Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 77 of 78
Found at i:16583351 original size:19 final size:21
Alignment explanation
Indices: 16583327--16583378 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
16583317 CGGCCAAGAG
*
16583327 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
16583346 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
16583367 CATGTATTTTCA
1 CATGTATTTTCA
16583379 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:16584124 original size:14 final size:14
Alignment explanation
Indices: 16584105--16584155 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
16584095 AAAAAGAAAG
16584105 AAAAGACAAA-AAGA
1 AAAAGA-AAATAAGA
*
16584119 AAAAGAAAATTCAGA
1 AAAAGAAAA-TAAGA
*
16584134 AAAAGAAAAGAAG-
1 AAAAGAAAATAAGA
16584147 AAAAGAAAA
1 AAAAGAAAA
16584156 AGAAATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.38
14 8 0.25
15 12 0.38
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAAGAAAATAAGA
Found at i:16584125 original size:19 final size:19
Alignment explanation
Indices: 16584093--16584160 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
16584083 AAATTGGAGT
16584093 ACAAAAAG--AAAGAAAAG
1 ACAAAAAGAAAAAGAAAAG
*
16584110 ACAAAAAGAAAAAGAAAAT
1 ACAAAAAGAAAAAGAAAAG
*
16584129 TC----AGAAAAAGAAAAG
1 ACAAAAAGAAAAAGAAAAG
16584144 A-AGAAAAGAAAAAGAAA
1 ACA-AAAAGAAAAAGAAA
16584161 TTCAAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
15 12 0.30
17 8 0.20
19 20 0.50
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (19 bp):
ACAAAAAGAAAAAGAAAAG
Found at i:16584139 original size:34 final size:32
Alignment explanation
Indices: 16584101--16584173 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 32
16584091 GTACAAAAAG
16584101 AAAGAAAAGACA-AAAAGAAAAAGAAAATTCAGAA
1 AAAGAAAAGA-AGAAAAGAAAAAG-AAATTCA-AA
16584135 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAAA
16584167 AAAGAAA
1 AAAGAAA
16584174 GCAAGCCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 9 0.24
33 8 0.21
34 21 0.55
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.05
Consensus pattern (32 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAAA
Found at i:16584156 original size:14 final size:14
Alignment explanation
Indices: 16584095--16584159 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
16584085 ATTGGAGTAC
16584095 AAAAAGAAAGAAAAG
1 AAAAAG-AAGAAAAG
*
16584110 ACAAA-AAGAAAAAG
1 AAAAAGAAG-AAAAG
***
16584124 AAAATTCAGAAAA-
1 AAAAAGAAGAAAAG
16584137 AGAAAAGAAGAAAAG
1 A-AAAAGAAGAAAAG
16584152 AAAAAGAA
1 AAAAAGAA
16584160 ATTCAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.10
14 28 0.72
15 7 0.18
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAAAGAAGAAAAG
Found at i:16584169 original size:19 final size:19
Alignment explanation
Indices: 16584112--16584173 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
16584102 AAGAAAAGAC
16584112 AAAAAGAAAAAGAAAATTCA
1 AAAAAGAAAAAG-AAATTCA
16584132 GAAAAAG-AAAAG--A---A
1 -AAAAAGAAAAAGAAATTCA
*
16584146 GAAAAGAAAAAGAAATTCA
1 AAAAAGAAAAAGAAATTCA
16584165 AAAAAGAAA
1 AAAAAGAAA
16584174 GCAAGCCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
16 1 0.03
17 1 0.03
19 9 0.27
20 5 0.15
21 6 0.18
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAAGAAATTCA
Found at i:16587454 original size:19 final size:21
Alignment explanation
Indices: 16587430--16587476 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
16587420 CGGCCAAGAG
16587430 CATGTATCTTCA-TTAAAA-T
1 CATGTATCTTCATTTAAAAGT
*
16587449 CATGTATTTTCATTTAAAAGT
1 CATGTATCTTCATTTAAAAGT
16587470 CATGTAT
1 CATGTAT
16587477 TTTCCAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.44
20 6 0.24
21 8 0.32
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (21 bp):
CATGTATCTTCATTTAAAAGT
Found at i:16587474 original size:21 final size:19
Alignment explanation
Indices: 16587430--16587480 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 19
16587420 CGGCCAAGAG
*
16587430 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATTAAAAT
16587449 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCA-TTAAAA-T
16587470 CATGTATTTTC
1 CATGTATTTTC
16587481 CAAGGGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.38
20 6 0.21
21 12 0.41
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:16595551 original size:23 final size:23
Alignment explanation
Indices: 16595521--16595565 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16595511 ATCCACCAAA
*
16595521 GCTCTGATACCACTTTATGTAAT
1 GCTCTGATACCACTTGATGTAAT
*
16595544 GCTCTGATGCCACTTGATGTAA
1 GCTCTGATACCACTTGATGTAA
16595566 GGCTAACCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (23 bp):
GCTCTGATACCACTTGATGTAAT
Found at i:16595904 original size:35 final size:37
Alignment explanation
Indices: 16595857--16595929 Score: 123
Period size: 35 Copynumber: 2.0 Consensus size: 37
16595847 ATTTAGAAGT
16595857 TGGTGATAATATAGGCGTGAT-ATGGTGATGGA-ATA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGACATA
*
16595892 TGGTGATGATATAGGCGTGATAATGGTGATGGACATA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGACATA
16595929 T
1 T
16595930 TGTATCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 20 0.57
36 11 0.31
37 4 0.11
ACGTcount: A:0.30, C:0.04, G:0.34, T:0.32
Consensus pattern (37 bp):
TGGTGATAATATAGGCGTGATAATGGTGATGGACATA
Found at i:16602774 original size:21 final size:21
Alignment explanation
Indices: 16602735--16602774 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16602725 ATGCATCCTT
* * *
16602735 ATTAGCTCATAGACTTTATAC
1 ATTAGCTCACACACATTATAC
16602756 ATTAGCTCACACACATTAT
1 ATTAGCTCACACACATTAT
16602775 GAGATGATAT
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:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (21 bp):
ATTAGCTCACACACATTATAC
Found at i:16606976 original size:22 final size:21
Alignment explanation
Indices: 16606946--16606986 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16606936 CATCTCCATT
16606946 TCATCATCAACACAATCAACA
1 TCATCATCAACACAATCAACA
* *
16606967 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACAATCAA
16606987 TTCCGTAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACAATCAACA
Found at i:16612035 original size:15 final size:15
Alignment explanation
Indices: 16612015--16612053 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
16612005 CCTTCATGTG
16612015 CTTCTCGAACAAGCA
1 CTTCTCGAACAAGCA
16612030 CTTCTCGAACAAGCA
1 CTTCTCGAACAAGCA
16612045 CTTCTCGAA
1 CTTCTCGAA
16612054 GGGATCCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (15 bp):
CTTCTCGAACAAGCA
Found at i:16619998 original size:24 final size:23
Alignment explanation
Indices: 16619969--16620018 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
16619959 TTTCTTCTTC
*
16619969 TTTTTTAATTTTCGGAATTTGTTT
1 TTTTTTAATTTTCGGAAGTT-TTT
16619993 TTTTTTAATTTTCGGAAGTTTTT
1 TTTTTTAATTTTCGGAAGTTTTT
16620016 TTT
1 TTT
16620019 CAAGATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.68
Consensus pattern (23 bp):
TTTTTTAATTTTCGGAAGTTTTT
Found at i:16622339 original size:24 final size:25
Alignment explanation
Indices: 16622300--16622348 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
16622290 TTTCTTTTTC
*
16622300 TTCTTCTTTTTGAGTGCTTGAATTT
1 TTCTTCTTTTTGAGTGCTTCAATTT
16622325 TTCTTC-TTTTGAGTGCTTCAATTT
1 TTCTTCTTTTTGAGTGCTTCAATTT
16622349 ATTTGCTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.59
Consensus pattern (25 bp):
TTCTTCTTTTTGAGTGCTTCAATTT
Found at i:16624653 original size:18 final size:18
Alignment explanation
Indices: 16624630--16624668 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
16624620 ATTTTTTCAT
16624630 TTAAATTTATTATTATTA
1 TTAAATTTATTATTATTA
16624648 TTAAATTTATTATTATTA
1 TTAAATTTATTATTATTA
16624666 TTA
1 TTA
16624669 TTATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAATTTATTATTATTA
Found at i:16624674 original size:27 final size:27
Alignment explanation
Indices: 16624636--16624715 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
16624626 TCATTTAAAT
16624636 TTATTATTATTATTAAATTTATTATTA
1 TTATTATTATTATTAAATTTATTATTA
