Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_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: 2329927
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1566470 original size:39 final size:37
Alignment explanation
Indices: 1566380--1566574 Score: 143
Period size: 38 Copynumber: 5.2 Consensus size: 37
1566370 TTATTTATTT
* *
1566380 ATTATATATTATAT-AGTTTGCAAATGATTTTTG-AA
1 ATTATATATTATATAATTTTGAAAATGATTTTTGAAA
1566415 ATATATATACTATATATAATTTTGAAAATGATTTTTTGAAA
1 AT-TATATA-T-TATATAATTTTGAAAATGA-TTTTTGAAA
*
1566456 ATGTATATATTATATAA-TTTG-AAATCA-TTTTGAAA
1 AT-TATATATTATATAATTTTGAAAATGATTTTTGAAA
* * * * *
1566491 ACTTATATAATATATAGTTTTTAAAA-AACATTTTGAAA
1 A-TTATATATTATATAATTTTGAAAATGA-TTTTTGAAA
* * * * *
1566529 ACTTATATAATATATGATTTTTAAAA-AACATTTTGAAA
1 A-TTATATATTATATAATTTTGAAAATGA-TTTTTGAAA
1566567 ATTATATA
1 ATTATATA
1566575 ATACATAGTT
Statistics
Matches: 139, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
35 23 0.17
36 11 0.08
37 16 0.12
38 54 0.39
39 18 0.13
40 7 0.05
41 10 0.07
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (37 bp):
ATTATATATTATATAATTTTGAAAATGATTTTTGAAA
Found at i:1566524 original size:75 final size:73
Alignment explanation
Indices: 1566381--1566598 Score: 210
Period size: 75 Copynumber: 2.9 Consensus size: 73
1566371 TATTTATTTA
* * * * **
1566381 TTATATATTATATAGTTTGCAAATGATTTTTG-AAATATATATACTATATATAATTTTGAAAATG
1 TTATATATTATATAATTTG-AAATCA-TTTTGAAAAT-TATATA--ATATATAGTTTTTAAAAAC
1566445 ATTTTTTGAAAA-
61 ATTTTTTGAAAAC
1566457 TGTATATATTATATAATTTGAAATCATTTTGAAAACTTATATAATATATAGTTTTTAAAAAACA-
1 T-TATATATTATATAATTTGAAATCATTTTGAAAA-TTATATAATATATAGTTTTT-AAAAACAT
1566521 -TTTTGAAAAC
63 TTTTTGAAAAC
* * * * *
1566531 TTATATAATATATGATTTTTAAAAAACATTTTGAAAATTATATAATACATAGTTTTTAAAAACAT
1 TTATATATTATAT-A-ATTT-GAAATCATTTTGAAAATTATATAATATATAGTTTTTAAAAACAT
1566596 TTT
63 TTT
1566599 GAAAATATAA
Statistics
Matches: 121, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
73 20 0.17
74 20 0.17
75 32 0.26
76 31 0.26
77 18 0.15
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (73 bp):
TTATATATTATATAATTTGAAATCATTTTGAAAATTATATAATATATAGTTTTTAAAAACATTTT
TTGAAAAC
Found at i:1566530 original size:38 final size:36
Alignment explanation
Indices: 1566448--1566637 Score: 219
Period size: 38 Copynumber: 5.2 Consensus size: 36
1566438 GAAAATGATT
* * * *
1566448 TTTTGAAAATGTATATATTATATA--ATTTGAAATCA
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAACA
1566483 TTTTGAAAACTTATATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTT-AAAAACA
1566521 TTTTGAAAACTTATATAATATAT-GATTTTTAAAAAACA
1 TTTTGAAAA-TTATATAATATATAG-TTTTT-AAAAACA
*
1566559 TTTTGAAAATTATATAATACATAGTTTTTAAAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
* * *
1566595 TTTTGAAAA-TATAAAATATATGGTTTCT-AAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
1566629 TTTTGAAAA
1 TTTTGAAAA
1566638 AAAAATGGTT
Statistics
Matches: 140, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
34 15 0.11
35 36 0.26
36 17 0.12
37 21 0.15
38 51 0.36
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
Found at i:1567563 original size:22 final size:23
Alignment explanation
Indices: 1567531--1567580 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
1567521 TTTTGAATAT
*
1567531 ATAAACGAACATGTTCGCGAACA
1 ATAAACGAACATGTTCACGAACA
1567554 ATAAA-GAACATGTTCACGAACA
1 ATAAACGAACATGTTCACGAACA
1567576 ATAAA
1 ATAAA
1567581 TAAACAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (23 bp):
ATAAACGAACATGTTCACGAACA
Found at i:1574353 original size:23 final size:23
Alignment explanation
Indices: 1574327--1574374 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1574317 ATAAAGTACA
*
1574327 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1574350 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1574373 AT
1 AT
1574375 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1575125 original size:18 final size:18
Alignment explanation
Indices: 1575102--1575138 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1575092 CGAAATATAT
1575102 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1575120 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1575138 A
1 A
1575139 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1575368 original size:23 final size:23
Alignment explanation
Indices: 1575342--1575406 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1575332 ATGCGAGATA
1575342 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
1575365 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
1575388 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
1575407 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:1575789 original size:21 final size:22
Alignment explanation
Indices: 1575764--1575815 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1575754 ACACTTTACA
*
1575764 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1575787 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1575810 ATATAA
1 ATATAA
1575816 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1575800 original size:23 final size:23
Alignment explanation
Indices: 1575774--1575836 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1575764 ATATAACCAC
1575774 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1575797 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1575820 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1575837 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1576144 original size:430 final size:431
Alignment explanation
Indices: 1575344--1576365 Score: 2021
Period size: 430 Copynumber: 2.4 Consensus size: 431
1575334 GCGAGATAGA
1575344 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
1575409 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1575474 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
1575538 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
1575603 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
1575668 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
1575733 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
1575774 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1575839 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1575904 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
1575969 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
1576034 AATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
1576098 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
1576163 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
1576204 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1576269 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
1576334 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
1576366 ACTGCGAATT
Statistics
Matches: 590, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
430 450 0.76
431 140 0.24
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
Found at i:1576219 original size:21 final size:22
Alignment explanation
Indices: 1576194--1576245 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1576184 ACACTTTACA
*
1576194 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1576217 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1576240 ATATAA
1 ATATAA
1576246 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1576230 original size:23 final size:23
Alignment explanation
Indices: 1576204--1576266 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1576194 ATATAACCAC
1576204 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1576227 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1576250 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1576267 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1577246 original size:200 final size:199
Alignment explanation
Indices: 1576806--1578428 Score: 3052
Period size: 199 Copynumber: 8.1 Consensus size: 199
1576796 TTTAAATTTG
* *
1576806 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1576871 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1576936 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1577001 AAAA
196 AAAA
1577005 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1577070 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1577135 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
