATTATAC
*
11403175 TACAATTATTATAATTATA
1 TACAATTAATATAATTATA
11403194 TCTGAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TACAATTAATATAATTATAC
Found at i:11403565 original size:63 final size:63
Alignment explanation
Indices: 11403352--11403582 Score: 172
Period size: 63 Copynumber: 3.7 Consensus size: 63
11403342 TCAGGATTAA
* * *
11403352 TTACTTTATTTATGAATTTCATAATAATAAAAATATATATCTTGCTGAA-A-TGAAATTTGTAAC
1 TTACTTTATTTATGAATTTCATAATAATAAAAATATATGTCCTAC-GAACACTG-AATTTGTAAC
** * * * * * * **
11403415 TTCAACTTCGTTTATAAATTTTATATTTATAGAAATATATGTCGGTAAC-CTCAC-GAA--T-TA
1 TT--ACTTTATTTATGAATTTCATAATAATAAAAATATATGTC-CT-ACGAACACTGAATTTGTA
11403475 A-
62 AC
* * * *
11403476 TTTCGTTGTATATGAATTTCATAATAATAAAAATATATGTCCTACGAACACTGAATTTGTAAC
1 TTACTTTATTTATGAATTTCATAATAATAAAAATATATGTCCTACGAACACTGAATTTGTAAC
* * *
11403539 TTACTTTATTTATGAATTTTATAATAATAAAAACACATGTCCTA
1 TTACTTTATTTATGAATTTCATAATAATAAAAATATATGTCCTA
11403583 TCAAAACATA
Statistics
Matches: 125, Mismatches: 31, Indels: 24
0.69 0.17 0.13
Matches are distributed among these distances:
57 2 0.02
58 4 0.03
59 33 0.26
61 3 0.02
62 6 0.05
63 40 0.32
65 33 0.26
66 3 0.02
67 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (63 bp):
TTACTTTATTTATGAATTTCATAATAATAAAAATATATGTCCTACGAACACTGAATTTGTAAC
Found at i:11403596 original size:63 final size:63
Alignment explanation
Indices: 11403486--11403604 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
11403476 TTTCGTTGTA
* * *
11403486 TATGAATTTCATAATAATAAAAATATATGTCCTACGAACACTGAATTTGTAACTTACTTTATT
1 TATGAATTTCATAATAATAAAAACACATGTCCTACAAACACTGAATTTGTAACTTACTTTATT
* *
11403549 TATGAATTTTATAATAATAAAAACACATGTCCTATCAAA-ACAT-AATTTGTATCTTA
1 TATGAATTTCATAATAATAAAAACACATGTCCTA-CAAACAC-TGAATTTGTAACTTA
11403605 TGCAGTGGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
63 45 0.92
64 4 0.08
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.39
Consensus pattern (63 bp):
TATGAATTTCATAATAATAAAAACACATGTCCTACAAACACTGAATTTGTAACTTACTTTATT
Found at i:11404888 original size:33 final size:32
Alignment explanation
Indices: 11404851--11404965 Score: 100
Period size: 33 Copynumber: 3.7 Consensus size: 32
11404841 AAAAATATAT
11404851 AATTTCAACAAATATATAACCAAAACCCCAACA
1 AATTTCAACAAATATATAACCAAAA-CCCAACA
**
11404884 AATTTCAACAAATATA-AAATAAAA---AA-A
1 AATTTCAACAAATATATAACCAAAACCCAACA
*
11404911 AA-TTCAACAAAT-TGGTAACCAAAACCCAAACA
1 AATTTCAACAAATAT-ATAACCAAAACCC-AACA
* * *
11404943 ATTTTTAACAAATAAATAACCAA
1 AATTTCAACAAATATATAACCAA
11404966 CAAAAACTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
25 1 0.02
26 10 0.16
27 9 0.14
28 2 0.03
31 2 0.03
32 8 0.12
33 32 0.50
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (32 bp):
AATTTCAACAAATATATAACCAAAACCCAACA
Found at i:11404918 original size:59 final size:58
Alignment explanation
Indices: 11404854--11405028 Score: 190
Period size: 59 Copynumber: 3.0 Consensus size: 58
11404844 AATATATAAT
* *
11404854 TTCAACAAATATATAACCAAAACCCCAACAAATTTCAACAAATATAAAATAAAAAAAAA
1 TTCAACAAAT-TATAACCAAAACCCAAACAAATTTCAACAAATATAAAACAAAAAAAAA
* * * * *
11404913 TTCAACAAATTGGTAACCAAAACCCAAACAATTTTTAACAAATA-AATAACCAACAAAAA
1 TTCAACAAATT-ATAACCAAAACCCAAACAAATTTCAACAAATATAA-AACAAAAAAAAA
* * * * * *
11404972 CTCAAGAAATTAGTAAGCAAAACCCAAACAAATTTCAATAAATTTATAACAAAAAAA
1 TTCAACAAATTA-TAACCAAAACCCAAACAAATTTCAACAAATATAAAACAAAAAAA
11405029 TTAAACCCTA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
58 3 0.03
59 90 0.96
60 1 0.01
ACGTcount: A:0.59, C:0.18, G:0.03, T:0.20
Consensus pattern (58 bp):
TTCAACAAATTATAACCAAAACCCAAACAAATTTCAACAAATATAAAACAAAAAAAAA
Found at i:11406152 original size:33 final size:34
Alignment explanation
Indices: 11406080--11406154 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 34
11406070 TACTTTATTT
* * * *
11406080 TTTTAAAACCAAAATTTATAATTTTATTTTTTATT
1 TTTTCAAACCAAAATTTATAA-TGTATTTTCTATC
*
11406115 TTTTCAAACTAAAATTTATAA-GTATTTTCTATC
1 TTTTCAAACCAAAATTTATAATGTATTTTCTATC
11406148 TTTTCAA
1 TTTTCAA
11406155 GAAAACAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 16 0.46
35 19 0.54
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.53
Consensus pattern (34 bp):
TTTTCAAACCAAAATTTATAATGTATTTTCTATC
Found at i:11408307 original size:32 final size:32
Alignment explanation
Indices: 11408251--11408311 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
11408241 ATAATGAAAC
*
11408251 AAAACTCATTTACTTTATTTTTTATAATAGAT
1 AAAACTCATTTACTTTATTATTTATAATAGAT
* * *
11408283 AAAATTCATTTGCTTTGTTATTTATAATA
1 AAAACTCATTTACTTTATTATTTATAATA
11408312 TGAGAAAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (32 bp):
AAAACTCATTTACTTTATTATTTATAATAGAT
Found at i:11408809 original size:32 final size:31
Alignment explanation
Indices: 11408751--11408811 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
11408741 ATAATATAAA
11408751 TTTTAATTAATTATAATAATAGAAATAATTT
1 TTTTAATTAATTATAATAATAGAAATAATTT
**
11408782 TTTTAATTTTTTATACATAATTA-AAATAAT
1 TTTTAATTAATTATA-ATAA-TAGAAATAAT
11408812 AATAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 13 0.50
32 11 0.42
33 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (31 bp):
TTTTAATTAATTATAATAATAGAAATAATTT
Found at i:11409001 original size:16 final size:16
Alignment explanation
Indices: 11408980--11409018 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11408970 CATTTTGTTC
* *
