Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007882.1 Hibiscus syriacus cultivar Beakdansim tig00110260_pilon, 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: 1274288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:1075174 original size:27 final size:27
Alignment explanation
Indices: 1075136--1075199 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
1075126 GAATATTGGC
* * *
1075136 ATGCATAGTGAATCTTTGTTGCAAGTG
1 ATGCATAGTGAATATGTGTTACAAGTG
1075163 ATGCATAGTGAATATGTGTTACAAGTG
1 ATGCATAGTGAATATGTGTTACAAGTG
1075190 ATGCATAGTG
1 ATGCATAGTG
1075200 GTTTTGTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (27 bp):
ATGCATAGTGAATATGTGTTACAAGTG
Found at i:1079936 original size:20 final size:19
Alignment explanation
Indices: 1079911--1079968 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1079901 TACGTGAATC
*
1079911 TAGAGGTTAGTATCTATACT
1 TAGAGGTTAGTATCGATA-T
1079931 TAGAGGTTAGTATCGATAT
1 TAGAGGTTAGTATCGATAT
* *
1079950 TCAGAGGTCAGTATTGATA
1 T-AGAGGTTAGTATCGATA
1079969 CTGAAGGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (19 bp):
TAGAGGTTAGTATCGATAT
Found at i:1082041 original size:18 final size:17
Alignment explanation
Indices: 1082013--1082047 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
1082003 TAATATAAAA
1082013 TTATATATAAACTATAT
1 TTATATATAAACTATAT
1082030 TTATATTATAAACTATAT
1 TTATA-TATAAACTATAT
1082048 ATAAAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATATATAAACTATAT
Found at i:1082305 original size:42 final size:42
Alignment explanation
Indices: 1082247--1082356 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
1082237 ACAATAGTTA
*
1082247 ATATATGTAACTTATAGTATGTGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
1082289 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
* *
1082331 ATATATCTAACTTATAGTACATGTAT
1 ATATATGTAACTTATAGTATATGTAT
1082357 GTATAAACTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (42 bp):
ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
Found at i:1082492 original size:14 final size:13
Alignment explanation
Indices: 1082471--1082509 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
1082461 TATTATATAA
1082471 AAACCCTAAACCT
1 AAACCCTAAACCT
1082484 AAGACCCTAAATCCT
1 AA-ACCCTAAA-CCT
*
1082499 AAACCATAAAC
1 AAACCCTAAAC
1082510 TTTAAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 15 0.65
15 5 0.22
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.15
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:1082499 original size:21 final size:20
Alignment explanation
Indices: 1082475--1082557 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 20
1082465 ATATAAAAAC
1082475 CCTAAACCTAAGACCCTAAAT
1 CCTAAACCTAA-ACCCTAAAT
**
1082496 CCTAAACCATAAACTTTAAAT
1 CCTAAACC-TAAACCCTAAAT
* * * * *
1082517 TCTAAACCTTAACTCTTATAG
1 CCTAAACCTAAAC-CCTAAAT
*
1082538 CATAAACCCTAAACCCTAAA
1 CCTAAA-CCTAAACCCTAAA
1082558 AATAAACAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
20 4 0.09
21 34 0.72
22 9 0.19
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.25
Consensus pattern (20 bp):
CCTAAACCTAAACCCTAAAT
Found at i:1084654 original size:102 final size:102
Alignment explanation
Indices: 1084362--1084692 Score: 542
Period size: 102 Copynumber: 3.3 Consensus size: 102
1084352 AAGAGGTAAC
*
1084362 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTT
*
1084427 TTATAAGGTTGTTAGCTACCTTTATTTACAGTTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
* * *
1084464 TAAACTGTTTAATTTGTAGCTACTATTGATTTG-TT-TG-TGTTGGTTTTTCATTCGGATTACTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTT
* *
1084526 CTATAAGGTTGTTAGCTGCCTTTATTTACAATTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
* *
1084563 TAAACTGTTCAATTTGTTGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTT
1084628 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
* *
1084665 TAAAATGTTTAATTTGTTGCTACTGTTG
1 TAAACTGTTTAATTTGTAGCTACTGTTG
1084693 GTTGTTCATT
Statistics
Matches: 210, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
99 86 0.41
100 4 0.02
101 4 0.02
102 116 0.55
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.50
Consensus pattern (102 bp):
TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTT
TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
Found at i:1086394 original size:21 final size:21
Alignment explanation
Indices: 1086370--1086412 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1086360 TCTAGTTGAC
* *
1086370 TTTTAACTTATTTATTTCTTG
1 TTTTAACTTACTAATTTCTTG
* *
1086391 TTTTTATTTACTAATTTCTTG
1 TTTTAACTTACTAATTTCTTG
1086412 T
1 T
1086413 CTTTTGTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTAACTTACTAATTTCTTG
Found at i:1087840 original size:14 final size:14
Alignment explanation
Indices: 1087821--1087867 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1087811 TTTTTTTCTT
1087821 TATATAAATTAAAC
1 TATATAAATTAAAC
1087835 TATAT-AATT----
1 TATATAAATTAAAC
1087844 TATATAAATTAAAC
1 TATATAAATTAAAC
*
1087858 TATATTAATT
1 TATATAAATT
1087868 TTTCTTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:1087846 original size:23 final size:24
Alignment explanation
Indices: 1087819--1087868 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
1087809 TATTTTTTTC
1087819 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
1087842 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
1087866 TTT
1 TTT
1087869 TTCTTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:1088154 original size:16 final size:16
Alignment explanation
Indices: 1088133--1088176 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
1088123 TTTACTGGTT
1088133 AGGTTAAAAACAAGTC
1 AGGTTAAAAACAAGTC
* *
1088149 AGGTTAAAAATATGTC
1 AGGTTAAAAACAAGTC
*
1088165 AGGTTGAAAACA
1 AGGTTAAAAACA
1088177 GGTCGGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (16 bp):
AGGTTAAAAACAAGTC
Found at i:1092759 original size:13 final size:13
Alignment explanation
Indices: 1092741--1092766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1092731 ACTAAAACTG
1092741 TATATTGATATTA
1 TATATTGATATTA
1092754 TATATTGATATTA
1 TATATTGATATTA
1092767 CTGTGCCCCA
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TATATTGATATTA
Found at i:1097097 original size:21 final size:21
Alignment explanation
Indices: 1097073--1097112 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1097063 TTTTCAAAGG