16624663 TTATTATTATTATTAAATATTATTATTA
1 TTATTATTATTATTAAAT-TTATTATTA
* *
16624691 GTA-TATTATTATTAAA-TAATTATTA
1 TTATTATTATTATTAAATTTATTATTA
16624716 CAAGCCCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.16
27 31 0.62
28 11 0.22
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (27 bp):
TTATTATTATTATTAAATTTATTATTA
Found at i:16624715 original size:3 final size:3
Alignment explanation
Indices: 16624636--16624704 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
16624626 TCATTTAAAT
* *
16624636 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
16624682 TTA TTA TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
16624705 AATAATTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
2 3 0.05
3 51 0.89
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:16633952 original size:93 final size:93
Alignment explanation
Indices: 16633788--16634072 Score: 457
Period size: 93 Copynumber: 3.1 Consensus size: 93
16633778 AAATAAGGAG
16633788 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAGA
1 GCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAGA
*
16633853 ACCAATCATTGAATTTGGAAGATGAATGT
65 ATCAATCATTGAATTTGGAAGATGAATGT
* *
16633882 GCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAA
1 GCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAGAA
16633947 TCAATCATTGAATTTGGAAGATGAATGT
66 TCAATCATTGAATTTGGAAGATGAATGT
* * *
16633975 GCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGATTTGGTACG-AACTC-CAAA
1 GCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAAC-CACAGA
* * *
16634038 ATCAATCATTGGATTTGAAAGATGAATTT
65 ATCAATCATTGAATTTGGAAGATGAATGT
16634067 GCTCAT
1 GCTCAT
16634073 GGTAGAAATA
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 38 0.21
93 137 0.77
94 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (93 bp):
GCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAGAA
TCAATCATTGAATTTGGAAGATGAATGT
Found at i:16634179 original size:114 final size:115
Alignment explanation
Indices: 16633975--16634292 Score: 487
Period size: 115 Copynumber: 2.8 Consensus size: 115
16633965 AGATGAATGT
*
16633975 GCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGATTTGGTACGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTACGAACTCCAAAA
**
16634039 TCAATCATTGGATTTGAAAGATGAA-TTTGCTCATGGTAGAAATAAGGAG
66 TCAATCATTGGATTTGAAAGATGAATTTTGCTCATAATAGAAATAAGGAG
* *
16634088 GCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTACGAACTCCAAAA
16634153 TCAATCATTGGATTTGAAAGATGAATTTTGCTCATAATAGAAATAAGGAG
66 TCAATCATTGGATTTGAAAGATGAATTTTGCTCATAATAGAAATAAGGAG
* * * * * * *
16634203 ACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCATAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTACGAACTCCAAAA
* * *
16634268 CCGATCATTGGAATTGAAAGATGAA
66 TCAATCATTGGATTTGAAAGATGAA
16634293 CTGCATGATA
Statistics
Matches: 187, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 4 0.02
114 82 0.44
115 101 0.54
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (115 bp):
GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTACGAACTCCAAAA
TCAATCATTGGATTTGAAAGATGAATTTTGCTCATAATAGAAATAAGGAG
Found at i:16636511 original size:54 final size:54
Alignment explanation
Indices: 16636427--16636547 Score: 163
Period size: 54 Copynumber: 2.3 Consensus size: 54
16636417 AAAGAGCTTC
* ***
16636427 AATGTTTGA-GAACATCTGAGCAGAAACCACAAAAAAAAATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAACCACAAAAAAAAATGAATGCACTGTCA
* ** *
16636480 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAAGATGAATGCACTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAACCACAAAAAAAAATGAATGCACTGTCA
16636534 AATGTTTTACGAAC
1 AATGTTTTACGAAC
16636548 CTGTTATTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 8 0.14
54 51 0.86
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (54 bp):
AATGTTTTACGAACATCTGAGCAGAAACCACAAAAAAAAATGAATGCACTGTCA
Found at i:16636939 original size:22 final size:22
Alignment explanation
Indices: 16636910--16636964 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
16636900 ATCTACACTC
*
16636910 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
16636932 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
16636954 TTCAAAGATGA
1 TTCAAAGATGA
16636965 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:16637769 original size:76 final size:76
Alignment explanation
Indices: 16637643--16638781 Score: 2050
Period size: 76 Copynumber: 15.0 Consensus size: 76
16637633 ATTTCCCACG
* * *
16637643 TCTGTAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTCTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16637708 CCTTCGGGTCA
66 CCTTCGGGTCA
* *
16637719 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGAAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16637784 CCTTCGGGTCA
66 CCTTCGGGTCA
*
16637795 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16637860 CCTTCGGGTCA
66 CCTTCGGGTCA
* *
16637871 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16637936 CCTTCGGGTCA
66 CCTTCGGGTCA
16637947 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638012 CCTTCGGGTCA
66 CCTTCGGGTCA
16638023 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638088 CCTTCGGGTCA
66 CCTTCGGGTCA
16638099 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638164 CCTTCGGGTCA
66 CCTTCGGGTCA
*
16638175 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638240 CC-TCAGGGTCA
66 CCTTC-GGGTCA
*
16638251 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638316 CCTTCGGGTCA
66 CCTTCGGGTCA
*
16638327 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638392 CC-TCAGGGTCA
66 CCTTC-GGGTCA
16638403 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638468 CC-TCAGGGTCA
66 CCTTC-GGGTCA
*
16638479 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638544 CCTTCGGGTCA
66 CCTTCGGGTCA
*
16638555 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638620 CCTTCGGGTCA
66 CCTTCGGGTCA
*
16638631 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
16638696 CCTTCGGGTCA
66 CCTTCGGGTCA
* * * *
16638707 TTTGTAAGCCCTTCTGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAA
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--AA
16638772 AGCCTTCGGG
64 AGCCTTCGGG
16638782 AGCTTTTTGA
Statistics
Matches: 1032, Mismatches: 25, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
75 4 0.00
76 1012 0.98
77 4 0.00
78 12 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
CCTTCGGGTCA
Found at i:16638762 original size:31 final size:31
Alignment explanation
Indices: 16638727--16638810 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
16638717 CTTCTGTGCA
16638727 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
16638758 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
16638789 TGATGTTTTC--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
16638811 TCATCTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 12 0.23
31 40 0.77
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:16638764 original size:107 final size:107
Alignment explanation
Indices: 16638651--16638846 Score: 365
Period size: 107 Copynumber: 1.8 Consensus size: 107
16638641 CTTCAGTGCA
*
16638651 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATTTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
*
16638716 CCTTCTGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
16638758 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
*
16638823 CCTTCAGTGCATGATGTTTTCAAA
66 CCTTCAGTGCATGATGTTTCCAAA
16638847 CATTTCCATC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 86 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (107 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:16638988 original size:18 final size:18
Alignment explanation
Indices: 16638965--16639003 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
16638955 ATTTTTTCAT
16638965 TTAAATTTATTATTACTA
1 TTAAATTTATTATTACTA
*
16638983 TTAAATTTATTATTATTA
1 TTAAATTTATTATTACTA
16639001 TTA
1 TTA
16639004 TTAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTTATTATTACTA
Found at i:16638997 original size:21 final size:21
Alignment explanation
