Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 146 of 343
Found at i:48478556 original size:54 final size:54
Alignment explanation
Indices: 48478494--48478603 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
48478484 GAAAACTGAG
*
48478494 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAATTATAAT
1 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
* * **
48478548 TTAGTTTATTTTAGGTTTTAGCTATAGTGTTCATGCATTGCATCTAACTATAAT
1 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
48478602 TT
1 TT
48478604 TCATTTTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (54 bp):
TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
Found at i:48481854 original size:104 final size:104
Alignment explanation
Indices: 48481634--48481854 Score: 307
Period size: 104 Copynumber: 2.1 Consensus size: 104
48481624 TTATTTTCCA
** ** * * * *
48481634 TTATTAAGGCTTGCTGATTTAAGATTGCAGCCTCCAATTATTTGAGTTAGCTGATTTAATATCGC
1 TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
* *
48481699 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTGATT
66 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
* * **
48481738 TTACTAACGCTCACTGATTTAAGATCCCAACCTCTGATTATTTGAGTTAGCTAATTTAAGATCAC
1 TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
*
48481803 AACTCCTAACAGCTCGCTGACCTACGTTCACAGCTAATG
66 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
48481842 TTATTAAGGCTCA
1 TTATTAAGGCTCA
48481855 TTGACCTACA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (104 bp):
TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
Found at i:48481869 original size:36 final size:36
Alignment explanation
Indices: 48481820--48481894 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
48481810 AACAGCTCGC
*
48481820 TGACCTACGTTCACAGCTAATGTTATTAAGGCTCAT
1 TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
* * *
48481856 TGACCTACATTCACTGCTGATTTTATTAAGGCTCAT
1 TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
48481892 TGA
1 TGA
48481895 TTTAAGAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (36 bp):
TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
Found at i:48481909 original size:140 final size:140
Alignment explanation
Indices: 48481716--48481994 Score: 398
Period size: 140 Copynumber: 2.0 Consensus size: 140
48481706 AACAGCTCGC
* * *
48481716 TGACCTACGTTCACAACTGATTTTACTAACGCTCACTGATTTAAGATCCCAACC-TCTGATTATT
1 TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTC-GATTATT
* *
48481780 TGAGTTAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTAATGTTA
65 TGAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTA
*
48481845 TTAAGGCTCAT
130 CTAAGGCTCAT
** * * *
48481856 TGACCTACATTCACTGCTGATTTTATTAAGGCTCATTGATTTAAGAACACAACCTTCGATTATTT
1 TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTCGATTATTT
* * * * *
48481921 GAGATAGCTGATTTAAGATCGCAACTCCTAACAGCTCGCTAACTTACGTTCATAGCTAATTTTAC
66 GAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTAC
48481986 TAAGGCTCA
131 TAAGGCTCA
48481995 CTGATTTAAG
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
140 120 0.98
141 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (140 bp):
TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTCGATTATTT
GAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTAC
TAAGGCTCAT
Found at i:48482305 original size:18 final size:18
Alignment explanation
Indices: 48482282--48482316 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48482272 TGGCCGTATG
*
48482282 GCTAGGCTGTGTGACATA
1 GCTAGGCTGTGTAACATA
*
48482300 GCTAGGTTGTGTAACAT
1 GCTAGGCTGTGTAACAT
48482317 TCAAACAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (18 bp):
GCTAGGCTGTGTAACATA
Found at i:48485239 original size:20 final size:20
Alignment explanation
Indices: 48485195--48485232 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
48485185 TATTATATAC
48485195 TTTTGAAGTCATTTTATAAT
1 TTTTGAAGTCATTTTATAAT
48485215 TTTTGAA-T-ATTTTATAAT
1 TTTTGAAGTCATTTTATAAT
48485233 AGTTTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTGAAGTCATTTTATAAT
Found at i:48485291 original size:31 final size:31
Alignment explanation
Indices: 48485221--48485291 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 31
48485211 TAATTTTTGA
* *
48485221 ATATTTTATAATAGTTTTGTATTTTTTGTTT
1 ATATTTTATAATAGTTTTGAATTTTTTATTT
48485252 ATAAATTTTAATAA-A-TTTTGAATTTTTATATTT
1 AT--ATTTT-ATAATAGTTTTGAATTTTT-TATTT
48485285 ATATTTT
1 ATATTTT
48485292 GAATTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
31 7 0.21
32 11 0.32
33 12 0.35
34 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (31 bp):
ATATTTTATAATAGTTTTGAATTTTTTATTT
Found at i:48485292 original size:21 final size:21
Alignment explanation
Indices: 48485266--48485311 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
48485256 ATTTTAATAA
*
48485266 ATTTTGAATTTTTATATTTAT
1 ATTTTGAATTTTTATAATTAT
*
48485287 ATTTTGAATTTTTTTAATTAT
1 ATTTTGAATTTTTATAATTAT
48485308 ATTT
1 ATTT
48485312 GATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTTGAATTTTTATAATTAT
Found at i:48488503 original size:76 final size:76
Alignment explanation
Indices: 48488417--48488559 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
48488407 GTGTATATTA
* *
48488417 ATATTAAAAATCAGACTCACTTGATTATATTTAGAACTTAATTTAAAAAT-ATGACCCACTTCAA
1 ATATTAAAAATCAGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGA-GACCCACTTCAA
48488481 ATATAACTATAT
65 ATATAACTATAT
** * *
48488493 ATATTAAAAATGGGACTCACTTTATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTTAAA
1 ATATTAAAAATCAGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTCAAA
48488558 TA
66 TA
48488560 GTTAAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 59 0.98
77 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (76 bp):
ATATTAAAAATCAGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTCAAA
TATAACTATAT
Found at i:48488554 original size:39 final size:40
Alignment explanation
Indices: 48488414--48488555 Score: 120
Period size: 39 Copynumber: 3.7 Consensus size: 40
48488404 TTTGTGTATA
* * * * *
48488414 TTAATATTAAAAATCAGACTCACTTGATTATATTTAGAAC
1 TTAATATTAAAAATGAGACCCACTTTATCATATTTAAAAC
* *
48488454 TTAAT-TTAAAAAT-ATGACCCAC--T-TCA-A-ATATAAC
1 TTAATATTAAAAATGA-GACCCACTTTATCATATTTAAAAC
* *
48488488 TATATATATTAAAAATGGGACTCACTTTATCATATTTAAAAC