11408980 AAATTAATTTGATTTT
1 AAATTAATTTAAATTT
11408996 AAATTAATTTAAATTT
1 AAATTAATTTAAATTT
11409012 AAATTAA
1 AAATTAA
11409019 GAAAATTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAATTAATTTAAATTT
Found at i:11411091 original size:39 final size:40
Alignment explanation
Indices: 11411034--11411126 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
11411024 GATTGGATGG
* * *
11411034 GGTGGAGA-GAATTGGGTGTGGTGGGGCGTTG-GGGGAAA
1 GGTGGAGAGGGATTGGGTGTGGTGGGACGTTGAGAGGAAA
* *
11411072 GGTGGAGAGGGATTGGGTGTGGTGGGATGTTGAGAGGTAA
1 GGTGGAGAGGGATTGGGTGTGGTGGGACGTTGAGAGGAAA
11411112 GGTGGAGAGGGATTG
1 GGTGGAGAGGGATTG
11411127 ATGGGGGTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 8 0.17
39 20 0.42
40 20 0.42
ACGTcount: A:0.19, C:0.01, G:0.57, T:0.23
Consensus pattern (40 bp):
GGTGGAGAGGGATTGGGTGTGGTGGGACGTTGAGAGGAAA
Found at i:11411645 original size:26 final size:26
Alignment explanation
Indices: 11411617--11411665 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11411607 TAAAAAATAA
*
11411617 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
11411642 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
11411666 ATTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:11413564 original size:39 final size:39
Alignment explanation
Indices: 11413506--11413637 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
11413496 GATTGGATGG
*
11413506 GGTGGGGA-GGATTGAGTGTGGTGGGGCGTTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
* *
11413544 GGTGGTGAGGGATTGGGTGTGGTGGGGCGTTGGGAGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
** *
11413583 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGAGGTAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGG-GGGAA
*
11413623 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
11413638 ATGGGGTTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 7 0.08
39 59 0.71
40 17 0.20
ACGTcount: A:0.14, C:0.02, G:0.61, T:0.23
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
Found at i:11414164 original size:25 final size:26
Alignment explanation
Indices: 11414136--11414184 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11414126 TAAAAAATAA
11414136 AAAATATAGGATTGAAAA-TTTTATT
1 AAAATATAGGATTGAAAACTTTTATT
*
11414161 AAAATATAGGTTTGAAAACTTTTA
1 AAAATATAGGATTGAAAACTTTTA
11414185 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
AAAATATAGGATTGAAAACTTTTATT
Found at i:11416093 original size:39 final size:39
Alignment explanation
Indices: 11416042--11416166 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 39
11416032 TGGGGTGGGG
* *
11416042 GGGATTGAGTGTGGTGGGGCGTTGGGGGGAAGGTGGTGA
1 GGGATTGGGTGTGGTGGGGCGTTGGGGGGAAGGTGGAGA
* *
11416081 GGGATTGGGTGTGGTGGGGCGTTGGGAGGAAGGTGGGGA
1 GGGATTGGGTGTGGTGGGGCGTTGGGGGGAAGGTGGAGA
* ** *
11416120 GGGATTGGGTGTGGTGAGATGTTGGGAGGTAAGGTGGAGA
1 GGGATTGGGTGTGGTGGGGCGTTGGG-GGGAAGGTGGAGA
11416160 GGGATTG
1 GGGATTG
11416167 ATGGGGGTGG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 59 0.78
40 17 0.22
ACGTcount: A:0.15, C:0.02, G:0.60, T:0.23
Consensus pattern (39 bp):
GGGATTGGGTGTGGTGGGGCGTTGGGGGGAAGGTGGAGA
Found at i:11416692 original size:26 final size:26
Alignment explanation
Indices: 11416664--11416712 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11416654 TAAAAAATAA
*
11416664 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
11416689 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
11416713 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:11418573 original size:19 final size:20
Alignment explanation
Indices: 11418544--11418584 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11418534 TTAGGCACGT
11418544 GGAGAGATTGGATGGGGTGG
1 GGAGAGATTGGATGGGGTGG
* *
11418564 GGAG-GATTGGGTGTGGTGG
1 GGAGAGATTGGATGGGGTGG
11418583 GG
1 GG
11418585 CGTTGGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.63, T:0.22
Consensus pattern (20 bp):
GGAGAGATTGGATGGGGTGG
Found at i:11418600 original size:19 final size:19
Alignment explanation
Indices: 11418578--11418642 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
11418568 GATTGGGTGT
11418578 GGTGGGGCGTTGGGGGGAA
1 GGTGGGGCGTTGGGGGGAA
* * *
11418597 GGTGGGGAGGGATT-GGGTG-T
1 GGT-GGG-GCG-TTGGGGGGAA
*
11418617 GGTGGGGCGTTGAGGGGAA
1 GGTGGGGCGTTGGGGGGAA
11418636 GGTGGGG
1 GGTGGGG
11418643 AGGGATTGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 5 0.15
19 13 0.38
20 6 0.18
21 6 0.18
22 2 0.06
ACGTcount: A:0.11, C:0.03, G:0.68, T:0.18
Consensus pattern (19 bp):
GGTGGGGCGTTGGGGGGAA
Found at i:11418615 original size:39 final size:39
Alignment explanation
Indices: 11418559--11418658 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
11418549 GATTGGATGG
*
11418559 GGTGGGGA-GGATTGGGTGTGGTGGGGCGTTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGAGGGGAA
11418597 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGAGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGAGGGGAA
11418636 GGTGGGGAGGGATTGGGTGTGGT
1 GGTGGGGAGGGATTGGGTGTGGT
11418659 AGGGTGTTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
38 8 0.13
39 52 0.87
ACGTcount: A:0.11, C:0.02, G:0.65, T:0.22
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGAGGGGAA
Found at i:11419157 original size:26 final size:26
Alignment explanation
Indices: 11419129--11419177 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11419119 TAAAAAATAA
*