Indices: 16638971--16639027 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
16638961 TCATTTAAAT
16638971 TTATTATTACTATTAAAT-TTA
1 TTATTATTA-TATTAAATATTA
16638992 TTATTATTATTATTAAATATTA
1 TTATTATTA-TATTAAATATTA
*
16639014 TTATTAGTATATTA
1 TTATTATTATATTA
16639028 TTATTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTATTATATTAAATATTA
Found at i:16639041 original size:14 final size:14
Alignment explanation
Indices: 16638997--16639044 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
16638987 ATTTATTATT
16638997 ATTATTATTAAAT-
1 ATTATTATTAAATA
*
16639010 ATTATTATT-AGTA
1 ATTATTATTAAATA
16639023 TATTATTATTAAATA
1 -ATTATTATTAAATA
16639038 ATTATTA
1 ATTATTA
16639045 CAAGCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 2 0.07
13 9 0.30
14 16 0.53
15 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:16639044 original size:3 final size:3
Alignment explanation
Indices: 16638971--16639033 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
16638961 TCATTTAAAT
* * *
16638971 TTA TTA TTA CTA TTA -AA TTTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
16639017 TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
16639034 AATAATTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 3 0.06
3 43 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:16643383 original size:11 final size:11
Alignment explanation
Indices: 16643367--16643422 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
16643357 ATTGGAGTGC
16643367 AAAAAGAAAAA
1 AAAAAGAAAAA
16643378 AAAAAGATAAAA
1 AAAAAGA-AAAA
* *
16643390 AGAAGAATAAGAA
1 A-AA-AAGAAAAA
*
16643403 AAAAAGAAAAG
1 AAAAAGAAAAA
16643414 AAAAAGAAA
1 AAAAAGAAA
16643423 TTCAAAAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 21 0.57
12 7 0.19
13 6 0.16
14 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:16644794 original size:19 final size:21
Alignment explanation
Indices: 16644770--16644821 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
16644760 CGACCAAGAG
*
16644770 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
16644789 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
16644810 CATGTATTTTCA
1 CATGTATTTTCA
16644822 AAAGGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:16645601 original size:19 final size:20
Alignment explanation
Indices: 16645546--16645604 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
16645536 GAGTTCTAAA
16645546 AGAAAGAAAAAGACAAAAGAAG
1 AGAAAG-AAAAGA-AAAAGAAG
16645568 AGAAA-AATAAG-AAAAGAAG
1 AGAAAGAA-AAGAAAAAGAAG
16645587 A-AAAGAAAAGAAAAAGAA
1 AGAAAGAAAAGAAAAAGAA
16645605 AAATTCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.18
19 18 0.53
20 2 0.06
21 3 0.09
22 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAGAAAAAGAAG
Found at i:16648937 original size:19 final size:21
Alignment explanation
Indices: 16648913--16648964 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
16648903 CGGCCAAGAG
*
16648913 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
16648932 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
16648953 CATGTATTTTCA
1 CATGTATTTTCA
16648965 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:16663021 original size:36 final size:36
Alignment explanation
Indices: 16662974--16663075 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
16662964 CATTACTACT
16662974 TCCATCACCATTATCACGCCTATATCATCACAATAG
1 TCCATCACCATTATCACGCCTATATCATCACAATAG
* *
16663010 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACAATAG
*
16663046 TCCATCACCA-TATCACGCCTATATTATCAC
1 TCCATCACCATTATCACGCCTATATCATCAC
16663076 CAACTTCTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 19 0.30
36 44 0.70
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACAATAG
Found at i:16667546 original size:13 final size:13
Alignment explanation
Indices: 16667528--16667552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16667518 TCATTACTAT
16667528 TTCCATCACCATC
1 TTCCATCACCATC
16667541 TTCCATCACCAT
1 TTCCATCACCAT
16667553 TATCACGCCT
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:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:16667571 original size:36 final size:36
Alignment explanation
Indices: 16667531--16667645 Score: 196
Period size: 36 Copynumber: 3.2 Consensus size: 36
16667521 TTACTATTTC
*
16667531 CATCACCATCTTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
*
16667567 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
16667603 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
*
16667638 TATCACCA
1 CATCACCA
16667646 ACTTCTAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 21 0.28
36 54 0.72
ACGTcount: A:0.30, C:0.37, G:0.03, T:0.29
Consensus pattern (36 bp):
CATCACCATATTCCATCACCATTATCACGCCTATAT
Found at i:16667585 original size:13 final size:11
Alignment explanation
Indices: 16667544--16667628 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
16667534 CACCATCTTC
16667544 CATCACCATTAT
1 CATCACCA-TAT
*
16667556 CA-CGCCTATAT
1 CATCACC-ATAT
16667567 CATCACCATAGT
1 CATCACCATA-T
16667579 CCATCACCATTAT
1 -CATCACCA-TAT
*
16667592 CA-CGCCTATAT
1 CATCACC-ATAT
16667603 CATCACCATATT
1 CATCACCATA-T
16667615 CCATCACCATAT
1 -CATCACCATAT
16667627 CA
1 CA
16667629 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:16669112 original size:14 final size:14
Alignment explanation
Indices: 16669093--16669135 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16669083 ATAAGATACT
* *
16669093 ATCTATTCATCATC
1 ATCTATCCATCACC
16669107 ATCTATCCATCACC
1 ATCTATCCATCACC
*
16669121 ATC-CTCCATCACC
1 ATCTATCCATCACC
16669134 AT
1 AT
16669136 TCAAGCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTATCCATCACC
Found at i:16669793 original size:16 final size:16
Alignment explanation
Indices: 16669769--16669807 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16669759 GTAAGTTATC
*
16669769 TTCACTTTCTTACTAT
1 TTCATTTTCTTACTAT
* *
16669785 TTCATTTTCTTATTCT
1 TTCATTTTCTTACTAT
16669801 TTCATTT
1 TTCATTT
16669808 ATTCTTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCATTTTCTTACTAT
Found at i:16672816 original size:35 final size:37
Alignment explanation
Indices: 16672770--16672848 Score: 126
Period size: 35 Copynumber: 2.2 Consensus size: 37
16672760 TTGAGAATTC
*
16672770 GGTGATGATATAGGCGTGAT-ATGG-TGATGGACTAT
1 GGTGATGATATAGGCGTGATAATGGAAGATGGACTAT
*
16672805 GGTGATGATATAGGCGTGATAATGGAAGATGGATTAT
1 GGTGATGATATAGGCGTGATAATGGAAGATGGACTAT
16672842 GGTGATG
1 GGTGATG
16672849 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 20 0.50
36 4 0.10
37 16 0.40
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.30
Consensus pattern (37 bp):
GGTGATGATATAGGCGTGATAATGGAAGATGGACTAT
Found at i:16676753 original size:37 final size:35
Alignment explanation
Indices: 16676675--16676754 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
16676665 TTTGAGAATT
**
16676675 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATATGAAGATGGACTA
*
16676710 TGGTGATGATATAGGCGTGATAATGAAAGATGGATTA
1 TGGTGATGATATAGGCGTGAT-ATG-AAGATGGACTA
*
16676747 TTGTGATG
1 TGGTGATG
16676755 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 21 0.54
36 3 0.08
37 15 0.38
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.33
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGAAGATGGACTA
Found at i:16680642 original size:35 final size:37
Alignment explanation
Indices: 16680596--16680675 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
16680586 TTTGAGAATT
**
16680596 TGGTGATGATATAGGCGTGAT-ATG-GTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGAAAGATGGACTA
*
16680631 TGGTGATGATATAGGCGTGATAATGAAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGAAAGATGGACTA
16680668 TGGTGATG
1 TGGTGATG
16680676 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGAAAGATGGACTA
Found at i:16683178 original size:19 final size:20
Alignment explanation
Indices: 16683154--16683193 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16683144 TATCCTTTAT
16683154 TTATTTCATTT-CATT-CTTA
1 TTATTT-ATTTGCATTACTTA
16683173 TTATTTATTTGCATTACTTA
1 TTATTTATTTGCATTACTTA
16683193 T
1 T