1 T-TA-ATATTAAAAATGAGACCCACTTTATCATATTTAAAAC
48488530 TTAAT-TTAAAAATGAGACCCACTTTA
1 TTAATATTAAAAATGAGACCCACTTTA
48488556 AATAGTTAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 21
0.72 0.10 0.19
Matches are distributed among these distances:
34 6 0.07
35 3 0.04
36 4 0.05
37 14 0.17
38 1 0.01
39 34 0.42
40 10 0.12
41 3 0.04
42 6 0.07
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (40 bp):
TTAATATTAAAAATGAGACCCACTTTATCATATTTAAAAC
Found at i:48489244 original size:21 final size:22
Alignment explanation
Indices: 48489220--48489274 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
48489210 AAAAGGGGCC
48489220 TAAAACA-ACATCAAAACACAT
1 TAAAACACACATCAAAACACAT
** *
48489241 TAAAACATGC-TCAAAACATAT
1 TAAAACACACATCAAAACACAT
*
48489262 CAAAACACACATC
1 TAAAACACACATC
48489275 TTAAGTGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.56, C:0.25, G:0.02, T:0.16
Consensus pattern (22 bp):
TAAAACACACATCAAAACACAT
Found at i:48493818 original size:49 final size:50
Alignment explanation
Indices: 48493725--48493856 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 50
48493715 TATTGTGAGG
* * ** * *
48493725 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TTGGT
1 TCAC-TGTGCAGTACTAAGTGCAGGCTACTACACGTACCGGATAACTTCGA
*
48493775 TGCA-TGTGCAGTACTAAGTGCAGGCTACTATACGTACTC-GATAACTTCGA
1 T-CACTGTGCAGTACTAAGTGCAGGCTACTACACGTAC-CGGATAACTTCGA
*
48493825 TCACGTGTGGAGTACTAAGTGCAGGCTACTAC
1 TCAC-TGTGCAGTACTAAGTGCAGGCTACTAC
48493857 GTGTATTAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
49 35 0.51
50 6 0.09
51 27 0.40
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACTGTGCAGTACTAAGTGCAGGCTACTACACGTACCGGATAACTTCGA
Found at i:48523131 original size:32 final size:31
Alignment explanation
Indices: 48523095--48523181 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 31
48523085 AAGGTGATGG
48523095 ATAGTTAAT-AATGCAT-GCATTTTAGCATTTTA
1 ATAGTTAATGAATG-ATGGCA--TTAGCATTTTA
*
48523127 ATAGTTAATGGATGATGGGCATTAGCATTTTA
1 ATAGTTAATGAATGAT-GGCATTAGCATTTTA
*
48523159 ATAGTTAATGGATGATGGGCATT
1 ATAGTTAATGAATGAT-GGCATT
48523182 GTAAGCATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
32 45 0.88
33 3 0.06
34 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (31 bp):
ATAGTTAATGAATGATGGCATTAGCATTTTA
Found at i:48524689 original size:26 final size:26
Alignment explanation
Indices: 48524660--48524712 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
48524650 TTTACAGTTT
48524660 TACCCCTAAGAGTTAAATT-ACCGAAA
1 TACCCCT-AGAGTTAAATTGACCGAAA
* *
48524686 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGTTAAATTGACCGAAA
48524712 T
1 T
48524713 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGTTAAATTGACCGAAA
Found at i:48527248 original size:10 final size:10
Alignment explanation
Indices: 48527235--48527268 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
48527225 TATATATGAA
*
48527235 ATATGATATG
1 ATATGATATT
48527245 ATATGATATT
1 ATATGATATT
*
48527255 ATATCATATT
1 ATATGATATT
48527265 ATAT
1 ATAT
48527269 TAATTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (10 bp):
ATATGATATT
Found at i:48527631 original size:19 final size:20
Alignment explanation
Indices: 48527593--48527637 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
48527583 ATTTAATATA
48527593 ACATTTTGTACTTAAATTTG
1 ACATTTTGTACTTAAATTTG
* *
48527613 ACATTTTTTTCTT-AATTTG
1 ACATTTTGTACTTAAATTTG
*
48527632 ATATTT
1 ACATTT
48527638 AATTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.58
Consensus pattern (20 bp):
ACATTTTGTACTTAAATTTG
Found at i:48536420 original size:23 final size:23
Alignment explanation
Indices: 48536390--48536502 Score: 115
Period size: 23 Copynumber: 5.0 Consensus size: 23
48536380 GGCTTTGCCG
* *
48536390 ATCAGGCACTTTATGCGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
*
48536413 ATCAGGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
*
48536436 TTCAAGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
48536459 TTCAAGCACCTCATGTGTC--AT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
48536480 TTCAGGCAC-TTATGTGTTGTAT
1 ATCAAGCACTTTATGTGTCGTAT
48536502 A
1 A
48536503 CTGATCAAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.09
21 10 0.13
22 2 0.03
23 60 0.76
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (23 bp):
ATCAAGCACTTTATGTGTCGTAT
Found at i:48536475 original size:46 final size:44
Alignment explanation
Indices: 48536395--48536502 Score: 128
Period size: 46 Copynumber: 2.4 Consensus size: 44
48536385 TGCCGATCAG
* * * *
48536395 GCACTTTATGCGTCGTATATCAGGCACTTTATGTGTCGTATTTCAA
1 GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTC--ATTTCAA
* *
48536441 GCACTTTATGTGTCGTATTTCAAGCACCTCATGTGTCATTTCAG
1 GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTCATTTCAA
*
48536485 GCAC-TTATGTGTTGTATA
1 GCACTTTATGTGTCGTATA
48536503 CTGATCAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 12 0.22
44 10 0.19
46 32 0.59
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (44 bp):
GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTCATTTCAA
Found at i:48536697 original size:18 final size:19
Alignment explanation
Indices: 48536674--48536713 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
48536664 AATGAATTAT
*
48536674 AAATTGAAATGTGA-ATTG
1 AAATTGAAATATGAGATTG
*
48536692 AAATTGAGATATGAGATTG
1 AAATTGAAATATGAGATTG
48536711 AAA
1 AAA
48536714 GCTTGAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (19 bp):
AAATTGAAATATGAGATTG
Found at i:48537395 original size:22 final size:22
Alignment explanation
Indices: 48537369--48537437 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
48537359 TCTTTGATTA
*
48537369 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
48537391 TTAGCACATCT-GTGCTATCTGT
1 TTAGCACAT-TAGTGCTCTCTGT
* * *
48537413 ATAACACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
48537435 TTA
1 TTA
48537438 ATAGTGTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:48540670 original size:178 final size:178
Alignment explanation
Indices: 48540365--48540725 Score: 686
Period size: 178 Copynumber: 2.0 Consensus size: 178
48540355 GTTCTGTATC
48540365 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
1 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
* * *
48540430 AGTAAAAATTATAGATAATGTTACTTATAGGTGTGTTATATACTGATAATGCTCTTGAATAATTT