11419129 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
11419154 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
11419178 ATTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:11421078 original size:39 final size:39
Alignment explanation
Indices: 11421020--11421151 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
11421010 GATTGGATGG
*
11421020 GGTGGGGA-GGATTGAGTGTGGTGGGGCGTTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
* *
11421058 GGTGGTGAGGGATTGGGTGTGGTGGGGCGTTGGGAGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
** *
11421097 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGAGGTAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGG-GGGAA
*
11421137 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
11421152 ATGGGGGTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 7 0.08
39 59 0.71
40 17 0.20
ACGTcount: A:0.14, C:0.02, G:0.61, T:0.23
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGGCGTTGGGGGGAA
Found at i:11423582 original size:14 final size:15
Alignment explanation
Indices: 11423563--11423591 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11423553 GAATGTGATG
11423563 ACTTTTAAG-ACTTT
1 ACTTTTAAGCACTTT
11423577 ACTTTTAAGCACTTT
1 ACTTTTAAGCACTTT
11423592 TCCATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTTTTAAGCACTTT
Found at i:11425144 original size:24 final size:24
Alignment explanation
Indices: 11425104--11425174 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
11425094 ATTAAAAAAA
*
11425104 TTAAAAAATCATA-AAAAAATAATT
1 TTAAAATAT-ATATAAAAAATAATT
11425128 TTAAAATATATATAAAAAA-AGAGTT
1 TTAAAATATATATAAAAAATA-A-TT
* *
11425153 TT-AAATATTTTTAAAAAATAAT
1 TTAAAATATATATAAAAAATAAT
11425175 ATAATTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
23 5 0.12
24 30 0.75
25 5 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (24 bp):
TTAAAATATATATAAAAAATAATT
Found at i:11425154 original size:25 final size:24
Alignment explanation
Indices: 11425114--11425170 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
11425104 TTAAAAAATC
*
11425114 ATAAAAAAATAATTTTAAAATATAT
1 ATAAAAAAAGAATTTT-AAATATAT
* *
11425139 ATAAAAAAAGAGTTTTAAATATTT
1 ATAAAAAAAGAATTTTAAATATAT
*
11425163 TTAAAAAA
1 ATAAAAAA
11425171 TAATATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATAAAAAAAGAATTTTAAATATAT
Found at i:11425439 original size:24 final size:24
Alignment explanation
Indices: 11425407--11425460 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
11425397 AAATATTATC
11425407 AAATT-ATAT-TTTCA-TCACATAT
1 AAATTAATATCTTTCATTC-CATAT
*
11425429 ATAATTAATATCTTTTATTCCATAT
1 A-AATTAATATCTTTCATTCCATAT
11425454 AAATTAA
1 AAATTAA
11425461 AAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
23 4 0.15
24 10 0.37
25 10 0.37
26 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATTAATATCTTTCATTCCATAT
Found at i:11427249 original size:19 final size:18
Alignment explanation
Indices: 11427215--11427268 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
11427205 GTTTTTTTAC
11427215 ATAATTTATATT-ATAAAA
1 ATAATTTAT-TTAATAAAA
*
11427233 ATTAATTTATTTAATAAAT
1 A-TAATTTATTTAATAAAA
*
11427252 ATATATTAATTTAATAA
1 ATA-ATTTATTTAATAA
11427269 TTTAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAATTTATTTAATAAAA
Found at i:11427344 original size:155 final size:159
Alignment explanation
Indices: 11427157--11427489 Score: 568
Period size: 155 Copynumber: 2.1 Consensus size: 159
11427147 TCAAAAATAA
* *
11427157 TTTATGTATT-TTTTTTATAATAGATTATTTTTATTTTCTAATTGAAATGTTTTTTTACATAATT
1 TTTATGAATTATTTTTTATAATAGATTATTTTTATTTTCTAATTGAAATGTTTTCTTACATAATT
11427221 TATATTATAAAAATTAATTTA-TT-T-AATAAATATA-TATTAATTTAATAATTTAATTATATTT
66 TATATTATAAAAATTAATTTACTTATAAATAAATATATTATTAATTTAATAATTTAATTATATTT
11427282 ATTACAAAATAAATAAAATATTACTATGT
131 ATTACAAAATAAATAAAATATTACTATGT
11427311 TTTATGAATTATTTTTTATAATAGATTATTTTTATTTTCTAATTGAAATGTTTTCTTACATAATT
1 TTTATGAATTATTTTTTATAATAGATTATTTTTATTTTCTAATTGAAATGTTTTCTTACATAATT
*
11427376 TATATTATAAAAATTAGTTTACTTAATAAATAAATATATTTATTAATTTAATAATTTAATTATAT
66 TATATTATAAAAATTAATTTACTT-ATAAATAAATATA-TTATTAATTTAATAATTTAATTATAT
*
11427441 TTATTACAAAATAAATAAAATATTACTATTT
129 TTATTACAAAATAAATAAAATATTACTATGT
11427472 TTTATGAATTATTATTTT
1 TTTATGAATTATT-TTTT
11427490 TAAGCAACAT
Statistics
Matches: 167, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
154 9 0.05
155 73 0.44
156 2 0.01
158 1 0.01
159 10 0.06
161 68 0.41
162 4 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (159 bp):
TTTATGAATTATTTTTTATAATAGATTATTTTTATTTTCTAATTGAAATGTTTTCTTACATAATT
TATATTATAAAAATTAATTTACTTATAAATAAATATATTATTAATTTAATAATTTAATTATATTT
ATTACAAAATAAATAAAATATTACTATGT
Found at i:11427927 original size:3 final size:3
Alignment explanation
Indices: 11427921--11427955 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11427911 AATTTTTTTT
*
11427921 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11427956 TTTTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11428221 original size:10 final size:10
Alignment explanation
Indices: 11428208--11428423 Score: 63
Period size: 10 Copynumber: 21.7 Consensus size: 10
11428198 GAAAATTTCA
11428208 AAAAAATTTT
1 AAAAAATTTT
11428218 AAAACAATTTT
1 AAAA-AATTTT
*
11428229 --AGAATTTT
1 AAAAAATTTT
**
11428237 TTAAAATTTT
1 AAAAAATTTT
**
11428247 TCAAAATTTT
1 AAAAAATTTT
**
11428257 TCAAAATTTT
1 AAAAAATTTT
* *
