Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 68 of 91
Found at i:15287734 original size:30 final size:30
Alignment explanation
Indices: 15287664--15287741 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
15287654 ACCTAGGTTA
* * *
15287664 TTTAGGACCTATGGACAGTTACCGAGGATC
1 TTTATGACCTCTGGATAGTTACCGAGGATC
15287694 TTTATGACCTCTGGATAGTTACCGAGGATC
1 TTTATGACCTCTGGATAGTTACCGAGGATC
*
15287724 TTTATGACCTCTGAATAG
1 TTTATGACCTCTGGATAG
15287742 GTCCTTCGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
TTTATGACCTCTGGATAGTTACCGAGGATC
Found at i:15288085 original size:2 final size:2
Alignment explanation
Indices: 15288042--15288069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15288032 ACATGACATG
15288042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15288070 GTTATAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15290428 original size:2 final size:2
Alignment explanation
Indices: 15290421--15290448 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15290411 AGTTTGGGGA
15290421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15290449 CTGTGATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15292731 original size:26 final size:26
Alignment explanation
Indices: 15292696--15292755 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
15292686 TATATCAGTG
15292696 GTGTGATAGATTTGACATGTTATTTT
1 GTGTGATAGATTTGACATGTTATTTT
15292722 GTGTGATAGATTTGACATGTTATTTT
1 GTGTGATAGATTTGACATGTTATTTT
*
15292748 ATGTGATA
1 GTGTGATA
15292756 CGTGTTTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.48
Consensus pattern (26 bp):
GTGTGATAGATTTGACATGTTATTTT
Found at i:15293092 original size:30 final size:30
Alignment explanation
Indices: 15293031--15293122 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
15293021 CTAATGAACA
* * ***
15293031 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
15293062 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
15293092 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
15293122 T
1 T
15293123 CTGAATAGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 45 0.83
31 9 0.17
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:15293123 original size:30 final size:30
Alignment explanation
Indices: 15293058--15293130 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
15293048 GGTTCTTCGG
* *
15293058 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
15293088 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
15293118 GACCTCTGAATAG
1 GACCTCTGGATAG
15293131 GTCATTCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:15294174 original size:5 final size:5
Alignment explanation
Indices: 15294122--15294155 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
15294112 TTTAGCAAAA
*
15294122 TTTAT TTCA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
15294156 CAGATGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:15295981 original size:5 final size:5
Alignment explanation
Indices: 15295961--15295993 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15295951 AGGATTTAGG
*
15295961 ATATT AT-TT TTATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATAT
15295994 CTTATCTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
ATATT
Found at i:15297381 original size:31 final size:31
Alignment explanation
Indices: 15297323--15297381 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
15297313 ATATGGCTTA
* *
15297323 TTTTATTAGTATATAATGATGATATGTATTT
1 TTTTATTAATATATAATGATGACATGTATTT
*
15297354 TTTTATTAATATTTAACT-ATGACATGTA
1 TTTTATTAATATATAA-TGATGACATGTA
15297382 ATTGTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (31 bp):
TTTTATTAATATATAATGATGACATGTATTT
Found at i:15304801 original size:19 final size:19
Alignment explanation
Indices: 15304777--15304819 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
15304767 CAACCGTTTT
15304777 CATTCTTTACAATTTCTTA
1 CATTCTTTACAATTTCTTA
15304796 CATTCTTTACAATTTCTTA
1 CATTCTTTACAATTTCTTA
15304815 CATTC
1 CATTC
15304820 CTTATTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (19 bp):
CATTCTTTACAATTTCTTA
Found at i:15306360 original size:141 final size:141
Alignment explanation
Indices: 15306106--15306477 Score: 516
Period size: 141 Copynumber: 2.6 Consensus size: 141
15306096 TAAATATGGG
* *
15306106 ATAATTCGATTTGGCCTTCGCATTAAAATGCCCAAGGGTCCAAGTTGATTATTCGATTCAATAAT
1 ATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTCAATAAT
* * ** * *
15306171 TGGTTAAACTAGATTAGTATTAATATTAGAGCCTCCACTTTAGGCTAAATTTCATTTTAGTCAAT
66 TGGTTAAAATAGATTAGCATTAATAACAGAACCTCCACTTTAGGCTAAATTTCACTTTAGTCAAT
15306236 TAATTTACGGA
131 TAATTTACGGA
* * ***
15306247 ATAATTTGATTTTGGCATTCACATTAAAATGCTTGA-GGTCCAAGTTGATTATTCAATTCAATAA
1 ATAATTCGA-TTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTCAATAA
* * * *
15306311 TTGGTTAAAATTGATTAGGATTAATAACA-AACTCTCCACTTTAGGCTAAATTTCACTTTATTCC
65 TTGGTTAAAATAGATTAGCATTAATAACAGAAC-CTCCACTTTAGGCTAAATTTCACTTTAGTCA
* *
15306375 CTTAATTTATGGA
129 ATTAATTTACGGA
*
15306388 ATAATTCGATTTGACCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTCAATAAT
1 ATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTCAATAAT
15306453 TGGTTAAAATCA-ATTAGCATTAATA
66 TGGTTAAAAT-AGATTAGCATTAATA
15306478 TTAGAGCGTC
Statistics
Matches: 201, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
140 23 0.11
141 157 0.78
142 21 0.10
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (141 bp):
ATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTCAATAAT
TGGTTAAAATAGATTAGCATTAATAACAGAACCTCCACTTTAGGCTAAATTTCACTTTAGTCAAT
TAATTTACGGA
Found at i:15306523 original size:141 final size:137
Alignment explanation
Indices: 15306100--15306519 Score: 397
Period size: 141 Copynumber: 3.0 Consensus size: 137
15306090 TTTTTTTAAA
* * *
15306100 TATGGGATAATTCGATTTGGCCTTCGCATTAAAATGCCCAAGGGTCCAAGTTGATTATTCGATTC
1 TATGGAATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTC
* * * *
15306165 AATAATTGGTTAAACTAGATTAGTATTAATATTAGAGCCTCCACTTTAGGCTAAATTTCAT--TT
66 AATAATTGGTTAAAATA-ATTAGCATTAATATTAGAGCCTCCA-TTT---TTAGATTT-ATCCTT
15306228 TAG-TCAATTAATT
125 TAGTTC-ATTAATT
* * * ***
15306241 TACGGAATAATTTGATTTTGGCATTCACATTAAAATGCTTGA-GGTCCAAGTTGATTATTCAATT
1 TATGGAATAATTCGA-TTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATT
* * ** * * *
15306305 CAATAATTGGTTAAAATTGATTAGGATTAATAACA-AACTCTCCA-CTTTAGGCTAAATT-TCAC
65 CAATAATTGGTTAAAA-TAATTAGCATTAATATTAGAGC-CTCCATTTTTA-G---ATTTATC-C
*
15306367 TTTA-TTCCCTTAATT
123 TTTAGTT-CATTAATT
*
15306382 TATGGAATAATTCGATTTGACCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTC
1 TATGGAATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTC
*
15306447 AATAATTGGTTAAAATCAATTAGCATTAATATTAGAGCGTCCATTTTTAGATTTAGTCCTTTAGG
66 AATAATTGGTTAAAAT-AATTAGCATTAATATTAGAGCCTCCATTTTTAGATTTA-TCCTTTA-G
*
15306512 TTCTTTAA
128 TTCATTAA
15306520 ATTTCATAAT
Statistics
Matches: 223, Mismatches: 36, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
136 2 0.01
138 4 0.02
139 6 0.03
140 34 0.15
141 148 0.66
142 29 0.13
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (137 bp):
TATGGAATAATTCGATTTGGCCTTCACATTAAAATGCCCAAGGGTCCAAGTTGATTATTCAATTC
AATAATTGGTTAAAATAATTAGCATTAATATTAGAGCCTCCATTTTTAGATTTATCCTTTAGTTC
ATTAATT
Found at i:15316784 original size:11 final size:12
Alignment explanation
Indices: 15316753--15316786 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
15316743 TAGCTGTTGG
15316753 AGGTTGTTAGCT
1 AGGTTGTTAGCT
15316765 AGGTTGTTAG-T
1 AGGTTGTTAGCT
*
15316776 AGGTCGTTAGC
1 AGGTTGTTAGC
15316787 AGTAACTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.09, G:0.35, T:0.38
Consensus pattern (12 bp):
AGGTTGTTAGCT
Found at i:15317038 original size:6 final size:6
Alignment explanation
Indices: 15317027--15317052 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15317017 GTTTGGTGGC
15317027 AAGGTG AAGGTG AAGGTG AAGGTG AA
1 AAGGTG AAGGTG AAGGTG AAGGTG AA
15317053 AAGCAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.15
Consensus pattern (6 bp):
AAGGTG
Found at i:15317862 original size:74 final size:74
Alignment explanation
Indices: 15317667--15317882 Score: 351
Period size: 75 Copynumber: 2.9 Consensus size: 74
15317657 TCTAAAACCA
* * *
15317667 AGTTTTTATTTCTTCAAATAAATGCAACTCTAATCGTAAACCCAGTTTGATAAGGAATATTGTCT
1 AGTTTTTATTTCTTCAAATAAATACAACTCTAATCGCAAACCCAGTTTGATAAGGAATATTGTAT
15317732 GTAATCAAC
66 GTAATCAAC
*
15317741 AGTTTTTTATTTCTTCAAATAAATACAACTCTAATCGCAAACCCAGTTTGATAAGGATTATTGTA
1 AG-TTTTTATTTCTTCAAATAAATACAACTCTAATCGCAAACCCAGTTTGATAAGGAATATTGTA
15317806 TGTAATCAAC
65 TGTAATCAAC
* ** *
15317816 AGTTTTTATTTCTTCAAATAAATACAACTCTAATTGCAAATTCAGTTTGACAAGGAATATTGTAT
1 AGTTTTTATTTCTTCAAATAAATACAACTCTAATCGCAAACCCAGTTTGATAAGGAATATTGTAT
15317881 GT
66 GT
15317883 TTAAACATGC
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
74 62 0.47
75 70 0.53
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (74 bp):
AGTTTTTATTTCTTCAAATAAATACAACTCTAATCGCAAACCCAGTTTGATAAGGAATATTGTAT
GTAATCAAC
Found at i:15319006 original size:13 final size:15
Alignment explanation
Indices: 15318980--15319011 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
15318970 CTTTGGATAC
15318980 TTTTAAATATTAATT
1 TTTTAAATATTAATT
15318995 TTTTAAA-A-TAATT
1 TTTTAAATATTAATT
15319008 TTTT
1 TTTT
15319012 TCTTAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAAATATTAATT
Found at i:15326841 original size:39 final size:33
Alignment explanation
Indices: 15326767--15326829 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
15326757 TTGAATTACA
15326767 TAGTCCAACATCCAAACATAATTAAAAAAATGT
1 TAGTCCAACATCCAAACATAATTAAAAAAATGT
*
15326800 TAGTCTAACATCCAAACATAATTAAAAAAA
1 TAGTCCAACATCCAAACATAATTAAAAAAA
15326830 ATATCATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (33 bp):
TAGTCCAACATCCAAACATAATTAAAAAAATGT
Found at i:15327060 original size:37 final size:35
Alignment explanation
Indices: 15327006--15327200 Score: 100
Period size: 37 Copynumber: 5.6 Consensus size: 35
15326996 TGAATTATAT
* *
15327006 TAAATAATATATAAGTGACCAACTAGGTATTTTACCC
1 TAAATAATA-ATGAGTGACCAA-TAGGTAATTTACCC
* ** * **
15327043 TAAATAATAATCGAGTGACCAAAACATAAATTA-GA
1 TAAATAATAAT-GAGTGACCAATAGGTAATTTACCC
* *
15327078 T-CAT-AT-ATGAGTGACCAAATAGGTAGTTTACCC
1 TAAATAATAATGAGTGACC-AATAGGTAATTTACCC
* ** * **
15327111 TAAATAATAATCGAGTGACCAAAACATAAATTA-GA
1 TAAATAATAAT-GAGTGACCAATAGGTAATTTACCC
* *
15327146 T-TAT-AT-ATGAGTGACCAAATAGGTAGTTTACCC
1 TAAATAATAATGAGTGACC-AATAGGTAATTTACCC
*
15327179 TAAATAATAATCAAGTGACCAA
1 TAAATAATAAT-GAGTGACCAA
15327201 AACATAAATT
Statistics
Matches: 111, Mismatches: 34, Indels: 27
0.65 0.20 0.16
Matches are distributed among these distances:
31 16 0.14
32 20 0.18
33 6 0.05
34 8 0.07
35 6 0.05
36 22 0.20
37 33 0.30
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (35 bp):
TAAATAATAATGAGTGACCAATAGGTAATTTACCC
Found at i:15327093 original size:31 final size:31
Alignment explanation