66 AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
48540495 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
131 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
48540543 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
1 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
*
48540608 AGTAAAAATTATAGATAATGTTACTTACCGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
66 AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
48540673 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
131 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
48540721 TTGAG
1 TTGAG
48540726 CTATTTATGT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (178 bp):
TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
Found at i:48540998 original size:20 final size:20
Alignment explanation
Indices: 48540970--48541017 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
48540960 ATTTTAGGAT
*
48540970 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
48540989 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
48541009 TTTATCTTT
1 TTTATCTTT
48541018 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:48544695 original size:15 final size:14
Alignment explanation
Indices: 48544675--48544721 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
48544665 GCAACCCAAT
48544675 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
48544690 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
*
48544703 TCTTATTATTTATTA
1 TTTTATT-TTTATTA
48544718 TTTT
1 TTTT
48544722 CAGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:48552731 original size:46 final size:44
Alignment explanation
Indices: 48552678--48552834 Score: 132
Period size: 46 Copynumber: 3.5 Consensus size: 44
48552668 TCATTTGTGT
*
48552678 GCTAGTGTAAGACATGTCTGGGACATACATTGGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-CA-TGGCCATATGATGAGA
*
48552724 GCTAGTGTAAGACCATGTCT-GG-CATCA--G-CAT-TGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATCATGGCCATAT--GATGAGA
*
48552765 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACAT-CAT-GGCCAT-ATGATG-AGA
* *
48552811 GCCAGTATAAGACATGTCTGGGAC
1 GCTAGTGTAAGACATGTCTGGGAC
48552835 GTGCATCGAC
Statistics
Matches: 92, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
39 1 0.01
40 10 0.11
41 20 0.22
42 3 0.03
43 2 0.02
44 2 0.02
45 3 0.03
46 42 0.46
47 9 0.10
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATCATGGCCATATGATGAGA
Found at i:48552840 original size:46 final size:44
Alignment explanation
Indices: 48552772--48552882 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
48552762 AGAGCTAGTG
*
48552772 TAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATC-GACTACAAGATGT--GCCAGTA
* * *
48552818 TAAGACATGTCTGGGACGTGCATCGACTACATGATGTGTCAGTA
1 TAAGACATGTCTGGGACATGCATCGACTACAAGATGTGCCAGTA
48552862 TAAGACCATGTCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
48552883 GCATTGGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 11 0.19
45 17 0.29
46 30 0.52
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGACTACAAGATGTGCCAGTA
Found at i:48554862 original size:27 final size:27
Alignment explanation
Indices: 48554818--48555102 Score: 292
Period size: 27 Copynumber: 10.6 Consensus size: 27
48554808 TTAGTTTACC
* * *
48554818 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
48554844 AAATTACCGAAGTACCCCCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
48554871 AAATTATCGAAATACCGTCGA-TTATA
1 AAATTACCGAAATACCCTCGATTTGTA
*
48554897 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
48554924 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACCGAAATACCCTCGA-TTTGTA
*
48554951 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
48554978 AAATTACTGAAATATCCTTGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
48555005 AAATTACC-AATGTACCCCCGATTTATA
1 AAATTACCGAA-ATACCCTCGATTTGTA
* *
48555032 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
48555059 AAATTACCGAAATACCCT-TATATGGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
48555086 GAATTACCGAAATACCC
1 AAATTACCGAAATACCC
48555103 CTGTAGGGTA
Statistics
Matches: 216, Mismatches: 36, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
26 43 0.20
27 170 0.79
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:48555112 original size:27 final size:27
Alignment explanation
Indices: 48555060--48555452 Score: 572
Period size: 27 Copynumber: 14.6 Consensus size: 27
48555050 CGATTTGTAA
* * *
48555060 AATTACCGAAATACCCTTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48555087 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48555114 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48555141 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48555168 AGTTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
48555195 AATTTCC-AGAATACCTTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
48555222 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48555249 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48555276 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48555303 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48555330 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48555357 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48555384 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
48555411 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48555438 AATTACCGAGATACC
1 AATTACCGAAATACC
48555453 TTGTGAGGTA
Statistics
Matches: 326, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
27 325 1.00
28 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:48555950 original size:6 final size:6
Alignment explanation
Indices: 48555901--48556003 Score: 68
Period size: 6 Copynumber: 16.8 Consensus size: 6
48555891 ATTATGTTAC
* * * * *
48555901 CTGATA CTGATT TTGATT TTGATT CTG-TT ACCTGATA CTGATT CTAATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
48555950 CTGATT CTGATT CTG-TCA CGTAATT TTGATT CTGATT CTGATT CT-AGTT
1 CTGATT CTGATT CTGAT-T C-TGATT CTGATT CTGATT CTGATT CTGA-TT
48555999 CTGAT
1 CTGAT
48556004 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
5 4 0.05
6 65 0.86
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:48555955 original size:31 final size:31