1097073 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1097094 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1097113 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1097162 original size:19 final size:19
Alignment explanation
Indices: 1097138--1097176 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1097128 TTGAATGCAT
1097138 TCCATGAACCGATGCACTC
1 TCCATGAACCGATGCACTC
* *
1097157 TCCATGCATCGATGCACTC
1 TCCATGAACCGATGCACTC
1097176 T
1 T
1097177 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGAACCGATGCACTC
Found at i:1097216 original size:64 final size:63
Alignment explanation
Indices: 1097093--1097302 Score: 187
Period size: 64 Copynumber: 3.3 Consensus size: 63
1097083 TGCATCAATA
* * * * * * *
1097093 CCATGCATCGATGCA-TCAATGAATAAATTGAAACATTGAATGCATTCCATGAACCGATGCACTC
1 CCATGCATCGATGCACTC--TGATTTAATTCAAACATCGAATGCATT-TATGCATCGATGCACTC
1097157 T
63 T
**
1097158 CCATGCATCGATGCACTCTGATTTAATT-AAATCATCGAATGCATTTGATGCATCGATGCACAAT
1 CCATGCATCGATGCACTCTGATTTAATTCAAA-CATCGAATGCATTT-ATGCATCGATGCACTCT
* *
1097222 CCATGCATCGATGCAC-CAGACTATT-TTTCAAACATCGAATGCACTTTATGCATCGATGCACTC
1 CCATGCATCGATGCACTCTGA-T-TTAATTCAAACATCGAATGCA-TTTATGCATCGATGCACTC
1097285 T
63 T
* *
1097286 -TAGTGCACCGATGCACT
1 CCA-TGCATCGATGCACT
1097303 AGGAGTCCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
63 7 0.06
64 90 0.74
65 23 0.19
66 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (63 bp):
CCATGCATCGATGCACTCTGATTTAATTCAAACATCGAATGCATTTATGCATCGATGCACTCT
Found at i:1097277 original size:18 final size:19
Alignment explanation
Indices: 1097254--1097302 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1097244 ATTTTTCAAA
1097254 CATCGAATGCACT-TTA-TG
1 CATCG-ATGCACTCTTAGTG
1097272 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTTAGTG
*
1097291 CACCGATGCACT
1 CATCGATGCACT
1097303 AGGAGTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 13 0.46
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTTAGTG
Found at i:1105404 original size:15 final size:15
Alignment explanation
Indices: 1105384--1105413 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1105374 ATAGTAAGGG
1105384 GGAGTAATTTTTCAA
1 GGAGTAATTTTTCAA
1105399 GGAGTAATTTTTCAA
1 GGAGTAATTTTTCAA
1105414 AAGCTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
GGAGTAATTTTTCAA
Found at i:1105760 original size:21 final size:21
Alignment explanation
Indices: 1105736--1105775 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1105726 TTTTCAAAGG
1105736 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1105757 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1105776 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1105825 original size:19 final size:19
Alignment explanation
Indices: 1105801--1105839 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1105791 TCGAATGCAT
1105801 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1105820 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1105839 T
1 T
1105840 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1105918 original size:64 final size:63
Alignment explanation
Indices: 1105736--1105945 Score: 199
Period size: 64 Copynumber: 3.2 Consensus size: 63
1105726 TTTTCAAAGG
* ** ** *
1105736 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CGCTG-ATTTATTAAAACATCGAATGCAT
*
1105801 TC
62 TT
* ** * *
1105803 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTAAAACATCAAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCGAATGCATTT
* * *
1105867 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAACATCGAATGCACT
1 CATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTATTAAAACATCGAATGCATT
1105930 T
63 T
1105931 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1105946 CAGGCTATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 81 0.67
65 16 0.13
66 6 0.05
67 16 0.13
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTATTAAAACATCGAATGCATTT
Found at i:1105936 original size:45 final size:45
Alignment explanation
Indices: 1105886--1105990 Score: 210
Period size: 45 Copynumber: 2.3 Consensus size: 45
1105876 ATGCACAATC
1105886 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1105931 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1105976 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1105991 TCTTAGTGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (45 bp):
CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
Found at i:1105990 original size:17 final size:19
Alignment explanation
Indices: 1105962--1106010 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1105952 ATTTTTCAAA
1105962 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1105980 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1105999 CACCGATGCACT
1 CATCGATGCACT
1106011 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1106737 original size:10 final size:10
Alignment explanation
Indices: 1106722--1106749 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1106712 CATAGAGTAT
1106722 AGCATGCACG
1 AGCATGCACG
1106732 AGCATGCACG
1 AGCATGCACG
1106742 AGCATGCA
1 AGCATGCA
1106750 ACATAGTTCA
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:0.32, C:0.29, G:0.29, T:0.11
Consensus pattern (10 bp):
AGCATGCACG
Found at i:1112470 original size:10 final size:10
Alignment explanation
Indices: 1112457--1112481 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1112447 AAAAAAACAG
1112457 AAAAATTGAA
1 AAAAATTGAA
1112467 AAAAATTGAA
1 AAAAATTGAA
1112477 AAAAA
1 AAAAA
1112482 GGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAATTGAA
Found at i:1112662 original size:15 final size:15
Alignment explanation
Indices: 1112642--1112671 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1112632 TTACAACCTT
*
1112642 ATTAAAGACATTTTG
1 ATTAAACACATTTTG
1112657 ATTAAACACATTTTG
1 ATTAAACACATTTTG
1112672 TTCATTCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (15 bp):
ATTAAACACATTTTG
Found at i:1113830 original size:45 final size:44
Alignment explanation
Indices: 1113763--1113852 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 44
1113753 ATTTGTCATC
1113763 GATGATAGAAAATCAACCGATGGGGATGAATCTAATGGATTTAAT
1 GATGATAGAAAATCAACCGATGGGGAT-AATCTAATGGATTTAAT
*
1113808 GATGATAGAAAATCAACTGATGGGGATAATCTAATGGATTTAAT
1 GATGATAGAAAATCAACCGATGGGGATAATCTAATGGATTTAAT
1113852 G
1 G
1113853 GTAGAGTGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (44 bp):
GATGATAGAAAATCAACCGATGGGGATAATCTAATGGATTTAAT