11428267 -CAAAATTTCA
1 AAAAAATTT-T
*
11428277 AAAAAATGTT
1 AAAAAATTTT
**
11428287 AAAATGTTTTT
1 AAAA-AATTTT
* *
11428298 CAAAAATTCT
1 AAAAAATTTT
11428308 AAAATAATTTT
1 AAAA-AATTTT
*
11428319 TAAAAATTTAT
1 AAAAAATTT-T
* *
11428330 AAAAAATCCTA
1 AAAAAAT-TTT
11428341 AAAAAATTTT
1 AAAAAATTTT
* *
11428351 --CAATTTTT
1 AAAAAATTTT
** *
11428359 TTAAAATTCT
1 AAAAAATTTT
*
11428369 AAAAAAATTT
1 AAAAAATTTT
11428379 AAGGAAAA-TTT
1 AA--AAAATTTT
*
11428390 --AAAATTTC
1 AAAAAATTTT
*
11428398 AAAAAATCTT
1 AAAAAATTTT
*
11428408 -AAAATTTTT
1 AAAAAATTTT
11428417 AAAAAAT
1 AAAAAAT
11428424 CCAAAAATTT
Statistics
Matches: 152, Mismatches: 37, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
7 4 0.03
8 14 0.09
9 16 0.11
10 70 0.46
11 43 0.28
12 5 0.03
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:11428267 original size:19 final size:20
Alignment explanation
Indices: 11428231--11428274 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
11428221 ACAATTTTAG
*
11428231 AATTTTTTAAAATTTTTCAA
1 AATTTTTCAAAATTTTTCAA
11428251 AATTTTTCAAAA-TTTTCAA
1 AATTTTTCAAAATTTTTCAA
11428270 AATTT
1 AATTT
11428275 CAAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTTTCAAAATTTTTCAA
Found at i:11428422 original size:19 final size:18
Alignment explanation
Indices: 11428383--11428459 Score: 68
Period size: 19 Copynumber: 4.3 Consensus size: 18
11428373 AAATTTAAGG
11428383 AAAAT-TTAAAATTTCAA
1 AAAATCTTAAAATTTCAA
*
11428400 AAAATCTTAAAATTTTTAA
1 AAAATCTTAAAA-TTTCAA
** *
11428419 AAAATCCAAAAATTTAAAA
1 AAAATCTTAAAATTT-CAA
* *
11428438 AAAAT-TGAAAACTTCAA
1 AAAATCTTAAAATTTCAA
11428455 AAAAT
1 AAAAT
11428460 GAGAATACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
17 12 0.24
18 15 0.31
19 22 0.45
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAATCTTAAAATTTCAA
Found at i:11428509 original size:18 final size:18
Alignment explanation
Indices: 11428488--11428536 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11428478 AAAATTTTCT
*
11428488 TAAAACTTAAAAAATTCA
1 TAAAACTTAAAAAATACA
*
11428506 TAAATACTT-AAAAATACT
1 TAAA-ACTTAAAAAATACA
11428524 TAAAA-TTAAAAAA
1 TAAAACTTAAAAAA
11428537 ATAAGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.07
17 6 0.22
18 15 0.56
19 4 0.15
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAACTTAAAAAATACA
Found at i:11428645 original size:21 final size:21
Alignment explanation
Indices: 11428621--11428664 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11428611 TATTTTTTAA
11428621 TTTTTAAATCTTTT-TTAAAAT
1 TTTTTAAAT-TTTTATTAAAAT
**
11428642 TTTTTGGATTTTTATTAAAAT
1 TTTTTAAATTTTTATTAAAAT
11428663 TT
1 TT
11428665 AAGGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTTAAATTTTTATTAAAAT
Found at i:11428917 original size:28 final size:29
Alignment explanation
Indices: 11428876--11428942 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
11428866 GAAAATTTAT
*
11428876 TTTTCATTAAAATTTTC-ATTTTTTTGGAC
1 TTTT-ATTAAAATTTTCAATTTTTTTGGAA
*
11428905 TTTTATTAAAATTTTCAATTTTTTTTGAA
1 TTTTATTAAAATTTTCAATTTTTTTGGAA
11428934 TTTT-TTAAA
1 TTTTATTAAA
11428943 TTATCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.61
Consensus pattern (29 bp):
TTTTATTAAAATTTTCAATTTTTTTGGAA
Found at i:11431388 original size:24 final size:23
Alignment explanation
Indices: 11431307--11431389 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 23
11431297 TAATAACATA
* * * *
11431307 TTAAAATTATATCAAATGATATT
1 TTAAAATTATATTATATTATAAT
*
11431330 CTTTAAATTATATGATATATTACATAAT
1 -TTAAAATTATAT--TATATT--ATAAT
11431358 TTGAAAATTATATTATATTATAAT
1 TT-AAAATTATATTATATTATAAT
11431382 GTTAAAAT
1 -TTAAAAT
11431390 ATTACATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
24 21 0.45
25 2 0.04
26 9 0.19
27 2 0.04
28 13 0.28
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (23 bp):
TTAAAATTATATTATATTATAAT
Found at i:11437197 original size:22 final size:21
Alignment explanation
Indices: 11437156--11437197 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
11437146 CTTATTGCAA
* *
11437156 TTGATATAGGAGTTTAAACAT
1 TTGATATAAGAGCTTAAACAT
11437177 TTGATATAAAGAGCTTAAACA
1 TTGATAT-AAGAGCTTAAACA
11437198 ATAAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGATATAAGAGCTTAAACAT
Found at i:11445958 original size:14 final size:14
Alignment explanation
Indices: 11445935--11445966 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11445925 TAACTGTAAA
*
11445935 AAAATTAGAAAGAG
1 AAAATAAGAAAGAG
11445949 AAAATAAGAAAGAG
1 AAAATAAGAAAGAG
11445963 AAAA
1 AAAA
11445967 AATGTACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (14 bp):
AAAATAAGAAAGAG
Found at i:11445968 original size:16 final size:16
Alignment explanation
Indices: 11445933--11445969 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
11445923 TATAACTGTA
*
11445933 AAAAAATTAGAAAGAG
1 AAAAAATAAGAAAGAG
11445949 --AAAATAAGAAAGAG
1 AAAAAATAAGAAAGAG
11445963 AAAAAAT
1 AAAAAAT
11445970 GTACCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 13 0.72
16 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (16 bp):
AAAAAATAAGAAAGAG
Found at i:11447445 original size:21 final size:20
Alignment explanation
Indices: 11447390--11447446 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
11447380 AAAATCATGT
*
11447390 ATGAAAAATAACATAAAATAA
1 ATGAAAAATAACA-AAAACAA
* *
11447411 ATAAAAAAT-ACAAAGACAA
1 ATGAAAAATAACAAAAACAA
11447430 ATGAACAAATAACAAAA