Alignment explanation
Indices: 48555889--48555958 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
48555879 TTCTGATTTT
* * * *
48555889 TGATTATGTTACCTGATACTGATTTTGATTT
1 TGATTCTGTTACCTGATACTGATTCTAATTC
48555920 TGATTCTGTTACCTGATACTGATTCTAATTC
1 TGATTCTGTTACCTGATACTGATTCTAATTC
48555951 TGATTCTG
1 TGATTCTG
48555959 ATTCTGTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTAATTC
Found at i:48561745 original size:41 final size:39
Alignment explanation
Indices: 48561646--48561748 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 39
48561636 CTTTTATCAA
* *
48561646 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTA-CCTGCTAGATTTTAAACCCGAACTC
** ** *
48561686 ATCACCGGCATAAAACCTGCTAGATTTTAAGTCTGAACTC
1 ATCACCGGCAT-TTACCTGCTAGATTTTAAACCCGAACTC
48561726 ATTCACCGGCATTTCACCTGCTA
1 A-TCACCGGCATTT-ACCTGCTA
48561749 AGCTTGAAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 32 0.63
41 19 0.37
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (39 bp):
ATCACCGGCATTTACCTGCTAGATTTTAAACCCGAACTC
Found at i:48561790 original size:43 final size:43
Alignment explanation
Indices: 48561742--48561850 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
48561732 CGGCATTTCA
* ** * *
48561742 CCTGCTAAGCTTGAAGCCCGATATCATTTCACCAGTATTATAG
1 CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
* * *
48561785 CCTGCTATGCCTGAAGCCCGATATTATCCCACCGGCAATATAG
1 CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
* *
48561828 CCTGCTAGGCCCGAAGCCCGATA
1 CCTGCTAAGCCTGAAGCCCGATA
48561851 ATATTATTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
Found at i:48566796 original size:44 final size:44
Alignment explanation
Indices: 48566684--48566803 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
48566674 GTAATTCAGT
* * * *
48566684 ATCGATGCCTCTGTCCCAGACAGGGTCTTA-AC-AAAATCAGAT
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAAATCACAA
* * * *
48566726 AT-GATGCCTATGTCTCAGACATGGTCTTACACGTAAATCTCAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAAATCACAA
* *
48566769 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGA
48566804 TAGCTCAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 24 0.38
42 4 0.06
43 8 0.13
44 27 0.43
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (44 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAAATCACAA
Found at i:48569974 original size:50 final size:50
Alignment explanation
Indices: 48569849--48569993 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
48569839 AGCCAAAGCT
* * * * **
48569849 ATCTGGTACGCATAGTAGCCTACACTTAATACTACACATGCGACC-AATT
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
48569898 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* **
48569948 ATCTGATACGCGTAGTAGCCTGCACTTAGTACTACACGCGTGACCT
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCT
48569994 CACAATAGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 39 0.48
50 43 0.52
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:48571035 original size:168 final size:168
Alignment explanation
Indices: 48570757--48571094 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 168
48570747 AGCTTGGATG
48570757 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
1 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
*
48570822 ATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
66 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
48570887 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
131 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
48570925 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
1 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
48570990 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
66 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
48571055 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
131 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
48571093 TG
1 TG
48571095 TGTGGCACTT
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (168 bp):
TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
Found at i:48573401 original size:49 final size:49
Alignment explanation
Indices: 48573272--48573774 Score: 811
Period size: 47 Copynumber: 10.6 Consensus size: 49
48573262 GATAATTGTG
48573272 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
48573318 ATATGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573365 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573414 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573461 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573510 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573557 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573606 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
48573655 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
48573702 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48573749 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
48573775 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 15, Indels: 21
0.92 0.03 0.04
Matches are distributed among these distances:
46 30 0.07
47 207 0.48
48 3 0.01
49 191 0.44
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:48573437 original size:96 final size:96
Alignment explanation
Indices: 48573272--48573774 Score: 849
Period size: 96 Copynumber: 5.3 Consensus size: 96
48573262 GATAATTGTG
*
48573272 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATATGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
48573334 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
48573365 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
48573430 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
48573461 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
48573526 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
48573557 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
48573622 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
48573655 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
48573718 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
48573749 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
48573775 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 11, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
93 5 0.01
94 51 0.13
95 32 0.08
96 257 0.66
