Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 98 of 129
Found at i:17702815 original size:3 final size:3
Alignment explanation
Indices: 17702809--17702861 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
17702799 TTTACTGTTG
17702809 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
17702854 TTA TTA TT
1 TTA TTA TT
17702862 GTTACCTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17702947 original size:10 final size:10
Alignment explanation
Indices: 17702930--17702986 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
17702920 ATAAAAATAA
17702930 ATAATAAAAT
1 ATAATAAAAT
*
17702940 ATAGTAAAAT
1 ATAATAAAAT
*
17702950 ATAATAAATAA
1 ATAATAAA-AT
*
17702961 AAAACTAAAAAT
1 ATAA-T-AAAAT
*
17702973 AAAATAAAAT
1 ATAATAAAAT
17702983 ATAA
1 ATAA
17702987 AATGAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 24 0.63
11 5 0.13
12 6 0.16
13 3 0.08
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:17702972 original size:33 final size:30
Alignment explanation
Indices: 17702920--17703012 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 30
17702910 AACTTACTTA
* * *
17702920 ATAAAAATAAATAATAAAATATAGTAAAAT
1 ATAAAAATAAAAAATAAAATAAAATAAAAT
17702950 ATAATAAATAAAAAACTAAAAATAAAATAAAAT
1 ATAA-AAATAAAAAA-T-AAAATAAAATAAAAT
*
17702983 ATAAAATGAATAAAAATTAAAATTAAAATA
1 AT-AAA--AATAAAAAATAAAA-TAAAATA
17703013 GAAAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
30 4 0.08
31 9 0.17
32 1 0.02
33 20 0.38
34 10 0.19
35 8 0.15
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (30 bp):
ATAAAAATAAAAAATAAAATAAAATAAAAT
Found at i:17703009 original size:22 final size:23
Alignment explanation
Indices: 17702955--17703021 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
17702945 AAAATATAAT
*
17702955 AAATAAAAAACTA-AAAATAAAATA
1 AAATATAAAA-TAGAAAA-AAAATA
*
17702979 AAATATAAAAT-GAATAAAAATTA
1 AAATATAAAATAGAA-AAAAAATA
17703002 AAAT-TAAAATAGAAAAAAAA
1 AAATATAAAATAGAAAAAAAA
17703022 ACCTGCGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 11 0.30
23 15 0.41
24 11 0.30
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (23 bp):
AAATATAAAATAGAAAAAAAATA
Found at i:17703314 original size:13 final size:13
Alignment explanation
Indices: 17703296--17703321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17703286 TCAAACCTCG
17703296 CCAAAAAATTCAA
1 CCAAAAAATTCAA
17703309 CCAAAAAATTCAA
1 CCAAAAAATTCAA
17703322 AAATTCATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
CCAAAAAATTCAA
Found at i:17703875 original size:3 final size:3
Alignment explanation
Indices: 17703862--17704117 Score: 91
Period size: 3 Copynumber: 90.3 Consensus size: 3
17703852 TAAAAGTAAA
* * * *
17703862 AAT AA- AAT AAT AAT AAT AAC AAT AAT -AT AGT AGT GAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
17703907 ATAT TAT ACT ATAG AAT AAC AAT AAT ACT AAT AGT AGT AGT AAT AAT
1 A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
17703954 AGT GAG AAT AAA AAT AAA AAT AAA AAT -AT AAT -AT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
17703999 AAT AAT -AT ACT -AT ACT ATAT AAT AA- AAT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
** * * *
17704040 AAT -AT GCT -AT ACT -AT ACT -AT ACT -AT AAT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17704081 AAT AAT AAAT AAT AAT -AC AAG AAT AAT AAT AGT AAT A
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17704118 GTAACAAAAA
Statistics
Matches: 184, Mismatches: 46, Indels: 46
0.67 0.17 0.17
Matches are distributed among these distances:
2 32 0.17
3 144 0.78
4 8 0.04
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17703989 original size:13 final size:13
Alignment explanation
Indices: 17703961--17703999 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17703951 AATAGTGAGA
*
17703961 ATAAAAATA-AAA
1 ATAAAAATATAAT
17703973 ATAAAAATATAAT
1 ATAAAAATATAAT
*
17703986 ATAATAATATAAT
1 ATAAAAATATAAT
17703999 A
1 A
17704000 ATAATATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAAAAATATAAT
Found at i:17704044 original size:5 final size:5
Alignment explanation
Indices: 17703978--17704094 Score: 96
Period size: 5 Copynumber: 22.8 Consensus size: 5
17703968 TAAAAATAAA
* *
17703978 AATAT AATAT -A-AT AATAT AATAAT AATAT ACTAT ACTATAT AATAA
1 AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT A--ATAT AATAT
** * * *
17704024 AATAAT AATAT AATAT AATAT GCTAT ACTAT ACTAT ACTAT AATAAT AATAT
1 AAT-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT
17704076 AATAT AATAAT AA-AT AATA
1 AATAT AAT-AT AATAT AATA
17704095 ATACAAGAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
3 2 0.02
4 6 0.06
5 65 0.68
6 18 0.19
7 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:17704069 original size:41 final size:38
Alignment explanation
Indices: 17703981--17704084 Score: 145
Period size: 41 Copynumber: 2.6 Consensus size: 38
17703971 AAATAAAAAT
*
17703981 ATAATATAATAATATAATAATAATATACTATACTATATA
1 ATAAAATAATAATATAAT-ATAATATACTATACTATATA
*
17704020 ATAAAATAATAATATAATATAATATGCTATACTATACTA
1 ATAAAATAATAATATAATATAATATACTATACTATA-TA
*
17704059 TACTATAATAATAATATAATATAATA
1 -A-TAAAATAATAATATAATATAATA
17704085 ATAAATAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 17 0.29
39 19 0.32
40 1 0.02
41 22 0.37
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (38 bp):
ATAAAATAATAATATAATATAATATACTATACTATATA
Found at i:17704514 original size:55 final size:55
Alignment explanation
Indices: 17704435--17704704 Score: 215
Period size: 55 Copynumber: 4.9 Consensus size: 55
17704425 GCACATCTGG
* *
17704435 AAAAGGATCTAGATGGAGCCAAGATCGAACAATCGAGATTGAACTACAAGTCTAA
1 AAAATGATCTAGATGGAGCCAAGATCGAACAACCGAGATTGAACTACAAGTCTAA
* * *
17704490 AAAATGATTTAGATTGAGCTAAGATCGAACAACCTGAG-TTGAA-T-CGTAAGTCTAA
1 AAAATGATCTAGATGGAGCCAAGATCGAACAACC-GAGATTGAACTAC--AAGTCTAA
* * * ** ** * *
17704545 AAAATGATCTGGATGGAGCCACGATCAAATGATTGAGATTGAGCTACAAGTCTGA
1 AAAATGATCTAGATGGAGCCAAGATCGAACAACCGAGATTGAACTACAAGTCTAA
* * ** * * * **
17704600 AAAATAATCTAGACT-AAGCTGAGATCAAACAACCGAGATTGAACCATAAGTCTTG
1 AAAATGATCTAGA-TGGAGCCAAGATCGAACAACCGAGATTGAACTACAAGTCTAA
* * * ** *
17704655 AAAATGATCTGGATAGAGCCAAGATTGAATGACTGAGATTGAACTACAAG
1 AAAATGATCTAGATGGAGCCAAGATCGAACAACCGAGATTGAACTACAAG
17704705 CCTGAAAAGT
Statistics
Matches: 163, Mismatches: 44, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
53 1 0.01
54 5 0.03
55 151 0.93
56 5 0.03
57 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (55 bp):
AAAATGATCTAGATGGAGCCAAGATCGAACAACCGAGATTGAACTACAAGTCTAA
Found at i:17704710 original size:110 final size:110
Alignment explanation
Indices: 17704434--17704712 Score: 328
Period size: 110 Copynumber: 2.5 Consensus size: 110
17704424 CGCACATCTG
* * * * *
17704434 GAAAAGGATCTAGATGGAGCCAAGATCGAA-CAATCGAGATTGAACTACAAGTCTAAAAAATGAT
1 GAAAATGATCTGGATGGAGCCAAGATCGAATGAAT-GAGATTGAACTACAAGTCTGAAAAATAAT
* * * * * *
17704498 TTAGATTGAGCTAAGATCGAACAACCTGAGTTGAATCGTAAGTCTA
65 CTAGACTAAGCTAAGATCAAACAACCTGAGTTGAACCATAAGTCTA
* * * * *
17704544 AAAAATGATCTGGATGGAGCCACGATCAAATGATTGAGATTGAGCTACAAGTCTGAAAAATAATC
1 GAAAATGATCTGGATGGAGCCAAGATCGAATGAATGAGATTGAACTACAAGTCTGAAAAATAATC
* *
17704609 TAGACTAAGCTGAGATCAAACAACC-GAGATTGAACCATAAGTCTT
66 TAGACTAAGCTAAGATCAAACAACCTGAG-TTGAACCATAAGTCTA
* * * *
17704654 GAAAATGATCTGGATAGAGCCAAGATTGAATGACTGAGATTGAACTACAAGCCTGAAAA
1 GAAAATGATCTGGATGGAGCCAAGATCGAATGAATGAGATTGAACTACAAGTCTGAAAA
17704713 GTTAACCTAG
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
109 3 0.02
110 136 0.96
111 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (110 bp):
GAAAATGATCTGGATGGAGCCAAGATCGAATGAATGAGATTGAACTACAAGTCTGAAAAATAATC
TAGACTAAGCTAAGATCAAACAACCTGAGTTGAACCATAAGTCTA
Found at i:17717844 original size:20 final size:20
Alignment explanation
Indices: 17717811--17717873 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
17717801 CGAGTCGATT
*
17717811 TTTTTTTGTATTTTTTTTCA
1 TTTTTATGTATTTTTTTTCA
* *
17717831 TTTTTATGTGTTTTTTTTTA
1 TTTTTATGTATTTTTTTTCA
* *
17717851 -ATTTATTTATTTTTTTT-A
1 TTTTTATGTATTTTTTTTCA
17717869 TTTTT
1 TTTTT
17717874 GAAATAGCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 17 0.49
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTATGTATTTTTTTTCA
Found at i:17718226 original size:44 final size:46
Alignment explanation
Indices: 17718157--17718249 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
17718147 CAAAAATTAA
*
17718157 AAAAGAAAATTTCTAAATAGACCCAAATGGTAGAAAATTTAAAAAT
1 AAAAGAAAATTTCTAAATAGACCCAAAGGGTAGAAAATTTAAAAAT
* * * *
17718203 AAAA-AAAA-TTCTAAATTGGCCCAAAGGGTTGAAAATTTAGAAAT
1 AAAAGAAAATTTCTAAATAGACCCAAAGGGTAGAAAATTTAAAAAT
17718247 AAA
1 AAA
17718250 TGATAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 34 0.81
45 4 0.10
46 4 0.10
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.24
Consensus pattern (46 bp):
AAAAGAAAATTTCTAAATAGACCCAAAGGGTAGAAAATTTAAAAAT
Found at i:17722257 original size:23 final size:22
Alignment explanation
Indices: 17722231--17722338 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 22
17722221 CGAATCTTTG
17722231 AATTGTGAATATTTGAATTTCAA
1 AATTGTGAATATTTGAATTTC-A
* * * *
17722254 AATTGTGATTCTTTCAACTT-A
1 AATTGTGAATATTTGAATTTCA