1 ATGAA-AAATAACAAAA
11447447 TACCTTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 9 0.31
20 7 0.24
21 13 0.45
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (20 bp):
ATGAAAAATAACAAAAACAA
Found at i:11449920 original size:41 final size:41
Alignment explanation
Indices: 11449865--11449948 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
11449855 AAATAATTTT
*
11449865 TTTTAGGTAAGATTAGGTATTTAAAAGAATTTTGAAAATTA
1 TTTTACGTAAGATTAGGTATTTAAAAGAATTTTGAAAATTA
*
11449906 TTTTACGTAGGATTAGGTATTTAAAAGAATTTTGAAAATTA
1 TTTTACGTAAGATTAGGTATTTAAAAGAATTTTGAAAATTA
11449947 TT
1 TT
11449949 GTTTAACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (41 bp):
TTTTACGTAAGATTAGGTATTTAAAAGAATTTTGAAAATTA
Found at i:11450516 original size:26 final size:26
Alignment explanation
Indices: 11450487--11450546 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
11450477 GAATTTAATA
11450487 GAAA-AATGGACAAAATAAAATTATGT
1 GAAATAAT-GACAAAATAAAATTATGT
11450513 GAAATAATGACAAAATAAAATTATGT
1 GAAATAATGACAAAATAAAATTATGT
11450539 GAAATAAT
1 GAAATAAT
11450547 ATACCTCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.25
Consensus pattern (26 bp):
GAAATAATGACAAAATAAAATTATGT
Found at i:11454739 original size:20 final size:21
Alignment explanation
Indices: 11454699--11454748 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11454689 TCCGAAATTA
11454699 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
11454720 ATAAAATATTATTTTT-AAAT
1 ATAAAATATTATTTTTAAAAT
11454740 AT-AAATATT
1 ATAAAATATT
11454749 TAAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:11454750 original size:14 final size:16
Alignment explanation
Indices: 11454721--11454774 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 16
11454711 TTTTAAAATA
*
11454721 TAAA-ATATTATT-TT
1 TAAATATATAATTATT
11454735 TAAATATA-AA-TATT
1 TAAATATATAATTATT
*
11454749 TAAATATATAATTATA
1 TAAATATATAATTATT
11454765 TAAATATATA
1 TAAATATATA
11454775 TAAATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 5 0.15
16 13 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATATATAATTATT
Found at i:11454754 original size:8 final size:8
Alignment explanation
Indices: 11454738--11454774 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
11454728 TTATTTTTAA
11454738 ATATAAAT
1 ATATAAAT
*
11454746 ATTTAAAT
1 ATATAAAT
*
11454754 ATATAATT
1 ATATAAAT
11454762 ATATAAAT
1 ATATAAAT
11454770 ATATA
1 ATATA
11454775 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:11454781 original size:14 final size:14
Alignment explanation
Indices: 11454718--11454782 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
11454708 TATTTTTAAA
11454718 ATATA-AAATAT-T
1 ATATATAAATATAT
* * *
11454730 ATTTTTAAATATAA
1 ATATATAAATATAT
*
11454744 ATATTTAAATATAT
1 ATATATAAATATAT
11454758 AATTATATAAATATAT
1 -A-TATATAAATATAT
*
11454774 ATAAATAAA
1 ATATATAAA
11454783 AAATTAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 3 0.07
13 6 0.14
14 19 0.45
15 2 0.05
16 12 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATAAATATAT
Found at i:11454787 original size:26 final size:24
Alignment explanation
Indices: 11454738--11454788 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
11454728 TTATTTTTAA
* *
11454738 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
11454762 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
11454788 A
1 A
11454789 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:11467127 original size:16 final size:17
Alignment explanation
Indices: 11467092--11467129 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11467082 TATGAAAAAG
*
11467092 AAAAACAATTAATAACC
1 AAAAACAATTAAGAACC
*
11467109 AAAAACAA-TAAGAAGC
1 AAAAACAATTAAGAACC
11467125 AAAAA
1 AAAAA
11467130 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.71, C:0.13, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAACAATTAAGAACC
Found at i:11468861 original size:76 final size:73
Alignment explanation
Indices: 11468778--11469022 Score: 273
Period size: 76 Copynumber: 3.2 Consensus size: 73
11468768 TTTTTTATTT
*
11468778 AAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGTCAAATACATTATTTGAAACACAA
1 AAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGT-AAATACATT-TTTGAAA-AAAA
*
11468843 TTTATTTTGTA
63 TTTATTTTCTA
11468854 AAAAAAATTGATACTTTCAACTTTTCCTTAAAAACAT-TCTT-TTG--AATACATTTTTGAAAAA
1 AAAAAAATTGATACTTTCAA-TTTT--TTAAAAA-ATGT-TTCTTGTAAATACATTTTTGAAAAA
*
11468915 AATTTATTTTTTA
61 AATTTATTTTCTA
* * *
11468928 AGAAAAATTTATACTTTCAATTTTTGCTTAAAAATGTTTCTTGTTAAATACATTTTTTGAAAAAA
1 AAAAAAATTGATACTTTCAATTTTT--TAAAAAATGTTTCTTG-TAAATACA-TTTTTG-AAAAA
11468993 AATTTATTTTCTA
61 AATTTATTTTCTA
* *
11469006 AAGAAAATTAATACTTT
1 AAAAAAATTGATACTTT
11469023 TGACTTTTTC
Statistics
Matches: 146, Mismatches: 9, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
71 1 0.01
72 4 0.03
73 13 0.09
74 31 0.21
75 7 0.05
76 34 0.23
77 10 0.07
78 31 0.21
79 11 0.08
80 4 0.03
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (73 bp):
AAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGTAAATACATTTTTGAAAAAAATTT
ATTTTCTA
Found at i:11468925 original size:17 final size:18
Alignment explanation
Indices: 11468903--11468939 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11468893 TTTTGAATAC
11468903 ATTTTTGAA-AAAAATTT
1 ATTTTTGAAGAAAAATTT
*
11468920 ATTTTTTAAGAAAAATTT