98 47 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:48581342 original size:44 final size:43
Alignment explanation
Indices: 48581262--48581360 Score: 101
Period size: 44 Copynumber: 2.3 Consensus size: 43
48581252 GTTCCGGACG
* * * * *
48581262 TGGTCTTACATGTAATTCAGTATCGATGCCTATGTCCTAGACA
1 TGGTCTTACACGTAATTCAGAATCGAGGCCTATGTCCCAAACA
*
48581305 TGGTCTTACACGTAAATCTCA-AATCGAGGCCTGTGTCCCAAACA
1 TGGTCTTACACGT-AAT-TCAGAATCGAGGCCTATGTCCCAAACA
**
48581349 CAGTCTTACACG
1 TGGTCTTACACG
48581361 ATATCTTAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 12 0.26
44 31 0.67
45 3 0.07
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGTAATTCAGAATCGAGGCCTATGTCCCAAACA
Found at i:48584266 original size:47 final size:46
Alignment explanation
Indices: 48584194--48584326 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 46
48584184 TCATTTGTGT
48584194 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TACGAGA
1 GCCAGTGTAAGACATGTCT-GGACATGCATCGGCCACATATACGAGA
*
48584240 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CA-TTGATACGAGA
1 GCCAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCCACAT-ATACGAGA
* *
48584288 GCTAGTGTAAGACATGTCTGCGACATGCATCGGCTACAT
1 GCCAGTGTAAGACATGTCTG-GACATGCATCGGCCACAT
48584327 GATGTGTCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
46 21 0.28
47 28 0.37
48 26 0.35
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGACATGCATCGGCCACATATACGAGA
Found at i:48584375 original size:92 final size:94
Alignment explanation
Indices: 48584196--48584402 Score: 260
Period size: 94 Copynumber: 2.2 Consensus size: 94
48584186 ATTTGTGTGC
* *
48584196 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTA
1 CAGTGTAAGACATGTCTGCGACATGCATCGGCCACATTA-GAGAGCCAGTATAAGACCATGTCTA
*
48584261 GGACATGGCATCGGCATTGATAC-GAGAG-
65 GGACATGGCATCGGCATGGATACGGAGAGT
* * * *
48584289 CTAGTGTAAGACATGTCTGCGACATGCATCGGCTACA-T-GATGTGTCAGTATAAGACCATGTTT
1 C-AGTGTAAGACATGTCTGCGACATGCATCGGCCACATTAGA-GAGCCAGTATAAGACCATGTCT
* *
48584352 GGGACATGGCATCGGTATGGATACGTGAGAGT
64 AGGACATGGCATCGGCATGGATACG-GAGAGT
48584384 CAGTGTAAGACCATGTCTG
1 CAGTGTAAGA-CATGTCTG
48584403 GGATATGATG
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 39 0.39
93 2 0.02
94 47 0.47
95 9 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
CAGTGTAAGACATGTCTGCGACATGCATCGGCCACATTAGAGAGCCAGTATAAGACCATGTCTAG
GACATGGCATCGGCATGGATACGGAGAGT
Found at i:48586034 original size:25 final size:25
Alignment explanation
Indices: 48586001--48586147 Score: 131
Period size: 25 Copynumber: 5.9 Consensus size: 25
48585991 GAGCATCTCA
* * *
48586001 ATAAATGGCTTTCTTGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
* ** *
48586026 TTGTTTGGCTCTGATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
48586051 ATAATTGGCTCTCATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
*
48586076 ATTAA-TGGCTCTCCA-GAGCTTCCCA
1 A-TAATTGGCTCT-CATGAGCTTCCCG
*
48586101 AT-ATTGGCTCGCATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
* * *
48586125 TTACA-TGACTCACATGAGCTTCC
1 ATA-ATTGGCTCTCATGAGCTTCC
48586148 TGTTTCATGG
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
23 3 0.03
24 17 0.17
25 73 0.74
26 6 0.06
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (25 bp):
ATAATTGGCTCTCATGAGCTTCCCG
Found at i:48586060 original size:50 final size:48
Alignment explanation
Indices: 48585966--48586126 Score: 146
Period size: 50 Copynumber: 3.2 Consensus size: 48
48585956 CAGCACGCAA
* * * * * * *
48585966 GAGCATCCCGTTATTTAGCTCTATTGAGCATCTCAATAAATGGCTTTCTT
1 GAGCTTCCCGTT-TTTGGCTCTA-TGAGCTTCCCAATAATTGGCTCTCAT
*
48586016 GAGCTTCCCGTTGTTTGGCTCTGATGAGCTTCCCGATAATTGGCTCTCAT
1 GAGCTTCCCGTT-TTTGGCTCT-ATGAGCTTCCCAATAATTGGCTCTCAT
** *
48586066 GAGCTTCCCGATTAATGGCTCTCCA-GAGCTTCCCAAT-ATTGGCTCGCAT
1 GAGCTTCCCG-TTTTTGGCTCT--ATGAGCTTCCCAATAATTGGCTCTCAT
48586115 GAGCTTCCCGTT
1 GAGCTTCCCGTT
48586127 ACATGACTCA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.02
49 21 0.22
50 67 0.71
51 4 0.04
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (48 bp):
GAGCTTCCCGTTTTTGGCTCTATGAGCTTCCCAATAATTGGCTCTCAT
Found at i:48586144 original size:49 final size:51
Alignment explanation
Indices: 48586039--48586147 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 51
48586029 TTTGGCTCTG
* * * *
48586039 ATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCC
1 ATGAGCTTCCCAATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
48586090 A-GAGCTTCCCAAT-ATTGGCTCGCATGAGCTTCCCG-TTACATGACTC-AC
1 ATGAGCTTCCCAATAATTGGCTCGCATGAGCTTCCCGATTA-ATGACTCTAC
48586138 ATGAGCTTCC
1 ATGAGCTTCC
48586148 TGTTTCATGG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 5 0.10
49 35 0.67
50 11 0.21
51 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.29
Consensus pattern (51 bp):
ATGAGCTTCCCAATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
Found at i:48586156 original size:25 final size:25
Alignment explanation
Indices: 48586039--48586161 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
48586029 TTTGGCTCTG
* * *
48586039 ATGAGCTTCCCGATA-ATTGGCTCTC
1 ATGAGCTTCCCGTTACA-TGACTCAC
* *
48586064 ATGAGCTTCCCGATTA-ATGGCTCTCC
1 ATGAGCTTCCCG-TTACATGACTC-AC
** * * *
48586090 A-GAGCTTCCCAATA-TTGGCTCGC
1 ATGAGCTTCCCGTTACATGACTCAC
48586113 ATGAGCTTCCCGTTACATGACTCAC
1 ATGAGCTTCCCGTTACATGACTCAC
* * *
48586138 ATGAGCTTCCTGTTTCATGGCTCA
1 ATGAGCTTCCCGTTACATGACTCA
48586162 AAAAAGCTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.03
24 19 0.24
25 54 0.68
26 5 0.06
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGACTCAC
Found at i:48586170 original size:74 final size:74
Alignment explanation
Indices: 48586030--48586171 Score: 162
Period size: 74 Copynumber: 1.9 Consensus size: 74
48586020 TTCCCGTTGT
* * *** *
48586030 TTGGCTCTGATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCCAGAGC
1 TTGGCTCTGATGAGCTTCCCGATAATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAAGC
48586095 TTCCCAATA
66 TTCCCAATA
* * * *
48586104 TTGGCTC-GCATGAGCTTCCCGTTACA-TGACTCACATGAGCTTCCTGTTTCATGGCTCAAAAAA
1 TTGGCTCTG-ATGAGCTTCCCGATA-ATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAA
48586167 GCTTC
64 GCTTC
48586172 ATGATTTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
73 1 0.02
74 54 0.96
75 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (74 bp):