16683194 ATTATTATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATTTATTTGCATTACTTA
Found at i:16683482 original size:19 final size:18
Alignment explanation
Indices: 16683448--16683516 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
16683438 AAAATTGGAG
16683448 TACAAAAAG-AAAGAAAA
1 TACAAAAAGAAAAGAAAA
16683465 TACAAAAAGAAGAAGAAAA
1 TACAAAAAGAA-AAGAAAA
*
16683484 TTCAGAAAAAGAAAAGAAGAA
1 -T-ACAAAAAGAAAAGAA-AA
* *
16683505 AAGAAAAAGAAA
1 TACAAAAAGAAA
16683517 TTCAAAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 9 0.20
18 1 0.02
19 18 0.40
20 6 0.13
21 11 0.24
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.06
Consensus pattern (18 bp):
TACAAAAAGAAAAGAAAA
Found at i:16688420 original size:24 final size:24
Alignment explanation
Indices: 16688374--16688425 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16688364 CCTTGGCACT
* *
16688374 TCAAGTGGCATATCTTTTTGAACA
1 TCAAGTGGCATATCTATTGGAACA
*
16688398 TCAAGTGGCATGA-CTATTGGAACG
1 TCAAGTGGCAT-ATCTATTGGAACA
16688422 TCAA
1 TCAA
16688426 AGGACATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (24 bp):
TCAAGTGGCATATCTATTGGAACA
Found at i:16694924 original size:13 final size:13
Alignment explanation
Indices: 16694902--16694931 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16694892 ACTAAACACC
16694902 TTTC-ACATACCT
1 TTTCAACATACCT
16694914 TTTCAACATACCT
1 TTTCAACATACCT
16694927 TTTCA
1 TTTCA
16694932 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:16712379 original size:36 final size:36
Alignment explanation
Indices: 16712332--16712432 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
16712322 CAATCTGTCC
*
16712332 ATCACCATTATCACGCCTATATCATTACCATAGTCA
1 ATCACCATTATCACGCCTATATCATCACCATAGTCA
* *
16712368 ATCACCATTATCACGCCTATATCATCACCATATTCC
1 ATCACCATTATCACGCCTATATCATCACCATAGTCA
* *
16712404 ATCACCA-TATCACGCCCATATTATCACCA
1 ATCACCATTATCACGCCTATATCATCACCA
16712433 ACTTATAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
35 20 0.33
36 40 0.67
ACGTcount: A:0.33, C:0.35, G:0.04, T:0.29
Consensus pattern (36 bp):
ATCACCATTATCACGCCTATATCATCACCATAGTCA
Found at i:16716422 original size:36 final size:36
Alignment explanation
Indices: 16716375--16716443 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
16716365 ACAATCTGTC
*
16716375 CATCACCATTATCACGCCTATATCATTACCATAGTT
1 CATCACCATTATCACGCCTATATCATCACCATAGTT
16716411 CATCACCATTATCACGCCTATATCATCACCATA
1 CATCACCATTATCACGCCTATATCATCACCATA
16716444 TCACGCCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.33, G:0.04, T:0.30
Consensus pattern (36 bp):
CATCACCATTATCACGCCTATATCATCACCATAGTT
Found at i:16716448 original size:22 final size:23
Alignment explanation
Indices: 16716410--16716463 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
16716400 TTACCATAGT
*
16716410 TCATCACCATTATCACGCCTATA
1 TCATCACCATTATCACGCCCATA
16716433 TCATCACCA-TATCACGCCCATA
1 TCATCACCATTATCACGCCCATA
*
16716455 TTATCACCA
1 TCATCACCA
16716464 ACTTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.28
Consensus pattern (23 bp):
TCATCACCATTATCACGCCCATA
Found at i:16718586 original size:378 final size:382
Alignment explanation
Indices: 16717834--16718598 Score: 976
Period size: 378 Copynumber: 2.0 Consensus size: 382
16717824 CCTAGATTTA
** * **
16717834 TATCTAGTGGGTTGAAGACACTTTCATCACCCATCAAGCAAGTTTGAGAAGATCGGGATTGTGCT
1 TATCTAGTGGGTTGAAGACACCATCACCACCCATCAAGCAAGTTTGAGAAGATCAAGATTGTGCT
* *
16717899 GTCTAGCATAGTTTCATCTTAGGCATGTTTGAGATACAACATCACCACCATCTCCATTTCAACAT
66 GTCTAACATAGTTTCATCTTAGGCATGTTTCAGATACAACATCACCACCATCTCCA-TT----AT
** * * *
16717964 CAACATCAACACCATCAACATCTTCCATCAAGTTCATCAACATCTTCATAATTTCGCAGCCAACT
126 CAACATCAACACCATCAACATCTTCCATCAAGGCCACCAACATCTTC--AATTTCGAAACCAACT
* * *
16718029 CTATTCATTTATTTCATTTCATTACTTATCTAATTATCCATTTATTTTTCCATTATTAATCCTAT
189 CTATTCATATACTTCATTTCATTACTTATCTAATTATCCATTTATTATTCCATTATTAATCCTAT
* * *
16718094 TTCTTTTTTATCTTGTTGCAGCCTAAACTTATAACTCAAGGACATCAGTACTTGTCAATCCTAGA
254 TTCTTTCTTATCTTGTTGCAGCCTAAACTTATAACTCAAGCACATAAGTACTTGTCAATCCTAGA
* *
16718159 TCGAGACAACAATAAGGCTATCTACTCACTTCCATTGAAGAGTGTAGATTCATCTTACATCATC
319 TCGAGACAACAATAAGGCTATCTACTCACTTCCATTGAAGAGTGTAGATTCAGCCTACATCATC
* *
16718223 TATCTAGTGGGTTGAAGACACCATCACCACCCTTCAAGCAAGTTTGGGAAGATCAAGATTGTGCT
1 TATCTAGTGGGTTGAAGACACCATCACCACCCATCAAGCAAGTTTGAGAAGATCAAGATTGTGCT
* * *
16718288 TTCTAACATAGTTTCTTCTTTGGCATGTTTCAGATACAACATCACCACCATCTTCCA-T-TCAAC
66 GTCTAACATAGTTTCATCTTAGGCATGTTTCAGATACAACATCACCACCATC-TCCATTATCAAC
* * *
16718351 ATCAACACCATTAACCATCTTTCATCAAGGCCACCAACATCTTC-A-TT-GAAAACCATCTCT-T
130 ATCAACACCATCAA-CATCTTCCATCAAGGCCACCAACATCTTCAATTTCG-AAACCAACTCTAT
* * * ** *
16718412 TTATATCCTT-A-TTCATTACTTAATTTTGTTATCCATTTCTTATTCCATTATTAATTCC-ATAT
193 TCATATACTTCATTTCATTACTT-ATCTAATTATCCATTTATTATTCCATTATTAA-TCCTAT-T
* * *
16718474 T-TTTCTTATCATTTTTGCAGCC-ACACTTATAACTCAAGCACATAAGTACTTGTCATTCCTAGA
255 TCTTTCTTATC-TTGTTGCAGCCTAAACTTATAACTCAAGCACATAAGTACTTGTCAATCCTAGA
* *
16718537 TCGGGACAACAATAAGGCTATCTATTCACTTCCATTGAAGAGTGTAGATTCAGCCTACATCA
319 TCGAGACAACAATAAGGCTATCTACTCACTTCCATTGAAGAGTGTAGATTCAGCCTACATCA
16718599 CTTCGGGATT
Statistics
Matches: 330, Mismatches: 39, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
377 10 0.03
378 133 0.40
379 23 0.07
380 10 0.03
381 1 0.00
383 18 0.05
384 25 0.08
388 1 0.00
389 105 0.32
390 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (382 bp):
TATCTAGTGGGTTGAAGACACCATCACCACCCATCAAGCAAGTTTGAGAAGATCAAGATTGTGCT
GTCTAACATAGTTTCATCTTAGGCATGTTTCAGATACAACATCACCACCATCTCCATTATCAACA
TCAACACCATCAACATCTTCCATCAAGGCCACCAACATCTTCAATTTCGAAACCAACTCTATTCA
TATACTTCATTTCATTACTTATCTAATTATCCATTTATTATTCCATTATTAATCCTATTTCTTTC
TTATCTTGTTGCAGCCTAAACTTATAACTCAAGCACATAAGTACTTGTCAATCCTAGATCGAGAC
AACAATAAGGCTATCTACTCACTTCCATTGAAGAGTGTAGATTCAGCCTACATCATC
Found at i:16719004 original size:21 final size:21
Alignment explanation
Indices: 16718980--16719023 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
16718970 TTTTAAAATA
16718980 AATAAAAAATGTAATCTAAAG
1 AATAAAAAATGTAATCTAAAG
* *
16719001 AATAAAGAATTTAATCTAAAG
1 AATAAAAAATGTAATCTAAAG
16719022 AA
1 AA
16719024 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (21 bp):
AATAAAAAATGTAATCTAAAG
Found at i:16719969 original size:2 final size:2
Alignment explanation
Indices: 16719962--16719990 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16719952 TGGAAACATA
16719962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16719991 AGTTAGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16729179 original size:26 final size:26
Alignment explanation
Indices: 16729147--16729203 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
16729137 ATTAGAGTGC
*
16729147 AAAAAGAA-ATAAGAAAA-AAA-TCA
1 AAAAAGAAGAAAAGAAAAGAAATTCA
16729170 AAAAAGAAGAAAAGAAAAGAAATTCA
1 AAAAAGAAGAAAAGAAAAGAAATTCA
*
16729196 AAAGAGAA
1 AAAAAGAA
16729204 AGCAAGCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.28
24 8 0.28
25 3 0.10
26 10 0.34
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.07
Consensus pattern (26 bp):
AAAAAGAAGAAAAGAAAAGAAATTCA
Found at i:16735131 original size:6 final size:6
Alignment explanation
Indices: 16735120--16735154 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
16735110 GTAGGAGTTC
*
16735120 TTTTCT TTTTCT TTTTCT TCTTTCT ATTTCT TTTT
1 TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
16735155 GTTGCAGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:16736019 original size:19 final size:21
Alignment explanation
Indices: 16735976--16736027 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
16735966 GAAACCCCTT
16735976 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
16735997 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
16736016 TGAAGATACATG
1 TGAAAATACATG
16736028 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:16739400 original size:23 final size:20
Alignment explanation
Indices: 16739340--16739404 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 20
16739330 TCTTTTTGAA
16739340 TTTCTTTTTCTTTTC-TTCT
1 TTTCTTTTTCTTTTCTTTCT
*
16739359 TTTCTTTTTCTAATT-TTTCT