Indices: 15327046--15327232 Score: 106
Period size: 31 Copynumber: 5.6 Consensus size: 31
15327036 TTTACCCTAA
15327046 ATAATA-ATCGAGTGACCAAAACATAAATTAG
1 ATAATATAT-GAGTGACCAAAACATAAATTAG
* ** ** *
15327077 ATCATATATGAGTGACCAAATAGGTAGTTTACC
1 ATAATATATGAGTGACCAAA-ACATAAATTA-G
*
15327110 CTAAATAATAATCGAGTGACCAAAACATAAATTAG
1 AT-AAT-AT-AT-GAGTGACCAAAACATAAATTAG
* ** ** *
15327145 ATTATATATGAGTGACCAAATAGGTAGTTTACC
1 ATAATATATGAGTGACCAAA-ACATAAATTA-G
* *
15327178 CTAAATAATAATCAAGTGACCAAAACATAAATTAG
1 AT-AAT-AT-AT-GAGTGACCAAAACATAAATTAG
*
15327213 ATAATATATAAGTGACCAAA
1 ATAATATATGAGTGACCAAA
15327233 TATGTAGTTT
Statistics
Matches: 114, Mismatches: 29, Indels: 26
0.67 0.17 0.15
Matches are distributed among these distances:
31 38 0.33
32 18 0.16
33 6 0.05
34 9 0.08
35 6 0.05
36 16 0.14
37 21 0.18
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (31 bp):
ATAATATATGAGTGACCAAAACATAAATTAG
Found at i:15327101 original size:68 final size:68
Alignment explanation
Indices: 15326917--15327250 Score: 437
Period size: 68 Copynumber: 5.0 Consensus size: 68
15326907 TTGAAAAAAA
* * * * *
15326917 AATAATTGAGTGACCAAACCATAAATGAGATAATATATAAGTGACAAAATGGGTAGTTTACCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
15326982 AAT
66 AAT
* * * * * * * *
15326985 AA-AAAC-A-T-A-TATGAA-TTATATTAAATAATATATAAGTGACCAACTAGGTATTTTACCCT
1 AATAATCGAGTGACCA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
15327044 AAAT
65 AAAT
* *
15327048 AATAATCGAGTGACCAAAACATAAATTAGATCATATATGAGTGACCAAATAGGTAGTTTACCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
15327113 AAT
66 AAT
* *
15327116 AATAATCGAGTGACCAAAACATAAATTAGATTATATATGAGTGACCAAATAGGTAGTTTACCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
15327181 AAT
66 AAT
* * *
15327184 AATAATCAAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATATGTAGTTTATCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
15327249 AA
66 AA
15327251 CAAATCCCTA
Statistics
Matches: 230, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
63 43 0.19
64 5 0.02
65 2 0.01
66 2 0.01
67 5 0.02
68 173 0.75
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (68 bp):
AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
AAT
Found at i:15328436 original size:15 final size:15
Alignment explanation
Indices: 15328416--15328444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15328406 TCGACACATG
15328416 GATGGTTAGGAGATT
1 GATGGTTAGGAGATT
15328431 GATGGTTAGGAGAT
1 GATGGTTAGGAGAT
15328445 ACCATAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.41, T:0.31
Consensus pattern (15 bp):
GATGGTTAGGAGATT
Found at i:15332082 original size:22 final size:20
Alignment explanation
Indices: 15332029--15332082 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
15332019 AACCTAATTT
15332029 TGGTATCGATA-CCATATAG
1 TGGTATCGATACCCATATAG
* * *
15332048 GGGTATTGTTACCACAGTATAG
1 TGGTATCGATACC-CA-TATAG
15332070 TGGTATCGATACC
1 TGGTATCGATACC
15332083 TATGGTAAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 8 0.31
20 1 0.04
21 2 0.08
22 15 0.58
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCATATAG
Found at i:15332147 original size:96 final size:95
Alignment explanation
Indices: 15331973--15332180 Score: 242
Period size: 96 Copynumber: 2.2 Consensus size: 95
15331963 TACCTAATGA
* * *
15331973 AGTGGTATTGATACCATGGTGAGGGTATCGATATCGGGTAACATCGAACCTAATTTTGGTATCGA
1 AGTGGTATCGATACCATGGTAAGGGTATCGATATCGGGCAACATCGAACCTAATTTTGGTATCGA
* * * *
15332038 TACCATATAGGGGTATTGTTACCACAGTAT
66 TACCATATAGGGGTATCGATACCACAATAG
* * *
15332068 AGTGGTATCGATACCTATGGTAAGGGTATCGATA-CGGAGCCACATCGAATCTAATTTTGGTATT
1 AGTGGTATCGATACC-ATGGTAAGGGTATCGATATCGG-GCAACATCGAACCTAATTTTGGTATC
* *
15332132 GATA-C-TGGTAGGGGGTATCGATACCATAATAG
64 GATACCAT-ATA-GGGGTATCGATACCACAATAG
*
15332164 GGTGGTATCGATACCAT
1 AGTGGTATCGATACCAT
15332181 AATAGTGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
94 1 0.01
95 22 0.23
96 73 0.76
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (95 bp):
AGTGGTATCGATACCATGGTAAGGGTATCGATATCGGGCAACATCGAACCTAATTTTGGTATCGA
TACCATATAGGGGTATCGATACCACAATAG
Found at i:15332173 original size:22 final size:22
Alignment explanation
Indices: 15332140--15332197 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
15332130 TTGATACTGG
15332140 TAGGG-GGTATCGATACCATAA
1 TAGGGTGGTATCGATACCATAA
15332161 TAGGGTGGTATCGATACCATAA
1 TAGGGTGGTATCGATACCATAA
15332183 TA--GTGGTATCGATAC
1 TAGGGTGGTATCGATAC
15332198 TGAAGGGCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.36
21 5 0.14
22 18 0.50
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (22 bp):
TAGGGTGGTATCGATACCATAA
Found at i:15332689 original size:45 final size:45
Alignment explanation
Indices: 15332608--15333042 Score: 586
Period size: 45 Copynumber: 9.7 Consensus size: 45
15332598 TGAAAATACT
* * * * * *
15332608 AATGCATATGGGTGCATTATTAGCATG-AAAGGATGCTATAGTTGA
1 AATGTATATGGGTACATTATCAACA-GAAAAGTATGCTAGAGTTGA
15332653 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* * *
15332698 AATGTATATGGGTACATTATCAACTGAAAAGTATACTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
15332743 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* * * *
15332788 AATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAGAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* *
15332833 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGGGTTAA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* * *
15332878 AATGTATATGGGTACATTATCAACTGAAAAGTATACTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* * * *
15332923 AAAGTATATGGGTACATTATCAACAGAAAAGTATACAACAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* * * *
15332968 AAT-TCATATGGGTGCATTATCAACAGAAAATTATACTATAGTTGA
1 AATGT-ATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
* *
15333013 AATGCATATGGGTGCATTATCAACAGAAAA
1 AATGTATATGGGTACATTATCAACAGAAAA
15333043 ATACGTTATA
Statistics
Matches: 350, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
44 2 0.01
45 348 0.99
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
AATGTATATGGGTACATTATCAACAGAAAAGTATGCTAGAGTTGA
Found at i:15333767 original size:2 final size:2
Alignment explanation
Indices: 15333760--15333821 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
15333750 TGAAGGGATG
15333760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15333802 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
15333822 TGTACAACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15337636 original size:65 final size:63
Alignment explanation
Indices: 15337503--15337678 Score: 185
Period size: 65 Copynumber: 2.7 Consensus size: 63
15337493 CACACTCATT
* * *
15337503 TCGAATGCATTTTATGCACCGATGCACAACCATGCATCGATTCACTCAGGATTTTATTGAAACA
1 TCGAATG-ATTTTGTGCACCGATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
* * *
15337567 TCGAATTGATTTTGTGCACCGATACACAAGCCATGCATCGATGCACCCCGGCTATTT-TTGAAAC
1 TCGAA-TGATTTTGTGCACCGATGCACAA-CCATGCATCGATGCACCCAGGAT-TTTATTGAAAC
15337631 A
63 A
* * *
15337632 TCGAA-GCAAATTTGTGCACCGATGCACACCCTAGTGTATCGATGCAC
1 TCGAATG--ATTTTGTGCACCGATGCACAACC-A-TGCATCGATGCAC
15337679 TAAGTCTTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
63 1 0.01
64 26 0.27
65 53 0.56
66 15 0.16
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (63 bp):
TCGAATGATTTTGTGCACCGATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
Found at i:15343496 original size:23 final size:23
Alignment explanation
Indices: 15343466--15343545 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
15343456 ACACTAGTTA
15343466 GTGCATCGATGCATGCCTTGAAT
1 GTGCATCGATGCATGCCTTGAAT
* *
15343489 GTGCATCGATTCA--CCATGAA-
1 GTGCATCGATGCATGCCTTGAAT
* *
15343509 GATGCACCGATGCATGTCTTGAAT
1 G-TGCATCGATGCATGCCTTGAAT
15343533 GTGCATCGATGCA
1 GTGCATCGATGCA
15343546 CTCTGATGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.35
23 28 0.61
24 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (23 bp):
GTGCATCGATGCATGCCTTGAAT
Found at i:15346314 original size:65 final size:64
Alignment explanation
Indices: 15346189--15346364 Score: 185
Period size: 65 Copynumber: 2.7 Consensus size: 64
15346179 CATACCCATT
* **
15346189 TCGAATGC-ATTTTATGCACCGATGCACAACCATGCATCGATGCACTTAGGATTTTATTGAAACA
1 TCGAA-GCAATTTTGTGCACCGATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
* *** * *
15346253 TCTAATTGATTTTGTGCACCGATGCACAAGCCATGCATCGATGCACCCCGGCTATTT-TTGAAAC
1 TCGAAGCAATTTTGTGCACCGATGCACAA-CCATGCATCGATGCACCCAGGAT-TTTATTGAAAC
15346317 A
64 A
* * *
15346318 TCGAAGCAAATTTGTGCACCGATGCACACCCTAGTGCACCGATGCAC
1 TCGAAGCAATTTTGTGCACCGATGCACAACC-A-TGCATCGATGCAC
15346365 ACCCTAGTGC
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
64 26 0.28
65 51 0.55
66 15 0.16
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (64 bp):
TCGAAGCAATTTTGTGCACCGATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
Found at i:15346356 original size:20 final size:20
Alignment explanation
Indices: 15346331--15346404 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
15346321 AAGCAAATTT
15346331 GTGCACCGATGCACACCCTA
1 GTGCACCGATGCACACCCTA
15346351 GTGCACCGATGCACACCCTA
1 GTGCACCGATGCACACCCTA
15346371 GTGCACCGATGCACACCCTA
1 GTGCACCGATGCACACCCTA
* *
15346391 GTGTACTGATGCAC
1 GTGCACCGATGCAC
15346405 GAAGTCTTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (20 bp):
GTGCACCGATGCACACCCTA
Found at i:15348569 original size:65 final size:65
Alignment explanation
Indices: 15348465--15348659 Score: 390
Period size: 65 Copynumber: 3.0 Consensus size: 65
15348455 GATACACACT
15348465 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
1 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
15348530 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
1 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
15348595 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
1 CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
15348660 AATTTTGGCC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 130 1.00
ACGTcount: A:0.26, C:0.35, G:0.08, T:0.31
Consensus pattern (65 bp):
CACCCATTTTTCGTTCATCAAACCCCAATCCAACTTCTTCCAAAGGCTACCTCTTTTCCAGGTAA
Found at i:15349816 original size:2 final size:2
Alignment explanation
Indices: 15349809--15349839 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
15349799 TTTAATGATA
15349809 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
15349840 GTGATTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15349890 original size:12 final size:12
Alignment explanation
Indices: 15349873--15349906 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15349863 GACGGACTTA
15349873 ACTCAAACTTCG
1 ACTCAAACTTCG
*
15349885 ACTCAAACTTGG
1 ACTCAAACTTCG
15349897 ACTCAAACTT
1 ACTCAAACTT
15349907 AAAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.26
Consensus pattern (12 bp):
ACTCAAACTTCG
Found at i:15356508 original size:32 final size:34
Alignment explanation
Indices: 15356461--15356556 Score: 88