TTGGCTCTGATGAGCTTCCCGATAATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAAGC
TTCCCAATA
Found at i:48588263 original size:40 final size:40
Alignment explanation
Indices: 48588151--48588264 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
48588141 GCTTATAATT
* * * **
48588151 TTAGTATAATAATTGAGTTGTTGGACTTTATTAAACTCATC
1 TTAGT-TAATTATTGATTTGCTGGACTTTATTTTACTCATC
*
48588192 TTAGTTAATTATTGATTTCCTGGACTTTATTTTACTCATC
1 TTAGTTAATTATTGATTTGCTGGACTTTATTTTACTCATC
*
48588232 TTAGTTAATTATTGATTTGCTAGACTTTATTTT
1 TTAGTTAATTATTGATTTGCTGGACTTTATTTT
48588265 TATTAAACTC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 60 0.92
41 5 0.08
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (40 bp):
TTAGTTAATTATTGATTTGCTGGACTTTATTTTACTCATC
Found at i:48596275 original size:43 final size:43
Alignment explanation
Indices: 48596228--48596310 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
48596218 GAAATTATAA
*
48596228 ATCCGAACTTGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
1 ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
* * * **
48596271 ATCCGAGCTCGTTGAGTGGTCTGAGTTTGTTATGGATGTG
1 ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTG
48596311 TTACATGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
Found at i:48600504 original size:25 final size:25
Alignment explanation
Indices: 48600476--48600593 Score: 82
Period size: 25 Copynumber: 4.7 Consensus size: 25
48600466 TCCCAATATA
* * *
48600476 TGGCTCTCTTGAGCTTCCTGTTATT
1 TGGCTCTCTTGAGCTTCCCGATAAT
*
48600501 TGGCTCT-TACGAGCTTCCCGATAAT
1 TGGCTCTCT-TGAGCTTCCCGATAAT
48600526 TGGCTCTCATT-AGCTTCCCGATTAA-
1 TGGCTCTC-TTGAGCTTCCCGA-TAAT
*** *
48600551 TGGCTCTAAAGAGCTTTCCCAAT-AT
1 TGGCTCTCTTGAGC-TTCCCGATAAT
* *
48600576 TGGCTCACATGAGCTTCC
1 TGGCTCTCTTGAGCTTCC
48600594 TGTTAACGGC
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
24 6 0.08
25 58 0.78
26 9 0.12
27 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (25 bp):
TGGCTCTCTTGAGCTTCCCGATAAT
Found at i:48600541 original size:50 final size:49
Alignment explanation
Indices: 48600466--48600599 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 49
48600456 CTTATGAGAA
* * *
48600466 TCCCAATATATGGCTCTC-TTGAGCTTCCTGTTATTTGGCTCTTACGAGC-T
1 TCCCAATAT-TGGCTCTCATT-AGCTTCCTGTTA-ATGGCTCTAAAGAGCTT
* *
48600516 TCCCGATAATTGGCTCTCATTAGCTTCCCGATTAATGGCTCTAAAGAGCTT
1 TCCCAAT-ATTGGCTCTCATTAGCTTCCTG-TTAATGGCTCTAAAGAGCTT
* *
48600567 TCCCAATATTGGCTCACATGAGCTTCCTGTTAA
1 TCCCAATATTGGCTCTCATTAGCTTCCTGTTAA
48600600 CGGCATTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
49 4 0.06
50 53 0.75
51 14 0.20
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (49 bp):
TCCCAATATTGGCTCTCATTAGCTTCCTGTTAATGGCTCTAAAGAGCTT
Found at i:48601822 original size:467 final size:467
Alignment explanation
Indices: 48600976--48601907 Score: 1740
Period size: 467 Copynumber: 2.0 Consensus size: 467
48600966 TTAGGGCTTT
* *
48600976 TGGCCAATTTGTTTTGAATAGGCTTAGAATGCTTACCTTTAATGTGATTAAACAGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATACTTACCTTTAATGTGATTAAACAGTAAGTTAAAT
48601041 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
48601106 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
48601171 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
*
48601236 TATAAATATTTTGTTAATATTAGCCATTTGTTTGGCTTTTATATGGTATGTATATATATATGGCC
261 TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
48601301 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
326 TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
*
48601366 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTGTGGCTTGTTGATGTGTTAATG
391 TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
48601431 CGTTAATATATA
456 CGTTAATATATA
**
48601443 TGGCCAATTTGATTTGAATAGGCTTAGAATACTTACCTTTAATGTGATTAAATGGTAAGTTAAAT
1 TGGCCAATTTGATTTGAATAGGCTTAGAATACTTACCTTTAATGTGATTAAACAGTAAGTTAAAT
48601508 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
66 TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
* *
48601573 AACTTGGAAGCTCGTTAAGGTTGGAATCTAGTCGGAGCCACATCACACTATCCATCGTGCCATTT
131 AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
*
48601638 CGGTATATATAGTAAATTATTTTGATTATAATGGCATGTATAGGCTAAATTGGCCTA-TGCTGAC
196 CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCC-ACTGCTGAC
48601702 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
260 ATATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGC
* *
48601767 CTTGTTATGGTTTATATGTGTTGATAAGGTTAAATGATGGTAACATTATAGGTATGTGATGATAT
325 CTTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATAT
48601832 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
390 GTTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAAT
*
48601897 GTGTTAATATA
455 GCGTTAATATA
48601908 GGTGGAAGGA
Statistics
Matches: 452, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
467 451 1.00
468 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (467 bp):
TGGCCAATTTGATTTGAATAGGCTTAGAATACTTACCTTTAATGTGATTAAACAGTAAGTTAAAT
TCCATGTTATACGAACTTACTAAGCATTAAATGCTTACTCTATTTTATTTTCCCTGTTTTATAGT
AACTTGGAAGCTCGTTAAGGTTGGAAGCTAGTCGGAGCCACATCACACTATCCATCGTCCCATTT
CGGTATATATAGTAAATTAATTTGATTATAATGGCATGTATAGGCTAAATTGGCCACTGCTGACA
TATAAATATTTTGTTAATATTAGCCATATGTTTGGCTTTTATATGGTATGTATATATATATGGCC
TTGTTATGGTTGATATGTGTTGATAAGGTTAAATGATGGTAAAATTATAGGTATGTGATGATATG
TTATGTTTAGGACACGATTATGGCTTGTTTTGATTGCTTTGTTATGGCTTGTTGATGTGTTAATG
CGTTAATATATA
Found at i:48603680 original size:10 final size:10
Alignment explanation
Indices: 48603661--48603690 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
48603651 AATGTCCACT
48603661 AGCA-ATTTA
1 AGCACATTTA
48603670 AGCACATTTA
1 AGCACATTTA
48603680 AGCACATTTA
1 AGCACATTTA
48603690 A
1 A
48603691 CTCAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (10 bp):
AGCACATTTA
Found at i:48604767 original size:3 final size:3
Alignment explanation
Indices: 48604759--48604827 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
48604749 TATGGAGGAA
* *
48604759 AAG AAG AAG -AG AAAG TAG ATG AAG -AG AA- AAG AA- AAG AA- AAG
1 AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
48604800 AA- AAG AAGG AA- AAG AAG AAG AAG AAG AA
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AA
48604828 AGGAAGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
2 14 0.26