1 ATTTTTGAAGAAAAATTT
11468938 AT
1 AT
11468940 ACTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTTGAAGAAAAATTT
Found at i:11468977 original size:152 final size:150
Alignment explanation
Indices: 11468766--11469037 Score: 393
Period size: 152 Copynumber: 1.8 Consensus size: 150
11468756 CCAATTTTTT
*
11468766 ATTTTTTTATTTAAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGTCAAATACATTA
1 ATTTATTTATTTAAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGTCAAATACATTA
* * * *
11468831 TTTGAAACACAATTTATTTTGTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAACATTCTTT
66 TTTGAAAAAAAATTTATTTTCTAAAAAAAATTAATACTTTCAACTTTTCCTTAAAAACATTCTTT
11468896 TGAATACATTTTTGAAAAAA
131 TGAATACATTTTTGAAAAAA
* * *
11468916 ATTTATTT-TTTAAGAAAAATTTATACTTTCAATTTTTGCTTAAAAATGTTTCTTGTTAAATACA
1 ATTTATTTATTTAA-AAAAATTGATACTTTCAATTTTT--TAAAAAATGTTTCTTGTCAAATACA
* * ** *
11468980 TTTTTTGAAAAAAAATTTATTTTCTAAAGAAAATTAATACTTTTGACTTTTTCTTAAA
63 TTATTTGAAAAAAAATTTATTTTCTAAAAAAAATTAATACTTTCAACTTTTCCTTAAA
11469038 GATGTTTCTT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 5 0.05
150 29 0.27
152 72 0.68
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (150 bp):
ATTTATTTATTTAAAAAAATTGATACTTTCAATTTTTTAAAAAATGTTTCTTGTCAAATACATTA
TTTGAAAAAAAATTTATTTTCTAAAAAAAATTAATACTTTCAACTTTTCCTTAAAAACATTCTTT
TGAATACATTTTTGAAAAAA
Found at i:11469013 original size:78 final size:76
Alignment explanation
Indices: 11468775--11469047 Score: 306
Period size: 78 Copynumber: 3.6 Consensus size: 76
11468765 TATTTTTTTA
* * *
11468775 TTTAAA-AAAATTGATACTTTCAATTTTT-TAAAAAATGTTTCTTGTCAAATACATTATTTGAAA
1 TTTAAAGAAAATTGATACTTTCAATTTTTCTTAAAAATGTTTCTTGTTAAATACATTTTTTGAAA
* *
11468838 CACAATTTATT
66 AAAAATTTATT
* * ** *
11468849 TTGTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAAA-CATTCTT-TTGAATACA-TTTTTG-
1 TT-TAAAGAAAATTGATACTTTCAA-TTTTTCTTAAAAATGTTTCTTGTTAAATACATTTTTTGA
11468910 AAAAAAATTTATT
64 AAAAAAATTTATT
* *
11468923 TTTTAAGAAAAATTTATACTTTCAATTTTTGCTTAAAAATGTTTCTTGTTAAATACATTTTTTGA
1 TTTAAAG-AAAATTGATACTTTCAATTTTT-CTTAAAAATGTTTCTTGTTAAATACATTTTTTGA
11468988 AAAAAAATTTATT
64 AAAAAAATTTATT
* * * *
11469001 TTCTAAAGAAAATTAATACTTTTGACTTTTTCTTAAAGATGTTTCTT
1 TT-TAAAGAAAATTGATAC-TTTCAATTTTTCTTAAAAATGTTTCTT
11469048 AAATTTTTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
73 7 0.04
74 39 0.23
75 14 0.08
76 32 0.19
77 15 0.09
78 46 0.28
79 13 0.08
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.46
Consensus pattern (76 bp):
TTTAAAGAAAATTGATACTTTCAATTTTTCTTAAAAATGTTTCTTGTTAAATACATTTTTTGAAA
AAAAATTTATT
Found at i:11469101 original size:72 final size:75
Alignment explanation
Indices: 11468769--11469102 Score: 251
Period size: 74 Copynumber: 4.5 Consensus size: 75
11468759 ATTTTTTATT
* * *
11468769 TTTTTATTTAA-AAAAATTGATACTTTCAA-TTTTT--TAAAAAATGTTTCTTGTCAAATACATT
1 TTTTT-TTTAAGAAAAATTAATACTTTTAACTTTTTGCTTAAAAATGTTTCTT-T-AAATACATT
* * *
11468830 ATTTGAAACACAA
63 TTTTGAAAAAAAA
* * * * ** *
11468843 TTTATTTTGTAAAAAAAATTGATACTTTCAAC-TTTTCCTTAAAAA-CATTCTTTTGAATACA-T
1 TTT-TTTT-TAAGAAAAATTAATACTTTTAACTTTTTGCTTAAAAATGTTTC-TTTAAATACATT
*
11468905 TTTTGAAAAAAAT
63 TTTTGAAAAAAAA
* *
11468918 TTATTTTTTAAGAAAAATTTATACTTTCAA-TTTTTGCTTAAAAATGTTTCTTGTTAAATACATT
1 TT-TTTTTTAAGAAAAATTAATACTTTTAACTTTTTGCTTAAAAATGTTTC-T-TTAAATACATT
11468982 TTTTGAAAAAAAA
63 TTTTGAAAAAAAA
* * **
11468995 TTTATTTTCTAA-AGAAAATTAATACTTTTGACTTTTT-CTTAAAGATGTTTC-TTAAAT-TTTT
1 TTT-TTTT-TAAGA-AAAATTAATACTTTTAACTTTTTGCTTAAAAATGTTTCTTTAAATACATT
* * **
11469056 TTTTTAAAAGATC
63 TTTTGAAAAAAAA
*
11469069 TTTTTTTTAAGAAAAATTGATACTTTTAACTTTT
1 TTTTTTTTAAGAAAAATTAATACTTTTAACTTTT
11469103 AAAAAAAAAA
Statistics
Matches: 216, Mismatches: 27, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
72 23 0.11
73 5 0.02
74 51 0.24
75 32 0.15
76 38 0.18
77 24 0.11
78 38 0.18
79 5 0.02
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (75 bp):
TTTTTTTTAAGAAAAATTAATACTTTTAACTTTTTGCTTAAAAATGTTTCTTTAAATACATTTTT
TGAAAAAAAA
Found at i:11469218 original size:57 final size:56
Alignment explanation
Indices: 11469077--11469269 Score: 152
Period size: 57 Copynumber: 3.3 Consensus size: 56
11469067 TCTTTTTTTT
*** * ** **
11469077 AAGAAAAATTGATACTTTTAACTTTTAAAAAAAAAACTTTTTGAAACCTTTGCCTTC
1 AAGAAAAATTGATACTTTTAACTTTTCTTAAAAATA-TTTTTGAAAATTTTATCTTC
* * * * **
11469134 ATGGAAAATTGATACCTTTAATTTTTTCTTAAAAATATTTTTGAATTTTTTATCTTC
1 AAGAAAAATTGATACTTTTAA-CTTTTCTTAAAAATATTTTTGAAAATTTTATCTTC
* * *
11469191 AAGAAAAATTGATACTTTTCAACTTTTCCTTGGAAAAACATTTTTTTGAAAATTTTCTTTTC
1 AAGAAAAATTGATACTTTT-AACTTTT-CTT---AAAA-ATATTTTTGAAAATTTTATCTTC
*
11469253 AAGAAAGATTGATACTT
1 AAGAAAAATTGATACTT
11469270 CAACTTCTAA
Statistics
Matches: 106, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
57 53 0.50
58 15 0.14
61 4 0.04
62 34 0.32
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (56 bp):
AAGAAAAATTGATACTTTTAACTTTTCTTAAAAATATTTTTGAAAATTTTATCTTC
Found at i:11469790 original size:2 final size:2
Alignment explanation
Indices: 11469785--11469809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11469775 AACTTCCCTT
11469785 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
11469810 TTTTCTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11469978 original size:11 final size:11
Alignment explanation
Indices: 11469954--11469985 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11469944 AATTCAATTG