Period size: 35 Copynumber: 2.8 Consensus size: 34
15356451 TAAATAGTTG
*
15356461 TTATATTTTATATT-AAT-ATAATTATATAAATA
1 TTATTTTTTATATTAAATAATAATTATATAAATA
* * *
15356493 TTATTTTTTTTATTAAAATAATATTTATATAATTA
1 TTATTTTTTATATT-AAATAATAATTATATAAATA
* * *
15356528 TTATTTATTTAAATTTACTAATTAATTAT
1 TTATTT-TTTATATTAAATAA-TAATTAT
15356557 TTTTTGTGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 12 0.24
34 3 0.06
35 23 0.46
36 12 0.24
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (34 bp):
TTATTTTTTATATTAAATAATAATTATATAAATA
Found at i:15358311 original size:42 final size:42
Alignment explanation
Indices: 15358259--15358338 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
15358249 ACCGATGATG
* * * *
15358259 ATGCCCAGCCCTCCGGGTTAGATGACATCTCCTCAGGGGTAT
1 ATGCCAAGCCCACCAGGTTAGATGACATCTCCGCAGGGGTAT
* * *
15358301 ATGCCAAGCCCACCAGTTTATATGCCATCTCCGCAGGG
1 ATGCCAAGCCCACCAGGTTAGATGACATCTCCGCAGGG
15358339 TTACATTACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.23
Consensus pattern (42 bp):
ATGCCAAGCCCACCAGGTTAGATGACATCTCCGCAGGGGTAT
Found at i:15358360 original size:21 final size:21
Alignment explanation
Indices: 15358334--15358374 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15358324 GCCATCTCCG
15358334 CAGGGTTACATTACTAGCCCT
1 CAGGGTTACATTACTAGCCCT
*
15358355 CAGGGTTACATTCCTAGCCC
1 CAGGGTTACATTACTAGCCC
15358375 GCCAGGTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (21 bp):
CAGGGTTACATTACTAGCCCT
Found at i:15358393 original size:21 final size:21
Alignment explanation
Indices: 15358334--15358386 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15358324 GCCATCTCCG
*
15358334 CAGGGTTACATTACTAGCCCT
1 CAGGGTTACATTACTAGCCCC
*
15358355 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTACTAGCCC-C
15358377 CA-GGTTACAT
1 CAGGGTTACAT
15358387 GTCTAGCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (21 bp):
CAGGGTTACATTACTAGCCCC
Found at i:15358960 original size:34 final size:34
Alignment explanation
Indices: 15358921--15358986 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
15358911 TTAAATGTTT
15358921 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
*
15358955 TTAAAATACAAATTATAGTATTCGAAATTTAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAA
15358987 CAATAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:15359211 original size:23 final size:23
Alignment explanation
Indices: 15359198--15359360 Score: 77
Period size: 23 Copynumber: 7.6 Consensus size: 23
15359188 TCACTTCACA
*
15359198 TTTATTCAATTTATCCATAACAT
1 TTTATCCAATTTATCCATAACAT
*
15359221 TTTATCCAATTTATTCA-AACA-
1 TTTATCCAATTTATCCATAACAT
* * *
15359242 ---A-CCAACTGA-CCACTTCACA-
1 TTTATCCAATTTATCCA--TAACAT
* *
15359261 TTTATTCAATTTATACATAACAT
1 TTTATCCAATTTATCCATAACAT
*
15359284 TTTATCCAATTTATTCA-AACA-
1 TTTATCCAATTTATCCATAACAT
* * *
15359305 ---A-CCAATTGATCACTTCACA-
1 TTTATCCAATTTATC-CATAACAT
* *
15359324 TTTATTCAATTTATCCATAAAAT
1 TTTATCCAATTTATCCATAACAT
15359347 TTTATCCAATTTAT
1 TTTATCCAATTTAT
15359361 TCAAACTTCA
Statistics
Matches: 101, Mismatches: 23, Indels: 32
0.65 0.15 0.21
Matches are distributed among these distances:
16 2 0.02
17 14 0.14
18 3 0.03
19 6 0.06
22 18 0.18
23 56 0.55
24 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (23 bp):
TTTATCCAATTTATCCATAACAT
Found at i:15359261 original size:63 final size:63
Alignment explanation
Indices: 15359176--15359366 Score: 337
Period size: 63 Copynumber: 3.0 Consensus size: 63
15359166 TTTCAATGTC
*
15359176 ACAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
* *
15359239 ACAACCAACTGACCACTTCACATTTATTCAATTTATACATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
* *
15359302 ACAACCAATTGATCACTTCACATTTATTCAATTTATCCATAAAATTTTATCCAATTTATTCAA
1 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
15359365 AC
1 AC
15359367 TTCACATAAC
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 121 1.00
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (63 bp):
ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
Found at i:15359722 original size:127 final size:126
Alignment explanation
Indices: 15359496--15360346 Score: 966
Period size: 127 Copynumber: 6.7 Consensus size: 126
15359486 CCATCCATCT
* * *
15359496 ATAGTTTCCCGGGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTCTAACAAAATAAT
1 ATAG-TTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
15359561 GGAAGGCGCGCCCCCGGGAACGCGCTTTCAAGTCCCCTAAAAAATAATAGGTACTGCCATGA
65 GGAAGGCGCGCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
* *
15359623 ATAGTTCTCCGAGGGAAATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAAT
1 ATAGTTC-CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
15359688 GGAAGGCGCCCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
65 GGAAGGCGCGCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
* * *
15359750 ATAGTTCCCCAGGGGACATGAATGACATAATAGGGC------AACATATTTTCTGACAAAATAAT
1 ATAGTTCCCGA-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * *
15359809 GGAAGGCGAGCCCCCGGGAATGCGCTTTTAAGTCCCCTCAGAAATAATAGGTACTACTATGA
65 GGAAGGCGCGCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
* * *
15359871 ATAGTTCCCCAGGGGACATGAATGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
1 ATAGTTCCCGA-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
15359936 GGAAGGTGCGCCCCCTGA-AACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTACCATGA
65 GGAAGGCGCGCCCCC-GAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
* *
15359998 ATAGTTCCCAGGGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGACAAAATAAT
1 ATAGTTCCC-GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
** *
15360063 GGAAGGCGCGCCCCTAAGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATTGGTAC
65 GGAAGGCGCGCCCCCGAGAACGCG---------CTTT--CAAGTCCCCTCAGAAATAATAGGTAC
**
15360128 TGATATGA
119 TGCCATGA
* *
15360136 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
1 ATAGTT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * * *
15360201 GGAAGGCGCGCCCCCGGGAATGCACTTTC-A--CCACT------T--TGGGTACTGACATGT
65 GGAAGGCGCGCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
* * * * * *
15360252 ATAGTGCCCCCAAGGGACATGAGTGACATAATAGGGTAATGATAATATATTATCTGATAAAATAA
1 ATAGT--TCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* *
15360317 TGGAAGGCGCGCCCCAG-GAACGCGCCTTCA
64 TGGAAGGCGCGCCCCCGAGAACGCGCTTTCA
15360347 CGTGAATAGT
Statistics
Matches: 634, Mismatches: 64, Indels: 62
0.83 0.08 0.08
Matches are distributed among these distances:
116 26 0.04
117 66 0.10
118 1 0.00
121 112 0.18
124 4 0.01
126 8 0.01
127 297 0.47
128 1 0.00
129 4 0.01
136 4 0.01
138 108 0.17
139 3 0.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (126 bp):
ATAGTTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
GAAGGCGCGCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
Found at i:15359976 original size:248 final size:249
Alignment explanation
Indices: 15359496--15360215 Score: 939
Period size: 248 Copynumber: 2.8 Consensus size: 249
15359486 CCATCCATCT
* * * *
15359496 ATAGTTTCCC-GGGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTCTAACAAAATAA
1 ATAG-TTCCCAGGGGGACATGAATGACATAATAGGGC----A-AACATATTTTCTGACAAAATAA
* * * * *
15359560 TGGAAGGCGCGCCCCCGGGAACGCGCTTTCAAGTCCCCTAAAAAATAATAGGTACTGCCATGAAT
60 TGGAAGGCGCGCCCCCGGGAACGCGCTTTTAAGTCCCCTCAGAAATAATAGGTACTACTATGAAT
* * *
15359625 AGTTCTCCGAGGGAAATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATGG
125 AGTTCCCCG-GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGG
*
15359690 AAGGCGC-CCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTGCCATGA
189 AAGGCGCGCCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTACCATGA
15359750 ATAGTTCCCCA-GGGGACATGAATGACATAATAGGGC-AACATATTTTCTGACAAAATAATGGAA
1 ATAGTT-CCCAGGGGGACATGAATGACATAATAGGGCAAACATATTTTCTGACAAAATAATGGAA
* *
15359813 GGCGAGCCCCCGGGAATGCGCTTTTAAGTCCCCTCAGAAATAATAGGTACTACTATGAATAGTTC
65 GGCGCGCCCCCGGGAACGCGCTTTTAAGTCCCCTCAGAAATAATAGGTACTACTATGAATAGTTC
* *
15359878 CCCAGGGGACATGAATGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGT
130 CCC-GGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGC
*
15359943 GCGCCCCCTGA-AACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTACCATGA
194 GCGCCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTACCATGA
* *
15359998 ATAGTTCCCAGGGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGACAAAATAAT
1 ATAGTTCCCAGGGGGACATGAATGACATAATAGGGCAA--A-CATAT-TT-TCTGACAAAATAAT
*** *
15360063 GGAAGGCGCGCCCCTAAGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATTGGTAC
61 GGAAGGCGCGCCCCCGGGAACGCGC--T------TTT---AAGTCCCCTCAGAAATAATAGGTAC
15360128 TGA-TATGAATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGA
115 T-ACTATGAATAGTTCCCC-GGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGA
15360192 CAAAATAATGGAAGGCGCGCCCCC
178 CAAAATAATGGAAGGCGCGCCCCC
15360216 GGGAATGCAC
Statistics
Matches: 414, Mismatches: 29, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
247 4 0.01
248 216 0.52
249 9 0.02
251 1 0.00
252 4 0.01
253 4 0.01
254 64 0.15
256 1 0.00
262 3 0.01
265 107 0.26
266 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (249 bp):
ATAGTTCCCAGGGGGACATGAATGACATAATAGGGCAAACATATTTTCTGACAAAATAATGGAAG
GCGCGCCCCCGGGAACGCGCTTTTAAGTCCCCTCAGAAATAATAGGTACTACTATGAATAGTTCC
CCGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCGC
GCCCCCCGAGAACGCGCTTTCAAGTCCCCTCAGAAATAATAGGTACTACCATGA
Found at i:15360212 original size:138 final size:138
Alignment explanation
Indices: 15359964--15360238 Score: 444
Period size: 138 Copynumber: 2.0 Consensus size: 138
15359954 AACGCGCTTT
15359964 CAAGTCCCCTCAGAAATAATAGGTACTACCATGAATAGTTCCCAGGGGGACATGAGTGACATAAT
1 CAAGTCCCCTCAGAAATAATAGGTACTACCATGAATAGTTCCCAGGGGGACATGAGTGACATAAT
* * *
15360029 AGGGCAATGATAATATATTCTCTGACAAAATAATGGAAGGCGCGCCCCTAAGAACGCGCTTTCAC
66 AGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAAGAACGCACTTTCAC
15360094 CACTTTGC
131 CACTTTGC
* * *
15360102 CAAGTCCCCTCAGAAATAATTGGTACTGA-TATGAATAGTTCCCCGGGGGACATGAGTGACATAA
1 CAAGTCCCCTCAGAAATAATAGGTACT-ACCATGAATAGTTCCCAGGGGGACATGAGTGACATAA
* ** *
15360166 TAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCGCGCCCCCGGGAATGCACTTTCA
65 TAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAAGAACGCACTTTCA
15360231 CCACTTTG
130 CCACTTTG
15360239 GGTACTGACA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
138 125 0.99
139 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (138 bp):
CAAGTCCCCTCAGAAATAATAGGTACTACCATGAATAGTTCCCAGGGGGACATGAGTGACATAAT
AGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAAGAACGCACTTTCAC
CACTTTGC
Found at i:15368056 original size:29 final size:30
Alignment explanation
Indices: 15368002--15368079 Score: 124
Period size: 29 Copynumber: 2.6 Consensus size: 30
15367992 GGATTAGCAA
*
15368002 TATAGTGTGTAAGGACACTTATTGCAACA-C
1 TATAGTGTGTAAGGACACTTAGTGCAA-ATC