Found at i:1117812 original size:19 final size:19
Alignment explanation
Indices: 1117795--1117843 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
1117785 TGAAAAGATT
1117795 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
*
1117815 TAATAAATAAAA-AGAGAAA
1 TAATAAATAAAATAGA-TAA
1117834 TAATAAATAA
1 TAATAAATAA
1117844 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:1118608 original size:76 final size:76
Alignment explanation
Indices: 1118499--1118716 Score: 366
Period size: 76 Copynumber: 2.9 Consensus size: 76
1118489 AAGCTAAAAC
* * *
1118499 ATCTTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAA
1 ATCTTAAAACTTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAA
1118563 TATAAAAATAAT
65 TATAAAAATAAT
*
1118575 TTCTTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAAT
1 ATCTTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAAT
1118640 ATAAAAATAAT
66 ATAAAAATAAT
* *
1118651 ATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAAT
1 ATCTTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAAT
1118716 A
66 A
1118717 AAATATTTAA
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
75 5 0.04
76 129 0.96
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (76 bp):
ATCTTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAAT
ATAAAAATAAT
Found at i:1118617 original size:24 final size:24
Alignment explanation
Indices: 1118590--1118704 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
1118580 AAAACTTAAT
1118590 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** ** *
1118614 TAAAATACCTAAAACAAAGATAAAA
1 TAAAATA-CTAAAACCTATTTAAAC
* * * *
1118639 TATAAA-AATAATATCCTAAAACTT-AAT
1 TA-AAATACTAA-AACCT---ATTTAAAC
1118666 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
1118690 TAAAATACCTAAAAC
1 TAAAATA-CTAAAAC
1118705 AAAAATAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
23 3 0.05
24 19 0.29
25 24 0.36
26 10 0.15
27 8 0.12
28 2 0.03
ACGTcount: A:0.58, C:0.15, G:0.01, T:0.26
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:1118628 original size:44 final size:44
Alignment explanation
Indices: 1118579--1118704 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 44
1118569 AATAATTTCT
1118579 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
1 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
* *
1118623 TAAAAC-AAAGATAAAATA-TAAAA---A--T-AA-T---AT-CC
1 TAAAACTTAA-TTAAAATACTAAAACCTATTTAAACTAAAATACC
1118655 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
1 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
1118699 TAAAAC
1 TAAAAC
1118705 AAAAATAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
32 15 0.23
33 9 0.14
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
43 9 0.14
44 21 0.33
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (44 bp):
TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
Found at i:1120659 original size:5 final size:5
Alignment explanation
Indices: 1120649--1120722 Score: 53
Period size: 5 Copynumber: 14.8 Consensus size: 5
1120639 TGTTCAGAGA
* * * *
1120649 AAAAT AAAAT AAAAT -AATT CAAAAT AAAAT -AAAT AGAAT TAAAT AAAGT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
** *
1120698 TCAAT GAAAAT AAAAG AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAA
1120723 ACAAAAATAT
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
4 7 0.14
5 38 0.75
6 6 0.12
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:1123362 original size:17 final size:17
Alignment explanation
Indices: 1123340--1123382 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1123330 TGAAAATATT
* *
1123340 TAATAAAAAATAGATAA
1 TAATAAAAAAAAGAGAA
*
1123357 TAATAAAAAAAAGGGAA
1 TAATAAAAAAAAGAGAA
1123374 TAATAAAAA
1 TAATAAAAA
1123383 TAAATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (17 bp):
TAATAAAAAAAAGAGAA
Found at i:1124160 original size:73 final size:73
Alignment explanation
Indices: 1124050--1124220 Score: 258
Period size: 73 Copynumber: 2.3 Consensus size: 73
1124040 CTTAAATTCC
* * *
1124050 AATTAAACACTTAAAC-TATTTAAACTAAAATATCTAAAACAAAGAT-AAATATAAAAATAATAT
1 AATTAAATACTAAAACATATTTAAACTAAAATACCTAAAAC-AAGATAAAATATAAAAAT-ATAT
*
1124113 CTTAAAACTT
64 CCTAAAACTT
1124123 AATTAAATACTAAAACATATTTAAACT-AAATACCTAAAACAAGATAAAATATAAAAATATATCC
1 AATTAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAGATAAAATATAAAAATATATCC
1124187 TAAAACTT
66 TAAAACTT
1124195 AATTAAAATACTAAAACATATTTAAA
1 AATT-AAATACTAAAACATATTTAAA
1124221 TAACATAAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
72 22 0.24
73 59 0.65
74 10 0.11
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.29
Consensus pattern (73 bp):
AATTAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAGATAAAATATAAAAATATATCC
TAAAACTT
Found at i:1124170 original size:23 final size:23
Alignment explanation
Indices: 1124126--1124170 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1124116 AAAACTTAAT
**
1124126 TAAATACTAAAACATATTTAAAC
1 TAAATACTAAAACATAGATAAAC
1124149 TAAATACCTAAAACA-AGATAAA
1 TAAATA-CTAAAACATAGATAAA
1124171 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAATACTAAAACATAGATAAAC
Found at i:1124234 original size:73 final size:73
Alignment explanation
Indices: 1124050--1124247 Score: 255
Period size: 73 Copynumber: 2.7 Consensus size: 73
1124040 CTTAAATTCC
* * *
1124050 AATTAAACACTTAAAC-TATTTAAACTAAAATATCTAAAACAAAGAT-AAATATAAAAATAATAT
1 AATTAAATACTAAAACATATTTAAACT-AAATAACTAAAAC-AAGATAAAATATAAAAATAATAT
*
1124113 CTTAAAACTT
64 CCTAAAACTT
*
1124123 AATTAAATACTAAAACATATTTAAACTAAATACCTAAAACAAGATAAAATATAAAAAT-ATATCC
1 AATTAAATACTAAAACATATTTAAACTAAATAACTAAAACAAGATAAAATATAAAAATAATATCC
1124187 TAAAACTT
66 TAAAACTT
* *
1124195 AATTAAAATACTAAAACATATTTAAA-TAACATAAATAAAA-AA-AAAAAATATAA
1 AATT-AAATACTAAAACATATTTAAACTAA-ATAACTAAAACAAGATAAAATATAA
1124248 TATTTAAAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
71 10 0.09
72 27 0.24
73 67 0.59
74 10 0.09
ACGTcount: A:0.61, C:0.10, G:0.01, T:0.28
Consensus pattern (73 bp):
AATTAAATACTAAAACATATTTAAACTAAATAACTAAAACAAGATAAAATATAAAAATAATATCC
TAAAACTT
Found at i:1128139 original size:24 final size:24
Alignment explanation
Indices: 1128076--1128142 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
1128066 TTCTTAATGT
*
1128076 TTTATTTAATTA-TGAAATTTTTA
1 TTTATTTAATTATTTAAATTTTTA
* *
1128099 TTTATTTTATT-TCTTAACGTTTTTA
1 TTTATTTAATTAT-TTAA-ATTTTTA
1128124 -TTATTTAATTATTTAAATT