* *
17722275 AATTGTGAATCTTTGAGTTTC-
1 AATTGTGAATATTTGAATTTCA
**
17722296 AATTGCAAATATCTTTGAATACTTCA
1 AATTGTGAATA--TTTGAAT--TTCA
17722322 AATTGTGAATATTTGAA
1 AATTGTGAATATTTGAA
17722339 GTTTTGATAT
Statistics
Matches: 65, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
21 25 0.38
23 22 0.34
24 6 0.09
25 3 0.05
26 9 0.14
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (22 bp):
AATTGTGAATATTTGAATTTCA
Found at i:17722299 original size:21 final size:21
Alignment explanation
Indices: 17722231--17722338 Score: 72
Period size: 23 Copynumber: 4.8 Consensus size: 21
17722221 CGAATCTTTG
*
17722231 AATTGTGAATATTTGAATTTC
1 AATTGTGAATCTTTGAATTTC
* * * *
17722252 AAAATTGTGATTCTTTCAACTTA
1 --AATTGTGAATCTTTGAATTTC
*
17722275 AATTGTGAATCTTTGAGTTTC
1 AATTGTGAATCTTTGAATTTC
**
17722296 AATTGCAAATATCTTTGAATACTTC
1 AATTG-TGA-ATCTTTGAAT--TTC
*
17722321 AAATTGTGAATATTTGAA
1 -AATTGTGAATCTTTGAA
17722339 GTTTTGATAT
Statistics
Matches: 64, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
21 21 0.33
22 1 0.02
23 25 0.39
24 8 0.12
25 4 0.06
26 5 0.08
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (21 bp):
AATTGTGAATCTTTGAATTTC
Found at i:17722813 original size:14 final size:16
Alignment explanation
Indices: 17722794--17722825 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
17722784 ACAAGAAATC
17722794 AATAGAA-AAT-TAGA
1 AATAGAACAATCTAGA
17722808 AATAGAACAATCTAGA
1 AATAGAACAATCTAGA
17722824 AA
1 AA
17722826 ATCCTAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AATAGAACAATCTAGA
Found at i:17724748 original size:28 final size:27
Alignment explanation
Indices: 17724717--17724789 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
17724707 ATATTATTTT
17724717 TTTCGAACATAAAAAAAATAAAAAAAAA
1 TTTCGAA-ATAAAAAAAATAAAAAAAAA
* ** **
17724745 TTTCTAAATAAACCCAAATAATGAAAAA
1 TTTCGAAATAAA-AAAAATAAAAAAAAA
*
17724773 TTTAGAAATAAAAAAAA
1 TTTCGAAATAAAAAAAA
17724790 ATTAATTGGC
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (27 bp):
TTTCGAAATAAAAAAAATAAAAAAAAA
Found at i:17725435 original size:12 final size:12
Alignment explanation
Indices: 17725403--17725481 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
17725393 TGACAACAGT
17725403 AAAATAAAATA-
1 AAAATAAAATAG
*
17725414 AATCAA-AAAATTG
1 AA--AATAAAATAG
17725427 AAAATAAAATAG
1 AAAATAAAATAG
*
17725439 AATATAAAATA-
1 AAAATAAAATAG
*
17725450 AATAA-AAACTA-
1 AA-AATAAAATAG
*
17725461 AAATTAAAATAG
1 AAAATAAAATAG
17725473 AAAA-AAAAT
1 AAAATAAAAT
17725482 CTGCGATCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
10 1 0.02
11 23 0.43
12 25 0.47
13 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAATAAAATAG
Found at i:17725469 original size:34 final size:35
Alignment explanation
Indices: 17725406--17725474 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
17725396 CAACAGTAAA
*
17725406 ATAAAATAAATCAAAAAATTGAAAATAAAATAGAAT
1 ATAAAATAAAT-AAAAAACTGAAAATAAAATAGAAT
17725442 ATAAAATAAAT-AAAAACT-AAAATTAAAATAGAA
1 ATAAAATAAATAAAAAACTGAAAA-TAAAATAGAA
17725475 AAAAAATCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 4 0.13
34 16 0.52
36 11 0.35
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (35 bp):
ATAAAATAAATAAAAAACTGAAAATAAAATAGAAT
Found at i:17725480 original size:17 final size:16
Alignment explanation
Indices: 17725427--17725481 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
17725417 CAAAAAATTG
*
17725427 AAAATAAAATAGAATAT
1 AAAATAAAATAGAA-AA
17725444 AAAAT-AAATA-AAAA
1 AAAATAAAATAGAAAA
17725458 CTAAAATTAAAATAGAAAA
1 --AAAA-TAAAATAGAAAA
17725477 AAAAT
1 AAAAT
17725482 CTGCGATCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 10 0.31
17 10 0.31
18 5 0.16
19 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAGAAAA
Found at i:17726343 original size:11 final size:11
Alignment explanation
Indices: 17726327--17726602 Score: 138
Period size: 12 Copynumber: 24.5 Consensus size: 11
17726317 TAAAAAAAAA
17726327 AATAATAATAT
1 AATAATAATAT
* *
17726338 AGTAATGATAT
1 AATAATAATAT
17726349 AATAATATACTAT
1 AATAATA-A-TAT
*
17726362 ACT-ATAGA-AT
1 AATAATA-ATAT
* *
17726372 AACAAAAATAAT
1 AATAATAAT-AT
** *
17726384 AACGATACTAGT
1 AATAATAATA-T
* *
17726396 AATAATAGTGAG
1 AATAATAAT-AT
* *
17726408 AATAAAAATAGA
1 AATAATAATA-T
17726420 AATAATAATAT
1 AATAATAATAT
17726431 AATATAATAATAT
1 -A-ATAATAATAT
17726444 AATAATAATAT
1 AATAATAATAT
* *
17726455 ACT-ATACTAT
1 AATAATAATAT
* *
17726465 ATTATATAATAA
1 AATA-ATAATAT
17726477 AATAATAATAT
1 AATAATAATAT
*
17726488 AAT-GTAATAT
1 AATAATAATAT
** *
17726498 GCT-ATACTAT
1 AATAATAATAT
*
17726508 ACT-ATAATAAT
1 AATAATAAT-AT
17726519 AAT-ATAATAT
1 AATAATAATAT
17726529 AATAATAA-AT
1 AATAATAATAT
* *
17726539 AATAAGACA-AG
1 AATAATA-ATAT
17726550 AATAATAATAAT
1 AATAATAAT-AT
17726562 AATAATAATAAT
1 AATAATAAT-AT
17726574 AATAATAATAAT
1 AATAATAAT-AT
17726586 AATAATAATAGT
1 AATAATAATA-T
17726598 AATAA
1 AATAA
17726603 AAATCGACCC
Statistics
Matches: 207, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
10 44 0.21
11 61 0.29
12 86 0.42
13 16 0.08
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (11 bp):
AATAATAATAT
Found at i:17726428 original size:3 final size:3
Alignment explanation
Indices: 17726420--17726602 Score: 128
Period size: 3 Copynumber: 65.7 Consensus size: 3
17726410 TAAAAATAGA
* *
17726420 AAT AAT AAT -AT AAT -AT AAT AAT -AT AAT AAT AAT -AT ACT -AT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
17726463 -AT ATT ATAT AAT AA- AAT AAT AAT -AT AAT -GT AAT -AT GCT -AT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
17726503 ACT -AT ACT -AT AAT AAT AAT -AT AAT -AT AAT AAT AAAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * *
17726544 GAC AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
17726592 AAT AGT AAT AA
1 AAT AAT AAT AA
17726603 AAATCGACCC
Statistics
Matches: 142, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
2 25 0.18
3 112 0.79
4 5 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:17726601 original size:36 final size:36
Alignment explanation
Indices: 17726327--17726602 Score: 137
Period size: 31 Copynumber: 8.1 Consensus size: 36
17726317 TAAAAAAAAA
* * *
17726327 AATAATAAT-ATAGTAATGAT-ATAATAAT-ATACT
1 AATAATAATAATAATAATAATAATAATAATAATAGT
* * * * ** *
17726360 -ATACTATAGAATAACAAAAATAATAACGATACTAGT
1 AATAATA-ATAATAATAATAATAATAATAATAATAGT
* * * *
17726396 AATAATAGTGAGAATAAAAATAGA-AATAATAATA-T
1 AATAATAATAATAATAATAATA-ATAATAATAATAGT
* *
17726431 AAT-ATAATAAT-ATAATAATAAT-ATACT-ATACT
1 AATAATAATAATAATAATAATAATAATAATAATAGT
*
17726463 -AT-ATTAT-ATAATAA-AATAATAAT-ATAAT-GT
1 AATAATAATAATAATAATAATAATAATAATAATAGT
** * *
17726493 AAT-ATGCT-ATACT-ATACT-ATAATAATAATA-T
1 AATAATAATAATAATAATAATAATAATAATAATAGT
* * *
17726524 AAT-ATAATAATAAATAATAAGACAAGAATAATAATAAT
1 AATAATAATAAT-AATAAT-A-ATAATAATAATAATAGT
17726562 AATAATAATAATAATAATAATAATAATAATAATAGT
1 AATAATAATAATAATAATAATAATAATAATAATAGT
17726598 AATAA
1 AATAA
17726603 AAATCGACCC
Statistics
Matches: 180, Mismatches: 40, Indels: 43
0.68 0.15 0.16
Matches are distributed among these distances:
30 16 0.09
31 40 0.22
32 13 0.07
33 11 0.06
34 14 0.08
35 11 0.06
36 39 0.22
37 18 0.10
38 10 0.06
39 8 0.04
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (36 bp):
AATAATAATAATAATAATAATAATAATAATAATAGT
Found at i:17734413 original size:34 final size:33
Alignment explanation
Indices: 17734371--17734434 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
17734361 AAAAAAAATG
*
17734371 GAGAAATCCTACTATAGTTGAAACTGACAAAGA
1 GAGAAATCCTACTATAGATGAAACTGACAAAGA
*
17734404 GAGATAATCCTGCTATAGATGAAACTGACAA
1 GAGA-AATCCTACTATAGATGAAACTGACAA
17734435 GCTTAGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.22
Consensus pattern (33 bp):
GAGAAATCCTACTATAGATGAAACTGACAAAGA
Found at i:17752028 original size:14 final size:14
Alignment explanation
Indices: 17752011--17752044 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17752001 AATGATATAA
*
17752011 AATAAATATAAACC
1 AATAAAAATAAACC
17752025 AATAAAAATAAACC
1 AATAAAAATAAACC
17752039 AATAAA
1 AATAAA
17752045 CTAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (14 bp):
AATAAAAATAAACC
Found at i:17752050 original size:22 final size:22
Alignment explanation
Indices: 17752018--17752064 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17752008 TAAAATAAAT
*
17752018 ATAAACCAATAAAAATAAACCA
1 ATAAACCAATAAAAATAAACAA
* *
17752040 ATAAACTAATAAAAATTAACAA
1 ATAAACCAATAAAAATAAACAA
17752062 ATA
1 ATA
17752065 TCCAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (22 bp):
ATAAACCAATAAAAATAAACAA
Found at i:17752578 original size:18 final size:17
Alignment explanation
Indices: 17752555--17752590 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
17752545 CCTTAAATTG
17752555 AACAAAAAAACAATAGTA
1 AACAAAAAAA-AATAGTA
17752573 AACAAAAAAAAATAGTA
1 AACAAAAAAAAATAGTA
17752590 A
1 A
17752591 TTACACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.11
Consensus pattern (17 bp):
AACAAAAAAAAATAGTA
Found at i:17756092 original size:77 final size:77
Alignment explanation
Indices: 17756009--17756157 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 77
17755999 AATTATAATT
* * * *