15368032 TATAGTGTGT-AGGACACTTAGTGCAAATC
1 TATAGTGTGTAAGGACACTTAGTGCAAATC
15368061 TATAGTGTGTAAGGACACT
1 TATAGTGTGTAAGGACACT
15368080 CAGGCCATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 1 0.02
29 26 0.58
30 18 0.40
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (30 bp):
TATAGTGTGTAAGGACACTTAGTGCAAATC
Found at i:15370438 original size:54 final size:55
Alignment explanation
Indices: 15370353--15370568 Score: 334
Period size: 54 Copynumber: 4.0 Consensus size: 55
15370343 TGTGTAATAC
15370353 CGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAGAATTCATAATAAGTTTATGAACGACCGTAT
* *
15370407 CGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACTGTAT
1 CGACACTAAGTGTGCAACCCACGAGAATTCATAATAAGTTTATGAACGACCGTAT
* *
15370461 CGATACTAAGTGTGCAACCCA-TAGAATTCATAATAAGTTTATGAACGACCGTAT
1 CGACACTAAGTGTGCAACCCACGAGAATTCATAATAAGTTTATGAACGACCGTAT
* *
15370515 CGACACTAAGTGTGCAACCCAC-ATAATTCATAGA-AAGTTTATGAACGATCGTAT
1 CGACACTAAGTGTGCAACCCACGAGAATTCATA-ATAAGTTTATGAACGACCGTAT
15370569 TTGTAACAAC
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
53 1 0.01
54 148 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (55 bp):
CGACACTAAGTGTGCAACCCACGAGAATTCATAATAAGTTTATGAACGACCGTAT
Found at i:15371306 original size:23 final size:23
Alignment explanation
Indices: 15371280--15371376 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 23
15371270 TATAAAATTA
* *
15371280 TCCCGAAGGACCTCATAGAAATG
1 TCCCGAAGGACCACATAGATATG
*
15371303 TCCCGAAGGACCACATATATATG
1 TCCCGAAGGACCACATAGATATG
*
15371326 TTCCGAA-G-CCACATAG--ATG
1 TCCCGAAGGACCACATAGATATG
*
15371345 TCTCGAAGGACCACAT--ATATG
1 TCCCGAAGGACCACATAGATATG
15371366 TCCCGAAGGAC
1 TCCCGAAGGAC
15371377 TGCGTAGAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
19 8 0.13
20 1 0.02
21 26 0.42
22 1 0.02
23 26 0.42
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
TCCCGAAGGACCACATAGATATG
Found at i:15371351 original size:19 final size:20
Alignment explanation
Indices: 15371280--15371373 Score: 73
Period size: 23 Copynumber: 4.4 Consensus size: 20
15371270 TATAAAATTA
*
15371280 TCCCGAAGGACCTCATAGAAATG
1 TCCCGAA-GACCACATAG--ATG
*
15371303 TCCCGAAGGACCACATATATATG
1 TCCCGAA-GACCAC--ATAGATG
*
15371326 TTCCGAAG-CCACATAGATG
1 TCCCGAAGACCACATAGATG
* *
15371345 TCTCGAAGGACCACATATATG
1 TCCCGAA-GACCACATAGATG
15371366 TCCCGAAG
1 TCCCGAAG
15371374 GACTGCGTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
19 11 0.19
20 2 0.03
21 20 0.34
22 1 0.02
23 22 0.37
25 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
TCCCGAAGACCACATAGATG
Found at i:15373770 original size:54 final size:54
Alignment explanation
Indices: 15373712--15373957 Score: 280
Period size: 54 Copynumber: 4.6 Consensus size: 54
15373702 CAACCCATGA
* * ** * * * *
15373712 AATTCATAATAAGTTTATGAATGATCGTATTGGTACTAAGTGTGAAAAATACAT
1 AATTCATAATAAGTTTATGAACGACCGTATCAGTACTAAGTGTGTAACACACAG
* * *
15373766 AATTCATAATATA-TTTATGAACGACCGTATCTGCACTAAGTGTGTAACACACCG
1 AATTCATAATA-AGTTTATGAACGACCGTATCAGTACTAAGTGTGTAACACACAG
* * * * *
15373820 AATTCATAATAAGATTATAAACGACCGTATCAATACTAAGTGTGCAACCCACAG
1 AATTCATAATAAGTTTATGAACGACCGTATCAGTACTAAGTGTGTAACACACAG
* *
15373874 AATTCATAATAAGTTTATGAACGACCGTATCAGAACTAAGTGTGTAACCCAC-G
1 AATTCATAATAAGTTTATGAACGACCGTATCAGTACTAAGTGTGTAACACACAG
* *
15373927 CAATTCATAATAAGTTTATAAACGACAGTAT
1 -AATTCATAATAAGTTTATGAACGACCGTAT
15373958 TGGCACTACA
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.01
54 161 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (54 bp):
AATTCATAATAAGTTTATGAACGACCGTATCAGTACTAAGTGTGTAACACACAG
Found at i:15373832 original size:27 final size:27
Alignment explanation
Indices: 15373802--15373941 Score: 76
Period size: 27 Copynumber: 5.2 Consensus size: 27
15373792 GTATCTGCAC
15373802 TAAGTGTGTAACACACCGAATTCATAA
1 TAAGTGTGTAACACACCGAATTCATAA
* * *
15373829 TAAGAT-TATAA-ACGACCGTA-TCAATAC
1 TAAG-TGTGTAACAC-ACCGAATTC-ATAA
* * *
15373856 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGTAACACACCGAATTCATAA
* * * * *
15373883 TAAGTTTATGAAC-GACCGTA-TCAGAA
1 TAAGTGTGT-AACACACCGAATTCATAA
*
15373909 CTAAGTGTGTAACCCA-CGCAATTCATAA
1 -TAAGTGTGTAACACACCG-AATTCATAA
15373937 TAAGT
1 TAAGT
15373942 TTATAAACGA
Statistics
Matches: 81, Mismatches: 21, Indels: 22
0.65 0.17 0.18
Matches are distributed among these distances:
26 15 0.19
27 54 0.67
28 12 0.15
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
TAAGTGTGTAACACACCGAATTCATAA
Found at i:15373972 original size:108 final size:107
Alignment explanation
Indices: 15373692--15373991 Score: 329
Period size: 108 Copynumber: 2.8 Consensus size: 107
15373682 CAGTATTGAC
* * * * * *
15373692 ACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAATGATCGTATTGGTACTAAGTGTGA
1 ACTAAGTGTGTAACCCACGCAATTCATAATAAGTTTATAAACGA-CGTATTGGTACTAAGTGTGC
*** * * *
15373757 AAAATACATAATTCATAATATATTTATGAACGACCGTATCTGC
65 AACCCACAGAATTCATAATATATTTATGAACGACCGTATCAGA
* * ***
15373800 ACTAAGTGTGTAACACAC-CGAATTCATAATAAGATTATAAACGACCGTATCAATACTAAGTGTG
1 ACTAAGTGTGTAACCCACGC-AATTCATAATAAGTTTATAAACGA-CGTATTGGTACTAAGTGTG
15373864 CAACCCACAGAATTCATAATA-AGTTTATGAACGACCGTATCAGA
64 CAACCCACAGAATTCATAATATA-TTTATGAACGACCGTATCAGA
*
15373908 ACTAAGTGTGTAACCCACGCAATTCATAATAAGTTTATAAACGACAGTATTGGCACTACA-TGTG
1 ACTAAGTGTGTAACCCACGCAATTCATAATAAGTTTATAAACGAC-GTATTGGTACTA-AGTGTG
* *
15373972 CACCCCAAAGAACTT-ATAAT
64 CAACCCACAGAA-TTCATAAT
15373992 GATTTGAAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
107 2 0.01
108 154 0.96
109 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (107 bp):
ACTAAGTGTGTAACCCACGCAATTCATAATAAGTTTATAAACGACGTATTGGTACTAAGTGTGCA
ACCCACAGAATTCATAATATATTTATGAACGACCGTATCAGA
Found at i:15384820 original size:12 final size:12
Alignment explanation
Indices: 15384793--15384827 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
15384783 ACATTATGAT
*
15384793 TTTTCAAACTTAG
1 TTTTCAAA-ATAG
15384806 TTTTCAAAATAG
1 TTTTCAAAATAG
15384818 TTTTCAAAAT
1 TTTTCAAAAT
15384828 TTCCCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:15385753 original size:22 final size:22
Alignment explanation
Indices: 15385728--15385772 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15385718 GGGTTCAGTC
*
15385728 AACTCAGAAGACTTCGGGTGCT
1 AACTCAGAAGACTTCAGGTGCT
15385750 AACTCAGAAGACTTCAGGTGCT
1 AACTCAGAAGACTTCAGGTGCT
15385772 A
1 A
15385773 GCTCTTCACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
AACTCAGAAGACTTCAGGTGCT
Found at i:15391130 original size:85 final size:85
Alignment explanation
Indices: 15390977--15391556 Score: 718
Period size: 85 Copynumber: 6.8 Consensus size: 85
15390967 TAAAGAAACT
* * * * * *
15390977 ATTTGCAGCATAACTCAAGGCTAGAATGGCTATCTGTC-ACCAATACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
15391041 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGGCATATCAA
* *
15391061 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAATACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
15391126 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGGCATATCAA
* *
15391146 ATTTACAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAACAAAGA-CTATCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACA
15391210 TTCAGCTCAAGGGCATATC-A
65 TTCAGCTCAAGGGCATATCAA
* * * *
15391230 ATTTACAGCATAGCTCAAGGCGAGAAGTGCTATATGTCAACAAAGACCTTCGAGTTCGATTATAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
15391295 TCATCTCAAGGGCATATCAA
66 TCAGCTCAAGGGCATATCAA
** * * * *
15391315 ATTTACAGCATAGTTCAAGGTGATAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* * *
15391380 TAAGCTCAAGGACATGTCAA
66 TCAGCTCAAGGGCATATCAA
* *** * * * * * *
15391400 ATTTACAGCATAACTCAAGGCAAGAAGATTTATCTGCCAACAAATACCTTCAAATTTGATTCCAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
15391465 TCAGCTCAAGGGCATGTCAA
66 TCAGCTCAAGGGCATATCAA
* * * ** * * * *
15391485 ATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGTCAACAAA-AACTATCAAATTCGATTCCA
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACA
15391549 TTCAGCTC
65 TTCAGCTC
15391557 GATGACACAT
Statistics
Matches: 438, Mismatches: 53, Indels: 9
0.88 0.11 0.02
Matches are distributed among these distances:
84 113 0.26
85 325 0.74
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (85 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
TCAGCTCAAGGGCATATCAA
Found at i:15391264 original size:169 final size:169
Alignment explanation
Indices: 15390977--15391556 Score: 734
Period size: 169 Copynumber: 3.4 Consensus size: 169
15390967 TAAAGAAACT
* * * * * *
15390977 ATTTGCAGCATAACTCAAGGCTAGAATGGCTATCTGTCACCAATA-CCTTCGAGTTTGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAA-AGACTTCGAGTTCGATTACAT
*
15391041 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAT
65 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGTGCTATATGTCAACAAAT
15391106 ACCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAA
130 ACCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAA
* *
15391146 ATTTACAGCATAACTCAAGGGGAGAAGGGTTATCTGTCAACAAAGACTATCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACT-TCGAGTTCGATTACAT
* *
15391211 TCAGCTCAAGGGCATATC-AATTTACAGCATAGCTCAAGGCGAGAAGTGCTATATGTCAACAAAG
65 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGTGCTATATGTCAACAAAT
* *
15391275 ACCTTCGAGTTCGATTATATTCATCTCAAGGGCATATCAA
130 ACCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAA
** * * * *
15391315 ATTTACAGCATAGTTCAAGGTGATAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGA-CTTCGAGTTCGATTACAT
* * * * * * *
15391380 TAAGCTCAAGGACATGTCAAATTTACAGCATAACTCAAGGCAAGAAGAT-TTATCTGCCAACAAA
65 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAG-TGCTATATGTCAACAAA
* * * * *
15391444 TACCTTCAAATTTGATTCCATTCAGCTCAAGGGCATGTCAA
129 TACCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAA
* * * ** * * * *
15391485 ATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGTCAACAAAAACTATCAAATTCGATTCCAT
1 ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACT-TCGAGTTCGATTACAT
15391550 TCAGCTC
65 TCAGCTC
15391557 GATGACACAT
Statistics
Matches: 357, Mismatches: 48, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
168 1 0.00
169 194 0.54
170 161 0.45
171 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (169 bp):
ATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACTTCGAGTTCGATTACATT
CAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGTGCTATATGTCAACAAATA
CCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAA
Found at i:15391470 original size:254 final size:254
Alignment explanation
Indices: 15390977--15391556 Score: 745
Period size: 254 Copynumber: 2.3 Consensus size: 254
15390967 TAAAGAAACT
* * * * * *
15390977 ATTTGCAGCATAACTCAAGGCTAGAATGGCTATCTGTC-ACCAATACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAT-GCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
15391041 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAT
65 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAG
* * **
15391106 ACCTTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGGGAGA
130 ACCTTCGAGTTCGATTACATTAAGCTCAAGGACATATCAAATTTACAGCATAACTCAAGGCAAGA
* * * *
15391171 AGGGTTATCTGTCAACAAAGACTATCGAGTTCGATTACATTCAGCTCAAGGGCATATC-A
195 AGAGTTATCTGCCAACAAAGACTATCAAATTCGATTACATTCAGCTCAAGGGCATATCAA
* *
15391230 ATTTACAGCATAGCTCAAGGCGAGAAGTGCTATATGTCAACAAAGACCTTCGAGTTCGATTATAT
1 ATTTACAGCATAGCTCAAGGCGAGAA-TGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* ** * * * *
15391295 TCATCTCAAGGGCATATCAAATTTACAGCATAGTTCAAGGTGATAAGGGTTATCTGTCAACAAAG
65 TCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAG
* *
15391360 ACCTTCGAGTTTGATTACATTAAGCTCAAGGACATGTCAAATTTACAGCATAACTCAAGGCAAGA
130 ACCTTCGAGTTCGATTACATTAAGCTCAAGGACATATCAAATTTACAGCATAACTCAAGGCAAGA
* * * * *
15391425 AGATTTATCTGCCAACAAATACCT-TCAAATTTGATTCCATTCAGCTCAAGGGCATGTCAA
195 AGAGTTATCTGCCAACAAAGA-CTATCAAATTCGATTACATTCAGCTCAAGGGCATATCAA
* * * * * * *
15391485 ATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGTCAACAAA-AACTATCAAATTCGATTCCA
1 ATTTACAGCATAGCTCAAGGCGAG-AATGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACA
15391549 TTCAGCTC
64 TTCAGCTC
15391557 GATGACACAT
Statistics
Matches: 280, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
253 32 0.11
254 188 0.67
255 58 0.21
256 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (254 bp):
ATTTACAGCATAGCTCAAGGCGAGAATGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATT
CAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATATGTCAACAAAGA
CCTTCGAGTTCGATTACATTAAGCTCAAGGACATATCAAATTTACAGCATAACTCAAGGCAAGAA
GAGTTATCTGCCAACAAAGACTATCAAATTCGATTACATTCAGCTCAAGGGCATATCAA
Found at i:15392599 original size:67 final size:66
Alignment explanation
Indices: 15392434--15392661 Score: 275
Period size: 67 Copynumber: 3.5 Consensus size: 66
15392424 TGCACTATGA
* * ** ** *
15392434 GTGCATCGATGCATGAAATGCATTCAATG--TTTCA-AAATAGCCAAAGTACATCGATGCATGGC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAA-AATCTGAGTGCATCGATGCATGGC
15392496 TG
65 TG
* * *
15392498 GTGCACCGATGCATCAAATGCATTCGATGTTTTTCATAAAACTTTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAAAATCTGAGTGCATCGATGCATGGCT
15392563 G
66 G
* *
15392564 GTGCATCGAATGCAACAAATGCATTCGATGTTTTTCATAAAAATCTGAGTGCATCGATGCATAG-
1 GTGCATCG-ATGCATCAAATGCATTCGATGTTTTTCATAAAAATCTGAGTGCATCGATGCATGGC
*
15392628 TAT
65 T-G
*
15392631 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
15392662 CAATTTATTC
Statistics
Matches: 142, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.18
66 54 0.38
67 62 0.44
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAAAATCTGAGTGCATCGATGCATGGCT
G
Found at i:15393177 original size:2 final size:2
Alignment explanation
Indices: 15393170--15393195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15393160 TAGCCAATTG
15393170 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15393196 CTTAAGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15395429 original size:21 final size:22
Alignment explanation
Indices: 15395367--15395448 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 22
15395357 GCATGGCCTT
15395367 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTC-AGGC
* *
15395390 GTGCATC-AGTGCACCTTCATG-
1 GTGCATCGA-TGCACATTCAGGC
*
15395411 GTGTATCGATGCACATTCAAAGG-
1 GTGCATCGATGCACATTC--AGGC
15395434 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
15395449 TGTTAAGTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
21 14 0.29
22 4 0.08
23 18 0.38
24 12 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGC
Found at i:15401300 original size:63 final size:63
Alignment explanation
Indices: 15401231--15401410 Score: 190
Period size: 66 Copynumber: 2.8 Consensus size: 63
15401221 TTGGACCCTT
*
15401231 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCA-AAATA-GCAG
1 AGTGCATCGATGCACT-AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAA-ACGCAG
* *
15401294 AGTGCATCGATGCATGGCT-G-GTGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAAACT
1 AGTGCATCGATGCA---CTAGAGTGCATCGATGCATGAAATGCATTCGATG--TTTCATAAAACG
**
15401357 CTT
61 CAG
*
15401360 AGTGCATCGATGCA-TAGTATCTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCACTAG-A-GTGCATCGATGCATGAAATGCATTCGATGTT
15401411 CAATTTATTC
Statistics
Matches: 99, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
62 1 0.01
63 42 0.42
64 3 0.03
65 6 0.06
66 47 0.47
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCACTAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAACGCAG
Found at i:15401390 original size:66 final size:65
Alignment explanation
Indices: 15401252--15401410 Score: 200
Period size: 66 Copynumber: 2.5 Consensus size: 65
15401242 GCACTAAGAG
* *
15401252 TGCATCGATGCATGAAATGCATTCGATG--TTTCAAAATAGCAGAGTGCATCGATGCATGGCTGG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTTCAAAATAGCAGAGTGCATCGATGCATAGCTGC
* * **
15401315 TGCATCGATGCATCAAATGCATTCGATGTTTTTCATAAA-ACTCTTAGTGCATCGATGCATAG-T
1 TGCATCGATGCATGAAATGCATTCGATGTTTTTCA-AAATA-GCAGAGTGCATCGATGCATAGCT
*
15401378 ATC
64 -GC
15401381 TGCATCGATGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATGAAATGCATTCGATGTT
15401411 CAATTTATTC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 27 0.33
65 7 0.08
66 49 0.59
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTTCAAAATAGCAGAGTGCATCGATGCATAGCTGC
Found at i:15402378 original size:37 final size:37
Alignment explanation
Indices: 15402327--15402682 Score: 333
Period size: 37 Copynumber: 10.0 Consensus size: 37
15402317 TTTTTTGTTA
*
15402327 GAAAACGATTTTTGAAAA-TGTATATATTATATAGTTTTT
1 GAAAAC-A-TTTTGAAAACT-TATATAATATATAGTTTTT
15402366 GAAAACATTTTGAAAA-TATATATAATATATAGTTTTT
1 GAAAACATTTTGAAAACT-TATATAATATATAGTTTTT
*
15402403 GAAAACATTTTAAAAACTTATATAATATATAG-TTTT
1 GAAAACATTTTGAAAACTTATATAATATATAGTTTTT
* *
15402439 GAAATCAATTTGAAAAACTTATATAATATATAG-TTTT
1 GAAAACATTTTG-AAAACTTATATAATATATAGTTTTT
**
15402476 GAAATA-ATTTCAAAAACTTATATAATATATAGTTTTT
1 GAAA-ACATTTTGAAAACTTATATAATATATAGTTTTT
*
15402513 -AAAACATTTTTAAAAACTTATATAATATATAGTTTTT
1 GAAAACA-TTTTGAAAACTTATATAATATATAGTTTTT
*
15402550 -AAAATATTATTGAAAACTTATATAATATATAGTTTTT
1 GAAAACATT-TTGAAAACTTATATAATATATAGTTTTT
*
15402587 -AAAA-A---T----A--TATAT--TATATAATTTTT
1 GAAAACATTTTGAAAACTTATATAATATATAGTTTTT
*
15402611 AAAAACATTTTGAAAAC-TATATAATATATAG-TTTT
1 GAAAACATTTTGAAAACTTATATAATATATAGTTTTT
*** * * *
15402646 GAAATTTTTTTTAAAATTATATATAATATATGGTTTT
1 GAAAACATTTTGAAAACT-TATATAATATATAGTTTT
15402683 AAAATCCTTT
Statistics
Matches: 273, Mismatches: 22, Indels: 45
0.80 0.06 0.13
Matches are distributed among these distances:
24 11 0.04
25 4 0.01
26 6 0.02
28 1 0.00
29 1 0.00
32 1 0.00
33 1 0.00
34 5 0.02
35 16 0.06
36 46 0.17
37 170 0.62
38 5 0.02
39 6 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
GAAAACATTTTGAAAACTTATATAATATATAGTTTTT
Found at i:15402491 original size:73 final size:73
Alignment explanation
Indices: 15402347--15402590 Score: 332
Period size: 73 Copynumber: 3.3 Consensus size: 73
15402337 TTTGAAAATG
*
15402347 TATATATTATATAGTTTTTGAAAACATTTTG-AAAA-TATATATAATATATAGTTTTTGAAAACA
1 TATATAATATATAG-TTTTGAAAACATTTTGAAAAACT-TATATAATATATAG-TTTTGAAAACA
15402410 TTTTAAAAACT
63 TTTTAAAAACT
* *
15402421 TATATAATATATAGTTTTGAAATCAATTTGAAAAACTTATATAATATATAGTTTTGAAATA-ATT
1 TATATAATATATAGTTTTGAAAACATTTTGAAAAACTTATATAATATATAGTTTTGAAA-ACATT
*
15402485 TCAAAAACT
65 TTAAAAACT
* * * *
15402494 TATATAATATATAGTTTTTAAAACATTTTTAAAAACTTATATAATATATAGTTTTTAAAATATTA
1 TATATAATATATAGTTTTGAAAACATTTTGAAAAACTTATATAATATATAGTTTTGAAAACATT-
*
15402559 TTGAAAACT
65 TTAAAAACT
*
15402568 TATATAATATATAGTTTTTAAAA
1 TATATAATATATAGTTTTGAAAA
15402591 ATATATATTA
Statistics
Matches: 154, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
72 1 0.01
73 90 0.58
74 62 0.40
75 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (73 bp):
TATATAATATATAGTTTTGAAAACATTTTGAAAAACTTATATAATATATAGTTTTGAAAACATTT
TAAAAACT
Found at i:15402498 original size:110 final size:106
Alignment explanation
Indices: 15402338--15402687 Score: 350
Period size: 110 Copynumber: 3.3 Consensus size: 106
15402328 AAAACGATTT
* *
15402338 TTGAAAA-TGTATATATTATATAGTTTTTGAAA-ACATTTTGAAAATATATATAATATATAGTTT
1 TTGAAAACT-TATATAATATATAG-TTTTGAAATA-A-TTTAAAAAT-TATATAATATATAGTTT
15402401 TTGAAAACATTTTAAAAACTTATATAATATATAGTTTTGAAATCAAT-
61 TT-AAAACATTTTAAAAACTTATATAATATATAGTTTTGAAAT-AATA
15402448 TTGAAAAACTTATATAATATATAGTTTTGAAATAATTTCAAAAACTTATATAATATATAGTTTTT
1 TTG-AAAACTTATATAATATATAGTTTTGAAATAATTT-AAAAA-TTATATAATATATAGTTTTT
* *
15402513 AAAACATTTTTAAAAACTTATATAATATATAGTTTTTAAAATATTA
63 AAAACA-TTTTAAAAACTTATATAATATATAG-TTTTGAAATAATA
* *
15402559 TTGAAAACTTATATAATATATAG---T----T--TTTAAAAA-TATATATTATATAATTTTTAAA
1 TTGAAAACTTATATAATATATAGTTTTGAAATAATTTAAAAATTATATAATATATAGTTTTT-AA
* ** *
15402614 AACATTTTGAAAAC-TATATAATATATAGTTTTGAAATTTTT
65 AACATTTTAAAAACTTATATAATATATAGTTTTGAAATAATA
* * * *
15402655 TTTAAAATTATATATAATATATGGTTTTAAAAT
1 TTGAAAACT-TATATAATATATAGTTTTGAAAT
15402688 CCTTTTTATT
Statistics
Matches: 210, Mismatches: 13, Indels: 40
0.80 0.05 0.15
Matches are distributed among these distances:
96 17 0.08
97 27 0.13
98 26 0.12
99 6 0.03
100 6 0.03
101 3 0.01
103 1 0.00
104 1 0.00
107 1 0.00
109 9 0.04
110 82 0.39
111 30 0.14
112 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (106 bp):
TTGAAAACTTATATAATATATAGTTTTGAAATAATTTAAAAATTATATAATATATAGTTTTTAAA
ACATTTTAAAAACTTATATAATATATAGTTTTGAAATAATA
Found at i:15402591 original size:26 final size:25
Alignment explanation
Indices: 15402562--15402616 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
15402552 AATATTATTG
*
15402562 AAAACTTATATAATATATAGTTTTTA
1 AAAAC-TATATAATATATAATTTTTA
*
15402588 AAAA-TATATATTATATAATTTTTA
1 AAAACTATATAATATATAATTTTTA
15402612 AAAAC
1 AAAAC
15402617 ATTTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 22 0.85
26 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAACTATATAATATATAATTTTTA
Found at i:15402596 original size:24 final size:24
Alignment explanation
Indices: 15402568--15402615 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15402558 ATTGAAAACT
*
15402568 TATATAATATATAGTTTTTAAAAA
1 TATATAATATATAATTTTTAAAAA
*
15402592 TATATATTATATAATTTTTAAAAA
1 TATATAATATATAATTTTTAAAAA
15402616 CATTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATATAATATATAATTTTTAAAAA
Found at i:15402624 original size:61 final size:61
Alignment explanation
Indices: 15402519--15402645 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 61
15402509 TTTTAAAACA
* *
15402519 TTTTTAAAAACTTATATAATATATAGTTTTTAAAATATTATTGAAAACTTATATAATATATAG
1 TTTTTAAAAAC-TATATAATATATAATTTTTAAAACATTATTGAAAAC-TATATAATATATAG
*
15402582 TTTTTAAAAA-TATATATTATATAATTTTTAAAAACATT-TTGAAAACTATATAATATATAG
1 TTTTTAAAAACTATATAATATATAATTTTT-AAAACATTATTGAAAACTATATAATATATAG
15402642 TTTT
1 TTTT
15402646 GAAATTTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