1 TTTATTTAATTATTTAAATT
1128143 GTAACGCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 12 0.34
24 16 0.46
25 7 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (24 bp):
TTTATTTAATTATTTAAATTTTTA
Found at i:1128210 original size:21 final size:21
Alignment explanation
Indices: 1128170--1128210 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1128160 TGTTTCTATT
*
1128170 TAATTATTTTTATTATTTTTG
1 TAATTATTTTTATTAATTTTG
1128191 TAATT-TTTTTATTTAATTTT
1 TAATTATTTTTA-TTAATTTT
1128211 CACTTGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TAATTATTTTTATTAATTTTG
Found at i:1131268 original size:78 final size:79
Alignment explanation
Indices: 1131139--1131298 Score: 313
Period size: 78 Copynumber: 2.0 Consensus size: 79
1131129 TGATGCGAAG
1131139 AGAACGTCAATTTCATCTTCCCGAATTTCTCCATCAAAGTAAATAATAGCTGAAATACGCCTCA-
1 AGAACGTCAATTTCATCTTCCCGAATTTCTCCATCAAAGTAAATAATAGCTGAAATACGCCTCAT
1131203 TTTTAGAGTTTGAA
66 TTTTAGAGTTTGAA
1131217 AGAACGTCAATTTCATCTTCCCGAATTTCTCCATCAAAGTAAATAATAGCTGAAATACGCCTCAT
1 AGAACGTCAATTTCATCTTCCCGAATTTCTCCATCAAAGTAAATAATAGCTGAAATACGCCTCAT
1131282 TTTTAGAGTTTGAA
66 TTTTAGAGTTTGAA
1131296 AGA
1 AGA
1131299 TTGAGAGTCA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 64 0.79
79 17 0.21
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (79 bp):
AGAACGTCAATTTCATCTTCCCGAATTTCTCCATCAAAGTAAATAATAGCTGAAATACGCCTCAT
TTTTAGAGTTTGAA
Found at i:1136042 original size:31 final size:31
Alignment explanation
Indices: 1135999--1136063 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1135989 GTCCCGAAGG
* *
1135999 ACCTATCCATATGTCCCGACGGACATAGGTA
1 ACCTATCCATATGTCCCAAAGGACATAGGTA
* *
1136030 ACCTGTCCATATGTCCCAAATGACATAGGTA
1 ACCTATCCATATGTCCCAAAGGACATAGGTA
1136061 ACC
1 ACC
1136064 CTCGACTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (31 bp):
ACCTATCCATATGTCCCAAAGGACATAGGTA
Found at i:1139602 original size:102 final size:103
Alignment explanation
Indices: 1139383--1139594 Score: 390
Period size: 102 Copynumber: 2.1 Consensus size: 103
1139373 GGGTCTACGC
1139383 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1139448 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1139486 GGTCCTTCGGGACATATATGTATTCTTTGGAACATG-GTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
1139550 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1139588 GGTCCTT
1 GGTCCTT
1139595 ATGGACATTA
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 70 0.66
103 36 0.34
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:1139664 original size:23 final size:23
Alignment explanation
Indices: 1139608--1139675 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 23
1139598 GACATTATTA
1139608 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
1139631 -CGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
1139653 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
1139676 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 20 0.51
23 19 0.49
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:1140026 original size:12 final size:13
Alignment explanation
Indices: 1140009--1140041 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
1139999 TGATATATGT
1140009 ATATGATGTG-TG
1 ATATGATGTGATG
1140021 ATATGATGTGCATG
1 ATATGATGTG-ATG
1140035 ATATGAT
1 ATATGAT
1140042 ATATGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.39
Consensus pattern (13 bp):
ATATGATGTGATG
Found at i:1144902 original size:103 final size:103
Alignment explanation
Indices: 1144682--1144894 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
1144672 GGGTCTACGC
1144682 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTTGAT
* *
1144747 CATTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
1144785 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTTGAT
* *
1144850 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
1144888 GGTCCTT
1 GGTCCTT
1144895 ATGGACATTA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTTGAT
CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:1145359 original size:16 final size:16
Alignment explanation
Indices: 1145308--1145360 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1145298 TGTATGTGAT
1145308 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
1145326 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
1145342 ATATGATATATGTGTG
1 ATATGATATATGTGTG
1145358 ATA
1 ATA
1145361 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:1150162 original size:103 final size:103
Alignment explanation
Indices: 1149983--1150192 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
1149973 GGGTCTACGC
*
1149983 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGCGAGACACATACTTGAT
* *
1150048 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
1150086 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGCGAGACACATACTTGAT
*
1150151 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1150189 GGTC
1 GGTC
1150193 TTTATGGACA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGCGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:1150248 original size:23 final size:23
Alignment explanation
Indices: 1150222--1150279 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
1150212 GGCACTACGA
*
1150222 TGCAATTCTACGCGACACTTTGG
1 TGCAATTCTACGCGACACTTCGG
* *
1150245 TGCAATTCTACGTGGCACTTCGG
1 TGCAATTCTACGCGACACTTCGG
*
1150268 TGCAATTATACG
1 TGCAATTCTACG
1150280 AGCTGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (23 bp):
TGCAATTCTACGCGACACTTCGG
Found at i:1150660 original size:16 final size:16
Alignment explanation
Indices: 1150609--1150661 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1150599 TGTATGTGAT
1150609 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
1150627 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
1150643 ATATGATATATGTGTG
1 ATATGATATATGTGTG
1150659 ATA
1 ATA
1150662 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:1165423 original size:30 final size:30
Alignment explanation
Indices: 1165388--1165485 Score: 133
Period size: 30 Copynumber: 3.3 Consensus size: 30
1165378 GTCAATGGTC
*
1165388 AACGGTCAACAGTCAACTCTGGTCAAAGTT
1 AACGGTCAACGGTCAACTCTGGTCAAAGTT
*
1165418 AACGGTTAACGGTCAACTCTGGTCAAAGTT
1 AACGGTCAACGGTCAACTCTGGTCAAAGTT
* * * *
1165448 AACAGTTAATGGTCAACTCTGGTCAAAGTC
1 AACGGTCAACGGTCAACTCTGGTCAAAGTT
*
1165478 AACTGTCA
1 AACGGTCA
1165486 GTCAAAGTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (30 bp):