1577200 AAAAA
195 AAAAA
1577205 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1577270 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1577335 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1577400 AAAA
196 AAAA
1577404 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
1577469 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1577534 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
1577599 AAAAA
195 AAAAA
* *
1577604 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1577669 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1577733 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
1577798 AAAAA
195 AAAAA
1577803 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1577868 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1577933 CGACACTTTTT-TATATGGATCGACACTTTTTGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1577997 AAAA
196 AAAA
1578001 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1578066 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1578131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1578196 AAAA
196 AAAA
1578200 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
1578265 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1578330 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
1578395 AAAAA
195 AAAAA
*
1578400 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1578429 TGACCCTTAA
Statistics
Matches: 1396, Mismatches: 23, Indels: 9
0.98 0.02 0.01
Matches are distributed among these distances:
198 197 0.14
199 718 0.51
200 481 0.34
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:1577544 original size:399 final size:399
Alignment explanation
Indices: 1576806--1578428 Score: 3072
Period size: 399 Copynumber: 4.1 Consensus size: 399
1576796 TTTAAATTTG
*
1576806 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1576871 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1576936 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAA
1577001 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
1577066 TATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
1577131 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
1577196 GAAAAAAAA
391 GAAAAAAAA
*
1577205 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1577270 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1577335 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAA
1577400 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
1577465 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
1577530 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
1577595 GAAAAAAAA
391 GAAAAAAAA
*
1577604 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1577669 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1577733 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAA
1577798 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
1577863 GTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTT
*
1577928 GGGATCGACAC-TTTTT-TATATGGATCGACACTTTTTGGGTGCACCTTGTTTTTAATTCATTCT
325 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
1577991 GGAAAAAAAA
390 GGAAAAAAAA
*
1578001 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1578066 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1578131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAA
1578196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
1578261 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
1578326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
1578391 GAAAAAAAA
391 GAAAAAAAA
*
1578400 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1578429 TGACCCTTAA
Statistics
Matches: 1196, Mismatches: 24, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
397 331 0.28
398 114 0.10
399 751 0.63
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (399 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
GAAAAAAAA
Found at i:1578537 original size:19 final size:19
Alignment explanation
Indices: 1578510--1578554 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1578500 ATTCACATAA
*
1578510 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
1578529 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
1578548 AAAATTA
1 AAAATTA
1578555 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1580382 original size:33 final size:33
Alignment explanation
Indices: 1580345--1580410 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1580335 CATCTTAATA
*
1580345 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1580378 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1580411 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1582555 original size:24 final size:24
Alignment explanation
Indices: 1582518--1582570 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1582508 CCGTTCTATC
1582518 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1582542 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1582566 TATTT
1 TATTT
1582571 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1582909 original size:20 final size:20
Alignment explanation
Indices: 1582883--1582928 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1582873 CACTTTTAAA
1582883 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1582902 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1582923 TTTACC
1 TTTACC
1582929 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1590309 original size:36 final size:36
Alignment explanation
Indices: 1590256--1590505 Score: 383
Period size: 36 Copynumber: 6.9 Consensus size: 36
1590246 TTTGTGATTT
* *
1590256 CATCTACACTTCCGATTCAAGTCGAACGGAAGGAAG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
* *
1590292 CATCGTCACTTCCGATTCAAGTCGAACGGAACGAGG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
* *
1590328 CATTGACACTTCCGATTCAAGTCGAACGGAACGAGG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
*
1590364 CATCGACACTTCTGATTCAAGTCGAACGGAAGGAGG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
* **
1590400 CATCGGCACTTCCGATTCAAGAGGAACGGAAGGAGG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
* *
1590436 CATCGACACTTCCGATTCAAGTCAAACGGAAGGAAG
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
*
1590472 CATCGGCACTTCCGATTCAAGTCGAACGGAAGGA
1 CATCGACACTTCCGATTCAAGTCGAACGGAAGGA
1590506 TGTAGCGCAC
Statistics
Matches: 194, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 194 1.00
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (36 bp):
CATCGACACTTCCGATTCAAGTCGAACGGAAGGAGG
Found at i:1591073 original size:27 final size:27
Alignment explanation
Indices: 1591043--1591096 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1591033 GATTCAAGCA
1591043 CTTCGTAATTCATTCTTTCACAGTTAG
1 CTTCGTAATTCATTCTTTCACAGTTAG
*
1591070 CTTCGTAATTCATTCTTTTACAGTTAG
1 CTTCGTAATTCATTCTTTCACAGTTAG
1591097 TAAACAGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (27 bp):
CTTCGTAATTCATTCTTTCACAGTTAG
Found at i:1594727 original size:20 final size:20
Alignment explanation
Indices: 1594702--1594750 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1594692 TGATTTTCTG
1594702 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
*
1594722 AATTCGCAACACATAAGTCA
1 AATTCGCAACACAGAAGTCA
1594742 AATTCGCAA
1 AATTCGCAA
1594751 AGCGCGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:1595303 original size:19 final size:20
Alignment explanation
Indices: 1595281--1595334 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1595271 AATTCGCAAC
1595281 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTAAGTTTCGCGTT
* *
1595300 GCGATTTTCATTTTCGCGTT
1 GCGATTTTAAGTTTCGCGTT
1595320 GCGATTTTAAGTTTC
1 GCGATTTTAAGTTTC
1595335 AGAAACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
GCGATTTTAAGTTTCGCGTT
Found at i:1596999 original size:21 final size:21
Alignment explanation
Indices: 1596975--1597024 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1596965 GTTAGGGGAG
* *
1596975 TTACGTGATGAGGTCAATGCT
1 TTACGTGAGGAGGTCAATACT
*
1596996 TTACGTGAGGAGGTCAGTACT
1 TTACGTGAGGAGGTCAATACT
1597017 TTACGTGA
1 TTACGTGA
1597025 CGACAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACT
Found at i:1597508 original size:42 final size:42
Alignment explanation
Indices: 1597456--1597548 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