17756009 ATTAAAA-AGGATCAATTAACGCGTTTG-GT-ACCTTGAATGCCTTAATTGATGATGTTTTAAAA
1 ATTAAAACAGCATCAATTAACGCATTTGTGTAACC-T-AACGCCATAATTGAT-ATGTTTTAAAA
17756071 TTATAAAACATATCA
63 TTATAAAACATATCA
* * * *
17756086 ATTAAAACATCATCAATTAAGGCATTTGTGTAACCTAACGCCATAATTGATTTGTTTTATAATTA
1 ATTAAAACAGCATCAATTAACGCATTTGTGTAACCTAACGCCATAATTGATATGTTTTAAAATTA
17756151 TAAAACA
66 TAAAACA
17756158 AATGCTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 26 0.43
78 29 0.48
79 3 0.05
80 3 0.05
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (77 bp):
ATTAAAACAGCATCAATTAACGCATTTGTGTAACCTAACGCCATAATTGATATGTTTTAAAATTA
TAAAACATATCA
Found at i:17756093 original size:14 final size:15
Alignment explanation
Indices: 17756074--17756105 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17756064 TTTAAAATTA
17756074 TAAAACAT-ATCAAT
1 TAAAACATCATCAAT
17756088 TAAAACATCATCAAT
1 TAAAACATCATCAAT
17756103 TAA
1 TAA
17756106 GGCATTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAACATCATCAAT
Found at i:17767746 original size:21 final size:21
Alignment explanation
Indices: 17767722--17767761 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17767712 CTTAATTTTT
* * *
17767722 TTTTAGTTTATTTCAAAATTA
1 TTTTAATTTAATTAAAAATTA
17767743 TTTTAATTTAATTAAAAAT
1 TTTTAATTTAATTAAAAAT
17767762 AAAATATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAATTTAATTAAAAATTA
Found at i:17773582 original size:22 final size:23
Alignment explanation
Indices: 17773535--17773582 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
17773525 GCCGATGGAC
*
17773535 AAATAAAGTAATATTAAAGAATA
1 AAATAAAGTAATATTAAAGAAGA
17773558 AAAT-AAGTAATAATTAAA-AAGA
1 AAATAAAGTAAT-ATTAAAGAAGA
17773580 AAA
1 AAA
17773583 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (23 bp):
AAATAAAGTAATATTAAAGAAGA
Found at i:17773583 original size:23 final size:23
Alignment explanation
Indices: 17773535--17773585 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
17773525 GCCGATGGAC
*
17773535 AAATAAAGTAATATTAAAGAATA
1 AAATAAAGTAATATTAAAGAAAA
17773558 AAAT-AAGTAATAATTAAAAAGAAAA
1 AAATAAAGTAAT-ATT--AAAGAAAA
17773583 AAA
1 AAA
17773586 AAGAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
25 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (23 bp):
AAATAAAGTAATATTAAAGAAAA
Found at i:17776879 original size:21 final size:21
Alignment explanation
Indices: 17776854--17776899 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17776844 TTTTTTAACC
17776854 TTTTAAAAATATTTAA-TCATT
1 TTTTAAAAATATTTAATTC-TT
* *
17776875 TTTTAAACATTTTTAATTCTT
1 TTTTAAAAATATTTAATTCTT
17776896 TTTT
1 TTTT
17776900 GTTTGACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAAAATATTTAATTCTT
Found at i:17776962 original size:17 final size:17
Alignment explanation
Indices: 17776940--17776974 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17776930 ACGTGTCAAG
*
17776940 TCATTTTCTTTTTTTTC
1 TCATTTTCTTTTTATTC
17776957 TCATTTTCTTTTTATTC
1 TCATTTTCTTTTTATTC
17776974 T
1 T
17776975 ACTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
TCATTTTCTTTTTATTC
Found at i:17777391 original size:26 final size:25
Alignment explanation
Indices: 17777362--17777410 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
17777352 TAACGTTACA
*
17777362 TTTGGGTTTGATTTTTGTTTCTTTTT
1 TTTGGCTTTGATTTTT-TTTCTTTTT
* *
17777388 TTTGTCTTTTATTTTTTTTCTTT
1 TTTGGCTTTGATTTTTTTTCTTT
17777411 ACTTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.04, C:0.06, G:0.12, T:0.78
Consensus pattern (25 bp):
TTTGGCTTTGATTTTTTTTCTTTTT
Found at i:17781897 original size:21 final size:21
Alignment explanation
Indices: 17781873--17781918 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17781863 CAAGTATCTA
*
17781873 ATTGATCC-CTTTTCACTATGG
1 ATTGATCCAATTTTCAC-ATGG
*
17781894 ATTGATCCAATTTTTACATGG
1 ATTGATCCAATTTTCACATGG
17781915 ATTG
1 ATTG
17781919 CTCCTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (21 bp):
ATTGATCCAATTTTCACATGG
Found at i:17789287 original size:52 final size:52
Alignment explanation
Indices: 17789230--17789330 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 52
17789220 TTATACCTTA
*
17789230 ATGTATTTAATTCTTGATTTT-TAGATTTGCTTAAAGAACTTAAACAATTTGG
1 ATGTATTTAATTCTTGATTTTCAAG-TTTGCTTAAAGAACTTAAACAATTTGG
*
17789282 ATGTATTTAATTCTTGATTTTCAAGTTTGCTTAAGGAACTTAAACAATT
1 ATGTATTTAATTCTTGATTTTCAAGTTTGCTTAAAGAACTTAAACAATT
17789331 GGGACAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (52 bp):
ATGTATTTAATTCTTGATTTTCAAGTTTGCTTAAAGAACTTAAACAATTTGG
Found at i:17790458 original size:3 final size:3
Alignment explanation
Indices: 17790450--17790475 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17790440 TAAACACCAT
17790450 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
17790476 TAATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17790695 original size:21 final size:21
Alignment explanation
Indices: 17790669--17790717 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
17790659 TTTCAATTGA
*
17790669 AAAAAATGAGATTCGAATCTC
1 AAAAACTGAGATTCGAATCTC
*
17790690 AGAAAATCTGAGATTTGAATCTC
1 A-AAAA-CTGAGATTCGAATCTC
17790713 AAAAA
1 AAAAA
17790718 GCTCTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 8 0.33
23 15 0.62
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAAACTGAGATTCGAATCTC
Found at i:17790701 original size:23 final size:22
Alignment explanation
Indices: 17790675--17790717 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
17790665 TTGAAAAAAA
17790675 TGAGATTCGAATCTCAGAAAATC
1 TGAGATTCGAATCTCA-AAAATC
*
17790698 TGAGATTTGAATCTCAAAAA
1 TGAGATTCGAATCTCAAAAA
17790718 GCTCTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (22 bp):
TGAGATTCGAATCTCAAAAATC
Found at i:17790820 original size:28 final size:28
Alignment explanation
Indices: 17790795--17790863 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
17790785 AAATAAAATT
*
17790795 AAAAAAAAAAGAGC-TTTATGTAAAAACAAA
1 AAAAAAAAAAG-CCATTT-TGTAAAAA-AAA
* *
17790825 AAAAAATAAAGCCATTTTGTAAAAACAA
1 AAAAAAAAAAGCCATTTTGTAAAAAAAA
17790853 AAAAAAAAAAG
1 AAAAAAAAAAG
17790864 ACATAAACAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 12 0.35
29 9 0.26
30 13 0.38
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (28 bp):
AAAAAAAAAAGCCATTTTGTAAAAAAAA
Found at i:17790827 original size:29 final size:29
Alignment explanation
Indices: 17790795--17790865 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
17790785 AAATAAAATT
*
17790795 AAAAAAAAAAGAGC-TTTATGTAAAAACAA
1 AAAAAAAAAAGACCATTT-TGTAAAAACAA
17790824 AAAAAAATAAAG-CCATTTTGTAAAAACAA
1 AAAAAAA-AAAGACCATTTTGTAAAAACAA
17790853 AAAAAAAAAAGAC
1 AAAAAAAAAAGAC
17790866 ATAAACAGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 4 0.11
29 27 0.71
30 7 0.18
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.15
Consensus pattern (29 bp):
AAAAAAAAAAGACCATTTTGTAAAAACAA
Found at i:17791472 original size:11 final size:12
Alignment explanation
Indices: 17791437--17791471 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17791427 GTTCAGGTAA
17791437 AAAAATTTTTTT
1 AAAAATTTTTTT
17791449 AAAAATTTTTTT
1 AAAAATTTTTTT
*
17791461 AAACATTTTTT
1 AAAAATTTTTT
17791472 ATATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
AAAAATTTTTTT
Found at i:17791975 original size:11 final size:11
Alignment explanation
Indices: 17791951--17791984 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
17791941 TTTCAAAATT
17791951 AAAAA-TAA-A
1 AAAAATTAATA
17791960 AAAAATTAATA
1 AAAAATTAATA
17791971 AAAAATTAATA
1 AAAAATTAATA
17791982 AAA
1 AAA
17791985 TTTTGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.22
10 3 0.13
11 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAATTAATA
Found at i:17793184 original size:5 final size:5
Alignment explanation
Indices: 17793174--17793203 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
17793164 TGTGTGTAAT
17793174 ACAAA ACAAA ACAAA ACAAA ACAAA A-AAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA A
17793204 TCTCAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:17794654 original size:33 final size:33
Alignment explanation
Indices: 17794617--17794683 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
17794607 GTAAGATGAC
17794617 CTAGAGACATAGTACTCTCTCCTGATGATAGCT
1 CTAGAGACATAGTACTCTCTCCTGATGATAGCT
*
17794650 CTAGAGACATAGTACTCTCTTCTGATGATAGCT
1 CTAGAGACATAGTACTCTCTCCTGATGATAGCT
17794683 C
1 C
17794684 ACACCAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
CTAGAGACATAGTACTCTCTCCTGATGATAGCT
Found at i:17803228 original size:49 final size:48
Alignment explanation
Indices: 17803170--17803691 Score: 444
Period size: 49 Copynumber: 10.8 Consensus size: 48
17803160 GATGAAAATT
* * *
17803170 TTTTAAAGTTGTTGAGCCTCTATTGAGAAGAGCTCTTTCCAAAATGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCT-TTTCCAAGATGAGA
* *
17803219 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC-TTTTCCAAGATGAGA
* * *
17803268 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCACA-CTGAAA
1 -TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCA-AGATGAGA
* * * * *
17803317 ATTTAAAATTGTTAAGCTTCTACTGAGAGGAGCTTTTTC-AGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA
* * *