AACGGTCAACGGTCAACTCTGGTCAAAGTT
Found at i:1165544 original size:27 final size:26
Alignment explanation
Indices: 1165512--1165562 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
1165502 TGACTTTATT
1165512 TGAGTTGACTCAACCGAGTTAACTCAG
1 TGAGTTGACTCAA-CGAGTTAACTCAG
* *
1165539 TGAGTTGACTTAACGAGTTGACTC
1 TGAGTTGACTCAACGAGTTAACTC
1165563 GGCTTGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (26 bp):
TGAGTTGACTCAACGAGTTAACTCAG
Found at i:1168167 original size:37 final size:37
Alignment explanation
Indices: 1168094--1168168 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
1168084 GTTGGAAAAT
*
1168094 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
1168131 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
1168168 A
1 A
1168169 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:1173864 original size:2 final size:2
Alignment explanation
Indices: 1173857--1173893 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1173847 GCTAAAATGC
1173857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1173894 AGACAGGCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1180145 original size:19 final size:19
Alignment explanation
Indices: 1180108--1180146 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1180098 AATATGCCTC
*
1180108 TATTTTTTAATTTAGTAAT
1 TATTTTTTAATTTAATAAT
1180127 TATTTTCTTAA-TTAATAAT
1 TATTTT-TTAATTTAATAAT
1180146 T
1 T
1180147 GGTATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTTAATTTAATAAT
Found at i:1181184 original size:16 final size:16
Alignment explanation
Indices: 1181163--1181205 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
1181153 TTGTGAATTA
1181163 TGGATTTAGATATTGG
1 TGGATTTAGATATTGG
1181179 TGGATTTAGATATTGG
1 TGGATTTAGATATTGG
*
1181195 TGGCTTTAGAT
1 TGGATTTAGAT
1181206 TAAGGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.44
Consensus pattern (16 bp):
TGGATTTAGATATTGG
Found at i:1181892 original size:7 final size:7
Alignment explanation
Indices: 1181880--1181904 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1181870 ACTAATAATA
1181880 AATTTCT
1 AATTTCT
1181887 AATTTCT
1 AATTTCT
1181894 AATTTCT
1 AATTTCT
1181901 AATT
1 AATT
1181905 CCATCCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTCT
Found at i:1187889 original size:12 final size:12
Alignment explanation
Indices: 1187872--1187900 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1187862 TTGTTGTGCT
1187872 TGCTCCTCGGGC
1 TGCTCCTCGGGC
1187884 TGCTCCTCGGGC
1 TGCTCCTCGGGC
1187896 TGCTC
1 TGCTC
1187901 AGGCTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.31, T:0.28
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:1189545 original size:21 final size:21
Alignment explanation
Indices: 1189519--1189558 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1189509 CAGAACCCCA
*
1189519 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1189540 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1189559 TCAAATGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1197762 original size:13 final size:14
Alignment explanation
Indices: 1197738--1197767 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1197728 TTTAGTAATT
1197738 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
1197752 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
1197765 TTA
1 TTA
1197768 CTCCCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:1200120 original size:21 final size:23
Alignment explanation
Indices: 1200072--1200121 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1200062 ATTCCCCTGT
1200072 GGGGGGAATCAGTTCCCCTTCAA
1 GGGGGGAATCAGTTCCCCTTCAA
* *
1200095 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCAGTTCCCCTTCAA
1200116 GGGGGG
1 GGGGGG
1200122 TCGATTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.20, C:0.22, G:0.40, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCAGTTCCCCTTCAA
Found at i:1209030 original size:17 final size:18
Alignment explanation
Indices: 1208990--1209027 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1208980 TTATATAAGA
1208990 AAAATA-TTAAATAAATT
1 AAAATACTTAAATAAATT
1209007 AAAATACTTAAATAAATT
1 AAAATACTTAAATAAATT
1209025 AAA
1 AAA
1209028 TACAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATACTTAAATAAATT
Found at i:1209089 original size:10 final size:10
Alignment explanation
Indices: 1209066--1209115 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
1209056 TACCTTAAAT
* *
1209066 AGAGAATATA
1 AGAGAATTTG
*
1209076 AGAGTATTTG
1 AGAGAATTTG
*
1209086 AGAGAAGTTG
1 AGAGAATTTG
1209096 AGAGAATTTG
1 AGAGAATTTG
1209106 AGAGAATTTG
1 AGAGAATTTG
1209116 GTGTGATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:1212462 original size:30 final size:30
Alignment explanation
Indices: 1212448--1212577 Score: 260
Period size: 30 Copynumber: 4.3 Consensus size: 30
1212438 ACTATTAATA
1212448 TTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGGTATAATCC
1212478 TTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGGTATAATCC
1212508 TTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGGTATAATCC
1212538 TTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGGTATAATCC
1212568 TTATTTATAT
1 TTATTTATAT
1212578 AATTATATAG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 100 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (30 bp):
TTATTTATATTATATTTATAGGTATAATCC
Found at i:1212466 original size:15 final size:15
Alignment explanation
Indices: 1212448--1212556 Score: 56
Period size: 15 Copynumber: 7.3 Consensus size: 15
1212438 ACTATTAATA
1212448 TTATTTATATTATAT
1 TTATTTATATTATAT
*** * **
1212463 TTATAGGTATAATCC
1 TTATTTATATTATAT
1212478 TTATTTATATTATAT
1 TTATTTATATTATAT
*** * **
1212493 TTATAGGTATAATCC
1 TTATTTATATTATAT
1212508 TTATTTATATTATAT
1 TTATTTATATTATAT
*** * **
1212523 TTATAGGTATAATCC
1 TTATTTATATTATAT
1212538 TTATTTATATTATAT
1 TTATTTATATTATAT
1212553 TTAT
1 TTAT
1212557 AGGTATAATC
Statistics
Matches: 58, Mismatches: 36, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
15 58 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (15 bp):
TTATTTATATTATAT
Found at i:1212578 original size:15 final size:15
Alignment explanation
Indices: 1212470--1212580 Score: 60
Period size: 15 Copynumber: 7.4 Consensus size: 15
1212460 TATTTATAGG
1212470 TATAATCCTTATTTA
1 TATAATCCTTATTTA
* ** ***
1212485 TATTATATTTATAGG
1 TATAATCCTTATTTA