3 34 0.64
4 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:48604871 original size:5 final size:5
Alignment explanation
Indices: 48604783--48604868 Score: 61
Period size: 5 Copynumber: 17.2 Consensus size: 5
48604773 GTAGATGAAG
* *
48604783 AGAAA AGAAA AGAAA AGAAA AG-AA GGAAA AGAAGA AGAAGA AG-AA AG-GA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA-A AGAAA AGAAA
* * ** *
48604832 AGTAAA TGAAG AGAGG AGAAA AGAAA AGAAA ATAAA A
1 AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
48604869 TAAGAAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
4 9 0.14
5 46 0.70
6 11 0.17
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (5 bp):
AGAAA
Found at i:48605848 original size:15 final size:15
Alignment explanation
Indices: 48605811--48605839 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48605801 CTTTCCTATC
48605811 TAATAATAATAATTA
1 TAATAATAATAATTA
48605826 TAATAATAATAATT
1 TAATAATAATAATT
48605840 TTATAAATAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:48607006 original size:19 final size:20
Alignment explanation
Indices: 48606982--48607019 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48606972 GGTACCACCA
48606982 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48607001 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48607020 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48607311 original size:46 final size:45
Alignment explanation
Indices: 48607244--48607412 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
48607234 AACCCGCCCC
* *
48607244 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
*
48607290 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * * *
48607338 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
48607383 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
48607413 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 55 0.53
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:48607435 original size:46 final size:45
Alignment explanation
Indices: 48607246--48607435 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 45
48607236 CCCGCCCCTA
* * * * * * *
48607246 AGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
48607292 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
48607339 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
48607385 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
48607431 AGTGA
1 AGTGA
48607436 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 4 0.04
46 61 0.54
47 30 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:48607875 original size:30 final size:30
Alignment explanation
Indices: 48607841--48607900 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48607831 ATTTAATACG
48607841 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48607871 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48607901 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48608740 original size:17 final size:19
Alignment explanation
Indices: 48608720--48608763 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48608710 ACACATATAG
48608720 TAAT-ATTTT-TCTAATAA
1 TAATAATTTTATCTAATAA
*
48608737 TAATAATTTTATCTCATAA
1 TAATAATTTTATCTAATAA
*
48608756 TACTAATT
1 TAATAATT
48608764 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTTTATCTAATAA
Found at i:48612098 original size:50 final size:50
Alignment explanation
Indices: 48612026--48612462 Score: 530
Period size: 50 Copynumber: 8.8 Consensus size: 50
48612016 TGCTAGGGAG
*
48612026 ATATGAGAGCTAGTGTAAGACCATGT-TGGGGACATGGCATCGGTCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCGAT
* *
48612076 ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * * *
48612126 ACATGAGAGTTAGTGTAAGACCTTGTCTGGGATATGGCATCAGCCTCGAA
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
48612176 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
48612226 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
48612276 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGG-CTTGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * *
48612325 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT
* * *
48612371 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * * * *
48612421 ACACGAGAG-TCAATGTAAGACCATGTTTCGGACACGGCATCG
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
48612463 ACTTTGATGT
Statistics
Matches: 335, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
45 28 0.08
46 7 0.02
47 2 0.01
48 1 0.00
49 11 0.03
50 285 0.85
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
Found at i:48612297 original size:150 final size:148
Alignment explanation
Indices: 48612026--48612512 Score: 556
Period size: 150 Copynumber: 3.3 Consensus size: 148
48612016 TGCTAGGGAG
* *
48612026 ATATGAGAGCTAGTGTAAGACCATGTTGGGGACATGGCATCGGTCTCGATATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* ** * *
48612091 TAAGACCATGTCTAGGACATGGCATCGGCCTCGAGACATGAGAGTTAGTGTAAGACCTTGTCTGG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGAGCCAGTGTAAGACCATGTCTAG
*
48612156 GATATGGCATCAGCCTCGAA
130 GACATGGCAT-AGCCTCGAA
*
48612176 ATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGT-TGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* *
48612241 TAAGACCATGTTTGGGACATGGCATCGGCCTCGAGATATGAGAGCCAGTGTAAGACCATGTCTAG
65 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGAGCCAGTGTAAGACCATGTCTAG
* * * *
48612306 GACATGGCATTGGCTTGAT
130 GACATGGCATAGCCTCGAA
* *
48612325 ATAT--G-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGGCAC-CGATAGATGAGAGCTAGT
1 ATATGAGAGCTAGTGTAAGACTATG-TTGGGACATGGCATCGGC-CTCGATATATGAGAGCTAGT
* * * * * * * *
48612385 GTAAGACCATGTCTGGGACATGGCATCGACCTCAATACACGAGAGTCAATGTAAGACCATGTTTC
64 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGAGCCAGTGTAAGACCATGTCTA
* * * *
48612450 GGACACGGCATCGACTTTG--
129 GGACATGGCATAG-CCTCGAA
* * * * *
48612469 ATGTGTGAGCCAATGTAAGACTATGTTCGGGACATGGCGTCGGC
1 ATATGAGAGCTAGTGTAAGACTATGTT-GGGACATGGCATCGGC
48612513 ACCTTACCCT
Statistics
Matches: 292, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
144 3 0.01
145 113 0.39
146 7 0.02
147 4 0.01
148 28 0.10
149 9 0.03
150 127 0.43
151 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (148 bp):
ATATGAGAGCTAGTGTAAGACTATGTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGGCCTCGAGACATGAGAGCCAGTGTAAGACCATGTCTAGG