60 18 0.30
61 25 0.42
62 7 0.12
63 10 0.17
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (61 bp):
TTTTTAAAAACTATATAATATATAATTTTTAAAACATTATTGAAAACTATATAATATATAG
Found at i:15402694 original size:37 final size:35
Alignment explanation
Indices: 15402582--15402695 Score: 97
Period size: 37 Copynumber: 3.2 Consensus size: 35
15402572 TAATATATAG
* *
15402582 TTTTTAAAAATATATATTATATAAT-TTTTAAAAACA
1 TTTTT-AAAATATATATAATAT-ATGTTTTAAAATCA
* * * **
15402618 TTTTGAAAA-CTATATAATATATAGTTTTGAAATTT
1 TTTTTAAAATATATATAATATAT-GTTTTAAAATCA
*
15402653 TTTTTAAAATTATATATAATATATGGTTTTAAAATCC
1 TTTTTAAAA-TATATATAATATAT-GTTTTAAAATCA
15402690 TTTTTA
1 TTTTTA
15402696 TTTATTATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
33 2 0.03
34 9 0.15
35 19 0.31
36 4 0.07
37 27 0.44
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (35 bp):
TTTTTAAAATATATATAATATATGTTTTAAAATCA
Found at i:15404333 original size:3 final size:3
Alignment explanation
Indices: 15404325--15404493 Score: 78
Period size: 3 Copynumber: 55.0 Consensus size: 3
15404315 TATATATACT
* * * ** *
15404325 TAA TAA TAA T-A TAA AAA TAAA TAA TAT TAA TGA TAA TGT TAT TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
15404370 TAA GTAA CAA -ATA TGA TAA -ATA TAA TAA TAT TAA TAA TAA TAG TAA
1 TAA -TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
15404416 TAA TAAA TAC TAC TAAA TAA TAA TTAA TAC TAA TAA TTA TAA TAA TAC
1 TAA T-AA TAA TAA T-AA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
*
15404464 TATA TAA TAA TAA -AA TCAA -AA TAA AAA TAA
1 TA-A TAA TAA TAA TAA T-AA TAA TAA TAA TAA
15404494 ATCTCATATG
Statistics
Matches: 125, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
2 8 0.06
3 98 0.78
4 19 0.15
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15404354 original size:27 final size:29
Alignment explanation
Indices: 15404301--15404361 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
15404291 TAAGCATGTT
* * *
15404301 ATAATATATATATATATATATACTTAATA
1 ATAATATAAAAATAAATATATACTTAATA
*
15404330 ATAATATAAAAATAAATA-ATA-TTAATG
1 ATAATATAAAAATAAATATATACTTAATA
15404357 ATAAT
1 ATAAT
15404362 GTTATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.36
28 3 0.11
29 15 0.54
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
ATAATATAAAAATAAATATATACTTAATA
Found at i:15405906 original size:85 final size:84
Alignment explanation
Indices: 15405659--15405926 Score: 268
Period size: 85 Copynumber: 3.1 Consensus size: 84
15405649 TTTATTCCTT
* * * * *
15405659 CCTCTAAAAGGATGTCAAATTAGGGAATGATCTTACTACTTCCTCTAAAGAACACTAAGTTGTAA
1 CCTCT-AAAGGATGTCAAATTGGGGGATGATCTTACT-CTTCCTCTAAAGGACGCTAAGTCGTAA
* *
15405724 TTGATGGGTTGATTTGCTCTTC
64 -TCATCGGTTGATTTGCTCTTC
* * * * **
15405746 CCTTTAAAGGATG-CAAAATGAGGGGATGATCATACTCCTTCCTCCAAAGGACGCTAAGTCACAA
1 CCTCTAAAGGATGTCAAATTG-GGGGATGATCTTACT-CTTCCTCTAAAGGACGCTAAGTCGTAA
*
15405810 TCATTGGTTGATTTGCTCTTC
64 TCATCGGTTGATTTGCTCTTC
* * **
15405831 TCTCTAAAGGATGTCAGATTGGGGGATGATCTTACTCTTTCCTCTAAAGGTTGCTAAGTCGTAAT
1 CCTCTAAAGGATGTCAAATTGGGGGATGATCTTACTC-TTCCTCTAAAGGACGCTAAGTCGTAAT
** * *
15405896 CATCAATTGATTTTCTCCTC
65 CATCGGTTGATTTGCTCTTC
*
15405916 CCTCTGAAGGA
1 CCTCTAAAGGA
15405927 CGCCAAATCA
Statistics
Matches: 147, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
84 1 0.01
85 95 0.65
86 47 0.32
87 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (84 bp):
CCTCTAAAGGATGTCAAATTGGGGGATGATCTTACTCTTCCTCTAAAGGACGCTAAGTCGTAATC
ATCGGTTGATTTGCTCTTC
Found at i:15407212 original size:3 final size:3
Alignment explanation
Indices: 15407204--15407242 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
15407194 TGGATCTGAA
*
15407204 AAT AAT AAT AA- AAC AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
15407243 CCTTGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15407221 original size:11 final size:11
Alignment explanation
Indices: 15407202--15407242 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
15407192 GTTGGATCTG
15407202 AAAATAATAAT
1 AAAATAATAAT
*
15407213 AAAACAATAAT
1 AAAATAATAAT
15407224 -AAATAATAAT
1 AAAATAATAAT
15407234 AATAATAAT
1 AA-AATAAT
15407243 CCTTGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 11 0.42
12 6 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:15414434 original size:19 final size:19
Alignment explanation
Indices: 15414366--15414446 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
15414356 TTAAATATCT
15414366 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
15414385 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
15414404 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
15414424 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
15414442 -TATTA
1 TTATTA
15414447 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:15414520 original size:28 final size:28
Alignment explanation
Indices: 15414489--15414582 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
15414479 ATTAATAATT
*
15414489 TATTATATATTATTAAAATAAAATATAA
1 TATTATATATTATTAAAATAAAATATTA
* * *
15414517 TATTTTATATTATTATAATATAATTGATTA
1 TATTATATATTATTAAAATA-AAAT-ATTA
* * *
15414547 TTTTACTATAATATTAAAAATATAATATTA
1 TATTA-TATATTATT-AAAATAAAATATTA
15414577 TATTAT
1 TATTAT
15414583 TAGAAATATT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
28 18 0.35
29 4 0.08
30 14 0.27
31 10 0.20
32 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
TATTATATATTATTAAAATAAAATATTA
Found at i:15414571 original size:32 final size:32
Alignment explanation
Indices: 15414523--15414606 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 32
15414513 ATAATATTTT
* * *
15414523 ATATTATTATAATATAATTGATTATTTTACTA-TA
1 ATATTAATA-AATATAA-T-ATTATATTACTAGAA
*
15414557 ATATTAA-AAATATAATATTATATTATTAGAA
1 ATATTAATAAATATAATATTATATTACTAGAA
15414588 ATATTAATAAATAT-ATATT
1 ATATTAATAAATATAATATT
15414607 TTAAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 10 0.23
31 14 0.32
32 13 0.30
33 1 0.02
34 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (32 bp):
ATATTAATAAATATAATATTATATTACTAGAA
Found at i:15414583 original size:22 final size:23
Alignment explanation
Indices: 15414553--15414596 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
15414543 ATTATTTTAC
15414553 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
15414575 TATATTATTAGAAATATTAATA
1 TATAATATTAAAAATATTAATA
15414597 AATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:15414601 original size:22 final size:22
Alignment explanation
Indices: 15414558--15414630 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
15414548 TTTACTATAA
*
15414558 TATTAAAAATA-TAATATTATAT
1 TATTAAAAATATTAATA-AATAT
*
15414580 TATTAGAAATATTAATAAATAT
1 TATTAAAAATATTAATAAATAT
* * *
15414602 ATATTTTAAATATTTTAATAAATAA
1 -TA--TTAAAAATATTAATAAATAT
15414627 TATT
1 TATT
15414631 TTGATTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
22 16 0.39
23 7 0.17
24 2 0.05
25 16 0.39
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
TATTAAAAATATTAATAAATAT
Found at i:15414606 original size:23 final size:23
Alignment explanation
Indices: 15414557--15414630 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 23
15414547 TTTTACTATA
*
15414557 ATATTAAAAATA-TAAT-ATTAT
1 ATATTAAAAATATTAATAAATAT
*
15414578 ATTATTAGAAATATTAATAAATAT
1 A-TATTAAAAATATTAATAAATAT
* *
15414602 ATATTTTAAATATTTTAATAAATA-
1 ATA--TTAAAAATATTAATAAATAT
15414626 ATATT
1 ATATT
15414631 TTGATTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 12 0.28
23 6 0.14
24 8 0.19
25 16 0.37
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
ATATTAAAAATATTAATAAATAT
Found at i:15414625 original size:25 final size:25
Alignment explanation
Indices: 15414565--15414632 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 25
15414555 TAATATTAAA
15414565 AATATAATATTATATTATTAGAAATATT
1 AATA-AATA-TATATT-TTAGAAATATT
*
15414593 AATAAATATATATTTTA-AATATTTT
1 AATAAATATATATTTTAGAA-ATATT
15414618 AATAAATA-ATATTTT
1 AATAAATATATATTTT
15414633 GATTAAAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 9 0.24
25 15 0.39
26 6 0.16
27 4 0.11
28 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
AATAAATATATATTTTAGAAATATT
Found at i:15426334 original size:64 final size:64
Alignment explanation
Indices: 15426281--15426444 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
15426271 CGGTGCACCA
* *
15426281 AGTGTGCATCGATTCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATACATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
15426345 CTTGTGCATCGATACATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATACATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * * *
15426410 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATACATGAAATGCATTCGATGTTT
15426445 CAATTAATTC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 31 0.37
65 53 0.63
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATACATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:15426433 original size:17 final size:19
Alignment explanation
Indices: 15426395--15426441 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
15426385 ATATTCAGAG
15426395 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
15426414 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
15426431 TGCATTCGATG
1 TGCA-TCGATG
15426442 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:15429362 original size:26 final size:26
Alignment explanation
Indices: 15429333--15429391 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
15429323 ATTCTGAATT
*
15429333 AAATAAAATTTTATTTAATTATTTTG
1 AAATAAAATTTTATTTAATTATTCTG
* *
15429359 AAATCAAATTTTCTTTAATTATTCTG
1 AAATAAAATTTTATTTAATTATTCTG
*
15429385 AATTAAA
1 AAATAAA
15429392 TGTTCATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (26 bp):
AAATAAAATTTTATTTAATTATTCTG
Found at i:15429401 original size:25 final size:26
Alignment explanation
Indices: 15429347--15429401 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
15429337 AAAATTTTAT
* * *
15429347 TTAATTATTTTGAAATCAAATTTTCT
1 TTAATTATTCTGAAATCAAATGTTCA
*
15429373 TTAATTATTCTG-AATTAAATGTTCA
1 TTAATTATTCTGAAATCAAATGTTCA
15429398 TTAA
1 TTAA
15429402 AAAATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (26 bp):
TTAATTATTCTGAAATCAAATGTTCA
Found at i:15431761 original size:90 final size:88
Alignment explanation
Indices: 15431647--15431809 Score: 290
Period size: 90 Copynumber: 1.8 Consensus size: 88
15431637 TCCTGAATAT
*
15431647 TTAATTTCAATTAATTAAATATAGATTTAATTAATGTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATGTGAAATAATAAAA-CCCTAATATGATTAG
15431712 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
*
15431736 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATGTGAAATAATAAAACCCTAATATGATTAG
15431801 GGTAACTTG
65 GGTAACTTG
15431810 ACTATAAAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATGTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:15435215 original size:2 final size:2
Alignment explanation