17803364 TTTTAAAATTATTGAG-C-CTA-T-------GCTTTTCCAAGATCAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA
* * *
17803402 TTTTTAAAGTTAAAGTTGTTGAGCCTCTGCTAAAAGGAGCTTTTCCAAGATGAGAGA
1 ---TT----TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGAT--GAGA
** * * *
17803459 TTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTACAAGATAAAAA
1 -TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGAT-GAGA
* *
17803509 TTTTAAAGTTGTTGAACCTCTACTGAGAGGAGCTTTTTCAAGA-GA-A
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA
*
17803555 TTTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTCCAAGATGAAAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATG--AGA
** * * * *
17803605 TTCTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCATG-TAAAA
1 TT-TTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA
* *
17803653 TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
1 -TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTT
17803692 AAATTTTCAA
Statistics
Matches: 393, Mismatches: 49, Indels: 62
0.78 0.10 0.12
Matches are distributed among these distances:
37 7 0.02
38 7 0.02
41 2 0.01
44 1 0.00
45 15 0.04
46 43 0.11
47 21 0.05
48 64 0.16
49 99 0.25
50 42 0.11
51 73 0.19
55 16 0.04
57 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGA
Found at i:17803511 original size:191 final size:190
Alignment explanation
Indices: 17803221--17803573 Score: 518
Period size: 191 Copynumber: 1.9 Consensus size: 190
17803211 AAATGAGATT
* * *
17803221 TTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAGATGAGATTTTTAAAGTTGTTGAGC
1 TTAAAGTTGTTGAGCCTCTGCTAAAAGGAGCTTTTCCAAAGATGAGATTTTTAAAGTTGTTGAGC
* * * *
17803286 CTCTGCTGAGAGGAGCTTTTCCACACTGAAAA-TTTAAAATTGTT-AAGCTTCTACTGAGAGGAG
66 CTCTGCTGAGAGGAGCTTTTACACAATAAAAATTTTAAAATTGTTGAA-CCTCTACTGAGAGGAG
17803349 CTTTTTC-AGATGAGATTTTAAAATTATTGAGCCTATGCTTTTCCAAGATCAGATTTTTAAAG
130 CTTTTTCAAGA-GA-ATTTTAAAATTATTGAGCCTATGCTTTTCCAAGATCAGATTTTTAAAG
17803411 TTAAAGTTGTTGAGCCTCTGCTAAAAGGAGCTTTTCC-AAGATGAGAGATTTTTAAAGTTGTTGA
1 TTAAAGTTGTTGAGCCTCTGCTAAAAGGAGCTTTTCCAAAGAT--GAGATTTTTAAAGTTGTTGA
* *
17803475 GCCTCTGTTGAGAGGAGCTTTTACA-AGATAAAAATTTTAAAGTTGTTGAACCTCTACTGAGAGG
64 GCCTCTGCTGAGAGGAGCTTTTACACA-ATAAAAATTTTAAAATTGTTGAACCTCTACTGAGAGG
* *
17803539 AGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCT
128 AGCTTTTTCAAGAGAATTTTAAAATTATTGAGCCT
17803574 CTACTGAAAG
Statistics
Matches: 146, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
189 5 0.03
190 35 0.24
191 66 0.45
192 35 0.24
193 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (190 bp):
TTAAAGTTGTTGAGCCTCTGCTAAAAGGAGCTTTTCCAAAGATGAGATTTTTAAAGTTGTTGAGC
CTCTGCTGAGAGGAGCTTTTACACAATAAAAATTTTAAAATTGTTGAACCTCTACTGAGAGGAGC
TTTTTCAAGAGAATTTTAAAATTATTGAGCCTATGCTTTTCCAAGATCAGATTTTTAAAG
Found at i:17803585 original size:146 final size:144
Alignment explanation
Indices: 17803159--17803691 Score: 548
Period size: 146 Copynumber: 3.7 Consensus size: 144
17803149 ATTTGAAAAC
* * * * * *
17803159 AGATGAAAATTTTTTAAAGTTGTTGAGCCTCTATTGAGAAGAGCTCTTTCCAAAATGAGATTTTA
1 AGATGAAGA-TTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCT-TTTTCAAGATAAAATTTTA
*
17803224 AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAGATGAGATTTTTAAAGTTGTTGAGCCTC
64 AAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTC-AAGA-GA-A-TTTTAAAGTTGTTGAGCCTC
*
17803289 TGCTGAGAGGAGCTTTTCCA
125 TGCTGAAAGGAGCTTTTCCA
* * * * * * * *
17803309 CA-CTGAA-A-ATTTAAAATTGTTAAGCTTCTACTGAGAGGAGCTTTTTC-AGATGAGATTTTAA
1 -AGATGAAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGATAAAATTTTAA
* * * ** *
17803370 AATTATTGAGCCTATGCTTTTCCAAGATCAGATTTTT-AA-AG----TTAAAGTTGTTGAGCCTC
65 AGTTGTTGAGCCTCTGC---T--AAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTC
*
17803429 TGCTAAAAGGAGCTTTTCCA
125 TGCTGAAAGGAGCTTTTCCA
* *
17803449 AGATGAGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTACAAGATAAAAATTTTA
1 AGATGA-AGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGAT-AAAATTTTA
* * * *
17803514 AAGTTGTTGAACCTCTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACT
64 AAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCT
17803579 GAAAGGAGCTTTTCCA
129 GAAAGGAGCTTTTCCA
* * *
17803595 AGATGAAAGATTCTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCATG-TAAAATTTTTA
1 AGATG-AAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGATAAAA-TTTTA
*
17803659 AAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
64 AAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTT
17803692 AAATTTTCAA
Statistics
Matches: 317, Mismatches: 46, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
139 1 0.00
140 49 0.15
141 3 0.01
142 4 0.01
143 32 0.10
144 8 0.03
145 82 0.26
146 89 0.28
147 30 0.09
148 3 0.01
149 1 0.00
150 14 0.04
151 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (144 bp):
AGATGAAGATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAGATAAAATTTTAAA
GTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTGA
AAGGAGCTTTTCCA
Found at i:17803871 original size:3 final size:3
Alignment explanation
Indices: 17803863--17803900 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17803853 AAACACCATT
17803863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17803901 TAATATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17803937 original size:6 final size:6
Alignment explanation
Indices: 17803908--17803957 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
17803898 ATTTAATATA
* *
17803908 TTTT-T TTTTCT ATTTCT ATTTCT TTTTCT TCTTTCT TTTTCT TTCTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TT-TTCT
17803957 T
1 T
17803958 CTTCCTTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 4 0.10
6 25 0.62
7 11 0.28
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:17803951 original size:10 final size:10
Alignment explanation
Indices: 17803927--17803960 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
17803917 CTATTTCTAT
17803927 TTCTTT-TTC
1 TTCTTTCTTC
*
17803936 TTCTTTCTTT
1 TTCTTTCTTC
17803946 TTCTTTCTTC
1 TTCTTTCTTC
17803956 TTCTT
1 TTCTT
17803961 CCTTATCCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:17803957 original size:13 final size:13
Alignment explanation
Indices: 17803926--17803950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17803916 TCTATTTCTA
17803926 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
17803939 TTTCTTTTTCTT
1 TTTCTTTTTCTT
17803951 TCTTCTTCTT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:17805627 original size:20 final size:20
Alignment explanation
Indices: 17805589--17805627 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17805579 ATATTTGAAT
* *
17805589 ATAAAAACAATAAATAAAAA
1 ATAAAAAAAATAAAGAAAAA
*
17805609 ATAAAAAAAATCAAGAAAA
1 ATAAAAAAAATAAAGAAAA
17805628 TTAATTTTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (20 bp):
ATAAAAAAAATAAAGAAAAA
Found at i:17817844 original size:13 final size:13
Alignment explanation
Indices: 17817803--17817844 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
17817793 CATCTTTCTC
17817803 TTTTCT-TTTCCT
1 TTTTCTCTTTCCT
17817815 TTTTC-CTTTCC-
1 TTTTCTCTTTCCT
*
17817826 CTTTCTCTTTCCT
1 TTTTCTCTTTCCT
17817839 TTTTCT
1 TTTTCT
17817845 TTAACCAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.16
12 16 0.64
13 5 0.20
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCTCTTTCCT
Found at i:17818422 original size:24 final size:24
Alignment explanation
Indices: 17818352--17818430 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
17818342 CCCTTAAGAT
17818352 CATTTTCTCTTTTTCATCAAAAACC
1 CATTTTCTCTTTTT-ATCAAAAACC
* **
17818377 CAATTTTCTATCCTTATC-AAAACC
1 C-ATTTTCTCTTTTTATCAAAAACC
*
17818401 CATTTTCTCTTTTTATCAAAAACT
1 CATTTTCTCTTTTTATCAAAAACC
17818425 CATTTT
1 CATTTT
17818431 TTCTCTCTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 13 0.29
24 18 0.40
25 4 0.09
26 10 0.22
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (24 bp):
CATTTTCTCTTTTTATCAAAAACC
Found at i:17821737 original size:10 final size:10
Alignment explanation
Indices: 17821722--17821761 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
17821712 AAGTTGAGTT
17821722 GTTAGTTAAA
1 GTTAGTTAAA
17821732 GTTAGTTAAGA
1 GTTAGTTAA-A
*
17821743 GTTAGTTACA
1 GTTAGTTAAA
17821753 GTTAGTTAA
1 GTTAGTTAA
17821762 TTTAGTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (10 bp):
GTTAGTTAAA
Found at i:17821748 original size:21 final size:21
Alignment explanation
Indices: 17821722--17821761 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17821712 AAGTTGAGTT
17821722 GTTAGTTAAAGTTAGTTAAGA
1 GTTAGTTAAAGTTAGTTAAGA
*
17821743 GTTAGTTACAGTTAGTTAA
1 GTTAGTTAAAGTTAGTTAA
17821762 TTTAGTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (21 bp):
GTTAGTTAAAGTTAGTTAAGA
Found at i:17826291 original size:51 final size:52
Alignment explanation
Indices: 17826135--17826427 Score: 210
Period size: 51 Copynumber: 5.8 Consensus size: 52
17826125 GGAATCTTAT
* ** *
17826135 TGTGAATCCTAGCCTTTTCAGTGTGAATCCT-AAACCTTT-AAAGAATTC-AG
1 TGTGAATCCCAGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAA-AATCCTAG
* * ** * * *
17826185 ATGAGAATCCCAACAATTTTGGTGTGAA-CCTCGAACCTTTGAAAAATCTTGG