1597446 CTCTCATATA
*
1597456 GTTCAAGAGGCCCCTATCATCCTTCAAGA-GCCCCTTCCCACC
1 GTTCAAGAGGCCCCTATCATCATTCAAGAGGCCCC-TCCCACC
* *
1597498 GTTCAAGAGGCCCCTGTCATCATTCAAGAGGTCCCTCCCACC
1 GTTCAAGAGGCCCCTATCATCATTCAAGAGGCCCCTCCCACC
1597540 GTTCAAGAG
1 GTTCAAGAG
1597549 CCCGATTCAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.22
Consensus pattern (42 bp):
GTTCAAGAGGCCCCTATCATCATTCAAGAGGCCCCTCCCACC
Found at i:1597544 original size:21 final size:21
Alignment explanation
Indices: 1597456--1597548 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
1597446 CTCTCATATA
**
1597456 GTTCAAGAGGCCCCTATCATCC
1 GTTCAAGAGGCCCCTCCCA-CC
1597478 -TTCAAGA-GCCCCTTCCCACC
1 GTTCAAGAGGCCCC-TCCCACC
** *
1597498 GTTCAAGAGGCCCCTGTCATC
1 GTTCAAGAGGCCCCTCCCACC
* *
1597519 ATTCAAGAGGTCCCTCCCACC
1 GTTCAAGAGGCCCCTCCCACC
1597540 GTTCAAGAG
1 GTTCAAGAG
1597549 CCCGATTCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 7 0.12
21 45 0.79
22 5 0.09
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.22
Consensus pattern (21 bp):
GTTCAAGAGGCCCCTCCCACC
Found at i:1599144 original size:29 final size:29
Alignment explanation
Indices: 1599119--1599198 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
1599109 ATTTCGCGTT
*
1599119 TCGAATTTGACTTTCGCAACAATCGCAAC
1 TCGAATTTGACTTTCGCAACAATCGCATC
* *
1599148 GCGAATTTGACTTTCGCAACAATCGCAATG
1 TCGAATTTGACTTTCGCAACAATCGC-ATC
1599178 T-GAATTTGACTTTCGCAACAA
1 TCGAATTTGACTTTCGCAACAA
1599199 AAAATCGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 45 0.98
30 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (29 bp):
TCGAATTTGACTTTCGCAACAATCGCATC
Found at i:1599452 original size:18 final size:18
Alignment explanation
Indices: 1599429--1599464 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1599419 AAGCCGGTTG
1599429 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1599447 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
1599465 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:1601533 original size:31 final size:31
Alignment explanation
Indices: 1601492--1601806 Score: 567
Period size: 31 Copynumber: 10.2 Consensus size: 31
1601482 AGAGTCGAGG
*
1601492 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601523 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601554 ATTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601585 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601616 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601647 GTTTACATATATTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601678 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601709 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601740 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1601771 GTTTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601802 GTTTA
1 GTTTA
1601807 TATTGTGACC
Statistics
Matches: 272, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 272 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:1604148 original size:24 final size:24
Alignment explanation
Indices: 1604121--1604167 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1604111 CAAAATCCGA
1604121 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1604145 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1604168 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1604176 original size:24 final size:24
Alignment explanation
Indices: 1604125--1604176 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1604115 ATCCGAGTAT
** *
1604125 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1604149 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1604173 TGAC
1 TGAC
1604177 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1604309 original size:12 final size:12
Alignment explanation
Indices: 1604288--1604321 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1604278 GGTTGTGGGT
*
1604288 TTTGAGATTGTG
1 TTTGATATTGTG
1604300 TTTGATATTGTG
1 TTTGATATTGTG
*
1604312 TTTGGTATTG
1 TTTGATATTG
1604322 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1605132 original size:20 final size:19
Alignment explanation
Indices: 1605088--1605175 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 19
1605078 CAAAACATTT
*
1605088 GTGTTGCGAAACTAAAA-C
1 GTGTTGCGAAATTAAAATC
*
1605106 TTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
1605126 GTGTTGCGAATTTGAAAATC
1 GTGTTGCGAAATT-AAAATC
* * **
1605146 GAGTTGAGAAAACAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
1605166 GCGTTGCGAA
1 GTGTTGCGAA
1605176 TTCAGAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
18 15 0.27
19 4 0.07
20 32 0.58
21 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:1614829 original size:23 final size:22
Alignment explanation
Indices: 1614798--1614845 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
1614788 AGGTTGAACA
1614798 GTTTATTAAATAGCTATATAAAT
1 GTTTATT-AATAGCTATATAAAT
*
1614821 GTTTGTTAATAGCTATATAAAT
1 GTTTATTAATAGCTATATAAAT
1614843 GTT
1 GTT
1614846 GGTAATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (22 bp):
GTTTATTAATAGCTATATAAAT
Found at i:1623110 original size:64 final size:64
Alignment explanation
Indices: 1622962--1623115 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 64
1622952 GAAGGTGTAT
* * * * *
1622962 CGATGCACAGGTAGTGCATCAATGCA-CTATTTTAAATAAAAACATCGAATGCAATTAATGCAT
1 CGATGCACAAGTAGTGCATCGATGCATCCATTATAAATAAAAACATCGAATGCAATTAATGCAC
* * * * *
1623025 CGATGCATAAGGCA-TGTATCGATGCATCCCATTA-ATAAT-AAAACATCGAATGCATTTTATGC
1 CGATGCACAA-GTAGTGCATCGATGCAT-CCATTATA-AATAAAAACATCGAATGCAATTAATGC
1623087 AC
63 AC
1623089 CGATGCACAAGTAGTGCATCGATGCAT
1 CGATGCACAAGTAGTGCATCGATGCAT
1623116 ACCTTCATTA
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 20 0.27
64 46 0.63
65 7 0.10
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCATCCATTATAAATAAAAACATCGAATGCAATTAATGCAC
Found at i:1623862 original size:19 final size:19
Alignment explanation
Indices: 1623838--1623895 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
1623828 ATTGAAATAC
1623838 AAAGTAAAGTGAAAGTGGT
1 AAAGTAAAGTGAAAGTGGT
1623857 AAAGTAAAGTGAAAGTGGT
1 AAAGTAAAGTGAAAGTGGT
1623876 AAAGTAAAGTGAAAGTGGT
1 AAAGTAAAGTGAAAGTGGT
1623895 A
1 A
1623896 CAAGAAGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (19 bp):
AAAGTAAAGTGAAAGTGGT
Found at i:1627176 original size:31 final size:31
Alignment explanation
Indices: 1627141--1627200 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1627131 AAGAGTTTGA
1627141 GAGTTCCTAGTGAAAAGGACATATTGAATGG
1 GAGTTCCTAGTGAAAAGGACATATTGAATGG
**
1627172 GAGTTCCTAGTGAGTAGGACATATTGAAT
1 GAGTTCCTAGTGAAAAGGACATATTGAAT
1627201 TCACCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (31 bp):
GAGTTCCTAGTGAAAAGGACATATTGAATGG
Found at i:1631311 original size:17 final size:17
Alignment explanation
Indices: 1631289--1631321 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1631279 CTCAATTATA
*
1631289 ATTAATTTTAATAAATG
1 ATTAATTTTAAAAAATG
1631306 ATTAATTTTAAAAAAT
1 ATTAATTTTAAAAAAT
1631322 TCCTTACACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTAATTTTAAAAAATG
Found at i:1632527 original size:24 final size:24
Alignment explanation
Indices: 1632499--1632558 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
1632489 ATGGAATGGT
1632499 TTTATATATTTTTACAAGTTAAA-A
1 TTTATATATTTTT-CAAGTTAAATA
* *
1632523 TTTATAATTATTTTTTAATTTAAATA
1 TTTAT-A-TATTTTTCAAGTTAAATA
1632549 TTT-TATATTT
1 TTTATATATTT
1632559 ACTTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 5 0.16
24 6 0.19
25 9 0.29
26 11 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATATATTTTTCAAGTTAAATA
Found at i:1646996 original size:20 final size:22
Alignment explanation
Indices: 1646963--1647010 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
1646953 AGGGAATTGA
*
1646963 TCCCCCCATGA-GGGAACCGAT
1 TCCCCCCATCAGGGGAACCGAT
*
1646984 TCCCCCCA-CAGGGGAATCGAT
1 TCCCCCCATCAGGGGAACCGAT
*
1647005 ACCCCC
1 TCCCCC
1647011 TTGGGGTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.44, G:0.21, T:0.12
Consensus pattern (22 bp):
TCCCCCCATCAGGGGAACCGAT
Found at i:1647407 original size:25 final size:25
Alignment explanation
Indices: 1647374--1647423 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1647364 AATTTTCCAC
1647374 AAAAAAATT-TAAATTTTCGAAATTA