1212500 TATAATCCTTATTTA
1 TATAATCCTTATTTA
* ** ***
1212515 TATTATATTTATAGG
1 TATAATCCTTATTTA
1212530 TATAATCCTTATTTA
1 TATAATCCTTATTTA
* ** ***
1212545 TATTATATTTATAGG
1 TATAATCCTTATTTA
1212560 TATAATCCTTATTTA
1 TATAATCCTTATTTA
1212575 TATAAT
1 TATAAT
1212581 TATATAGATA
Statistics
Matches: 60, Mismatches: 36, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
15 60 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (15 bp):
TATAATCCTTATTTA
Found at i:1212605 original size:60 final size:60
Alignment explanation
Indices: 1212448--1212606 Score: 232
Period size: 60 Copynumber: 2.6 Consensus size: 60
1212438 ACTATTAATA
* *
1212448 TTATTTATATTATATTTATAGGTATAATCCTTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGATATAATCCTAATTTATATTATATTTATAGGTATAATCC
* *
1212508 TTATTTATATTATATTTATAGGTATAATCCTTATTTATATTATATTTATAGGTATAATCC
1 TTATTTATATTATATTTATAGATATAATCCTAATTTATATTATATTTATAGGTATAATCC
* *
1212568 TTATTTATA-TA-ATTATATAGATATATTTCTAAGTTTATA
1 TTATTTATATTATATT-TATAGATATAATCCTAA-TTTATA
1212607 AATATGTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
58 3 0.03
59 15 0.16
60 75 0.81
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (60 bp):
TTATTTATATTATATTTATAGATATAATCCTAATTTATATTATATTTATAGGTATAATCC
Found at i:1212785 original size:26 final size:27
Alignment explanation
Indices: 1212737--1212787 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1212727 TTTTTCTTTT
* *
1212737 TATTATTTTATTAATTTATATATTTAC
1 TATTATTTTACTAATTTAGATATTTAC
*
1212764 TATT-TTTTACTAATTTCGATATTT
1 TATTATTTTACTAATTTAGATATTT
1212788 TTTTTGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (27 bp):
TATTATTTTACTAATTTAGATATTTAC
Found at i:1215431 original size:21 final size:21
Alignment explanation
Indices: 1215405--1215457 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1215395 GTTTCCAGAT
1215405 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
1215426 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
1215447 TCGCAATGCGA
1 TCGCAACGCGA
1215458 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:1215495 original size:21 final size:21
Alignment explanation
Indices: 1215469--1215671 Score: 215
Period size: 21 Copynumber: 9.8 Consensus size: 21
1215459 TTTCCAAATT
1215469 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
1215490 CGTTGCGATTTATTCCAA-AT-G
1 CGTTGCGA--TAGTCCAAGTTCG
1215511 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
1215532 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
1215553 CGTTGCGATAGTCGAAGTT--
1 CGTTGCGATAGTCCAAGTTCG
*
1215572 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
1215593 CGTTGCGATTTATTCCAAGTT--
1 CGTTGCGA--TAGTCCAAGTTCG
*
1215614 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
1215635 CGTTGCGATTTATTCCAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
1215656 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
1215672 AATCGCAACG
Statistics
Matches: 157, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
19 42 0.27
20 1 0.01
21 89 0.57
22 1 0.01
23 24 0.15
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:1215515 original size:42 final size:41
Alignment explanation
Indices: 1215453--1215540 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 41
1215443 ACTATCGCAA
*
1215453 TGCGA-TTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTTCCAAATGCGTTGCGATAGTCCAAGTTCGCGT
1215493 TGCGATTTATTCCAAATGCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTT-TTCCAAATGCGTTGCGATAGTCCAAGTTCGCGT
1215535 TGCGAT
1 TGCGAT
1215541 AGTCGAAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.11
41 2 0.04
42 38 0.84
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TGCGATTTTTCCAAATGCGTTGCGATAGTCCAAGTTCGCGT
Found at i:1215660 original size:103 final size:102
Alignment explanation
Indices: 1215467--1215668 Score: 307
Period size: 103 Copynumber: 2.0 Consensus size: 102
1215457 ATTTTCCAAA
1215467 TTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATGCGTTGCGATAGTCCAAGTTCG
1 TTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATGCGTTGCGATAGTCCAAGTTCG
* *
1215532 CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAG
66 CGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCGAAG
* * * *
1215570 TTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 TTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATGCGTTGCGATAGTCCAAGTTCG
*
1215635 CGTTGCGATTTATTCCAAATT-CGTTGCGATAGTC
66 CGTTGCGA--TAGTCCAAATTCCGTTGCGATAGTC
1215669 CAAAATCGCA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
103 82 0.91
105 8 0.09
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (102 bp):
TTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATGCGTTGCGATAGTCCAAGTTCG
CGTTGCGATAGTCCAAATTCCGTTGCGATAGTCGAAG
Found at i:1216599 original size:21 final size:19
Alignment explanation
Indices: 1216547--1216602 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
1216537 CGTTGCAATT
*
1216547 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
1216566 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
1216589 TTGGACTATCGCAA
1 TTGGACTATCGCAA
1216603 TGCAAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.20
21 14 0.47
23 10 0.33
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:1227671 original size:17 final size:16
Alignment explanation
Indices: 1227637--1227668 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1227627 AAATATGATT
1227637 TTGAAAAAAAATATAA
1 TTGAAAAAAAATATAA
*
1227653 TTGAATAAAAATATAA
1 TTGAAAAAAAATATAA
1227669 ATTAAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
TTGAAAAAAAATATAA
Found at i:1229230 original size:41 final size:40
Alignment explanation
Indices: 1229184--1229263 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
1229174 AAAACACACC
* * *
1229184 CTAAATATTTCGTTTCCGGAATATGTTTTCAATGAAACAAG
1 CTAAATATTTCATTTCC-AAATATGCTTTCAATGAAACAAG
* *
1229225 CTAAATATTTCATTTCCAAATCTGCTTTCTATGAAACAA
1 CTAAATATTTCATTTCCAAATATGCTTTCAATGAAACAA
1229264 ACGAACCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (40 bp):
CTAAATATTTCATTTCCAAATATGCTTTCAATGAAACAAG
Found at i:1235139 original size:19 final size:20
Alignment explanation
Indices: 1235117--1235159 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
1235107 GATTTAATCC
*
1235117 TTTTAATTAT-TATTTAT-TA
1 TTTT-ATTATGTATATATATA
1235136 TTTTATTATGTATATATATA
1 TTTTATTATGTATATATATA
1235156 TTTT
1 TTTT
1235160 TCTTTTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTATGTATATATATA
Found at i:1235507 original size:15 final size:16
Alignment explanation
Indices: 1235476--1235510 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1235466 TTATACATTT
*
1235476 TTTTTATCTTTAGTTA
1 TTTTTATATTTAGTTA
1235492 TTTTTATATTTA-TTA
1 TTTTTATATTTAGTTA
1235507 TTTT
1 TTTT
1235511 ATTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTATATTTAGTTA
Found at i:1238562 original size:7 final size:7
Alignment explanation
Indices: 1238552--1238599 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
1238542 GCAAAAAAGG
1238552 AAAAAAC
1 AAAAAAC
1238559 AAAAAAC
1 AAAAAAC
1238566 AAAAAAC
1 AAAAAAC
1238573 AAAAAAC
1 AAAAAAC
*
1238580 AAAAAAGGA
1 AAAAAA--C
1238589 AAAAAAC
1 AAAAAAC
1238596 AAAA
1 AAAA
1238600 GGAAAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 31 0.84
9 6 0.16
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:1238570 original size:21 final size:21
Alignment explanation
Indices: 1238543--1238599 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
1238533 CAATAAGAAG
*
1238543 CAAAAAAGGAAAAAACAAAAAA
1 CAAAAAA-CAAAAAACAAAAAA
1238565 CAAAAAACAAAAAACAAAAAA
1 CAAAAAACAAAAAACAAAAAA
*
1238586 GGAAAAAAACAAAA
1 --CAAAAAACAAAA
1238600 GGAAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 13 0.42
22 7 0.23
23 11 0.35
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (21 bp):
CAAAAAACAAAAAACAAAAAA
Found at i:1238600 original size:14 final size:14
Alignment explanation
Indices: 1238559--1238606 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
1238549 AGGAAAAAAC
*
1238559 AAAAAACAAAA-AA
1 AAAAAACAAAAGGA
1238572 CAAAAAACAAAAAAGGA
1 -AAAAAAC--AAAAGGA
1238589 AAAAAACAAAAGGA
1 AAAAAACAAAAGGA
1238603 AAAA
1 AAAA
1238607 GAAAGAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 18 0.60
16 11 0.37
17 1 0.03
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAGGA
Found at i:1242576 original size:11 final size:11
Alignment explanation
Indices: 1242560--1242585 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1242550 CCTAAGTTGG
1242560 AAAAAAAAACA
1 AAAAAAAAACA
1242571 AAAAAAAAACA
1 AAAAAAAAACA
1242582 AAAA
1 AAAA
1242586 GAGAAAAACG
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1243594 original size:105 final size:105
Alignment explanation
Indices: 1243407--1244177 Score: 1379
Period size: 105 Copynumber: 7.4 Consensus size: 105
1243397 GCAGGTTTAC
*
1243407 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1243472 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1243512 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
1243577 ACGAAGAGACCGTTGGTTGTCAACAAACATTTCTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1243617 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1243682 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1243722 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
1243787 ACTAAGGGACCACTGGTTGTCAACAAATATTTCTCAGTTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1243827 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1243892 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1243932 CAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
1243997 ACGAAGGGACTGCTGGTTGTCAACAAGCATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1244037 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC-ACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1244101 ACGAA-GGACCGCTGGTTGTCAAC-AACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1244139 CAGAGCCAA-TTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1244178 GGAACAATAC
Statistics
Matches: 640, Mismatches: 26, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
101 30 0.05
102 22 0.03
103 17 0.03
104 13 0.02
105 558 0.87
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:1245914 original size:18 final size:20
Alignment explanation
Indices: 1245891--1245932 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
1245881 GATTTAGTCC
*
1245891 TTTTATTAT-TATTTAT-TA
1 TTTTATTATGTATATATATA
1245909 TTTTATTATGTATATATATA
1 TTTTATTATGTATATATATA
1245929 TTTT
1 TTTT
1245933 TCCTTTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATGTATATATATA
Found at i:1245965 original size:2 final size:2
Alignment explanation
Indices: 1245958--1245996 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1245948 TACAAGCTAC
1245958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1245997 TGATATAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1246529 original size:2 final size:2
Alignment explanation
Indices: 1246522--1246577 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1246512 TTATTTTCTT
1246522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1246564 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1246578 CCCTTTTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1247376 original size:22 final size:19
Alignment explanation
Indices: 1247331--1247386 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
1247321 ACGAATATAA
1247331 AATTTAAAAAATT-ATTTT
1 AATTTAAAAAATTAATTTT
*
1247349 ATTTTAAAAAATTTAATATTAT
1 AATTTAAAAAA-TTAAT-TT-T
1247371 AATTTAAAAAAATTAA
1 AATTT-AAAAAATTAA
1247387 AAAATCTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 10 0.32
19 2 0.06
20 2 0.06
21 2 0.06
22 9 0.29
23 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTAAAAAATTAATTTT
Found at i:1254801 original size:28 final size:28
Alignment explanation
Indices: 1254769--1254825 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
1254759 TTGGAAAAAA
1254769 GGAAACAG-AAGAAAGAATAAA-AAACAGG
1 GGAAA-AGAAAGAAAGAATAAAGAAA-AGG
*
1254797 GGAAAAGAAAGAAATAATAAAGAAAAGG
1 GGAAAAGAAAGAAAGAATAAAGAAAAGG
1254825 G
1 G
1254826 TAGGCCTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 21 0.81
29 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (28 bp):
GGAAAAGAAAGAAAGAATAAAGAAAAGG
Found at i:1255909 original size:23 final size:23
Alignment explanation
Indices: 1255879--1255929 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
1255869 TTAACCATGT
1255879 TCAAATATGTGCCGATATAAATA
1 TCAAATATGTGCCGATATAAATA
1255902 TCAAATATGTGCCGATATAAATA
1 TCAAATATGTGCCGATATAAATA
1255925 TCAAA
1 TCAAA
1255930 CATGAATGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (23 bp):
TCAAATATGTGCCGATATAAATA
Found at i:1256555 original size:17 final size:17
Alignment explanation
Indices: 1256533--1256565 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1256523 CCTCTGTCCA