1 -TGTGAATCCCAGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAAAATCCTAG
* *
17826237 TGTGAATCCCAGCCTTTTTGGTGTGAATCCT-AAACATTTGAAAAATCGTAG
1 TGTGAATCCCAGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAAAATCCTAG
*** *** * * * *
17826288 TGTGAATTTAGAGCC-TTTCAATGTAAAT-CTCGAACCTCTGAAGAATCCTAG
1 TGTGAA-TCCCAGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAAAATCCTAG
* * *
17826339 TGTGAATCCCAACCCTTTTT-ATGTGAAT-CTAAAACCTTTGAAAAATCCTAG
1 TGTGAATCCC-AGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAAAATCCTAG
* * **
17826390 TGTGAATCACAACCTTTTTGGTGT-AAAACTCAAACCTT
1 TGTGAATCCCAGCCTTTTTGGTGTGAATCCTCAAACCTT
17826428 CAATAAAAAA
Statistics
Matches: 186, Mismatches: 46, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
50 16 0.09
51 155 0.83
52 15 0.08
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTGAATCCCAGCCTTTTTGGTGTGAATCCTCAAACCTTTGAAAAATCCTAG
Found at i:17826415 original size:102 final size:102
Alignment explanation
Indices: 17826201--17826426 Score: 242
Period size: 102 Copynumber: 2.2 Consensus size: 102
17826191 ATCCCAACAA
* * * * * * *
17826201 TTTTGGTGTGAACCTCGAACCTTTGAAAAATCTTGGTGTGAATCCCAGCCTTTTTGGTGTGAATC
1 TTTTGGTGTAAAACTCGAACCTCTGAAAAATCCTAGTGTGAATCCCACCCTTTTTGATGTGAATC
* * * *
17826266 CTAAACATTTGAAAAATCGTAGTGTGAATTTAGAGCC
66 CTAAACATTTGAAAAATCCTAGTGTGAATTCACAACC
*** * *
17826303 TTTCAATGTAAATCTCGAACCTCTGAAGAATCCTAGTGTGAATCCCAACCCTTTTT-ATGTGAAT
1 TTTTGGTGTAAAACTCGAACCTCTGAAAAATCCTAGTGTGAATCCC-ACCCTTTTTGATGTGAAT
*
17826367 -CTAAAACCTTTGAAAAATCCTAGTGTGAA-TCACAACC
65 CCT-AAACATTTGAAAAATCCTAGTGTGAATTCACAACC
*
17826404 TTTTTGGTGTAAAACTCAAACCT
1 -TTTTGGTGTAAAACTCGAACCT
17826427 TCAATAAAAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
101 7 0.07
102 85 0.85
103 8 0.08
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (102 bp):
TTTTGGTGTAAAACTCGAACCTCTGAAAAATCCTAGTGTGAATCCCACCCTTTTTGATGTGAATC
CTAAACATTTGAAAAATCCTAGTGTGAATTCACAACC
Found at i:17826695 original size:30 final size:30
Alignment explanation
Indices: 17826661--17826718 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17826651 AAATGCCCTA
*
17826661 AAGTCAAAATTTA-TCAACATTGATCAAAAC
1 AAGTC-AAATTTAGTCAAAATTGATCAAAAC
*
17826691 AAGTCAAATTTAGTCAAAATTGGTCAAA
1 AAGTCAAATTTAGTCAAAATTGATCAAA
17826719 CTTGGTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (30 bp):
AAGTCAAATTTAGTCAAAATTGATCAAAAC
Found at i:17827257 original size:15 final size:16
Alignment explanation
Indices: 17827227--17827257 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17827217 AATAAATGTG
17827227 AAAAAAAAAAGAGAAA
1 AAAAAAAAAAGAGAAA
17827243 AAAAAAAAAAG-GAAA
1 AAAAAAAAAAGAGAAA
17827258 GTTGAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAGAAA
Found at i:17828064 original size:14 final size:15
Alignment explanation
Indices: 17828027--17828064 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17828017 CCCAAATTTG
*
17828027 AAACCCAAAACCCTT
1 AAACCCAAAAACCTT
17828042 AAACCCAAAAACC-T
1 AAACCCAAAAACCTT
*
17828056 AAGCCCAAA
1 AAACCCAAA
17828065 CCCCAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.53, C:0.37, G:0.03, T:0.08
Consensus pattern (15 bp):
AAACCCAAAAACCTT
Found at i:17828085 original size:20 final size:21
Alignment explanation
Indices: 17828035--17828086 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
17828025 TGAAACCCAA
17828035 AACCCTTAAACCCAAAAACCT
1 AACCCTTAAACCCAAAAACCT
*
17828056 AAGCCC--AAACCCCAAAACC-
1 AA-CCCTTAAACCCAAAAACCT
17828075 AACCCTTAAACC
1 AACCCTTAAACC
17828087 AATCATGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
20 17 0.63
21 2 0.07
22 3 0.11
ACGTcount: A:0.46, C:0.42, G:0.02, T:0.10
Consensus pattern (21 bp):
AACCCTTAAACCCAAAAACCT
Found at i:17828180 original size:16 final size:17
Alignment explanation
Indices: 17828159--17828205 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
17828149 ACCTTGTCAT
17828159 TCATATCATGC-ATTCA
1 TCATATCATGCTATTCA
*
17828175 TCATAT-ATTCTATTCA
1 TCATATCATGCTATTCA
17828191 TACATATCATG-TATT
1 T-CATATCATGCTATT
17828206 TGTTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 12 0.46
17 9 0.35
18 2 0.08
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (17 bp):
TCATATCATGCTATTCA
Found at i:17831671 original size:19 final size:19
Alignment explanation
Indices: 17831639--17831679 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17831629 TAGTTGGCTC
*
17831639 AAATCAACTAATGAACATA
1 AAATCAACTAATGAAAATA
17831658 AAATCTAACT-ATGAAAATA
1 AAATC-AACTAATGAAAATA
17831677 AAA
1 AAA
17831680 GCAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATCAACTAATGAAAATA
Found at i:17832774 original size:15 final size:15
Alignment explanation
Indices: 17832754--17832795 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
17832744 AATGAAATGT
17832754 AGAAAAGTAAAGTGC
1 AGAAAAGTAAAGTGC
*
17832769 AGAAAAGTAAAGTGT
1 AGAAAAGTAAAGTGC
*
17832784 AGAAAATTAAAG
1 AGAAAAGTAAAG
17832796 AAACAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (15 bp):
AGAAAAGTAAAGTGC
Found at i:17836421 original size:19 final size:18
Alignment explanation
Indices: 17836390--17836434 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
17836380 TTTTAATTTA
*
17836390 AAATAAGAAATAATAAAAGT
1 AAATAA-AAATAACAAAA-T
17836410 AAATAAAAATAACAAAAT
1 AAATAAAAATAACAAAAT
17836428 AAATAAA
1 AAATAAA
17836435 TAAAATAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.33
19 10 0.42
20 6 0.25
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAATAAAAATAACAAAAT
Found at i:17837682 original size:64 final size:64
Alignment explanation
Indices: 17837558--17837695 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
17837548 TCTAAGATCA
** * *
17837558 AAACGAGTGACGAAGATTGAACTTTAGGTTTGAAAATAAAATAATTTGGACCGAGTCAAGATTG
1 AAACGAGTGACGAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
* **
17837622 AAACGAGTGACTG-AGATTGAACCGTAGGTCTGAAAATAAAATGATTTGGATTGAGCCAAGATTG
1 AAACGAGTGAC-GAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
*
17837686 AAATGAGTGA
1 AAACGAGTGA
17837696 TTGGGATTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
64 64 0.98
65 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (64 bp):
AAACGAGTGACGAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
Found at i:17837730 original size:22 final size:23
Alignment explanation
Indices: 17837705--17837747 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17837695 ATTGGGATTT
17837705 CAACTTG-AAATTCAAAGATTCA
1 CAACTTGAAAATTCAAAGATTCA
17837727 CAACTTGAAAATTCAAAGATT
1 CAACTTGAAAATTCAAAGATT
17837748 TGCCAGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (23 bp):
CAACTTGAAAATTCAAAGATTCA
Found at i:17843029 original size:14 final size:14
Alignment explanation
Indices: 17842987--17843033 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
17842977 TAATAAGAGC
*
17842987 AAATAAAAATAAACA
1 AAAT-AAAATAAATA
17843002 AAATAAAATAAATA
1 AAATAAAATAAATA
17843016 AAATAAGAAT-AATA
1 AAATAA-AATAAATA
17843030 AAAT
1 AAAT
17843034 CCAAATAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 23 0.77
15 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:17849929 original size:20 final size:19
Alignment explanation
Indices: 17849892--17849942 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
17849882 TTTTAATTTA
*
17849892 AAATAAGAAATAATA-AAAGT
1 AAATAA-AAATAA-ACAAAAT
17849912 AAATAAAAATAAACAAAAT
1 AAATAAAAATAAACAAAAT
*
17849931 AAA-ATAAATAAA
1 AAATAAAAATAAA
17849943 ATAAGAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.32
19 13 0.46
20 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (19 bp):
AAATAAAAATAAACAAAAT
Found at i:17849936 original size:14 final size:14
Alignment explanation
Indices: 17849912--17849946 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17849902 TAATAAAAGT
17849912 AAATAAAAATAAACA
1 AAAT-AAAATAAACA
*
17849927 AAATAAAATAAATA
1 AAATAAAATAAACA
17849941 AAATAA
1 AAATAA
17849947 GAAGGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAAATAAACA
Found at i:17851185 original size:64 final size:64
Alignment explanation
Indices: 17851061--17851198 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
17851051 TCTAAGATCA
** * *
17851061 AAACGAGTGACGAAGATTGAACTTTAGGTTTGAAAATAAAATAATTTGGACCGAGTCAAGATTG
1 AAACGAGTGACGAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
* **
17851125 AAACGAGTGACTG-AGATTGAACCGTAGGTCTGAAAATAAAATGATTTGGATTGAGCCAAGATTG
1 AAACGAGTGAC-GAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
*
17851189 AAATGAGTGA
1 AAACGAGTGA
17851199 TTGGGATTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
64 64 0.98
65 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (64 bp):
AAACGAGTGACGAAGATTGAACCGTAGGTCTGAAAATAAAATAATTTGGACCGAGCCAAGATTG
Found at i:17851233 original size:22 final size:22
Alignment explanation
Indices: 17851208--17851249 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
17851198 ATTGGGATTT
17851208 CAACTTGAAATTCAAAGATTCA
1 CAACTTGAAATTCAAAGATTCA
17851230 CAACTTGAAATTCAAAGATT
1 CAACTTGAAATTCAAAGATT
17851250 TGCCAGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
CAACTTGAAATTCAAAGATTCA
Found at i:17855544 original size:9 final size:9
Alignment explanation