1 AAAAAAATTGTAAATTTTC-AAATTA
*
1647399 AAAAAAATTGTTAATTTTCAAATTA
1 AAAAAAATTGTAAATTTTCAAATTA
1647424 TTGTGTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
AAAAAAATTGTAAATTTTCAAATTA
Found at i:1667951 original size:59 final size:60
Alignment explanation
Indices: 1667812--1667999 Score: 168
Period size: 59 Copynumber: 3.2 Consensus size: 60
1667802 ACATCATATG
* * * * ** * *
1667812 TCCCCAAACTATAACTCTCATTTTAAATTGGTATTTAAACTTTTGAATATTCTAATTTCA
1 TCCCCAAACTATGACTCTTATTCTAAATTAGTCCTTAAAATTTTGAACATTCTAATTTCA
* ** *
1667872 TCCCTAATTTATGACTCTTATTCTAAATTAGTCCTTAAAATTTTGAACATTC-CATTTCA
1 TCCCCAAACTATGACTCTTATTCTAAATTAGTCCTTAAAATTTTGAACATTCTAATTTCA
* * * * * *
1667931 TCCCCAAACTATGA-TCCTTATTCTAGATTGGTCCTCAAACTTCTGAA-ACTTCTAATTTTA
1 TCCCCAAACTATGACT-CTTATTCTAAATTAGTCCTTAAAATTTTGAACA-TTCTAATTTCA
1667991 T-CCCAAACT
1 TCCCCAAACT
1668000 TCATCCAAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
58 2 0.02
59 54 0.52
60 47 0.46
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (60 bp):
TCCCCAAACTATGACTCTTATTCTAAATTAGTCCTTAAAATTTTGAACATTCTAATTTCA
Found at i:1668227 original size:60 final size:60
Alignment explanation
Indices: 1668120--1668234 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
1668110 GTATAAACAT
* * *
1668120 ATAGTTTGGGATGAAATTGAAATGATCAAAACGTTTGAGGATCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATAAAATTGAAATGATCAAAACGTTTAAGGATCAATTTAAAATGAAGGTC
** * *
1668180 ATAGTTTGGGGATAAAATTGAAAT-ATTTGAAA-GTTTAAGTATTAATTTAAAATGA
1 ATAGTTT-GGGATAAAATTGAAATGA-TCAAAACGTTTAAGGATCAATTTAAAATGA
1668235 TAATCATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 27 0.59
61 19 0.41
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (60 bp):
ATAGTTTGGGATAAAATTGAAATGATCAAAACGTTTAAGGATCAATTTAAAATGAAGGTC
Found at i:1669574 original size:8 final size:8
Alignment explanation
Indices: 1669561--1669585 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1669551 CAAAATTTAA
1669561 CTTAATCT
1 CTTAATCT
1669569 CTTAATCT
1 CTTAATCT
1669577 CTTAATCT
1 CTTAATCT
1669585 C
1 C
1669586 ACTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (8 bp):
CTTAATCT
Found at i:1670240 original size:27 final size:27
Alignment explanation
Indices: 1670183--1670235 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1670173 TGATGAGTCC
* *
1670183 ATATTTATCGCTAATATTTTTTATAAA
1 ATATTTATCGCTAATATTATATATAAA
*
1670210 ATATTTATCTCTAATATATATATATA
1 ATATTTATCGCTAATAT-TATATATA
1670236 TATATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATTTATCGCTAATATTATATATAAA
Found at i:1672881 original size:2 final size:2
Alignment explanation
Indices: 1672874--1672899 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1672864 TATAAATTGT
1672874 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1672900 ATCAAAGTCC
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):
TA
Found at i:1678358 original size:27 final size:29
Alignment explanation
Indices: 1678328--1678382 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
1678318 TTTTTATTAT
*
1678328 ATATAAAATTATGTT-T-ATTCTTTTAAA
1 ATATAAAATAATGTTATAATTCTTTTAAA
* *
1678355 ATATGAAATAATTTTATAATTCTTTTAA
1 ATATAAAATAATGTTATAATTCTTTTAA
1678383 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.52
28 1 0.04
29 10 0.43
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATAAAATAATGTTATAATTCTTTTAAA
Found at i:1678475 original size:2 final size:2
Alignment explanation
Indices: 1678468--1678505 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1678458 TAGAAACTTA
1678468 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
1678506 TAAAAAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1678565 original size:2 final size:2
Alignment explanation
Indices: 1678560--1678601 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1678550 AAAGTGTGTG
1678560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1678602 AAAGATTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1687448 original size:63 final size:64
Alignment explanation
Indices: 1687370--1687491 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 64
1687360 CTCTAATTTT
* * *
1687370 TTTTTTGAGTTTTTTTAAATTTTAAATAAAAATCTCTATCCTTGTGGTACGTTTTTCTCTTCTA
1 TTTTTTGAGTATTTTTAAATTTTAAATAAAAATCTCTATCCTTGTGGCACATTTTTCTCTTCTA
* * * *
1687434 TTTTTTGAG-ATTTTTGAATTTTAGATAATAATCTCTATTCTTGTGGCACATTTTTCTC
1 TTTTTTGAGTATTTTTAAATTTTAAATAAAAATCTCTATCCTTGTGGCACATTTTTCTC
1687492 CGCACATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 42 0.82
64 9 0.18
ACGTcount: A:0.23, C:0.12, G:0.11, T:0.54
Consensus pattern (64 bp):
TTTTTTGAGTATTTTTAAATTTTAAATAAAAATCTCTATCCTTGTGGCACATTTTTCTCTTCTA
Found at i:1687506 original size:63 final size:63
Alignment explanation
Indices: 1687381--1687528 Score: 172
Period size: 63 Copynumber: 2.3 Consensus size: 63
1687371 TTTTTGAGTT
* * * ** * *
1687381 TTTTTAAATTTTAAATAAAAATCTCTATCCTTGTGGTACGTTTTTCTCTTCTATTTTTTGAGA
1 TTTTTAAATTTTAAATAATAATCTCTATCCTTGTGGCACATTTTTCTCCGCTAATTTATGAGA
* * *
1687444 TTTTTGAATTTTAGATAATAATCTCTATTCTTGTGGCACATTTTTCTCCGC-ACATTTATGAGA
1 TTTTTAAATTTTAAATAATAATCTCTATCCTTGTGGCACATTTTTCTCCGCTA-ATTTATGAGA
* *
1687507 ATTTTCAATTTTAAATAATAAT
1 TTTTTAAATTTTAAATAATAAT
1687529 ATATGTCATT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 1 0.01
63 70 0.99
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (63 bp):
TTTTTAAATTTTAAATAATAATCTCTATCCTTGTGGCACATTTTTCTCCGCTAATTTATGAGA
Found at i:1690352 original size:17 final size:16
Alignment explanation
Indices: 1690326--1690361 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1690316 TTTGGAAAGA
1690326 AATGAAAGTTATTTGAT
1 AATGAAAGTTATTTG-T
*
1690343 AATGATAGTTATTTGT
1 AATGAAAGTTATTTGT
1690359 AAT
1 AAT
1690362 TATATTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (16 bp):
AATGAAAGTTATTTGT
Found at i:1690378 original size:11 final size:11
Alignment explanation
Indices: 1690352--1690384 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
1690342 TAATGATAGT
1690352 TATTTGTAATTA
1 TATTTGTAA-TA
1690364 TATTTGTAATA
1 TATTTGTAATA
1690375 TATTTG-AATA
1 TATTTGTAATA
1690385 GTTGTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 8 0.38
12 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (11 bp):
TATTTGTAATA
Found at i:1692919 original size:2 final size:2
Alignment explanation
Indices: 1692912--1692945 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1692902 TTATCTATAC
1692912 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1692946 TACTTTGTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1715318 original size:6 final size:6
Alignment explanation
Indices: 1715307--1715337 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1715297 ACGGCTCGGC
1715307 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1715338 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1716510 original size:13 final size:13
Alignment explanation
Indices: 1716472--1716513 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1716462 TTTAAAATTT
*
1716472 ATAATAATTAATG
1 ATAATAATTAATC
* *
1716485 ATCA-AACTAATC
1 ATAATAATTAATC
1716497 ATAATAATTAATC
1 ATAATAATTAATC
1716510 ATAA
1 ATAA
1716514 AGCACGAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATTAATC
Found at i:1732003 original size:62 final size:62
Alignment explanation
Indices: 1731897--1732021 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
1731887 TAAGTGTATT
1731897 ACATGACAGTTCTCCAAAGATAATGACATAAAATTATGAATTCACTCTCCACAACCATTCCC
1 ACATGACAGTTCTCCAAAGATAATGACATAAAATTATGAATTCACTCTCCACAACCATTCCC
* **
1731959 ACATGGCAGTTCTCCAAAGATAATGACATAAAACTT-TGGCTTCACTCTCCACAACCATTCCC
1 ACATGACAGTTCTCCAAAGATAATGACATAAAA-TTATGAATTCACTCTCCACAACCATTCCC
1732021 A
1 A
1732022 TGCCTCGTAC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 57 0.97
63 2 0.03
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.26
Consensus pattern (62 bp):
ACATGACAGTTCTCCAAAGATAATGACATAAAATTATGAATTCACTCTCCACAACCATTCCC
Found at i:1740202 original size:15 final size:16
Alignment explanation
Indices: 1740174--1740205 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1740164 AAAATCTTTC
1740174 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
1740190 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
1740205 T
1 T