11469954 ATTTCTAG--A
1 ATTTCTAGAAA
11469963 ATTTCTAGAAA
1 ATTTCTAGAAA
11469974 ATTTCTAGAAA
1 ATTTCTAGAAA
11469985 A
1 A
11469986 ATAAAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.38
11 13 0.62
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (11 bp):
ATTTCTAGAAA
Found at i:11470780 original size:86 final size:86
Alignment explanation
Indices: 11470652--11471061 Score: 300
Period size: 86 Copynumber: 4.8 Consensus size: 86
11470642 GAGAGTAGAC
* * * * *
11470652 AACTTGAACTAAAGTCAAAAAA-GATTTGGCGTAAGTCGAAATCTAAAAACAAAATAACTTGGAT
1 AACTTGGACT-AAGTCAAAAAAGGATTTGACATAAGCCAAAATCTAAAAACAAAATAACTTGGAT
*
11470716 TGAGCCGAAGTCCAAAATGAAT
65 TGAACCGAAGTCCAAAATGAAT
* ** * ** * *
11470738 AACTTGGACAAAGTTGAAGAAGGATTTGACATAAGTTAAAATC---CAA-AAAATGAA-TTAGAT
1 AACTTGGACTAAGTCAAAAAAGGATTTGACATAAGCCAAAATCTAAAAACAAAAT-AACTTGGAT
** * *
11470798 CAAACTGAAGTCTAAAATGAAT
65 TGAACCGAAGTCCAAAATGAAT
* * * * * * * *
11470820 AACTTGGATTAAG-CTAAAAAAGGATTTGATAAAAGTCAAAATTTGAAAACAAAATAACATAGAT
1 AACTTGGACTAAGTC-AAAAAAGGATTTGACATAAGCCAAAATCTAAAAACAAAATAACTTGGAT
*
11470884 TGAACTGAAGTCCAAAATGAAT
65 TGAACCGAAGTCCAAAATGAAT
* * ** * *
11470906 AATTTAGACTAAGTCAAATAAA-GATTTGACATAAGCTGAAATCTAAAAATAAAATGA-TCTGGA
1 AACTTGGACTAAGTCAAA-AAAGGATTTGACATAAGCCAAAATCTAAAAACAAAATAACT-TGGA
* ** *
11470969 TTGAATCGAAGGT-TGAAATAAAT
64 TTGAACCGAA-GTCCAAAATGAAT
* * * * * *
11470992 AACTTGGATTAAGTCGAAAAAGGATTCGACATAAGCCAAAATTTGAAAACAAAATAACCTGGATT
1 AACTTGGACTAAGTCAAAAAAGGATTTGACATAAGCCAAAATCTAAAAACAAAATAACTTGGATT
*
11471057 AAACC
66 GAACC
11471062 AAGGTCTAAA
Statistics
Matches: 247, Mismatches: 63, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
82 60 0.24
83 4 0.02
85 15 0.06
86 162 0.66
87 6 0.02
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.24
Consensus pattern (86 bp):
AACTTGGACTAAGTCAAAAAAGGATTTGACATAAGCCAAAATCTAAAAACAAAATAACTTGGATT
GAACCGAAGTCCAAAATGAAT
Found at i:11476685 original size:21 final size:23
Alignment explanation
Indices: 11476659--11476719 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
11476649 ATTTTTCTTA
11476659 TTTTTTTTCTCTTTTC-C-TACT
1 TTTTTTTTCTCTTTTCTCTTACT
*
11476680 TTTTTTTCCT-TTCTTCTCTTACT
1 TTTTTTTTCTCTT-TTCTCTTACT
11476703 TTTTCTTTT-TCTTTTCT
1 TTTT-TTTTCTCTTTTCT
11476720 TGTTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 1 0.03
23 13 0.39
24 5 0.15
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTTCTCTTTTCTCTTACT
Found at i:11476694 original size:23 final size:21
Alignment explanation
Indices: 11476651--11476718 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 21
11476641 GCCACATAAT
* *
11476651 TTTTCTTA-TTTTT-TTTCTC
1 TTTTCCTACTTTTTCTTTTTC
*
11476670 TTTTCCTACTTTTTTTTCCTTTC
1 TTTTCCTACTTTTTCTT--TTTC
* *
11476693 TTCTCTTACTTTTTCTTTTTC
1 TTTTCCTACTTTTTCTTTTTC
11476714 TTTTC
1 TTTTC
11476719 TTGTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.18
20 5 0.13
21 10 0.26
23 17 0.44
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCCTACTTTTTCTTTTTC
Found at i:11476720 original size:21 final size:20
Alignment explanation
Indices: 11476651--11476730 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
11476641 GCCACATAAT
*
11476651 TTTTCTTA-TTTTTTTTCTC
1 TTTTCTTACTTTTTTTTTTC
*
11476670 TTTTCCTACTTTTTTTTCCTTTC
1 TTTTCTTAC-TTTTTTT--TTTC
*
11476693 TTCTCTTACTTTTTCTTTTTC
1 TTTTCTTACTTTTT-TTTTTC
*
11476714 TTTTCTT-GTTTTTTTTT
1 TTTTCTTACTTTTTTTTT
11476731 AACATTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 11 0.22
20 5 0.10
21 17 0.34
22 5 0.10
23 12 0.24
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTCTTACTTTTTTTTTTC
Found at i:11482461 original size:57 final size:57
Alignment explanation
Indices: 11482350--11482462 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
11482340 ATTGAGAGGA
* *
11482350 TTTTTATTTAAAAAAAATTGATACTTATAACTTTTCTTTAAAACCTTTTTTTATTAT
1 TTTTTATTTAAAAAAAATTGATACTTATAACTTTTCTTTAAAACATTTTCTTATTAT
* * *
11482407 TTTTTATTTAATAAGAATTGATACTTTTAACTTTT-TCTTAAAA-ATGTTTCTTATTA
1 TTTTTATTTAAAAAAAATTGATACTTATAACTTTTCT-TTAAAACAT-TTTCTTATTA
11482463 AATATATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 2 0.04
57 47 0.96
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (57 bp):
TTTTTATTTAAAAAAAATTGATACTTATAACTTTTCTTTAAAACATTTTCTTATTAT
Found at i:11482488 original size:18 final size:20
Alignment explanation
Indices: 11482465--11482504 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
11482455 TCTTATTAAA
11482465 TATATTTT-TAA-AAAAATT
1 TATATTTTCTAAGAAAAATT
*
11482483 TATATTTTCTAAGGAAAATT
1 TATATTTTCTAAGAAAAATT
11482503 TA
1 TA
11482505 AGGAAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATTTTCTAAGAAAAATT
Found at i:11484312 original size:29 final size:29
Alignment explanation
Indices: 11484280--11484340 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
11484270 AACTTTTTAG
* *
11484280 AAAAATCTAAAAATTTAAAT-AAAACTAA
1 AAAAATATAAAAATTTAAATAAAAAATAA
* *
11484308 AAAAATATGAAAATTTTAATAAAAAATAA
1 AAAAATATAAAAATTTAAATAAAAAATAA
11484337 AAAA
1 AAAA
11484341 TTTTGACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAAATATAAAAATTTAAATAAAAAATAA
Found at i:11484527 original size:20 final size:19
Alignment explanation
Indices: 11484487--11484531 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
11484477 CTTTTCATAT
*
11484487 ATTTTTTAAAGTTTTTGTA
1 ATTTTTTAAAGATTTTGTA