Indices: 17855524--17855555 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
17855514 ATAAGCAATG
17855524 AAAAGAAAA
1 AAAAGAAAA
17855533 AAATAGAAAA
1 AAA-AGAAAA
17855543 AAAAGAAAA
1 AAAAGAAAA
17855552 AAAA
1 AAAA
17855556 TCTCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:17856525 original size:14 final size:14
Alignment explanation
Indices: 17856501--17856535 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17856491 TAATAACAGT
17856501 AAATAAAAATAAACA
1 AAAT-AAAATAAACA
*
17856516 AAATAAAATAAATA
1 AAATAAAATAAACA
17856530 AAATAA
1 AAATAA
17856536 GAAGAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAAATAAACA
Found at i:17864307 original size:21 final size:20
Alignment explanation
Indices: 17864283--17864334 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
17864273 CCAAAAAGGA
17864283 AAAAGAAAAA-AATGACTAAAG
1 AAAAGAAAAATAA--ACTAAAG
*
17864304 AAAACTAAAAATAAACTAAAG
1 AAAA-GAAAAATAAACTAAAG
17864325 -AAAGAAAAAT
1 AAAAGAAAAAT
17864335 GGAAAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 6 0.22
20 3 0.11
21 11 0.41
22 5 0.19
23 2 0.07
ACGTcount: A:0.73, C:0.06, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAGAAAAATAAACTAAAG
Found at i:17877958 original size:20 final size:19
Alignment explanation
Indices: 17877929--17877971 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
17877919 GATGGATATT
*
17877929 TTATGATGTTTTATAGATG
1 TTATGATGTTTGATAGATG
*
17877948 TTATGGATGTTTGATGGATG
1 TTAT-GATGTTTGATAGATG
17877968 TTAT
1 TTAT
17877972 CTGCATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (19 bp):
TTATGATGTTTGATAGATG
Found at i:17880929 original size:13 final size:13
Alignment explanation
Indices: 17880898--17880937 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17880888 TATAAGATAT
*
17880898 TTAGTAAAATAAA
1 TTAGTAAAAAAAA
**
17880911 CAAGTAAAAAAAA
1 TTAGTAAAAAAAA
17880924 TTAGTAAAAAAAA
1 TTAGTAAAAAAAA
17880937 T
1 T
17880938 ACAAGAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (13 bp):
TTAGTAAAAAAAA
Found at i:17880959 original size:21 final size:20
Alignment explanation
Indices: 17880929--17880980 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
17880919 AAAAATTAGT
* *
17880929 AAAA-AAAATACAAGAAATTG
1 AAAATAAAATAAAAGAAA-TA
*
17880949 AAAATAAAATAAAATAAATA
1 AAAATAAAATAAAAGAAATA
17880969 AAAAT-AAATAAA
1 AAAATAAAATAAA
17880981 TAAATAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.25
20 10 0.36
21 11 0.39
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAATAAAATAAAAGAAATA
Found at i:17880969 original size:14 final size:14
Alignment explanation
Indices: 17880950--17880984 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
17880940 AAGAAATTGA
17880950 AAAT-AAAATAAAAT
1 AAATAAAAAT-AAAT
17880964 AAATAAAAATAAAT
1 AAATAAAAATAAAT
17880978 AAATAAA
1 AAATAAA
17880985 TAAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:17882316 original size:114 final size:112
Alignment explanation
Indices: 17882195--17882482 Score: 339
Period size: 114 Copynumber: 2.5 Consensus size: 112
17882185 TAGATGATTG
* * * *
17882195 GGATGATGCCATGAGTCTAAAAATGACCAAGATCGAGTCAAGGTCATAGATGAATGA-CTATGAT
1 GGATGATGCTATAAGTCTAAAAA--ACCAAGATCGAGTCAAGGTCATAGATGAATGATC-AAGAC
*
17882259 GATGCCATGAGTTTGAAAATGATCTGG-CTTGAGCCAAGATCAG-ATGACCA
63 GATGCCATGAGTCTGAAAATGATCTGGCCTT-AGCCAAGAT-AGAATGACCA
* * * *
17882309 GGATGATGCTACAAGTTTAAAAGCAACCAAGACCGAGTTAAGGTCATAGATGAATGATCAAGACG
1 GGATGATGCTATAAGTCTAAAA--AACCAAGATCGAGTCAAGGTCATAGATGAATGATCAAGACG
*
17882374 ATGCCATGAGTCTGAAAATGATCTGGCCTTAGCTAAGATAGAATGACCA
64 ATGCCATGAGTCTGAAAATGATCTGGCCTTAGCCAAGATAGAATGACCA
* * * * *
17882423 GGATGATACTGTAAATCTGAAAGAAACCAAGATTGAGTCAAGGTTATAGATGAATGATCA
1 GGATGATGCTATAAGTCT-AAA-AAACCAAGATCGAGTCAAGGTCATAGATGAATGATCA
17882483 GGGCAATGTC
Statistics
Matches: 148, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
113 2 0.01
114 137 0.93
115 7 0.05
116 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (112 bp):
GGATGATGCTATAAGTCTAAAAAACCAAGATCGAGTCAAGGTCATAGATGAATGATCAAGACGAT
GCCATGAGTCTGAAAATGATCTGGCCTTAGCCAAGATAGAATGACCA
Found at i:17882500 original size:114 final size:115
Alignment explanation
Indices: 17882220--17882631 Score: 303
Period size: 114 Copynumber: 3.6 Consensus size: 115
17882210 TCTAAAAATG
* * ** ** *
17882220 ACCAAGATCGAGTCAAGGTCATAGATGAATGA-CTATGATGATGCCATGAGTTTGAAAATGATCT
1 ACCAAGACCGAGTCAAGGTCATAGATGAATGATC-AAGACAATGCCACAAGTCTGAAAATGATCT
* * * *
17882284 GG-CTTGAGCCAAGATCAGATGACCAGGATGATGCTACAAGTTTAAAAGCA
65 GGCCTTGAGCCAAGATCAGATGACCAGGATGATACTACAAATCTAAAAGAA
* * **
17882334 ACCAAGACCGAGTTAAGGTCATAGATGAATGATCAAGACGATGCCATGAGTCTGAAAATGATCTG
1 ACCAAGACCGAGTCAAGGTCATAGATGAATGATCAAGACAATGCCACAAGTCTGAAAATGATCTG
* ** *
17882399 GCCTT-AGCTAAGAT-AGAATGACCAGGATGATACTGTAAATCTGAAAGAA
66 GCCTTGAGCCAAGATCAG-ATGACCAGGATGATACTACAAATCTAAAAGAA
** * * * * * *
17882448 ACCAAGATTGAGTCAAGGTTATAGATGAATGATCAGGGCAATGTCACAAGTCTAAAAAATGATTT
1 ACCAAGACCGAGTCAAGGTCATAGATGAATGATCAAGACAATGCCACAAGTCT-GAAAATGATCT
* * * * *** *** * * * **
17882513 GG-CTTGAGTCGAGATTAGATAATTGGGATGATACTGTGAGTTTGAAAGTG
65 GGCCTTGAGCCAAGATCAGATGACCAGGATGATACTACAAATCTAAAAGAA
* * * * ** * * *
17882563 ACCAAGACTGAGTCAAGATCATAGATGAATGATCGAGACGATGCCATGAGTTTGCAAATGATCTA
1 ACCAAGACCGAGTCAAGGTCATAGATGAATGATCAAGACAATGCCACAAGTCTGAAAATGATCTG
17882628 GCCT
66 GCCT
17882632 GAGTCGAGAT
Statistics
Matches: 239, Mismatches: 52, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
113 2 0.01
114 147 0.62
115 88 0.37
116 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (115 bp):
ACCAAGACCGAGTCAAGGTCATAGATGAATGATCAAGACAATGCCACAAGTCTGAAAATGATCTG
GCCTTGAGCCAAGATCAGATGACCAGGATGATACTACAAATCTAAAAGAA
Found at i:17893968 original size:23 final size:23
Alignment explanation
Indices: 17893923--17893976 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
17893913 AATTGAAAAT
*
17893923 AAAATAAAATGAAATAAATTAAA
1 AAAATAAAATGAAATAAAATAAA
*
17893946 AATATAAAAT-AAATAAAAATAAA
1 AAAATAAAATGAAAT-AAAATAAA
17893969 AAAATAAA
1 AAAATAAA
17893977 TAGAAAATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAATAAAATGAAATAAAATAAA
Found at i:17893978 original size:18 final size:18
Alignment explanation
Indices: 17893919--17893984 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
17893909 AAGAAATTGA
17893919 AAAT-AAAATAAAATGAAAT
1 AAATAAAAATAAAA--AAAT
*
17893938 AAATTAAAAAT-ATAAAAT
1 AAA-TAAAAATAAAAAAAT
17893956 AAATAAAAATAAAAAAAT
1 AAATAAAAATAAAAAAAT
17893974 AAATAGAAAAT
1 AAATA-AAAAT
17893985 GGAAAATGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.17
18 18 0.44
19 8 0.20
20 3 0.07
21 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAATAAAAATAAAAAAAT
Found at i:17893983 original size:14 final size:15
Alignment explanation
Indices: 17893918--17893984 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 15
17893908 AAAGAAATTG
17893918 AAAATAAAATAAA-AT
1 AAAAT-AAATAAATAT
*
17893933 GAAATAAATTAAAAATAT
1 AAAATAAA-T--AAATAT
*
17893951 AAAATAAATAAAAAT
1 AAAATAAATAAATAT
*
17893966 AAAA-AAATAAATAG
1 AAAATAAATAAATAT
17893980 AAAAT
1 AAAAT
17893985 GGAAAATGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
14 15 0.36
15 14 0.33
17 4 0.10
18 9 0.21
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAATAAATAT
Found at i:17893990 original size:18 final size:17
Alignment explanation
Indices: 17893912--17893991 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
17893902 TAGATAAAAG
*
17893912 AAATTGAAAATAAA-ATA
1 AAATAGAAAATAAATA-A
17893929 AAAT-G-AAATAAATTAA
1 AAATAGAAAATAAA-TAA
*
17893945 AAATATAAAATAAATAA
1 AAATAGAAAATAAATAA
*
17893962 AAATAAAAAAATAAATAGA
1 AAAT-AGAAAATAAATA-A
*
17893981 AAATGGAAAAT
1 AAATAGAAAAT
17893992 GGAAAAGGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.13
16 6 0.11
17 12 0.23
18 23 0.43
19 5 0.09
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATAGAAAATAAATAA
Found at i:17893991 original size:36 final size:36
Alignment explanation
Indices: 17893919--17893991 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
17893909 AAGAAATTGA
*
17893919 AAATAAAATAAAATGAAATAAATTAAAAATATAAAAT
1 AAATAAAATAAAA-GAAATAAATTAAAAATAGAAAAT
*
17893956 AAATAAAAATAAAA-AAATAAA-TAGAAAATGGAAAAT
1 AAAT-AAAATAAAAGAAATAAATTA-AAAATAGAAAAT
17893992 GGAAAAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 2 0.06
36 17 0.53
37 4 0.12
38 9 0.28
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (36 bp):
AAATAAAATAAAAGAAATAAATTAAAAATAGAAAAT
Found at i:17894965 original size:15 final size:14
Alignment explanation
Indices: 17894941--17894989 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
17894931 ATAGTAATAC
17894941 TAATAGATTATGATA
1 TAATA-ATTATGATA
*
17894956 TAATATATTATGCTA
1 TAATA-ATTATGATA
17894971 T-ATAA-TATGATA
1 TAATAATTATGATA
17894983 TAATAAT
1 TAATAAT
17894990 ACTAATAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 3 0.10
15 14 0.48
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (14 bp):
TAATAATTATGATA
Found at i:17897306 original size:32 final size:32
Alignment explanation
Indices: 17897260--17897324 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
17897250 AATTTATTGT
* *
17897260 TGCTAAAATCAAGTTGACAACACCTTAATATA