1740206 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:1740980 original size:16 final size:16
Alignment explanation
Indices: 1740956--1740987 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1740946 TATCGCCGAC
*
1740956 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1740972 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1740988 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1744117 original size:30 final size:30
Alignment explanation
Indices: 1744062--1744179 Score: 83
Period size: 31 Copynumber: 3.9 Consensus size: 30
1744052 ACATTGTTTG
** *
1744062 CATTTTAATCACTCATGTTAGATTTTCTTC
1 CATTTTAATCACTCACATTAAATTTTCTTC
* *
1744092 CATTTTAATCACTCGCATTAAATTTTCTTTA
1 CATTTTAATCACTCACATTAAATTTTC-TTC
* ** * * * *
1744123 TATTTTAATCAGACACCTTAGATTTTGTTGT
1 CATTTTAATCACTCACATTAAATTTTCTT-C
* * *
1744154 CATTTTAGTCACTCACTTTAGATTTT
1 CATTTTAATCACTCACATTAAATTTT
1744180 ATTGTTGTTT
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
30 25 0.37
31 43 0.63
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (30 bp):
CATTTTAATCACTCACATTAAATTTTCTTC
Found at i:1747041 original size:14 final size:14
Alignment explanation
Indices: 1747021--1747114 Score: 87
Period size: 14 Copynumber: 7.3 Consensus size: 14
1747011 CGTTCGTGAA
1747021 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
1747035 TGTTCGGTTATG-T
1 CGTTCGGTTATGTT
*
1747048 --TT-GTTTATGTT
1 CGTTCGGTTATGTT
1747059 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
1747073 CGTTTGGTTATG-T
1 CGTTCGGTTATGTT
*
1747086 --TT-GTTTATGTT
1 CGTTCGGTTATGTT
*
1747097 CGTTCGGTTATGTC
1 CGTTCGGTTATGTT
1747111 CGTT
1 CGTT
1747115 TATGTTCGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
10 12 0.18
11 6 0.09
13 6 0.09
14 41 0.63
ACGTcount: A:0.07, C:0.11, G:0.27, T:0.55
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:1747055 original size:24 final size:24
Alignment explanation
Indices: 1747022--1747077 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
1747012 GTTCGTGAAC
* *
1747022 GTTCGGTTATGTTTGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
1747046 GTTTGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
1747070 GTTCGTTT
1 GTTCGTTT
1747078 GGTTATGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.07, C:0.09, G:0.27, T:0.57
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:1747115 original size:38 final size:38
Alignment explanation
Indices: 1747021--1747115 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
1747011 CGTTCGTGAA
* *
1747021 CGTTCGGTTATGTTTGTTCGGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTCGTTTGGTTATGTTTGTTTATGTT
1747059 CGTTCGGTTATGTTCGTTTGGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTCGTTTGGTTATGTTTGTTTATGTT
*
1747097 CGTTCGGTTATGTCCGTTT
1 CGTTCGGTTATGTTCGTTT
1747116 ATGTTCGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.56
Consensus pattern (38 bp):
CGTTCGGTTATGTTCGTTTGGTTATGTTTGTTTATGTT
Found at i:1747131 original size:24 final size:24
Alignment explanation
Indices: 1747066--1747125 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
1747056 GTTCGTTCGG
**
1747066 TTATGTTCGTTTGGTTATGTTTGT
1 TTATGTTCGTTTGGTTATGTCCGT
*
1747090 TTATGTTCGTTCGGTTATGTCCGT
1 TTATGTTCGTTTGGTTATGTCCGT
1747114 TTATGTTCGTTT
1 TTATGTTCGTTT
1747126 ATTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.08, C:0.10, G:0.23, T:0.58
Consensus pattern (24 bp):
TTATGTTCGTTTGGTTATGTCCGT
Found at i:1747494 original size:10 final size:10
Alignment explanation
Indices: 1747479--1747552 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
1747469 GGTCTCCAAT
1747479 GTTTATGTTC
1 GTTTATGTTC
1747489 GTTTATGTTC
1 GTTTATGTTC
*
1747499 GTGTTCAT-TTAT
1 GT-TT-ATGTT-C
*
1747511 GTTCATGTTC
1 GTTTATGTTC
1747521 GTTTATGTTC
1 GTTTATGTTC
1747531 G----TGTTC
1 GTTTATGTTC
1747537 GTTTATGTTC
1 GTTTATGTTC
1747547 GTTTAT
1 GTTTAT
1747553 TTATTAAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
6 6 0.12
10 35 0.67
11 7 0.13
12 4 0.08
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.58
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:1747503 original size:16 final size:16
Alignment explanation
Indices: 1747484--1747548 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
1747474 CCAATGTTTA
1747484 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
1747500 TGTTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
1747516 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1747532 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1747548 T
1 T
1747549 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1755398 original size:30 final size:30
Alignment explanation
Indices: 1755377--1755466 Score: 155
Period size: 30 Copynumber: 3.0 Consensus size: 30
1755367 AATGTCCCGA
1755377 AGAACTATCCAGAGGTCATAAAGATCCTCG
1 AGAACTATCCAGAGGTCATAAAGATCCTCG
1755407 -GTAACTATCCAGAGGTCATAAAGATCCTCG
1 AG-AACTATCCAGAGGTCATAAAGATCCTCG
*
1755437 ATAACTATCCAGAGGTCATAAAGATCCTCG
1 AGAACTATCCAGAGGTCATAAAGATCCTCG
1755467 GTAAACTGTC
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
29 1 0.02
30 56 0.98
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (30 bp):
AGAACTATCCAGAGGTCATAAAGATCCTCG
Found at i:1755526 original size:31 final size:30
Alignment explanation
Indices: 1755466--1755530 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
1755456 AAAGATCCTC
* **
1755466 GGTAAACTGTCATATGTTTCTTAGAACATA
1 GGTAAACTGTCATATGTCTCAAAGAACATA
1755496 GGTAAACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGT-CATATGTCTC-AAAGAACATA
1755527 GGTA
1 GGTA
1755531 CACCCTCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 10 0.33
31 18 0.60
32 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (30 bp):
GGTAAACTGTCATATGTCTCAAAGAACATA
Found at i:1756778 original size:20 final size:22
Alignment explanation
Indices: 1756753--1756810 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
1756743 TTCCCCTTGA
1756753 AGTGCATCGATGCATGC-T-AC
1 AGTGCATCGATGCATGCTTAAC
* *
1756773 AGTGCATCGACGCATTCTTTAAC
1 AGTGCATCGATGCATGC-TTAAC
1756796 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1756811 CTCCCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (22 bp):
AGTGCATCGATGCATGCTTAAC
Found at i:1756876 original size:64 final size:63
Alignment explanation
Indices: 1756798--1756935 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
1756788 TCTTTAACAT
* *
1756798 GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
** * * * * *
1756861 GATGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
1756925 GTGCATCGATG
1 GTGCATCGATG
1756936 AACATTGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 16 0.25
64 48 0.75
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:1760080 original size:30 final size:30
Alignment explanation
Indices: 1760046--1760135 Score: 162
Period size: 30 Copynumber: 3.0 Consensus size: 30
1760036 CCCGAAGGAC
1760046 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1760076 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1 CTATCCAGAGGTCATAAAAATCCTCGGTAA
* *
1760106 CTATCCAGATGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1760136 ATTGTCCATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAAATCCTCGGTAA
Found at i:1760192 original size:31 final size:31
Alignment explanation
Indices: 1760131--1760199 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1760121 AAAGATCCTC
* **
1760131 GGTAAATTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCAAAGAACATA
*
1760162 GGTAAACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCAAAGAACATA
1760193 GGTAAAC
1 GGTAAAC
1760200 CCTCGACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCAAAGAACATA
Found at i:1761447 original size:20 final size:22
Alignment explanation
Indices: 1761422--1761478 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 22
1761412 TTCCCCTTGA
1761422 AGTGCATCGATGCATGC-T-AC
1 AGTGCATCGATGCATGCTTAAC
*
1761442 AGTGCATCGATGCATTCTTAAC
1 AGTGCATCGATGCATGCTTAAC
1761464 ACGTGCATCGATGCA
1 A-GTGCATCGATGCA
1761479 CTCCCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 16 0.48
21 1 0.03
22 3 0.09
23 13 0.39
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (22 bp):
AGTGCATCGATGCATGCTTAAC
Found at i:1761539 original size:64 final size:63
Alignment explanation
Indices: 1761466--1761606 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