1 TTTCTTTTTCT-TTTCTTTCT
16739379 TCTTCTTTTTGTCTTTTCTTTCT
1 T-TTC-TTTT-TCTTTTCTTTCT
16739402 TTT
1 TTT
16739405 TGTACTCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 11 0.29
20 7 0.18
21 3 0.08
22 8 0.21
23 9 0.24
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTCTTTTCTTTCT
Found at i:16739686 original size:19 final size:20
Alignment explanation
Indices: 16739664--16739704 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16739654 TAATATAAGT
16739664 AATGAAAAT-AAAT-AATAAA
1 AATG-AAATGAAATAAATAAA
16739683 AATGAAATGAAATAAATAAA
1 AATGAAATGAAATAAATAAA
16739703 AA
1 AA
16739705 GATAGAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AATGAAATGAAATAAATAAA
Found at i:16740153 original size:19 final size:21
Alignment explanation
Indices: 16740110--16740161 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
16740100 AAAATCCCTT
16740110 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
*
16740131 TGAAAATACATTA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
16740150 TGAAGATACATG
1 TGAAAATACATG
16740162 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:16745637 original size:6 final size:6
Alignment explanation
Indices: 16745596--16745639 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
16745586 AAAAGCAACA
*
16745596 AAAAGAG AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG A
16745640 CTCCTACATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
6 18 0.55
7 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:16745701 original size:16 final size:17
Alignment explanation
Indices: 16745682--16745714 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16745672 AAAACAAAAA
16745682 GAAGAAAATT-CAAAGT
1 GAAGAAAATTGCAAAGT
*
16745698 GAAGAAAGTTGCAAAGT
1 GAAGAAAATTGCAAAGT
16745715 ACACTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (17 bp):
GAAGAAAATTGCAAAGT
Found at i:16745863 original size:16 final size:16
Alignment explanation
Indices: 16745829--16745877 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
16745819 GTAAGTTATC
* * *
16745829 TTCACTTTCTTACTAT
1 TTCATTTTCTTATTCT
16745845 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
16745861 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
16745878 CATTACCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:16758541 original size:23 final size:24
Alignment explanation
Indices: 16758508--16758560 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
16758498 ATTTTTTTTC
*
16758508 TTCTTCTTTTTGAGTGCTTTTAAT
1 TTCTTCTTTTTGAGTGCTTTGAAT
*
16758532 TTCTTCTTTTTGAGTGCTTTGATT
1 TTCTTCTTTTTGAGTGCTTTGAAT
16758556 TTCTT
1 TTCTT
16758561 TGCTGGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.13, G:0.13, T:0.64
Consensus pattern (24 bp):
TTCTTCTTTTTGAGTGCTTTGAAT
Found at i:16775416 original size:13 final size:15
Alignment explanation
Indices: 16775392--16775423 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16775382 CAAGTGAAGA
16775392 AAAACTAAAGAAAG-
1 AAAACTAAAGAAAGC
16775406 AAAAC-AAAGAAAGC
1 AAAACTAAAGAAAGC
16775420 AAAA
1 AAAA
16775424 TGCAAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.75, C:0.09, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAACTAAAGAAAGC
Found at i:16781409 original size:13 final size:13
Alignment explanation
Indices: 16781391--16781419 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16781381 AAAATAAAAT
16781391 AAAATAAAAAGAA
1 AAAATAAAAAGAA
16781404 AAAATAAAAAGAA
1 AAAATAAAAAGAA
16781417 AAA
1 AAA
16781420 GAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAATAAAAAGAA
Found at i:16781409 original size:23 final size:23
Alignment explanation
Indices: 16781379--16781429 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
16781369 CCGGGTTAGT
16781379 AAAAAATAAAATA-AAATAA-AAAG
1 AAAAAATAAAA-AGAAA-AAGAAAG
16781402 AAAAAATAAAAAGAAAAAGAAAG
1 AAAAAATAAAAAGAAAAAGAAAG
16781425 AAAAA
1 AAAAA
16781430 GTTTAAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAAAATAAAAAGAAAAAGAAAG
Found at i:16781418 original size:19 final size:18
Alignment explanation
Indices: 16781386--16781423 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
16781376 AGTAAAAAAT
*
16781386 AAAATAAAATAAAAAGAA
1 AAAATAAAAGAAAAAGAA
16781404 AAAATAAAAAGAAAAAGAA
1 AAAAT-AAAAGAAAAAGAA
16781423 A
1 A
16781424 GAAAAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAATAAAAGAAAAAGAA
Found at i:16788309 original size:36 final size:36
Alignment explanation
Indices: 16788259--16788363 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 36
16788249 GATACAATCT
*
16788259 GTCCATCACTATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
16788295 GTCCATCACCATTATCAC-CCTTATATCATCACCATA
1 GTCCATCACCATTATCACGCC-TATATCATCACCATA
* * *
16788331 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
16788364 ACTTACAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
35 19 0.30
36 44 0.70
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:16792348 original size:35 final size:36
Alignment explanation
Indices: 16792283--16792350 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
16792273 ATACAATCTG
*
16792283 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCCATATCATCACCATAT
*
16792319 TCCATCACCA-TATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCCATATCATCACCA
16792351 ACTTATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 20 0.67
36 10 0.33
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.28
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCCATATCATCACCATAT
Found at i:16796767 original size:17 final size:17
Alignment explanation
Indices: 16796747--16796799 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
16796737 TTAATAAAGT
16796747 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
16796764 TAGTTCATAAATCAAAC
1 TAGTTCATTAATTAAAC
*
16796781 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
16796798 TA
1 TA
16796800 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:16805451 original size:19 final size:20
Alignment explanation
Indices: 16805414--16805453 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16805404 GGATAATAAT
16805414 ATAAGTAATGAAAATAAATA
1 ATAAGTAATGAAAATAAATA
16805434 ATAAG-AAT-AAAATGAAATA
1 ATAAGTAATGAAAAT-AAATA
16805453 A
1 A
16805454 AGAAAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAAATAAATA
Found at i:16806776 original size:2 final size:2
Alignment explanation
Indices: 16806769--16806799 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16806759 CTATAGGTAT
16806769 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 T
16806800 GAAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16807378 original size:17 final size:17
Alignment explanation
Indices: 16807358--16807410 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
16807348 TTAATAATGT
16807358 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
16807375 TAGTTCATAAATCAAAC
1 TAGTTCATTAATTAAAC
*
16807392 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
16807409 TA
1 TA
16807411 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:16818504 original size:6 final size:6
Alignment explanation
Indices: 16818489--16818545 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
16818479 ATTGGAGTGC
** *
16818489 AAAAAG -AAAAG AAAAAG AAAAA- AAAGAAG AATCAG AAAAAA AGAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG A-AAAAG
16818537 AAAAAG AAA
1 AAAAAG AAA
16818546 TTCAAACGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
5 8 0.20
6 26 0.63
7 7 0.17
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:16833648 original size:24 final size:21
Alignment explanation
Indices: 16833613--16833655 Score: 50
Period size: 24 Copynumber: 1.9 Consensus size: 21
16833603 GGCTGATTCT
*
16833613 TTTGAATTTCAAGAGATACATCC
1 TTTGAATGTCAA-AG-TACATCC
16833636 TTTGAAATGTCAAAGTACAT
1 TTTG-AATGTCAAAGTACAT
16833656 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 6 0.33
24 7 0.39
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TTTGAATGTCAAAGTACATCC
Found at i:16834913 original size:27 final size:27
Alignment explanation