1 TGCTAAAATAAAGTTGACAACACCTCAATATA
17897292 TGCTAAAATAAAGTTGACAACACCTCAATATA
1 TGCTAAAATAAAGTTGACAACACCTCAATATA
17897324 T
1 T
17897325 AATGTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (32 bp):
TGCTAAAATAAAGTTGACAACACCTCAATATA
Found at i:17897762 original size:15 final size:15
Alignment explanation
Indices: 17897742--17897770 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17897732 TTTGCAAGAT
17897742 CATTGACTTTTCAAG
1 CATTGACTTTTCAAG
17897757 CATTGACTTTTCAA
1 CATTGACTTTTCAA
17897771 ACACCATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (15 bp):
CATTGACTTTTCAAG
Found at i:17898649 original size:13 final size:14
Alignment explanation
Indices: 17898620--17898650 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17898610 CTTTGCAATC
*
17898620 TTTTAAATCTTGTT
1 TTTTAAATCTAGTT
17898634 TTTTAAATCTAGTT
1 TTTTAAATCTAGTT
17898648 TTT
1 TTT
17898651 GGTAATATTC
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:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTTAAATCTAGTT
Found at i:17899012 original size:19 final size:22
Alignment explanation
Indices: 17898988--17899035 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
17898978 ATCTAAACCT
17898988 TTTTCTTTTA-TTTATTT-A-C
1 TTTTCTTTTACTTTATTTAATC
*
17899007 TTTTCTTTTACTTTTTTTAATC
1 TTTTCTTTTACTTTATTTAATC
17899029 TTTTCTT
1 TTTTCTT
17899036 GTTTACATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 1 0.04
22 8 0.32
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTCTTTTACTTTATTTAATC
Found at i:17908145 original size:20 final size:20
Alignment explanation
Indices: 17908109--17908147 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17908099 TATTGTATAA
*
17908109 TTTTCCTGCACTGTTTTAAC
1 TTTTCCTGCACTATTTTAAC
17908129 TTTT-CTGCATCTATTTTAA
1 TTTTCCTGCA-CTATTTTAA
17908148 GTGTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTTCCTGCACTATTTTAAC
Found at i:17908599 original size:16 final size:18
Alignment explanation
Indices: 17908563--17908601 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17908553 TATTATAGAG
17908563 TTACTGCATTATTATTATT
1 TTACTGCATTA-TATTATT
*
17908582 TTACTGCATTA-ATTTTT
1 TTACTGCATTATATTATT
17908599 TTA
1 TTA
17908602 ACTTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (18 bp):
TTACTGCATTATATTATT
Found at i:17909944 original size:26 final size:26
Alignment explanation
Indices: 17909914--17909966 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
17909904 ATGGAAGGAG
17909914 TAAGCCCATTATAAAAGATCTGGACT
1 TAAGCCCATTATAAAAGATCTGGACT
* *
17909940 TAAGCCCATTGTAGAAGATCTGGACT
1 TAAGCCCATTATAAAAGATCTGGACT
17909966 T
1 T
17909967 GCGACCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
TAAGCCCATTATAAAAGATCTGGACT
Found at i:17910993 original size:20 final size:20
Alignment explanation
Indices: 17910942--17910995 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
17910932 ATTGGTTGTC
*
17910942 TTTTTCTTTTTCTTATTGTTCT
1 TTTTTC-TTTT-TTATTGCTCT
*
17910964 TCTATT-TTTTTTATTGCTCT
1 T-TTTTCTTTTTTATTGCTCT
17910984 TTTTTCTTTTTT
1 TTTTTCTTTTTT
17910996 TATGATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 4 0.15
22 1 0.04
23 3 0.11
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTTTTATTGCTCT
Found at i:17911577 original size:108 final size:111
Alignment explanation
Indices: 17911361--17911585 Score: 350
Period size: 108 Copynumber: 2.0 Consensus size: 111
17911351 TGATCTTGAA
* *
17911361 AAAAATTGACTTAATCCCAAAATTCATTTAGCCAAAATCATTCATTTGAGGAATCATATTTTAAG
1 AAAAATTGACTTAATCCCAAAATTCATTTAGCCAAAATCATTCATTCGAGGAACCATATTTTAAG
*
17911426 GAAAGGATTTAGTCTGAAGCATTAAAACAATTTTCAAATTAATTGTTT
66 G--AGGATTTAGTATGAAGCATTAAAACAATTTTCAAATTAATTGTTT
*
17911474 AAAAATTGATTTAATCCC-AAATTCATTT-GTCCAAAATCATTCATTCGAGGAACCATATTTTAA
1 AAAAATTGACTTAATCCCAAAATTCATTTAG-CCAAAATCATTCATTCGAGGAACCATATTTTAA
*
17911537 -G-GGATTTAGTATGAAGCGTTAAAACAATTTTCAAATTAATTGTTT
65 GGAGGATTTAGTATGAAGCATTAAAACAATTTTCAAATTAATTGTTT
17911582 AAAA
1 AAAA
17911586 TCTAAGAATA
Statistics
Matches: 106, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
108 46 0.43
111 2 0.02
112 41 0.39
113 17 0.16
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (111 bp):
AAAAATTGACTTAATCCCAAAATTCATTTAGCCAAAATCATTCATTCGAGGAACCATATTTTAAG
GAGGATTTAGTATGAAGCATTAAAACAATTTTCAAATTAATTGTTT
Found at i:17917843 original size:18 final size:19
Alignment explanation
Indices: 17917803--17917844 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
17917793 TTTTTTATTT
* *
17917803 TATTAAATTTATATAATTG
1 TATTAAAATTATATAATTA
17917822 TATTAAAATTATA-AATTA
1 TATTAAAATTATATAATTA
17917840 TATTA
1 TATTA
17917845 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATTAAAATTATATAATTA
Found at i:17918710 original size:26 final size:24
Alignment explanation
Indices: 17918680--17918737 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
17918670 TATTATAAAA
17918680 TTATTGTATTTGTCACTATCAATTAT
1 TTATT-TATTT-TCACTATCAATTAT
*
17918706 TTATTTA-TTTCATTATCAATTAT
1 TTATTTATTTTCACTATCAATTAT
17918729 TT-TTTATTT
1 TTATTTATTT
17918738 ATTTATATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.13
23 17 0.57
24 2 0.07
25 2 0.07
26 5 0.17
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATTTATTTTCACTATCAATTAT
Found at i:17919390 original size:10 final size:10
Alignment explanation
Indices: 17919375--17919402 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17919365 TTCATAATGC
17919375 TATCTTATCA
1 TATCTTATCA
17919385 TATCTTATCA
1 TATCTTATCA
17919395 TATCTTAT
1 TATCTTAT
17919403 GTATCGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.54
Consensus pattern (10 bp):
TATCTTATCA
Found at i:17920626 original size:12 final size:12
Alignment explanation
Indices: 17920599--17920642 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
17920589 AAAACTTGAC
*
17920599 AAATTTTACCTGA
1 AAATTTT-CATGA
17920612 AAATTTTCATGA
1 AAATTTTCATGA
17920624 AAATTTTCAT-A
1 AAATTTTCATGA
17920635 TAAATTTT
1 -AAATTTT
17920643 GTCCGATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 1 0.03
12 21 0.72
13 7 0.24
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (12 bp):
AAATTTTCATGA
Found at i:17920923 original size:14 final size:14
Alignment explanation
Indices: 17920904--17920933 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17920894 ATCATATATG
17920904 TTCCAATTTTTAAT
1 TTCCAATTTTTAAT
*
17920918 TTCCAATTTTTTAT
1 TTCCAATTTTTAAT
17920932 TT
1 TT
17920934 TTTTATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCCAATTTTTAAT
Found at i:17922693 original size:20 final size:20
Alignment explanation
Indices: 17922668--17922713 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17922658 TTCATATATA
17922668 TTTTTTTCAG-TTTTGTAAAT
1 TTTTTTTCAGATTTT-TAAAT
* *
17922688 TTTTTTTGAGATTTTTTAAT
1 TTTTTTTCAGATTTTTAAAT
17922708 TTTTTT
1 TTTTTT
17922714 AATACTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (20 bp):
TTTTTTTCAGATTTTTAAAT
Found at i:17927007 original size:27 final size:26
Alignment explanation
Indices: 17926971--17927022 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
17926961 CCTACACTTT
17926971 AAAATTAAGAAAACAAAAATAGTAAA
1 AAAATTAAGAAAACAAAAATAGTAAA
*
17926997 AAAATTTAAGAAAACAGAAATAGTAA
1 AAAA-TTAAGAAAACAAAAATAGTAA
17927023 GAAGAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (26 bp):
AAAATTAAGAAAACAAAAATAGTAAA
Found at i:17927275 original size:36 final size:38
Alignment explanation
Indices: 17927235--17927316 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
17927225 TTAATAAAAC
*
17927235 TTTATTTAAACAATCA-AGTTTTC-CTATTCAAATATG
1 TTTATTTAAACAATCATAGTTTTCACTATTCAAACATG
** * * *
17927271 TTTATTTGTACTATCATATTTTTCATTATTCAAACATG
1 TTTATTTAAACAATCATAGTTTTCACTATTCAAACATG
17927309 TTTATTTA
1 TTTATTTA
17927317 GAATCAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
36 13 0.35
37 6 0.16
38 18 0.49
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (38 bp):
TTTATTTAAACAATCATAGTTTTCACTATTCAAACATG
Found at i:17929250 original size:20 final size:20
Alignment explanation
Indices: 17929227--17929271 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17929217 AATTTTAAAA
*
17929227 AATATGATTAAATTAAATTT
1 AATATGATTAAATTAAATTC
* * *
17929247 AATAAGATTATATTTAATTC
1 AATATGATTAAATTAAATTC
17929267 AATAT
1 AATAT
17929272 ATATATAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AATATGATTAAATTAAATTC
Found at i:17929427 original size:128 final size:129
Alignment explanation
Indices: 17929269--17929535 Score: 518
Period size: 128 Copynumber: 2.1 Consensus size: 129
17929259 TTTAATTCAA
17929269 TATATATATAAATTATACATGTAAAAATAAAAAATACAAATGATGTAAAAATAAAAATTAAATTT
1 TATATATATAAATTATACATGTAAAAATAAAAAATACAAATGATGTAAAAATAAAAATTAAATTT
17929334 AATAAAATATATATCATTTTTACTTTTAATTTTTATATATAACTTACATATATATAAATAAATT
66 AATAAAATATATATCATTTTTACTTTTAATTTTTATATATAACTTACATATATATAAATAAATT
*
17929398 TATATATA-AAATTATACATGTAAAAATAAAAAATACAAATGATGTAAAAATACAAATTAAATTT
1 TATATATATAAATTATACATGTAAAAATAAAAAATACAAATGATGTAAAAATAAAAATTAAATTT
17929462 AATAAAATATATATCATTTTTACTTTTAATTTTTATATATAACTTACATATATATAAATAAATT
66 AATAAAATATATATCATTTTTACTTTTAATTTTTATATATAACTTACATATATATAAATAAATT
17929526 TATATATATA