1761456 TTCTTAACAC
* *
1761466 GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
** * * * * * *
1761529 GATGCATCGATGCACTCCTTATGCATTGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
1761593 GTGCATCGATGCAC
1 GTGCATCGATGCAC
1761607 ATTGCACATT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 19 0.29
64 47 0.71
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:1767320 original size:17 final size:17
Alignment explanation
Indices: 1767300--1767333 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1767290 GAAAGTCAAC
1767300 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1767317 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1767334 AGTCGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:1767373 original size:19 final size:19
Alignment explanation
Indices: 1767349--1767406 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
1767339 GTCGGTCGGG
1767349 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
1767368 TCAGACCGATCAAACCGGT
1 TCAGACCGGTCAAACCGGT
1767387 TC-GAACCGGTCGAAACCGGT
1 TCAG-ACCGGTC-AAACCGGT
1767407 CAAACAGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 1 0.03
19 26 0.74
20 8 0.23
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:1767407 original size:10 final size:9
Alignment explanation
Indices: 1767347--1767411 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
1767337 CGGTCGGTCG
*
1767347 GGTCAGACC
1 GGTCAAACC
1767356 GGTCAAACC
1 GGTCAAACC
*
1767365 GGTTCAGACC
1 GG-TCAAACC
*
1767375 GATCAAACC
1 GGTCAAACC
*
1767384 GGTTCGAACC
1 GG-TCAAACC
1767394 GGTCGAAACC
1 GGTC-AAACC
1767404 GGTCAAAC
1 GGTCAAAC
1767412 AGAACCGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 23 0.50
10 23 0.50
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1774141 original size:22 final size:22
Alignment explanation
Indices: 1774116--1774160 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1774106 GAAAGTCAAC
*
1774116 GGTCAACGGTCGGGTCGGTTCG
1 GGTCAACGGTCGGGTCGGGTCG
1774138 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
1774160 G
1 G
1774161 TCGGTCGATC
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:0.09, C:0.22, G:0.49, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1774196 original size:19 final size:19
Alignment explanation
Indices: 1774168--1774213 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1774158 CGGTCGGTCG
*
1774168 ATCGGGTCAGACCAGTCAA
1 ATCGGTTCAGACCAGTCAA
* *
1774187 ATCGGTTCAGACCGGTTAA
1 ATCGGTTCAGACCAGTCAA
*
1774206 ACCGGTTC
1 ATCGGTTC
1774214 GAATCGGTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (19 bp):
ATCGGTTCAGACCAGTCAA
Found at i:1774211 original size:9 final size:9
Alignment explanation
Indices: 1774197--1774262 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 9
1774187 ATCGGTTCAG
1774197 ACCGGTTAA
1 ACCGGTTAA
*
1774206 ACCGGTTCGA
1 ACCGGTT-AA
* *
1774216 ATCGGTCGAA
1 ACCGGT-TAA
*
1774226 ACCGGTCAGA
1 ACCGGTTA-A
1774236 ACCGGTTGAAA
1 ACCGGTT--AA
1774247 ACCGGTTAA
1 ACCGGTTAA
1774256 ACCGGTT
1 ACCGGTT
1774263 TCCAGCAGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 17 0.38
10 19 0.42
11 8 0.18
12 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:1774229 original size:20 final size:22
Alignment explanation
Indices: 1774189--1774261 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 22
1774179 CCAGTCAAAT
*
1774189 CGGTTCAG-ACCGGT--TAAAC
1 CGGTTCAGAACCGGTCGAAAAC
*
1774208 CGGTTC-GAATCGGTCG-AAAC
1 CGGTTCAGAACCGGTCGAAAAC
*
1774228 CGG-TCAGAACCGGTTGAAAAC
1 CGGTTCAGAACCGGTCGAAAAC
1774249 CGGTT-A-AACCGGT
1 CGGTTCAGAACCGGT
1774262 TTCCAGCAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.02
19 13 0.29
20 22 0.49
21 8 0.18
22 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (22 bp):
CGGTTCAGAACCGGTCGAAAAC
Found at i:1784378 original size:20 final size:20
Alignment explanation
Indices: 1784353--1784407 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1784343 TTATTCCATA
1784353 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
1784373 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
* *
1784393 ATAATCTTTCATTCC
1 GTAATCTTACATTCC
1784408 GTGAACCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.38
Consensus pattern (20 bp):
GTAATCTTACATTCCCACTG
Found at i:1795035 original size:32 final size:33
Alignment explanation
Indices: 1794967--1795036 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
1794957 ACTTAAGGTA
* *
1794967 TATTTTATTATATTTAATACTTTATTTGTATTT
1 TATTTAATTATATTTAATACTTTATTTGAATTT
*
1795000 TATTTAATTAT-TTTAATATTTTATTT-AATTAT
1 TATTTAATTATATTTAATACTTTATTTGAATT-T
1795032 TATTT
1 TATTT
1795037 TTTTGCAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 3 0.09
32 20 0.61
33 10 0.30
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (33 bp):
TATTTAATTATATTTAATACTTTATTTGAATTT
Found at i:1797065 original size:3 final size:3
Alignment explanation
Indices: 1797057--1797081 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1797047 TTTGCTCCTA
1797057 ACG ACG ACG ACG ACG ACG ACG ACG A
1 ACG ACG ACG ACG ACG ACG ACG ACG A
1797082 TGACAGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
ACG
Found at i:1800715 original size:21 final size:22
Alignment explanation
Indices: 1800656--1800718 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
1800646 ACACAAAAAT
*
1800656 TAATTG-AAAACAATTAGTATAA
1 TAATTGTAAAAAAATTA-TATAA
* * *
1800678 TATATTTTCAAATAATTATAT-A
1 TA-ATTGTAAAAAAATTATATAA
1800700 TAATTGTAAAAAAATTATA
1 TAATTGTAAAAAAATTATA
1800719 ACAAAATTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 14 0.42
22 5 0.15
23 6 0.18
24 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAATTGTAAAAAAATTATATAA
Found at i:1801017 original size:51 final size:50
Alignment explanation
Indices: 1800901--1801017 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 50
1800891 ATTATACAAG
* *
1800901 GCGCGACCCATGCACCGTGCCTTACATAATTGTATCAGAGTTAAAGCAAAT
1 GCGCGACCC-TGCACCGCGCCTTACATAATTGTATCAGACTTAAAGCAAAT
* *
1800952 GTGCGATCCCTGCACCGCGCCTTACATAATTGTCTCAGACTTAAAGCAAA-
1 GCGCGA-CCCTGCACCGCGCCTTACATAATTGTATCAGACTTAAAGCAAAT
1801002 GACGCGACCCTTGCAC
1 G-CGCGACCC-TGCAC
1801018 TGCACTATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
50 4 0.07
51 51 0.88
52 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (50 bp):
GCGCGACCCTGCACCGCGCCTTACATAATTGTATCAGACTTAAAGCAAAT
Found at i:1807424 original size:41 final size:39
Alignment explanation
Indices: 1807349--1807464 Score: 157
Period size: 41 Copynumber: 3.0 Consensus size: 39
1807339 AAATATTTTT
* *
1807349 CTAAACCTACCAATTTTTTATTAAAGCACTAAAAGATTA
1 CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
*
1807388 CTAAACCTACCAATTTTTTTTACTAAAACACCAAAAGATTA
1 CTAAACCTACCAA--TTTTTTATTAAAACACCAAAAGATTA
*
1807429 CTAAACC-ACCCA-TTTTTATTAAAACA-CAAAAGATTA
1 CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
1807465 ATGTAATGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
36 10 0.14
37 13 0.19
39 13 0.19
40 4 0.06
41 30 0.43
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
CTAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
Found at i:1810000 original size:23 final size:22
Alignment explanation
Indices: 1809974--1810016 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1809964 TATAAAAAAT
1809974 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
1809997 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
1810017 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:1811791 original size:23 final size:23
Alignment explanation
Indices: 1811765--1811821 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
1811755 AAATCAAGAG
1811765 GTGTCACGTGTCAATAAATTATT
1 GTGTCACGTGTCAATAAATTATT
1811788 GTGTCACGTGTCAATAAATTATT
1 GTGTCACGTGTCAATAAATTATT
*
1811811 GTGGCACGTGT
1 GTGTCACGTGT
1811822 TACCACTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (23 bp):
GTGTCACGTGTCAATAAATTATT
Found at i:1812221 original size:2 final size:2
Alignment explanation
Indices: 1812214--1812262 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1812204 TAACTGTACT
1812214 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1812256 TA -A TA TA
1 TA TA TA TA
1812263 GTTTATTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1818339 original size:23 final size:23