1256533 TGGATGAATATAGTCTC
1 TGGATGAATATAGTCTC
1256550 TGGATGAATATAGTCT
1 TGGATGAATATAGTCT
1256566 GGATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (17 bp):
TGGATGAATATAGTCTC
Found at i:1256568 original size:15 final size:16
Alignment explanation
Indices: 1256533--1256569 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
1256523 CCTCTGTCCA
1256533 TGGATGAATATAGTCTC
1 TGGATGAATATAG-CTC
1256550 TGGATGAATATAG-TC
1 TGGATGAATATAGCTC
1256565 TGGAT
1 TGGAT
1256570 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (16 bp):
TGGATGAATATAGCTC
Found at i:1261003 original size:8 final size:8
Alignment explanation
Indices: 1260990--1261030 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1260980 CTCATTTGCA
1260990 GAGAATTT
1 GAGAATTT
1260998 GAGAATTT
1 GAGAATTT
*
1261006 -AGAGTTT
1 GAGAATTT
*
1261013 GGGAATTT
1 GAGAATTT
1261021 GAGAATTT
1 GAGAATTT
1261029 GA
1 GA
1261031 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1261328 original size:128 final size:128
Alignment explanation
Indices: 1261101--1261728 Score: 1012
Period size: 128 Copynumber: 4.9 Consensus size: 128
1261091 TAATCGGAGT
* * *
1261101 ACTATTCACATGAAGGCACGTT-CCGGGGGGGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1261165 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
1261228 ACTATTCACATGAAGGAGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
1261293 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAAATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
1261356 ACTATTCACATAAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1261421 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * * *
1261484 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
* *
1261548 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTA-TTCATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGAT-ATATCAGTACCTATTATTTC
* *** * *
1261612 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1261676 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
1261729 AATCAGGTAA
Statistics
Matches: 476, Mismatches: 21, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
127 22 0.05
128 453 0.95
129 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:1262167 original size:34 final size:34
Alignment explanation
Indices: 1262129--1262229 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
1262119 AAATTTAATG
*
1262129 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
1262163 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* *
1262197 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
1262230 AACATTTATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:1262777 original size:21 final size:21
Alignment explanation
Indices: 1262747--1262840 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
1262737 TATGGTATAA
*
1262747 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
1262768 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
1262789 AACCCTGCGGGATCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
1262810 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1262831 AACCCTGCGG
1 AACCCTGCGG
1262841 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 61 0.91
22 3 0.04
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1262864 original size:42 final size:42
Alignment explanation
Indices: 1262747--1262864 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
1262737 TATGGTATAA
*
1262747 AACCCTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGATAGGCATGTAACCTGGCGGGCTAGGAATGT
* * *
1262789 AACCCTGCGGGATCGGAATGTAACCCT-GCGGGCTCGGAATGT
1 AACCCTGCGGGATAGGCATGTAA-CCTGGCGGGCTAGGAATGT
* * *
1262831 AACCCTGCGGAGAT-GGCATATAAACTGGTGGGCT
1 AACCCTGCGG-GATAGGCATGTAACCTGGCGGGCT
1262865 TGGCATATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 57 0.88
43 6 0.09
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (42 bp):
AACCCTGCGGGATAGGCATGTAACCTGGCGGGCTAGGAATGT
Found at i:1262870 original size:21 final size:21
Alignment explanation
Indices: 1262844--1262891 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1262834 CCTGCGGAGA
*
1262844 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1262865 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1262886 GGGCAT
1 TGGCAT
1262892 GTACCCCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1264681 original size:31 final size:32
Alignment explanation
Indices: 1264610--1264686 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 32
1264600 ATAATAATTC
* *
1264610 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAAT-ATTACATAAATATTATTATAA
1264644 TAAAAAATAATATTACATAAATA-TATTA-ATA
1 TAAAAAATAATATTACATAAATATTATTATA-A
1264675 TAAAAAATAATA
1 TAAAAAATAATA
1264687 ACTATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 1 0.03
31 17 0.43
32 11 0.28
33 7 0.17
34 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATATTACATAAATATTATTATAA
Found at i:1264687 original size:34 final size:33
Alignment explanation
Indices: 1264611--1264692 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 33
1264601 TAATAATTCT
*
1264611 AAATAAATAATAATTATATAAATATTATTTTAATA
1 AAAT-AATAAT-ATTACATAAATATTATTTTAATA
1264646 AAA-AATAATATTACATAAATA-TATTAATATAA-A
1 AAATAATAATATTACATAAATATTATT--T-TAATA
1264679 AAATAATAACTATT
1 AAATAATAA-TATT
1264693 TAAAAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 11 0.27
34 8 0.20
35 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATAATAATATTACATAAATATTATTTTAATA
Found at i:1266423 original size:16 final size:16
Alignment explanation
Indices: 1266402--1266453 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
1266392 ATCGGCAGAT
1266402 GTCTCCTACTGCTGCA
1 GTCTCCTACTGCTGCA
1266418 GTCTCCTACTGCTGCA
1 GTCTCCTACTGCTGCA
1266434 GTCTCCTACTGCTGCA
1 GTCTCCTACTGCTGCA
1266450 GTCT
1 GTCT
1266454 TGGGCGTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.12, C:0.37, G:0.19, T:0.33
Consensus pattern (16 bp):
GTCTCCTACTGCTGCA
Found at i:1271901 original size:15 final size:15
Alignment explanation
Indices: 1271883--1271932 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
1271873 CGAGGGTTCT
1271883 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1271898 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1271913 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1271928 GTAGT
1 GTAGT
1271933 GGTCCTACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Done.