1 TATATATATA
17929536 TATGTGAATT
Statistics
Matches: 136, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
128 127 0.93
129 9 0.07
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (129 bp):
TATATATATAAATTATACATGTAAAAATAAAAAATACAAATGATGTAAAAATAAAAATTAAATTT
AATAAAATATATATCATTTTTACTTTTAATTTTTATATATAACTTACATATATATAAATAAATT
Found at i:17930038 original size:29 final size:30
Alignment explanation
Indices: 17929996--17930053 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
17929986 TTTTTAAAAT
*
17929996 AAATTTTTATATTTTTA-TTATATCTAAAC
1 AAATTTTTATATTTTAATTTATATCTAAAC
*
17930025 AAATTTTTATATTTTAATTTATATTTAAA
1 AAATTTTTATATTTTAATTTATATCTAAA
17930054 TAAGCTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
AAATTTTTATATTTTAATTTATATCTAAAC
Found at i:17930174 original size:29 final size:29
Alignment explanation
Indices: 17930141--17930245 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 29
17930131 TAAGATTAAT
*
17930141 GACTTATTTGAATATAATTAAAATATAAA
1 GACTTATTTGAATAAAATTAAAATATAAA
* *
17930170 GACTTATCT-AAGGAAAATTAAAGAT-TAAA
1 GACTTATTTGAA-TAAAATTAAA-ATATAAA
* * *
17930199 GACTAATTTGAATATAATAAAAATATAAA
1 GACTTATTTGAATAAAATTAAAATATAAA
* *
17930228 -AATTATTTAAATAAAATT
1 GACTTATTTGAATAAAATT
17930246 TTTAAATTCT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
28 17 0.29
29 38 0.64
30 4 0.07
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (29 bp):
GACTTATTTGAATAAAATTAAAATATAAA
Found at i:17930746 original size:25 final size:26
Alignment explanation
Indices: 17930718--17930766 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
17930708 ACTTAAATAT
17930718 ATTAAAA-TATAAA-AAATATTTTTAA
1 ATTAAAATTA-AAATAAATATTTTTAA
17930743 ATTAAAATTAAAATAAATATTTTT
1 ATTAAAATTAAAATAAATATTTTT
17930767 TATTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAAAATTAAAATAAATATTTTTAA
Found at i:17930771 original size:25 final size:25
Alignment explanation
Indices: 17930715--17930786 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
17930705 ATTACTTAAA
17930715 TATATTAAAATATAAA-AAATATTTT
1 TATATTAAAATA-AAATAAATATTTT
*
17930740 TAAATTAAAATTAAAATAAATATTTT
1 TATATTAAAA-TAAAATAAATATTTT
17930766 T-TATT--AATAAAAT-AATATTTT
1 TATATTAAAATAAAATAAATATTTT
17930787 AAACCGAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.19
22 6 0.14
23 2 0.05
25 15 0.35
26 12 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATTAAAATAAAATAAATATTTT
Found at i:17931225 original size:11 final size:11
Alignment explanation
Indices: 17931209--17931234 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17931199 TTAACACAAC
17931209 ATAAAAATAAT
1 ATAAAAATAAT
17931220 ATAAAAATAAT
1 ATAAAAATAAT
17931231 ATAA
1 ATAA
17931235 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:17932577 original size:3 final size:3
Alignment explanation
Indices: 17932569--17932659 Score: 128
Period size: 3 Copynumber: 30.3 Consensus size: 3
17932559 AAAGGAAACG
17932569 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
17932617 AAT AGT AAT AGT AAT AGT ACT AAT AAA AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17932660 GTAAAAGCAC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17932857 original size:93 final size:93
Alignment explanation
Indices: 17932693--17932865 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 93
17932683 GATGGACCTA
* *
17932693 ACCAGAATGGGTCCAATTGGGCTCGAGCCAGAATGAGCCTAATCGGGCCTAAACTAAAATGGATC
1 ACCAAAATGGGTCCAATTGGGCCCGAGCCAGAATGAGCCTAATCGGGCCTAAACTAAAATGGATC
17932758 AAGGTGGGCCCAATTGGGCTCGGGCCTG
66 AAGGTGGGCCCAATTGGGCTCGGGCCTG
* * * * * *
17932786 ACCAAAATGGGTCTAGTTGGGCCCGAGCTAGAATGAGCCTAATTGGGTCTAAA-TCAGAATGGAT
1 ACCAAAATGGGTCCAATTGGGCCCGAGCCAGAATGAGCCTAATCGGGCCTAAACT-AAAATGGAT
*
17932850 CAAGGTGGGCCTAATT
65 CAAGGTGGGCCCAATT
17932866 TGGCCCAGAC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (93 bp):
ACCAAAATGGGTCCAATTGGGCCCGAGCCAGAATGAGCCTAATCGGGCCTAAACTAAAATGGATC
AAGGTGGGCCCAATTGGGCTCGGGCCTG
Found at i:17933545 original size:240 final size:238
Alignment explanation
Indices: 17933122--17933766 Score: 771
Period size: 240 Copynumber: 2.7 Consensus size: 238
17933112 TGATTGAAAC
* * * * *
17933122 AAAACCACGAATCATGAAGAATTATTTGGATTGAGCTAAGATCAAGCGACTGGTGTGAAACCACA
1 AAAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGA-TGGGGTGAAACCACA
* * * * *
17933187 AGTCAAAAAT-AAATTGACCAAGACCAAGTCGGGATCGAAAATAAATGTTCAGGACGGAACCACG
65 AGTCAAAAATGAAA-TGACAAAGACCAAGTCAGG-TCGAAAATAAATGATCAGGATGGAACCATG
* *
17933251 AATCATGAAGTATGATTTGGACTGAGCCAAGATCAAGTGACCGGGATGAAACCACAAGGT-AAAA
128 AATCATGAAGAATGATTTGGACTGAGCCAAGATCAAGCGACCGGGATGAAACCACAA-GTCAAAA
* * * * * * *
17933315 ATGAAGTGATCAAGACTGAGTCGATGTTGAAAATAAATGA-TGGGGAT
192 ATAAAGTGACCAAGACCGAGTCAAGGTTAAAAATAAATGATTAGGG-T
17933362 AAAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGATAGGGGGTGAAACCAC
1 AAAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGAT--GGGGTGAAACCAC
* * * * *
17933427 -AGTAAAAAATGAAGTGACAAAGACCAAGTCAAGGTCGAAAATAAATAATCGGGATGGAATCATG
64 AAGTCAAAAATGAAATGACAAAGACCAAGTC-AGGTCGAAAATAAATGATCAGGATGGAACCATG
* * *
17933491 AATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAAGTCAAAAA
128 AATCATGAAGAATGATTTGGACTGAGCCAAGATCAAGCGACCGGGATGAAACCACAAGTCAAAAA
17933556 TAAAGTGACCAAGACCGAGTCAAGGTTAAAAATAAATGATTAGGGT
193 TAAAGTGACCAAGACCGAGTCAAGGTTAAAAATAAATGATTAGGGT
* * * ** *
17933602 GAAACCACGAATCATGAAGAATGATCTGGA-TGAACCAAGATTAGGTAATCGAGGTGAAACCACA
1 AAAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGAT-GGGGTGAAACCACA
* * ** * *
17933666 AGTCAAAAATGAAATAACCAAA-ATCAAGTCGAGGTTAAAAATAAATGATCAGGATGAAACCATA
65 AGTCAAAAATGAAATGA-CAAAGACCAAGTC-AGGTCGAAAATAAATGATCAGGATGGAACCATG
* * *
17933730 AATCATGAAGAATGATTTGGATTAAGCAAAGATCAAG
128 AATCATGAAGAATGATTTGGACTGAGCCAAGATCAAG
17933767 TGAGTGAGAC
Statistics
Matches: 347, Mismatches: 50, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
238 12 0.03
239 98 0.28
240 217 0.63
241 20 0.06
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (238 bp):
AAAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGATGGGGTGAAACCACAA
GTCAAAAATGAAATGACAAAGACCAAGTCAGGTCGAAAATAAATGATCAGGATGGAACCATGAAT
CATGAAGAATGATTTGGACTGAGCCAAGATCAAGCGACCGGGATGAAACCACAAGTCAAAAATAA
AGTGACCAAGACCGAGTCAAGGTTAAAAATAAATGATTAGGGT
Found at i:17933701 original size:119 final size:120
Alignment explanation
Indices: 17933123--17933764 Score: 647
Period size: 120 Copynumber: 5.4 Consensus size: 120
17933113 GATTGAAACA
* * * * *
17933123 AAACCACGAATCATGAAGAATTATTTGGATTGAGCTAAGATCAAGCGA-CTGGTGTGAAACCACA
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATC-GGGGTGAAACCACA
* **
17933187 AGTCAAAAAT-AAATTGACCAAGACCAAGTCG-GGATCGAAAATAAATG-TTCAGGACG
65 AGTCAAAAATGAAA-TGACCAAGACCAAGTCGAGG-TTGAAAATAAATGATT-AGGGTG
* * * * * *
17933243 GAACCACGAATCATGAAGTATGATTTGGACTGAGCCAAGATCAAGTGACCGGGATGAAACCACAA
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAA
* * ** * * *
17933308 GGT-AAAAATGAAGTGATCAAGACTGAGTCGATGTTGAAAATAAATGA-TGGGGATA
66 -GTCAAAAATGAAATGACCAAGACCAAGTCGAGGTTGAAAATAAATGATTAGGG-TG
* * *
17933363 AAACCACGAATCATGAAGAATGATCTGGATTGAGCCAAGATCAGGCGATAGGGGGTGAAACCAC-
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGAT-CGGGGTGAAACCACA
* * * * * * *
17933427 AGTAAAAAATGAAGTGACAAAGACCAAGTCAAGGTCGAAAATAAAT-AATCGGGATG
65 AGTCAAAAATGAAATGACCAAGACCAAGTCGAGGTTGAAAATAAATGATTAGGG-TG
* * *
17933483 GAATCATGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAA
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAA
* * *
17933548 GTCAAAAAT-AAAGTGACCAAGACCGAGTCAAGGTTAAAAATAAATGATTAGGGTG
66 GTCAAAAATGAAA-TGACCAAGACCAAGTCGAGGTTGAAAATAAATGATTAGGGTG
* * * ** *
17933603 AAACCACGAATCATGAAGAATGATCTGGA-TGAACCAAGATTAGGTAATCGAGGTGAAACCACAA
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAA
* * * * * *
17933667 GTCAAAAATGAAATAACCAAAATCAAGTCGAGGTTAAAAATAAATGATCAGGATG
66 GTCAAAAATGAAATGACCAAGACCAAGTCGAGGTTGAAAATAAATGATTAGGGTG
** * * *
17933722 AAACCATAAATCATGAAGAATGATTTGGATTAAGCAAAGATCA
1 AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCA
17933765 AGTGAGTGAG
Statistics
Matches: 435, Mismatches: 73, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
119 120 0.28
120 292 0.67
121 23 0.05
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (120 bp):
AAACCACGAATCATGAAGAATGATTTGGACTGAGCCAAGATCAGGCGATCGGGGTGAAACCACAA
GTCAAAAATGAAATGACCAAGACCAAGTCGAGGTTGAAAATAAATGATTAGGGTG
Found at i:17944709 original size:15 final size:15
Alignment explanation
Indices: 17944682--17944715 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17944672 AAATTTTATA
17944682 TTTTCCCTTTTTTGT
1 TTTTCCCTTTTTTGT
*
17944697 TTTTCCTTTTTTTGT
1 TTTTCCCTTTTTTGT
17944712 TTTT
1 TTTT
17944716 TTTTTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTCCCTTTTTTGT
Found at i:17944825 original size:14 final size:14
Alignment explanation
Indices: 17944792--17944839 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
17944782 AAAATATGGG
*
17944792 TAAAAATAAATAAA
1 TAAAAATAAAAAAA
*
17944806 TTAAAATAAAAATAA
1 TAAAAATAAAAA-AA
17944821 -AAAAATAAAAAAA
1 TAAAAATAAAAAAA
*
17944834 GAAAAA
1 TAAAAA
17944840 CTAGAGGTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Done.