Alignment explanation
Indices: 1818322--1818383 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
1818312 AATAACATAC
1818322 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
1818345 TAGGCAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
1818368 TAGGTAGCGCTTATAT
1 TAGGTAGCGCTTATAT
1818384 TTACATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:1818827 original size:21 final size:22
Alignment explanation
Indices: 1818802--1818853 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1818792 ATACTTTACA
*
1818802 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1818825 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1818848 ATATAA
1 ATATAA
1818854 GCGCTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1818838 original size:23 final size:23
Alignment explanation
Indices: 1818812--1818874 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1818802 ATATAACCAC
1818812 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1818835 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
1818858 TACATATTACATCATAT
1 TACCTATTACATTATAT
1818875 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1819347 original size:39 final size:39
Alignment explanation
Indices: 1819293--1819377 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
1819283 TCAAGTTGTA
* *
1819293 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1819332 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1819371 GACTTTG
1 GA-TTTG
1819378 ATGAGCATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.46
Consensus pattern (39 bp):
GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1819665 original size:12 final size:12
Alignment explanation
Indices: 1819650--1819688 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1819640 ATATATATTG
* *
1819650 AAATTCAAACTC
1 AAATTGAAATTC
1819662 AAATTGAAATTC
1 AAATTGAAATTC
1819674 AAATTGAAATTC
1 AAATTGAAATTC
1819686 AAA
1 AAA
1819689 CTCCAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTGAAATTC
Found at i:1819671 original size:6 final size:6
Alignment explanation
Indices: 1819650--1819688 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1819640 ATATATATTG
* * *
1819650 AAATTC AAACTC AAATTG AAATTC AAATTG AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAA
1819689 CTCCAATTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (6 bp):
AAATTC
Found at i:1820109 original size:25 final size:25
Alignment explanation
Indices: 1820075--1820124 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1820065 ATTATTTTTC
* *
1820075 CAAATAATGTACTCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1820100 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1820125 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1820422 original size:21 final size:22
Alignment explanation
Indices: 1820397--1820448 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1820387 ATACTTTACA
*
1820397 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1820420 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1820443 ATATAA
1 ATATAA
1820449 GCGCTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1820433 original size:23 final size:23
Alignment explanation
Indices: 1820407--1820469 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1820397 ATATAACCAC
1820407 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1820430 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
1820453 TACATATTACATCATAT
1 TACCTATTACATTATAT
1820470 TTTACCTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1820811 original size:25 final size:25
Alignment explanation
Indices: 1820754--1820819 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
1820744 CACTCAAAAG
* *
1820754 ATGTATATACCTAGATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1820779 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1820804 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
1820820 TTAATGATAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1823798 original size:183 final size:182
Alignment explanation
Indices: 1823273--1823765 Score: 871
Period size: 183 Copynumber: 2.7 Consensus size: 182
1823263 TTAAAATTAC
*
1823273 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
1823338 ATTAGAAAATGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGGTT
66 ATTA-AAAATGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * *
1823403 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTTCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
1823456 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1823521 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAA-TGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
1823586 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
1823639 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
1823703 TATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACTGGTATATTTATACCG
65 TATTAAAAA-TGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
1823766 ATAGCATTGC
Statistics
Matches: 299, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
182 4 0.01
183 292 0.98
184 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAATGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1824182 original size:23 final size:23
Alignment explanation
Indices: 1824156--1824218 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1824146 ATATAACCAC
1824156 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
1824179 TACCTATTACATTTTATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1824202 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1824219 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1825811 original size:9 final size:9
Alignment explanation
Indices: 1825797--1825840 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
1825787 CTTGTTTGGA
1825797 TCATCATCT
1 TCATCATCT
1825806 TCATCATCAT
1 TCATCATC-T
*
1825816 CATCATCATCG
1 --TCATCATCT
1825827 TCATCATCT
1 TCATCATCT
1825836 TCATC
1 TCATC
1825841 GTCAGCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 21 0.70
10 1 0.03
12 8 0.27
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (9 bp):
TCATCATCT
Found at i:1825815 original size:6 final size:6
Alignment explanation
Indices: 1825796--1825876 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
1825786 ACTTGTTTGG
* * * *
1825796 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * *
1825844 AGCTTC ATCGA-C ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATC-ATC ATCATC ATCATC ATCATC ATC
1825877 GTCAGCTTCA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
5 1 0.02
6 60 0.98
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (6 bp):
ATCATC
Found at i:1825819 original size:18 final size:18
Alignment explanation
Indices: 1825800--1825891 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
1825790 GTTTGGATCA
* *
1825800 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
1825818 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
* * * *
1825836 TCATCGTCAGCTTCATCG
1 TCATCATCATCATCATCT
* *
1825854 ACATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
1825872 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
1825890 TC
1 TC
1825892 TGCGACTGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:1825852 original size:36 final size:36
Alignment explanation
Indices: 1825819--1825888 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
1825809 TCATCATCAT
*
1825819 CATCATCGTCATCATCTTCATCGTCAGCTTCATCGA
1 CATCATCATCATCATCTTCATCGTCAGCTTCATCGA
*
1825855 CATCATCATCGTCATCTTCATCGTCAGCTTCATC
1 CATCATCATCATCATCTTCATCGTCAGCTTCATC
1825889 TTCTGCGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.34
Consensus pattern (36 bp):
CATCATCATCATCATCTTCATCGTCAGCTTCATCGA
Found at i:1825887 original size:24 final size:24
Alignment explanation
Indices: 1825834--1825888 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1825824 TCGTCATCAT
*
1825834 CTTCATCGTCAGCTTCATCGACAT
1 CTTCATCGTCAGCTTCATCGACAG
* * *
1825858 CATCATCGTCATCTTCATCGTCAG
1 CTTCATCGTCAGCTTCATCGACAG
1825882 CTTCATC
1 CTTCATC
1825889 TTCTGCGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.35
Consensus pattern (24 bp):
CTTCATCGTCAGCTTCATCGACAG
Found at i:1825891 original size:6 final size:6
Alignment explanation