Indices: 16834877--16834933 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16834867 TTTCTTTGTT
* *
16834877 TTTCTTCTTTTTGAATG-TTGAATTTC
1 TTTCTTCTTTTGGAATGCTTCAATTTC
*
16834903 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAATGCTTCAATTTC
16834931 TTT
1 TTT
16834934 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 11 0.42
28 11 0.42
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.61
Consensus pattern (27 bp):
TTTCTTCTTTTGGAATGCTTCAATTTC
Found at i:16840761 original size:20 final size:20
Alignment explanation
Indices: 16840736--16840777 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
16840726 AATGGTGATG
*
16840736 TATCCTTTCATCTTGGCGCC
1 TATCCTTTCATCTTGGCACC
16840756 TATCCTTTCATCTTGGCACC
1 TATCCTTTCATCTTGGCACC
16840776 TA
1 TA
16840778 AAAGAGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.33, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCCTTTCATCTTGGCACC
Found at i:16844302 original size:23 final size:24
Alignment explanation
Indices: 16844274--16844327 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
16844264 AAAATCAGCA
16844274 AAGAAAATAAAAGAACTC-AAAAG
1 AAGAAAATAAAAGAACTCGAAAAG
* *
16844297 AAGAAATTGAAAGAACTCGAAAAG
1 AAGAAAATAAAAGAACTCGAAAAG
*
16844321 AAAAAAA
1 AAGAAAA
16844328 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.69, C:0.07, G:0.15, T:0.09
Consensus pattern (24 bp):
AAGAAAATAAAAGAACTCGAAAAG
Found at i:16853399 original size:19 final size:20
Alignment explanation
Indices: 16853353--16853402 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
16853343 AAACCCCTTC
**
16853353 GAAAATACATGATTTTTGAT
1 GAAAATACATGATTTTAAAT
16853373 GAAAATACATGA-TTTAAAT
1 GAAAATACATGATTTTAAAT
*
16853392 GAAGATACATG
1 GAAAATACATG
16853403 CTCTTGGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (20 bp):
GAAAATACATGATTTTAAAT
Found at i:16854771 original size:24 final size:25
Alignment explanation
Indices: 16854736--16854790 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
16854726 ACTTGGAGCC
*
16854736 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
16854760 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
16854784 TCAAGTG
1 TCAAGTG
16854791 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:16856414 original size:233 final size:232
Alignment explanation
Indices: 16855899--16856597 Score: 1317
Period size: 232 Copynumber: 3.0 Consensus size: 232
16855889 ATGATGAAAC
16855899 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
1 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
16855964 AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
66 AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
*
16856029 TGAACTAGGAACCAGGAGTATCAAGGTGAAAAGAAAGTGGTTGACGCCACAAGTATAAAGTACTT
131 TGAACTAGGAACCAGGAGTATCAAGGTGAAAAGAAAGTGGTTGACGCCACAAGTATAAAATACTT
16856094 GATAAGTCGATAAAAGTCACCAGTACTTAAGGAAGAG
196 GATAAGTCGATAAAAGTCACCAGTACTTAAGGAAGAG
*
16856131 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACCCAAAGAAGAACAAATGCTATAGAGAGC
1 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
* *
16856196 AAATACCCAGGCTTTATATTGCTTCTTCAAGGGATGGTATTAAGTACTTTGACCCACTAGTTATA
66 AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
16856261 TGAACTAGGAACCAGGAGTATCAAGGTGAAAAAGAAAGTGGTTGACGCCACAAGTATAAAATACT
131 TGAACTAGGAACCAGGAGTATCAAGGTG-AAAAGAAAGTGGTTGACGCCACAAGTATAAAATACT
*
16856326 TGATAAATCGATAAAAGTCACCAGTACTTAAGGAAGAG
195 TGATAAGTCGATAAAAGTCACCAGTACTTAAGGAAGAG
16856364 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
1 AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
16856429 AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
66 AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
*
16856494 TGAACTAGGAACCAGGAGTATCAAGGTGAAAAGAAAGTGGTTGACGCCATAAGTATAAAATACTT
131 TGAACTAGGAACCAGGAGTATCAAGGTGAAAAGAAAGTGGTTGACGCCACAAGTATAAAATACTT
* *
16856559 GATAAGTCGATAAAAGTCACCAGGACTTAAGGAATAG
196 GATAAGTCGATAAAAGTCACCAGTACTTAAGGAAGAG
16856596 AA
1 AA
16856598 TAATCTCACA
Statistics
Matches: 454, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
232 227 0.50
233 227 0.50
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (232 bp):
AAAGGGATGGTTGTGAGGATAGTATCTTAAAGAAGACTCAAAGAAGAACAAATGCTATAGAGAGC
AAAGACCCAGGCTTTATATTGCTTCTTCAAGGGGTGGTATTAAGTACTTTGACCCACTAGTTATA
TGAACTAGGAACCAGGAGTATCAAGGTGAAAAGAAAGTGGTTGACGCCACAAGTATAAAATACTT
GATAAGTCGATAAAAGTCACCAGTACTTAAGGAAGAG
Found at i:16856767 original size:19 final size:20
Alignment explanation
Indices: 16856721--16856770 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
16856711 AAACCCCTTC
**
16856721 GAAAATACATGATTTTTGAT
1 GAAAATACATGATTTTAAAT
16856741 GAAAATACATGA-TTTAAAT
1 GAAAATACATGATTTTAAAT
*
16856760 GAAGATACATG
1 GAAAATACATG
16856771 CTCTTGGCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (20 bp):
GAAAATACATGATTTTAAAT
Found at i:16860694 original size:36 final size:36
Alignment explanation
Indices: 16860621--16860718 Score: 153
Period size: 36 Copynumber: 2.8 Consensus size: 36
16860611 ATTTATAAGT
* * *
16860621 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATAGAATA
*
16860656 TGGTGATGATATAGGCGTGATAATGGTGATAGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATAGAATA
16860692 TGGTGATGATATAGGCGTGATAATGGT
1 TGGTGATGATATAGGCGTGATAATGGT
16860719 AATGGACAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 19 0.33
36 39 0.67
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATAGAATA
Found at i:16864704 original size:13 final size:12
Alignment explanation
Indices: 16864685--16864770 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
16864675 ATATGGGCGT
16864685 GATATGGTGATG
1 GATATGGTGATG
16864697 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16864709 GATATAGGCG-T-
1 GATAT-GGTGATG
16864720 GATAATGGTGATG
1 GAT-ATGGTGATG
16864733 GACTATGGTGAT-
1 GA-TATGGTGATG
*
16864745 GATATAGGCG-T-
1 GATAT-GGTGATG
16864756 GATAATGGTGATG
1 GAT-ATGGTGATG
16864769 GA
1 GA
16864771 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16864740 original size:36 final size:36
Alignment explanation
Indices: 16864667--16864771 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
16864657 ATTTATAAGT
* * *
16864667 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
16864702 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
16864738 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
16864772 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 19 0.29
36 47 0.71
ACGTcount: A:0.28, C:0.05, G:0.37, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:16869396 original size:13 final size:13
Alignment explanation
Indices: 16869378--16869407 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16869368 GCTTATGATA
16869378 GAATAGAATGTAT
1 GAATAGAATGTAT
16869391 GAATAGAATGTAT
1 GAATAGAATGTAT
16869404 GAAT
1 GAAT
16869408 GATATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
GAATAGAATGTAT
Found at i:16870179 original size:24 final size:25
Alignment explanation
Indices: 16870144--16870198 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
16870134 ACTTGGAGCC
*
16870144 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
16870168 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
16870192 TCAAGTG
1 TCAAGTG
16870199 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:16872232 original size:19 final size:20
Alignment explanation
Indices: 16872190--16872240 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
16872180 GAAACCCCTT
*
16872190 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTAAA
16872210 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
16872229 TGAAGATACATG
1 TGAAAATACATG
16872241 CTCTTGGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:16877809 original size:25 final size:25
Alignment explanation
Indices: 16877772--16877823 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16877762 AGAATATGAA
*
16877772 CAACCCTTGGTTTAAATGATTAAAT
1 CAACCCTTCGTTTAAATGATTAAAT
**
16877797 CAACCCTTCGTTTGGATGATTAAAT
1 CAACCCTTCGTTTAAATGATTAAAT
16877822 CA
1 CA
16877824 GCCTTGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (25 bp):