11484506 ATTTTTTAAATGAATTTT-TA
1 ATTTTTTAAA-G-ATTTTGTA
11484526 ATTTTT
1 ATTTTT
11484532 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
ATTTTTTAAAGATTTTGTA
Found at i:11485015 original size:17 final size:17
Alignment explanation
Indices: 11484966--11485016 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
11484956 TAATTTTAAG
11484966 AAAA-TTTCAATTTTATT
1 AAAATTTTCAATTTT-TT
*
11484983 AAAATTTTTAGA-TTTTT
1 AAAATTTTCA-ATTTTTT
11485000 AAAATTTTCAATTTTTT
1 AAAATTTTCAATTTTTT
11485017 TGAATCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 20 0.69
18 7 0.24
19 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (17 bp):
AAAATTTTCAATTTTTT
Found at i:11485114 original size:63 final size:62
Alignment explanation
Indices: 11484987--11485133 Score: 176
Period size: 62 Copynumber: 2.3 Consensus size: 62
11484977 TTTATTAAAA
* * *
11484987 TTTTTAGATTTTT-AAAATTTTCAATTTTTTTGAATCTTGTATTCTTATTAAATTTTTCATTT
1 TTTTTA-ATTTTTAAAAATTTTCAATTTTTTTGAAACTTGTATTCTTATAAAATTTTTCAATT
*
11485049 TTTTTAATTTTTAAAAATTTTCAATTTTTTTTAAAC-TGATGACCTTC-TA-AAAATTTTTCAAT
1 TTTTTAATTTTTAAAAATTTTCAATTTTTTTGAAACTTG-T-A--TTCTTATAAAATTTTTCAAT
11485111 T
62 T
11485112 TTTTTAACTTTTTAAAAATTTT
1 TTTTTAA-TTTTTAAAAATTTT
11485134 AAGAATATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
61 8 0.11
62 28 0.37
63 20 0.27
64 16 0.21
65 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.59
Consensus pattern (62 bp):
TTTTTAATTTTTAAAAATTTTCAATTTTTTTGAAACTTGTATTCTTATAAAATTTTTCAATT
Found at i:11486286 original size:28 final size:28
Alignment explanation
Indices: 11486255--11486320 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
11486245 TTTCATGCTC
*
11486255 TTTTTTATTTTTGATTTTGA-TTTTTTCT
1 TTTTTTATTTTT-ATTTTGAGTTTTATCT
* *
11486283 TTTTTTACTTTTTTTTTTGAGTTTTATGT
1 TTTTTTA-TTTTTATTTTGAGTTTTATCT
11486312 TTTTTTATT
1 TTTTTTATT
11486321 ACGTAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 15 0.45
29 18 0.55
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.79
Consensus pattern (28 bp):
TTTTTTATTTTTATTTTGAGTTTTATCT
Found at i:11486605 original size:22 final size:23
Alignment explanation
Indices: 11486579--11486641 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
11486569 GTTTTTTTTC
11486579 AAATATATTAATTTAAAATTATT
1 AAATATATTAATTTAAAATTATT
* *
11486602 -AATA-ATTTATATTATAA-TATT
1 AAATATATTAAT-TTAAAATTATT
* *
11486623 AAATATAATATTTTAAAAT
1 AAATATATTAATTTAAAAT
11486642 CACTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
21 9 0.30
22 18 0.60
23 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATATTAATTTAAAATTATT
Found at i:11491619 original size:56 final size:55
Alignment explanation
Indices: 11491576--11491691 Score: 160
Period size: 56 Copynumber: 2.0 Consensus size: 55
11491566 GATTTATTTT
11491576 AGACATGATTGTTACTTTTGATTGAAATTTTAATTTTTTTATTTGCAAAATGCATG
1 AGACATGATTGTTACTTTTGATTGAAATTTTAATTTTTTTATTT-CAAAATGCATG
* * *
11491632 ATACATGGTTGTTACTTTTGATTGAAGTTTTAATTTTTTTTTTATTTGCAAAATGCATG
1 AGACATGATTGTTACTTTTGATTGAAATTTTAA---TTTTTTTATTT-CAAAATGCATG
11491691 A
1 A
11491692 TTTTACTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 30 0.56
59 24 0.44
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (55 bp):
AGACATGATTGTTACTTTTGATTGAAATTTTAATTTTTTTATTTCAAAATGCATG
Found at i:11494863 original size:33 final size:33
Alignment explanation
Indices: 11494825--11494906 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
11494815 TGTGAATCTG
*
11494825 GAAGCTTTTAGAAGTCTCTGGATTTGCAAATCA
1 GAAGCTTTTAAAAGTCTCTGGATTTGCAAATCA
* *
11494858 GAAGCTTTTAAAAGTCTCTTGATTTGCAAATTTA
1 GAAGCTTTTAAAAGTCTCTGGATTTGCAAA-TCA
* *
11494892 AAATCTTTTAAAAGT
1 GAAGCTTTTAAAAGT
11494907 TTCCCGAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 28 0.65
34 15 0.35
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (33 bp):
GAAGCTTTTAAAAGTCTCTGGATTTGCAAATCA
Found at i:11496567 original size:12 final size:11
Alignment explanation
Indices: 11496550--11496595 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
11496540 ATTGTGTACT
*
11496550 TATAATGTATCA
1 TATAATATAT-A
11496562 TATAATATATA
1 TATAATATATA
11496573 TAT-ATATATA
1 TATAATATATA
*
11496583 GAT-ATATATA
1 TATAATATATA
11496593 TAT
1 TAT
11496596 CTCTTAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 18 0.58
11 4 0.13
12 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (11 bp):
TATAATATATA
Found at i:11496573 original size:2 final size:2
Alignment explanation
Indices: 11496561--11496595 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11496551 ATAATGTATC
*
11496561 AT AT A- AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11496596 CTCTTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11498433 original size:17 final size:17
Alignment explanation
Indices: 11498411--11498444 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11498401 AGTCCATAAC
11498411 ATTTTATCTTTAATTTA
1 ATTTTATCTTTAATTTA
*
11498428 ATTTTATCTTTATTTTA
1 ATTTTATCTTTAATTTA
11498445 GTTGGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTATCTTTAATTTA
Found at i:11501870 original size:3 final size:3
Alignment explanation
Indices: 11501862--11501893 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11501852 TGGATGTAAT
11501862 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11501894 GTAATGTAAA
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
Done.