Indices: 1825800--1825891 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
1825790 GTTTGGATCA
* * * * * * *
1825800 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
1825848 TCATCG ACATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1825892 TGCGACTGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1827777 original size:198 final size:199
Alignment explanation
Indices: 1827355--1828309 Score: 1690
Period size: 198 Copynumber: 4.9 Consensus size: 199
1827345 TAAATTAGTT
*
1827355 TCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATACTT
1 TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
1827419 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTT-G---TTTTTGGGATCG
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
* *
1827480 ACATTTTTTATATATGGATCGACACTTTATGATTGCACCCTGTTTTCCATTCATTCTGGAACAAA
131 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
1827545 AATA
196 AATA
* *
1827549 TCGACACAAACTAAATAGTGTC-AAACATTATTTAGACATATTCTCTAATAAAACCGGTATACTT
1 TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
1827613 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
1827678 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-AA
131 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
1827742 AATA
196 AATA
*
1827746 TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTT
1 TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
*
1827811 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCG
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
1827876 ACACTTTTTATATATGGATCGACACTTTAT-GTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
131 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
1827940 AATA
196 AATA
1827944 TCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTATACT
1 TCGACACAAACT-AAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACT
1828008 TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCG--ATTTTTGGGATC
65 TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATC
*
1828071 GACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTTCATTCATTCTGGAACAA
130 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
1828134 AAATA
195 AAATA
*
1828139 TCGACACAAACTAAATAGTGTCTACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
1 TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
* *
1828204 ATACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATGTTTTTGGGATCG
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
1828268 ACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTT
131 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1828310 GGCCATATTG
Statistics
Matches: 734, Mismatches: 15, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
193 25 0.03
194 155 0.21
195 101 0.14
196 70 0.10
197 59 0.08
198 282 0.38
199 42 0.06
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (199 bp):
TCGACACAAACTAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
AATA
Found at i:1828473 original size:19 final size:19
Alignment explanation
Indices: 1828427--1828475 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1828417 ATTATATTCC
*
1828427 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1828446 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1828465 ATACAAAATTA
1 ATACAAAATTA
1828476 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1830024 original size:24 final size:22
Alignment explanation
Indices: 1829997--1830040 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
1829987 ATTGACTTCC
*
1829997 TCCTCCTTCTTCTCTCTTCTTCTT
1 TCCTCCCTCTT-T-TCTTCTTCTT
1830021 TCCTCCCTCTTTTCTTCTTC
1 TCCTCCCTCTTTTCTTCTTC
1830041 ATATTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (22 bp):
TCCTCCCTCTTTTCTTCTTCTT
Found at i:1830340 original size:21 final size:21
Alignment explanation
Indices: 1830315--1830356 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1830305 CCCCTTATGC
1830315 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1830336 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1830357 ATTGATTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1832402 original size:24 final size:24
Alignment explanation
Indices: 1832365--1832417 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1832355 CCGTTCTATC
1832365 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1832389 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1832413 TATTT
1 TATTT
1832418 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1832579 original size:17 final size:18
Alignment explanation
Indices: 1832557--1832599 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1832547 ATATATCTGG
1832557 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1832574 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1832594 TATCAT
1 TATCAT
1832600 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1832617 original size:20 final size:19
Alignment explanation
Indices: 1832562--1832608 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1832552 TCTGGTATCA
1832562 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1832581 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1832602 TTTTACC
1 TTTTACC
1832609 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1832842 original size:19 final size:20
Alignment explanation
Indices: 1832802--1832840 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1832792 GTTATATCGT
1832802 TTTGGACCGACACATTTTTTA
1 TTTGGACCGACACA-TTTTTA
*
1832823 TTTGGATCGACACATTTT
1 TTTGGACCGACACATTTT
1832841 ATAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTGGACCGACACATTTTTA
Found at i:1833440 original size:11 final size:11
Alignment explanation
Indices: 1833424--1833448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1833414 ATCCGGTACT
1833424 ACCGTATATTA
1 ACCGTATATTA
1833435 ACCGTATATTA
1 ACCGTATATTA
1833446 ACC
1 ACC
1833449 TGTCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:1833624 original size:48 final size:48
Alignment explanation
Indices: 1833553--1833650 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
1833543 AGTTAACACA
1833553 TGCACCATTTAGTCTCTCTCGCCATGCAAGCTTACATTGGAATTTGGG
1 TGCACCATTTAGTCTCTCTCGCCATGCAAGCTTACATTGGAATTTGGG
1833601 TGCACCATTTAGTCTCTCTCGCCATGCAAGCTTACATTGGAATTTGGG
1 TGCACCATTTAGTCTCTCTCGCCATGCAAGCTTACATTGGAATTTGGG
1833649 TG
1 TG
1833651 ACCTCTGACG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (48 bp):
TGCACCATTTAGTCTCTCTCGCCATGCAAGCTTACATTGGAATTTGGG
Found at i:1838893 original size:6 final size:6
Alignment explanation
Indices: 1838863--1838913 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
1838853 TCTCGTCTCG
1838863 GGTCGT -GTCGT -GTCGT GTCGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT G--GTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1838911 GGT
1 GGT
1838914 AATACGTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.24
6 26 0.62
8 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.47, T:0.35
Consensus pattern (6 bp):
GGTCGT
Found at i:1839032 original size:21 final size:21
Alignment explanation
Indices: 1839006--1839127 Score: 117
Period size: 21 Copynumber: 5.8 Consensus size: 21
1838996 ATTTTGGACT
*
1839006 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
1839027 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAACTTGGAATAA
* *
1839046 ATCGAAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* * *
1839067 ATTGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
1839088 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
1839109 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
1839128 CTATCGCAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
19 26 0.32
21 35 0.44
23 19 0.24
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:1839097 original size:42 final size:42
Alignment explanation
Indices: 1838999--1839136 Score: 226
Period size: 42 Copynumber: 3.3 Consensus size: 42
1838989 CGTTGCGATT
1838999 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
1839039 TTGGACTATCGAAACGAATTTGGAATAAATTGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
1839081 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1839123 TTGGACTATCGCAA
1 TTGGACTATCGCAA
1839137 TGCGAATATG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 33 0.37
42 56 0.63
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Done.