CAACCCTTCGTTTAAATGATTAAAT
Found at i:16878276 original size:17 final size:16
Alignment explanation
Indices: 16878229--16878300 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
16878219 AATTAAGAGT
* *
16878229 TAGTTTATTGAATGGAT
1 TAGTTTATT-AATGAAC
*
16878246 TAGTTTGATGAATGAAC
1 TAGTTT-ATTAATGAAC
16878263 TAGTTTAATTAATGAAC
1 TAGTTT-ATTAATGAAC
*
16878280 TAACTTTATTCAATGAAC
1 T-AGTTTATT-AATGAAC
16878298 TAG
1 TAG
16878301 ATGCATGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 31 0.69
18 14 0.31
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (16 bp):
TAGTTTATTAATGAAC
Found at i:16878294 original size:18 final size:18
Alignment explanation
Indices: 16878256--16878299 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16878246 TAGTTTGATG
*
16878256 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
16878273 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
16878290 CAATGAACTA
1 -AATGAACTA
16878300 GATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:16882477 original size:90 final size:90
Alignment explanation
Indices: 16882371--16882537 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 90
16882361 ATTTAATTTT
* *
16882371 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACAT
16882436 GAATATAAAAGGATTATTAAATTCC
66 GAATATAAAAGGATTATTAAATTCC
*
16882461 AATTAATTATATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACAT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACAT
**
16882526 GGCTATAAAAGG
66 GAATATAAAAGG
16882538 GTGTGTTAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACAT
GAATATAAAAGGATTATTAAATTCC
Found at i:16882929 original size:25 final size:25
Alignment explanation
Indices: 16882895--16882970 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
16882885 ATAATATGAA
16882895 CAGCCCTTGGTTTGAATGATTAAAT
1 CAGCCCTTGGTTTGAATGATTAAAT
16882920 CAGCCCTTGGTTTGAATGATTAAAT
1 CAGCCCTTGGTTTGAATGATTAAAT
*
16882945 CAGCCCTTGGTTTGGATGATTAAAT
1 CAGCCCTTGGTTTGAATGATTAAAT
16882970 C
1 C
16882971 GACCTTGAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (25 bp):
CAGCCCTTGGTTTGAATGATTAAAT
Found at i:16883399 original size:17 final size:17
Alignment explanation
Indices: 16883377--16883447 Score: 74
Period size: 17 Copynumber: 4.1 Consensus size: 17
16883367 AATTAATAGT
16883377 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
16883394 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
16883411 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
16883428 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
16883446 TA
1 TA
16883448 TATGCATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 33 0.70
18 14 0.30
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:16883442 original size:18 final size:18
Alignment explanation
Indices: 16883404--16883447 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16883394 TAGTTTGATG
*
16883404 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
16883421 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
16883438 CAATGAACTA
1 -AATGAACTA
16883448 TATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:16883477 original size:52 final size:52
Alignment explanation
Indices: 16883380--16883482 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
16883370 TAATAGTTAG
* * *
16883380 TTTATTAAATGAACTAGTTTGATGAATGAACTAGTTTAATTAATGAACTAAC
1 TTTATTAAATGAACTAGTATGATGAATGAACTAGCTTAATAAATGAACTAAC
* * * *
16883432 TTTATTCAATGAACTA-TATGCATGAATGAAGTAGCTTACTAAATGATCTAA
1 TTTATTAAATGAACTAGTATG-ATGAATGAACTAGCTTAATAAATGAACTAA
16883483 ATATGCATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.07
52 40 0.93
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (52 bp):
TTTATTAAATGAACTAGTATGATGAATGAACTAGCTTAATAAATGAACTAAC
Found at i:16890469 original size:20 final size:20
Alignment explanation
Indices: 16890431--16890474 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16890421 TTTTATTAAA
* *
16890431 AGTGAACAGTACCTATGAAT
1 AGTGAACAGTAACTATGAAC
16890451 AGTGAACAGTAAC-AGTGAAC
1 AGTGAACAGTAACTA-TGAAC
16890471 AGTG
1 AGTG
16890475 GGGAATCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (20 bp):
AGTGAACAGTAACTATGAAC
Found at i:16897052 original size:15 final size:16
Alignment explanation
Indices: 16897032--16897068 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
16897022 GATTAGAATA
16897032 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
16897047 AAATAAACAGAAGATG
1 AAATAAACAAAAGATG
16897063 AAATAA
1 AAATAA
16897069 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:16897389 original size:12 final size:12
Alignment explanation
Indices: 16897374--16897429 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
16897364 AAATTTTGGC
16897374 TTTTTTGGC-TT
1 TTTTTTGGCTTT
*
16897385 TTTTTTGCCTTTT
1 TTTTTTGGC-TTT
* *
16897398 TTTTTTTGTTTT
1 TTTTTTGGCTTT
* *
16897410 TTTTTTTGTTTT
1 TTTTTTGGCTTT
16897422 TTTTTTGG
1 TTTTTTGG
16897430 AAAAAAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
11 8 0.21
12 22 0.58
13 8 0.21
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.82
Consensus pattern (12 bp):
TTTTTTGGCTTT
Found at i:16897398 original size:1 final size:1
Alignment explanation
Indices: 16897394--16897427 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
16897384 TTTTTTTGCC
* *
16897394 TTTTTTTTTTTGTTTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16897428 GGAAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:16897428 original size:11 final size:12
Alignment explanation
Indices: 16897383--16897427 Score: 72
Period size: 12 Copynumber: 3.6 Consensus size: 12
16897373 CTTTTTTGGC
16897383 TTTTTTTTGCCTTT
1 TTTTTTTTG--TTT
16897397 TTTTTTTTGTTT
1 TTTTTTTTGTTT
16897409 TTTTTTTTGTTT
1 TTTTTTTTGTTT
16897421 TTTTTTT
1 TTTTTTT
16897428 GGAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 22 0.71
14 9 0.29
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:16899020 original size:19 final size:18
Alignment explanation
Indices: 16898965--16899021 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 18
16898955 CTTATGTTAT
16898965 TATTTATATTATTTACTATCA
1 TATTTAT-TTA-TTACTA-CA
*
16898986 TA-TTATTTATGAACTACA
1 TATTTATTTAT-TACTACA
16899004 TATTTATCTTATTACTAC
1 TATTTAT-TTATTACTAC
16899022 GTACTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 16 0.52
20 8 0.26
21 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATTTATTACTACA
Found at i:16899103 original size:20 final size:20
Alignment explanation
Indices: 16899078--16899144 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
16899068 TTTATCATTA
16899078 TTATTATTATATATTAGTAT
1 TTATTATTATATATTAGTAT
*
16899098 TTATTAGTAT-TA-TATGCTAT
1 TTATTATTATATATTA-G-TAT
16899118 TTA-TATTATTATAGTTA-TAT
1 TTATTATTA-TATA-TTAGTAT
16899138 TTATTAT
1 TTATTAT
16899145 ACTAGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 22 0.58
21 5 0.13
23 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (20 bp):
TTATTATTATATATTAGTAT
Found at i:16900187 original size:25 final size:25
Alignment explanation
Indices: 16900134--16900190 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
16900124 CACTAGGTAT
* *
16900134 CTAGCTAGCTACTTACCTACACTAT
1 CTAGCTAGCTACTAACCTACACTAG
*
16900159 CTAGCTAGCTATCTAAGCTAC-CTAG
1 CTAGCTAGCTA-CTAACCTACACTAG
16900184 CTAGCTA
1 CTAGCTA
16900191 AATGACCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (25 bp):
CTAGCTAGCTACTAACCTACACTAG
Found at i:16910193 original size:10 final size:9
Alignment explanation
Indices: 16910178--16910232 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 9
16910168 TATTTTATTT
16910178 TTAATAATGA
1 TTAATAAT-A
*
16910188 TTAATAAATT
1 TTAAT-AATA
16910198 TTAA-AATGA
1 TTAATAAT-A
16910207 -TAATAATA
1 TTAATAATA
16910215 TTAATAATAA
1 TTAATAAT-A
16910225 TTAATAAT
1 TTAATAAT
16910233 TAATTTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 18 0.47
11 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (9 bp):
TTAATAATA
Found at i:16911097 original size:13 final size:13
Alignment explanation
Indices: 16911079--16911105 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16911069 TATTAAGGGT