Indices: 15435208--15435246 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15435198 ATCAATCATT
15435208 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
15435247 CAAATTTGAT
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:15435424 original size:2 final size:2
Alignment explanation
Indices: 15435419--15435452 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15435409 CTTCAAAATC
15435419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15435453 CAAACTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15435868 original size:16 final size:17
Alignment explanation
Indices: 15435837--15435876 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
15435827 TAAACATGTG
15435837 TACTAAAATAAAACAAA
1 TACTAAAATAAAACAAA
15435854 TACTAAAAT-AAACAAA
1 TACTAAAATAAAACAAA
*
15435870 AACTAAA
1 TACTAAA
15435877 CTTTAGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.17
Consensus pattern (17 bp):
TACTAAAATAAAACAAA
Found at i:15439886 original size:22 final size:24
Alignment explanation
Indices: 15439858--15439902 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
15439848 GTAATTTTAA
15439858 TATTTTTAAAAAT-TA-GAAAATT
1 TATTTTTAAAAATATATGAAAATT
*
15439880 TATTTTTAACAATATATGAAAAT
1 TATTTTTAAAAATATATGAAAAT
15439903 CTAGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
TATTTTTAAAAATATATGAAAATT
Found at i:15449087 original size:43 final size:46
Alignment explanation
Indices: 15449026--15449131 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 46
15449016 ATAACTAATA
15449026 AATAAAATAATAACAAACT-AAATA-TGT-CTTAACTCTAATTCCT
1 AATAAAATAATAACAAACTAAAATATTGTACTTAACTCTAATTCCT
* * *
15449069 AATAAAATAATAATAAACTGAAAAAATATTTTAACTTAACTTTAATTCCT
1 AATAAAATAATAACAAACT---AAAATATTGT-ACTTAACTCTAATTCCT
15449119 AATAAAATAATAA
1 AATAAAATAATAA
15449132 ATATAATCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
43 18 0.34
47 5 0.09
48 2 0.04
50 28 0.53
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (46 bp):
AATAAAATAATAACAAACTAAAATATTGTACTTAACTCTAATTCCT
Found at i:15451063 original size:12 final size:13
Alignment explanation
Indices: 15451040--15451077 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
15451030 ATGTTTAGTG
15451040 TTATAATAATATA
1 TTATAATAATATA
*
15451053 TT-TAATTATAT-
1 TTATAATAATATA
15451064 TTATAATAATATA
1 TTATAATAATATA
15451077 T
1 T
15451078 GATATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 2 0.10
12 16 0.76
13 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATAATAATATA
Found at i:15451084 original size:24 final size:24
Alignment explanation
Indices: 15451040--15451087 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15451030 ATGTTTAGTG
*
15451040 TTATAATAATATATTTAATTATAT
1 TTATAATAATATATATAATTATAT
15451064 TTATAATAATATATGAT-ATTATAT
1 TTATAATAATATAT-ATAATTATAT
15451088 CCTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATAATAATATATATAATTATAT
Found at i:15451235 original size:38 final size:38
Alignment explanation
Indices: 15451193--15451293 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 38
15451183 ATTTAATATT
*
15451193 ATAATAATATTTTATTTTTAAAACAATTAATATAATTA
1 ATAATAATATTTTATTTTAAAAACAATTAATATAATTA
* * * *
15451231 ATAATATATTATTTTTATTTAAATAAATAATTGATATAATTT
1 ATAATA-A-TA-TTTTATTTTAA-AAACAATTAATATAATTA
*
15451273 ATAAT--TTTTTTATTTTAAAAA
1 ATAATAATATTTTATTTTAAAAA
15451294 TATAATATCA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
36 3 0.06
37 10 0.19
38 7 0.13
39 1 0.02
40 2 0.04
41 9 0.17
42 20 0.38
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
ATAATAATATTTTATTTTAAAAACAATTAATATAATTA
Found at i:15451339 original size:20 final size:19
Alignment explanation
Indices: 15451316--15451363 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
15451306 GAAATTATTC
15451316 TATTATTTTAAAAATAATAA
1 TATTATTTT-AAAATAATAA
* * *
15451336 TATTTATTTTTAATTAATAT
1 TA-TTATTTTAAAATAATAA
15451356 TATTATTT
1 TATTATTT
15451364 ATTATATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATTTTAAAATAATAA
Found at i:15451353 original size:17 final size:17
Alignment explanation
Indices: 15451333--15451385 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
15451323 TTAAAAATAA
15451333 TAATATTTATT-TTTAAT
1 TAATATTTATTATTT-AT
15451350 TAATA-TTATTATTTAT
1 TAATATTTATTATTTAT
15451366 T-ATATTTGA-TATTTA-
1 TAATATTT-ATTATTTAT
15451381 TAATA
1 TAATA
15451386 AACAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.12
16 19 0.59
17 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATATTTATTATTTAT
Found at i:15451652 original size:18 final size:19
Alignment explanation
Indices: 15451615--15451659 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
15451605 AAAATAATTT
15451615 TTTTAAAAATATATAAATAA
1 TTTT-AAAATATATAAATAA
15451635 TTTTAAAATATA-AAATAA
1 TTTTAAAATATATAAATAA
*
15451653 ATTTAAA
1 TTTTAAA
15451660 TTTTGCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.50
19 8 0.33
20 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTTAAAATATATAAATAA
Found at i:15455685 original size:18 final size:18
Alignment explanation
Indices: 15455664--15455731 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 18
15455654 ACAAACATCT
15455664 TTATCATGATCTCTATCA
1 TTATCATGATCTCTATCA
* *
15455682 TTATCATTATCAACATCAATATTA
1 TTATCATGAT---C-TC--TATCA
15455706 TTATCATGATCTCTATCA
1 TTATCATGATCTCTATCA
*
15455724 CTATCATG
1 TTATCATG
15455732 TATCAACATT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 20 0.51
20 2 0.05
21 2 0.05
22 2 0.05
24 13 0.33
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (18 bp):
TTATCATGATCTCTATCA
Found at i:15455710 original size:42 final size:43
Alignment explanation
Indices: 15455643--15455740 Score: 139
Period size: 42 Copynumber: 2.3 Consensus size: 43
15455633 ACATATACCT
*
15455643 TCATTATCAACA-CAAACATCTTTATCATGATCTCTATCATTA
1 TCATTATCAACATCAAACATCTTTATCATGATCTCTATCACTA
*
15455685 TCATTATCAACATC-AATAT-TATTATCATGATCTCTATCACTA
1 TCATTATCAACATCAAACATCT-TTATCATGATCTCTATCACTA
15455727 TCATGTATCAACAT
1 TCAT-TATCAACAT
15455741 TCTTGTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
41 1 0.02
42 40 0.78
43 10 0.20
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (43 bp):
TCATTATCAACATCAAACATCTTTATCATGATCTCTATCACTA
Found at i:15456037 original size:21 final size:21
Alignment explanation
Indices: 15455989--15456129 Score: 198
Period size: 21 Copynumber: 6.9 Consensus size: 21
15455979 CTGAAATTTG
*
15455989 TCCCGAAGGACCAC--TA-TG
1 TCCCGAAGGACCACTGTATTA
*
15456007 TCCCGTAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTA
15456028 TCCCGAAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTA
* *
15456049 TCCCGAAGAACCACTGTATTG
1 TCCCGAAGGACCACTGTATTA
* *
15456070 TCCCAAAGGACCACTGCATTA
1 TCCCGAAGGACCACTGTATTA
15456091 TCCCGAAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTA
*
15456112 TCCTGAAGGACCACTGTA
1 TCCCGAAGGACCACTGTA
15456130 ACCCTCGACT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
18 13 0.12
20 2 0.02
21 93 0.86
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGACCACTGTATTA
Found at i:15456667 original size:2 final size:2
Alignment explanation
Indices: 15456660--15456684 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15456650 CATTGCTTGT
15456660 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 T
15456685 TCTCATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15462015 original size:56 final size:56
Alignment explanation
Indices: 15461929--15462296 Score: 630
Period size: 56 Copynumber: 6.6 Consensus size: 56
15461919 AAATTCGTAT
* * *
15461929 AATTTCTTAGTTTTTGCACATAAAGTGCCCATATGGAAATTCATCAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
*
15461985 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
*
15462041 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
*
15462097 AATTTCTTAGTTTTTGCACAAAAAGTGCCCATACGGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
15462153 AATTTCTTAGCTTTTGCACACAAAGTG-CCATACGGAAATTCATAAACTCATTACG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* * *
15462208 AATTTCTTTGTTTTTGCACACAAAGTGCTCATACGGAAATTCATAAACACATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
15462264 AATTTCTTAGTTTTTGCACACAAAGTGCCCATA
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATA
15462297 AGGTAATCAC
Statistics
Matches: 295, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 52 0.18
56 243 0.82
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (56 bp):
AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
Found at i:15462664 original size:19 final size:19
Alignment explanation
Indices: 15462637--15462677 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15462627 GTATCGATAC
*
15462637 TACTATATTATGGTACTGA
1 TACTATATTATGGTACCGA
*
15462656 TACTCTATTATGGTACCGA
1 TACTATATTATGGTACCGA
15462675 TAC
1 TAC
15462678 CATTTCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (19 bp):
TACTATATTATGGTACCGA
Found at i:15465821 original size:13 final size:12
Alignment explanation
Indices: 15465803--15465845 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
15465793 CTAATGGGCA
15465803 AATTTTGAAAAC
1 AATTTTGAAAAC
15465815 TAATTTTGAAAAAC
1 -AATTTTG-AAAAC
15465829 AATGTTTGAAAATC
1 AAT-TTTGAAAA-C
15465843 AAT
1 AAT
15465846 ATGTAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (12 bp):
AATTTTGAAAAC
Found at i:15465836 original size:14 final size:13
Alignment explanation
Indices: 15465803--15465845 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
15465793 CTAATGGGCA
15465803 AATTTTG-AAAAC
1 AATTTTGAAAAAC
15465815 TAATTTTGAAAAAC
1 -AATTTTGAAAAAC
*
15465829 AATGTTTGAAAATC
1 AAT-TTTGAAAAAC
15465843 AAT
1 AAT
15465846 ATGTAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (13 bp):
AATTTTGAAAAAC
Found at i:15466360 original size:23 final size:22
Alignment explanation
Indices: 15466329--15466399 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
15466319 TGCAGAGTGT
15466329 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAAGG-ATGC
* * *
15466352 ATCGGTGCACCTTCATA-G-TGT
1 ATCGATGCACATTCA-AGGATGC
*
15466373 ATCGATGCATATTCAAGGGATGC
1 ATCGATGCACATTCAA-GGATGC
15466396 ATCG
1 ATCG
15466400 GTACACTGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 1 0.03
23 20 0.54
24 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGATGC
Found at i:15466387 original size:44 final size:44
Alignment explanation
Indices: 15466324--15466426 Score: 163
Period size: 44 Copynumber: 2.3 Consensus size: 44
15466314 TGCATTGCAG
*
15466324 AGTGTATCGATGCACATTCAAGGAATGCATCGGTGCACCT-TCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGGTACA-CTGTCAT
* *
15466368 AGTGTATCGATGCATATTCAAGGGATGCATCGGTACACTGTCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTGTCAT
15466412 AGTGTATCGATGCAC
1 AGTGTATCGATGCAC
15466427 TGCGCATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 2 0.04
44 52 0.96
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTGTCAT
Found at i:15466427 original size:21 final size:20
Alignment explanation
Indices: 15466304--15466428 Score: 51
Period size: 21 Copynumber: 5.8 Consensus size: 20
15466294 CAACCCGACG
*
15466304 AGTGTATCGATGCATTG-CA
1 AGTGTATCGATGCACTGTCA
15466323 GAGTGTATCGATGCACAT-TCA
1 -AGTGTATCGATGCAC-TGTCA
* *
15466344 AGGAATGCATCGGTGCACCT-TCA
1 A-G--TGTATCGATGCA-CTGTCA
*
15466367 TAGTGTATCGATGCA-TATTCA
1 -AGTGTATCGATGCACT-GTCA
* * *
15466388 AGGGATGCATCGGTACACTGTCA
1 A--G-TGTATCGATGCACTGTCA
15466411 TAGTGTATCGATGCACTG
1 -AGTGTATCGATGCACTG
15466429 CGCATAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 27
0.67 0.10 0.23
Matches are distributed among these distances:
19 1 0.01
20 16 0.20
21 29 0.37
22 2 0.03
23 27 0.34
24 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (20 bp):
AGTGTATCGATGCACTGTCA
Found at i:15474158 original size:56 final size:56
Alignment explanation
Indices: 15474062--15474374 Score: 448
Period size: 56 Copynumber: 5.6 Consensus size: 56
15474052 AAATTTGTAT
* * * *
15474062 AATTTCTTAGTTTTTGCAGATAAAGTGCCCATACAAAAATTCATCAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
* * *
15474118 AATTTCTTAGCTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
* * * * * * *
15474174 AACTTCTTTGTTTTTGCACAAAAAGTGCCCATACGGAAATTAATAAACACATTATA
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
*
15474230 AATTTCTTAGTTTTTGCACACAAAGTGCCTATACGAAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
*
15474286 AATTTCTTAGTTTTTACACACAAAGTGCCCATAC-AAAATTTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAA-TTCATAAACTCATTATG
* *
15474342 AATTACTTAGTTTTTGCACACAAAGTTCCCATA
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATA
15474375 AGGTAATCAC
Statistics
Matches: 228, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 4 0.02
56 224 0.98
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (56 bp):
AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATG
Found at i:15477412 original size:22 final size:22
Alignment explanation
Indices: 15477387--15477435 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
15477377 CAAGCACTAA
*
15477387 AGCCTCAGTTACTATTATCTTT
1 AGCCTCAGTTACTATTATATTT
*
15477409 AGCCTCGGTTACTATTATATTT
1 AGCCTCAGTTACTATTATATTT
15477431 AGCCT
1 AGCCT
15477436 TTCAAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.43
Consensus pattern (22 bp):
AGCCTCAGTTACTATTATATTT
Found at i:15480855 original size:56 final size:56
Alignment explanation
Indices: 15480766--15481300 Score: 851
Period size: 56 Copynumber: 9.6 Consensus size: 56
15480756 AAATTCATAT
* * *
15480766 AATTTATTAGTTTTTGCACATAAAGTGCTCATACGGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
*
15480822 AATTTCTTAATTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
**
15480878 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACATAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
**
15480934 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACACAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* * * *
15480990 AATTTCTTAGTTTTTACACACAAAGTACCCATACGAAAATTCATAAACACATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
15481046 AATTTCTTAGTTTTTGCACACAAAATGCCCATACGGAAATTCATAATCTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
15481102 AATTTCTTAGTTTTTGCACACAAAGTGCCCATGCAGAAATTCATAAACTCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
15481158 AATTTCTTAGTTTTTGCACACAAAGTACCCATACGGAAATTCATAAACT--GTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
15481212 AATTTCTTAGTTTTTGCACACAAAGTGCCCATGA-AGAAATTCATAAACGCATTATG
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCAT-ACGGAAATTCATAAACTCATTATG
*
15481268 AATTTATTAGTTTTTGCACACAAAGTGCCCATA
1 AATTTCTTAGTTTTTGCACACAAAGTGCCCATA
15481301 AGGTATTCAC
Statistics
Matches: 444, Mismatches: 32, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
54 48 0.11
55 2 0.00
56 394 0.89
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (56 bp):
AATTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
Found at i:15484475 original size:123 final size:123
Alignment explanation
Indices: 15484348--15484577 Score: 268
Period size: 123 Copynumber: 1.9 Consensus size: 123
15484338 AACAAAGTAG
* *
15484348 TACTTTAGCGGCATTTATATACAAA-AGCCGCTATAGACTCA-TACTTTATTGGCAATATTATGC
1 TACTTTAGCGGCATTTATATACAAATA-CCGCTATAGACT-AGTACTTTAATGGCAATATTATAC
15484411 AAACGCCGCTATAGACTCA-TAATTTAGTGGCATTTTTATACAAATGCCGCTATAGACTTA
64 AAACGCCGCTATAGACT-AGTAATTTAGTGGCATTTTTATACAAATGCCGCTATAGACTTA
* ** * * *** *
15484471 TACTTTAGTGGTGTTTTTATGCAAATACCGCTATAGACTAGTACTTTAATGGTTTTTTTATACAA
1 TACTTTAGCGGCATTTATATACAAATACCGCTATAGACTAGTACTTTAATGGCAATATTATACAA
** * * *
15484536 ACGTTGCTATAGACTAGTACTTTTGTGGCATTTTTATTCAAA
66 ACGCCGCTATAGACTAGTAATTTAGTGGCATTTTTATACAAA
15484578 CATCAATATA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
122 2 0.02
123 85 0.97
124 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (123 bp):
TACTTTAGCGGCATTTATATACAAATACCGCTATAGACTAGTACTTTAATGGCAATATTATACAA
ACGCCGCTATAGACTAGTAATTTAGTGGCATTTTTATACAAATGCCGCTATAGACTTA
Found at i:15484578 original size:41 final size:40
Alignment explanation
Indices: 15484348--15484639 Score: 235
Period size: 41 Copynumber: 7.1 Consensus size: 40
15484338 AACAAAGTAG
* * *
15484348 TACTTTAGCGGCATTTATATACAAAAGCCGCTATAGACTCA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACT-A
* * * *
15484389 TACTTTATTGGCAATATTATGCAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACT-A
* *
15484430 TAATTTAGTGGCATTTTTATACAAATGCCGCTATAGACTTA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGAC-TA
** * **
15484471 TACTTTAGTGGTGTTTTTATGCAAATACCGCTATAGACTA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTA
* ** **
15484511 GTACTTTAATGGTTTTTTTATACAAACGTTGCTATAGACTA
1 -TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTA
* * ** ** *
15484552 GTACTTTTGTGGCATTTTTATTCAAACATCAATATAAACTA
1 -TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTA
* *
15484593 GTACTTTAGTAGG-GTTTGTGTTTACAAACGCCGCTATAGACTCA
1 -TACTTTAGT-GGCATTT-T-TATACAAACGCCGCTATAGACT-A
15484637 TAC
1 TAC
15484640 GTTTGTGTTT
Statistics
Matches: 201, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.01
41 176 0.88
42 4 0.02
43 18 0.09
44 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (40 bp):
TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTA
Found at i:15486795 original size:21 final size:21
Alignment explanation
Indices: 15486741--15486795 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
15486731 AACTTCTGTG
* *
15486741 CAGTGAGAGAAGAAGAGAGAG
1 CAGTGAGAGAAGCAGAGAGAA
15486762 CAGTGAGAGAAGCAGAGAGAA
1 CAGTGAGAGAAGCAGAGAGAA
15486783 CAGTGAGAGAAGC
1 CAGTGAGAGAAGC
15486796 GACATTTCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.40, T:0.05
Consensus pattern (21 bp):
CAGTGAGAGAAGCAGAGAGAA
Found at i:15488910 original size:52 final size:53
Alignment explanation
Indices: 15488831--15488940 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 53
15488821 CAAGACATTC
* * *
15488831 CCCTTAGTTTTTTCCATTGGGAATTTTAGAATGGTACAAGATGCTCCTCTGAA
1 CCCTTAGTTTTTTCCATTAGGAATTTTAGAATGGTAAAAGATGCTCCCCTGAA
* *
15488884 CCCTTAG-TTTTTCCGTTAGGAATTTTAGAATGGTAAAATATGCTCCCCTGAA
1 CCCTTAGTTTTTTCCATTAGGAATTTTAGAATGGTAAAAGATGCTCCCCTGAA
15488936 CCCTT
1 CCCTT
15488941 CTTCATCAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
52 45 0.87
53 7 0.13
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (53 bp):
CCCTTAGTTTTTTCCATTAGGAATTTTAGAATGGTAAAAGATGCTCCCCTGAA
Found at i:15493559 original size:42 final size:42
Alignment explanation
Indices: 15493500--15493586 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
15493490 CCCTAAATAA
15493500 TCAAATAGAAATTCACGAAATTACCGAGGAAAATTACAAAAG
1 TCAAATAGAAATTCACGAAATTACCGAGGAAAATTACAAAAG
* *
15493542 TCAAATAGAAATTCACGAAATTTCCGATGAAAATTACAAAAG
1 TCAAATAGAAATTCACGAAATTACCGAGGAAAATTACAAAAG
15493584 TCA
1 TCA
15493587 TACAAGCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.22
Consensus pattern (42 bp):
TCAAATAGAAATTCACGAAATTACCGAGGAAAATTACAAAAG
Found at i:15493576 original size:22 final size:22
Alignment explanation
Indices: 15493508--15493576 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
15493498 AATCAAATAG
* *
15493508 AAATTCACGAAATTACCGAGGA
1 AAATTCACGAAATTTCCGATGA
** **
15493530 AAATT-AC-AAAAGTCAAAT-A
1 AAATTCACGAAATTTCCGATGA
15493549 GAAATTCACGAAATTTCCGATGA
1 -AAATTCACGAAATTTCCGATGA
15493572 AAATT
1 AAATT
15493577 ACAAAAGTCA
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 1 0.03
20 10 0.30
21 4 0.12
22 17 0.52
23 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (22 bp):
AAATTCACGAAATTTCCGATGA
Found at i:15494234 original size:3 final size:3
Alignment explanation
Indices: 15494226--15494263 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
15494216 AATTTTAATT
15494226 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
15494264 GTTTATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15494275 original size:22 final size:22
Alignment explanation
Indices: 15494228--15494275 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
15494218 TTTTAATTTT
*
15494228 ATTATTATTATTATTATTATTT
1 ATTATTATTATTATTATTATTA
15494250 ATTATTATTATTATGT-TTATTA
1 ATTATTATTATTAT-TATTATTA
15494272 ATTA
1 ATTA
15494276 CATATTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTATTATTATTATTATTATTA
Found at i:15497863 original size:33 final size:33
Alignment explanation
Indices: 15497783--15497855 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
15497773 TTGGGTAGAT
15497783 AGCATGTCCGGGTAGGATTGTTATTTAATTGAA
1 AGCATGTCCGGGTAGGATTGTTATTTAATTGAA
15497816 AGCATGTCCGGGTAGGATTGTTATTTAATTGAA
1 AGCATGTCCGGGTAGGATTGTTATTTAATTGAA
15497849 AGCATGT
1 AGCATGT
15497856 TTGGGTAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (33 bp):
AGCATGTCCGGGTAGGATTGTTATTTAATTGAA
Found at i:15499219 original size:26 final size:25
Alignment explanation
Indices: 15499190--15499267 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
15499180 AATTTTTGAC
15499190 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
15499216 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
15499236 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
15499262 ATTCTT
1 ATTCTT
15499268 TTCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:15499228 original size:20 final size:20
Alignment explanation
Indices: 15499205--15499279 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
15499195 ATCTCTTTGA
15499205 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
15499225 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
15499251 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
15499271 -ACCTTGAAA
1 GACCTTGAAA
15499280 CACTGTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
19 9 0.20
20 11 0.24
21 4 0.09
22 3 0.07
24 3 0.07
25 4 0.09
26 11 0.24
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Done.