16911079 TACATTTCAACCA
1 TACATTTCAACCA
16911092 TACATTTCAACCA
1 TACATTTCAACCA
16911105 T
1 T
16911106 TGTGACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TACATTTCAACCA
Found at i:16911396 original size:13 final size:12
Alignment explanation
Indices: 16911367--16911397 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
16911357 GGAGAAAAAG
16911367 GAAAAAATTTGA
1 GAAAAAATTTGA
16911379 GAAAAAATTTGA
1 GAAAAAATTTGA
16911391 GAAAAAA
1 GAAAAAA
16911398 GCTAAGTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (12 bp):
GAAAAAATTTGA
Found at i:16912642 original size:49 final size:49
Alignment explanation
Indices: 16912564--16912798 Score: 355
Period size: 49 Copynumber: 4.8 Consensus size: 49
16912554 GTTTCTAAAA
* * * *
16912564 TAAATGCACAACAGTGCATTTCGGTATAAAAGGTGCTACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
* * *
16912613 TAAATGCATAACGGTGCATTCCAGCATAAAAGATGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
*
16912662 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
*
16912711 TAAATGCATAACGGTGTATTTCGGCATAAAAGGTGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
* * *
16912760 GAAATGCATAACGATGCATTTCGGCA-AAAAAGTGCCACT
1 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
16912799 CATGGTATTC
Statistics
Matches: 169, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 12 0.07
49 157 0.93
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (49 bp):
TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
Found at i:16922590 original size:18 final size:18
Alignment explanation
Indices: 16922567--16922613 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
16922557 TGTTCTACTG
*
16922567 ACCAACACCACTAACTAT
1 ACCAACCCCACTAACTAT
* *
16922585 ACCAACCCCATTAGCTAT
1 ACCAACCCCACTAACTAT
16922603 ACCAACCCCAC
1 ACCAACCCCAC
16922614 GATCTGGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.45, G:0.02, T:0.15
Consensus pattern (18 bp):
ACCAACCCCACTAACTAT
Found at i:16927178 original size:27 final size:26
Alignment explanation
Indices: 16927122--16927178 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
16927112 TCCCATCTTT
* *
16927122 ATTTCATTTCATTTCTTATATTTACC
1 ATTTCATTTAATTTCTTATATTAACC
*
16927148 ATTTCATTTAATCTTCCTT-TATTAATC
1 ATTTCATTTAAT-TT-CTTATATTAACC
16927175 ATTT
1 ATTT
16927179 TTCTTTCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 12 0.46
28 3 0.12
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTCATTTAATTTCTTATATTAACC
Found at i:16927441 original size:17 final size:18
Alignment explanation
Indices: 16927419--16927460 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16927409 GCAAAAAGAA
16927419 AAGAAAAAGA-CA-AAAAG
1 AAGAAAAA-ATCAGAAAAG
16927436 AAGAAAAAATCAGAAAAG
1 AAGAAAAAATCAGAAAAG
16927454 AAGAAAA
1 AAGAAAA
16927461 GAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.04
17 10 0.43
18 12 0.52
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (18 bp):
AAGAAAAAATCAGAAAAG
Found at i:16933320 original size:30 final size:31
Alignment explanation
Indices: 16933286--16933345 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
16933276 CTTAGCTTTA
**
16933286 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
16933316 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
16933346 AGCAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:16934027 original size:22 final size:22
Alignment explanation
Indices: 16934001--16934054 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
16933991 GCAAGAAGAC
16934001 CCATGTGCATTCATGTAGGCTT
1 CCATGTGCATTCATGTAGGCTT
16934023 CCATGTGCATTCATGTAGGCTT
1 CCATGTGCATTCATGTAGGCTT
16934045 CCATGTGCAT
1 CCATGTGCAT
16934055 CATTCAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (22 bp):
CCATGTGCATTCATGTAGGCTT
Found at i:16934282 original size:21 final size:20
Alignment explanation
Indices: 16934222--16934293 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
16934212 CGGCCAAGAG
*
16934222 CATGTATCTTCA-TTAAAAT
1 CATGTATTTTCATTTAAAAT
16934241 CATGTATTTTCATTTAAAAT
1 CATGTATTTTCATTTAAAAT
16934261 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTT-AAAAT
16934282 CATGTATTTTCA
1 CATGTATTTTCA
16934294 AAGGGGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 11 0.22
20 22 0.44
21 17 0.34
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTTAAAAT
Found at i:16935047 original size:21 final size:20
Alignment explanation
Indices: 16934988--16935049 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
16934978 TAATTTTCTA
16934988 GAAAAAAATGATTGATCCCTT
1 GAAAAAAA-GATTGATCCCTT
** * *
16935009 GAGGAAAGGATCGATCCCTT
1 GAAAAAAAGATTGATCCCTT
16935029 GACAAAAAAGATTGATCCCTT
1 GA-AAAAAAGATTGATCCCTT
16935050 CTCTAAAGGA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (20 bp):
GAAAAAAAGATTGATCCCTT
Found at i:16935058 original size:41 final size:42
Alignment explanation
Indices: 16934990--16935069 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
16934980 ATTTTCTAGA
* * *
16934990 AAAAAATGATTGATCCCTTGAGGAAAGGATCGATCCCTTGAC
1 AAAAAATGATTGATCCCTTCACGAAAGGATCAATCCCTTGAC
* *
16935032 AAAAAA-GATTGATCCCTTCTCTAAAGGATCAATCCCTT
1 AAAAAATGATTGATCCCTTCACGAAAGGATCAATCCCTT
16935070 CTTGCACATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 27 0.82
42 6 0.18
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (42 bp):
AAAAAATGATTGATCCCTTCACGAAAGGATCAATCCCTTGAC
Found at i:16937090 original size:53 final size:53
Alignment explanation
Indices: 16937021--16937189 Score: 275
Period size: 53 Copynumber: 3.2 Consensus size: 53
16937011 GTTGCACCTA
*
16937021 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* *
16937074 AGTGTCTAAATGGTAATTCACAAACTCATTATGCATACCATGGTTGCACACAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* * *
16937127 AGTGTCGAAATGGTAATTCAAAAACTCATTATGAATACCATTGTTGCACATAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
*
16937180 AGTGCCGAAA
1 AGTGTCGAAA
16937190 GTACACAAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 107 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (53 bp):
AGTGTCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
Found at i:16953005 original size:53 final size:53
Alignment explanation
Indices: 16952925--16953027 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
16952915 CTAAGTGCCG
16952925 AAATGGTAATTCACAAACTCATTATGAATACCATGGTTACACACATAGTGTCA
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGTTACACACATAGTGTCA
* * *
16952978 AAATGGTAATTCACAAACTCATTATGAATACTATGGTTGCACATATAGTG
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGTTACACACATAGTG
16953028 CCGAAAGTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (53 bp):
AAATGGTAATTCACAAACTCATTATGAATACCATGGTTACACACATAGTGTCA
Found at i:16966303 original size:22 final size:19
Alignment explanation
Indices: 16966278--16966317 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
16966268 TAATCATGCT
16966278 TAATATGATTATAATACTATTC
1 TAATATG-TT-TAATA-TATTC
16966300 TAATATGTTTAATATATT
1 TAATATGTTTAATATATT
16966318 AAAATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 2 0.11
22 7 0.39
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
TAATATGTTTAATATATTC
Found at i:16970880 original size:12 final size:12
Alignment explanation
Indices: 16970863--16970894 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
16970853 GTTAAACAAT
16970863 ATTTCTCAATTA
1 ATTTCTCAATTA
16970875 ATTTCTCAATTA
1 ATTTCTCAATTA
16970887 ATTTCTCA
1 ATTTCTCA
16970895 GCTAACTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTCTCAATTA
Found at i:16978500 original size:55 final size:55
Alignment explanation
Indices: 16978395--16978501 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
16978385 TAAAGGAGGA
* **
16978395 TTCATTCAACTCTATAAAACATATTTCTTTGATTAATAATACAATGAGAGTTTGC
1 TTCATTCAACTCTATAAAACAGATTTCTTTGATTAATAATACAACAAGAGTTTGC
* *
16978450 TTCATTCAACTTTGTAAAACAGATTTCTTTGATTAATAATACAACAAGAGTT
1 TTCATTCAACTCTATAAAACAGATTTCTTTGATTAATAATACAACAAGAGTT
16978502 CATTTTTCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (55 bp):
TTCATTCAACTCTATAAAACAGATTTCTTTGATTAATAATACAACAAGAGTTTGC
Done.