ACATGGCATAGCCTCGAA
Found at i:48613235 original size:17 final size:17
Alignment explanation
Indices: 48613213--48613246 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48613203 TTGATGTGAG
48613213 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
48613230 ATAGAGTCAGAATGATT
1 ATAGAGTCAGAATGATT
48613247 TCGAAATCCC
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:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
ATAGAGTCAGAATGATT
Found at i:48617324 original size:27 final size:27
Alignment explanation
Indices: 48617294--48617471 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
48617284 ATATTGAGTC
* *
48617294 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48617321 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48617348 CGCACACTTAGTGCTACATAGTTAAACT
1 CGCACACTTAGTGCTACATA-ATCAACT
** ** *
48617376 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
48617403 CGCACACTTAGTGC-ATCATATTTATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
48617430 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
48617457 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48617472 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 102 0.82
28 22 0.18
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48619621 original size:27 final size:27
Alignment explanation
Indices: 48619567--48619621 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
48619557 ATATATGACT
* *
48619567 TCATTTCAATATTCATATCTCATTTCA
1 TCATTTCAATATTCATATCCCATCTCA
*
48619594 TCATTTC-ATATTTCATTTCCCATCTCA
1 TCATTTCAATA-TTCATATCCCATCTCA
48619621 T
1 T
48619622 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCATCTCA
Found at i:48620791 original size:16 final size:16
Alignment explanation
Indices: 48620770--48620803 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48620760 TCCTTTTAAT
*
48620770 TTATTTTAATCTATAA
1 TTATTTCAATCTATAA
48620786 TTATTTCAATCTATAA
1 TTATTTCAATCTATAA
48620802 TT
1 TT
48620804 CAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTCAATCTATAA
Found at i:48623213 original size:44 final size:44
Alignment explanation
Indices: 48623163--48623252 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
48623153 TAAATTTAAT
* * *
48623163 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
48623207 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
48623251 TT
1 TT
48623253 TATTTCAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:48623710 original size:17 final size:17
Alignment explanation
Indices: 48623688--48623732 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
48623678 TGCTAACTTG
48623688 TTAAAA-TAGTATTAAAA
1 TTAAAATTA-TATTAAAA
48623705 TTAAAATTATATT-AAA
1 TTAAAATTATATTAAAA
48623721 TTATAAATTATA
1 TTA-AAATTATA
48623733 AAAGTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAAATTATATTAAAA
Found at i:48625757 original size:20 final size:20
Alignment explanation
Indices: 48625734--48625778 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
48625724 TGATATTGGT
48625734 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
48625754 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
48625774 T-GAAT
1 TAGAAT
48625779 TGGTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (20 bp):
TAGAATGCATATAAGGCATA
Found at i:48632201 original size:70 final size:70
Alignment explanation
Indices: 48632088--48632226 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
48632078 TTAGTAGAAC
*
48632088 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATCAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
48632153 GCAAT
66 GCAAT
*
48632158 AAAGTAAAAAGGTACTAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
48632223 GCAA
66 GCAA
48632227 AACATTAAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
GCAAT
Found at i:48632484 original size:48 final size:48
Alignment explanation
Indices: 48632413--48632510 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
48632403 CTCAAGTCAA
48632413 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
48632461 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
1 ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
48632509 AT
1 AT
48632511 CCATCTATTT
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:0.50, C:0.10, G:0.20, T:0.19
Consensus pattern (48 bp):
ATTGAAAATAACAGAGGCAAGAAAGTAAGGTCAGAAATTTACAAGACT
Found at i:48636599 original size:69 final size:69
Alignment explanation
Indices: 48636488--48636626 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
48636478 GATAGGAAAA
*
48636488 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
48636553 GCTG
66 GCTG
*
48636557 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
48636622 GCTG
66 GCTG
48636626 A
1 A
48636627 TAAAGTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:48645643 original size:43 final size:43
Alignment explanation
Indices: 48645548--48645644 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
48645538 ACACATTGCA
* *
48645548 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTACTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
* * *
48645591 TTATGGATAAACCACCAGGAATTGCAAATAAACTG-TCAGTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCT-ACTAAG
*
48645634 TTGTAGATAAA
1 TTATAGATAAA
48645645 TTGGTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (43 bp):
TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
Found at i:48645718 original size:22 final size:21
Alignment explanation
Indices: 48645649--48645774 Score: 71
Period size: 21 Copynumber: 5.9 Consensus size: 21
48645639 GATAAATTGG
*
48645649 TAGTAAGTTGTGGATAAACCATC
1 TAGTAA-TTGTGAATAAACCA-C
* *
48645672 T-GTAATTGCAGAA-AAACTA-
1 TAGTAATTG-TGAATAAACCAC
48645691 TCAGTAAGTTGTGAATAAACCAC
1 T-AGTAA-TTGTGAATAAACCAC
* **
48645714 TAGTAATTAT-AGATAAACTGC
1 TAGTAATTGTGA-ATAAACCAC
*
48645735 TAGTAATTTATGAATAAACCAC
1 TAGTAA-TTGTGAATAAACCAC
* **
48645757 TAATAATTGCAAATAAAC
1 TAGTAATTGTGAATAAAC
48645775 TGTCAGTAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 40 0.50
22 35 0.44
23 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGTAATTGTGAATAAACCAC
Found at i:48645718 original size:65 final size:65
Alignment explanation
Indices: 48645587--48645731 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
48645577 AAACTGCTAC
* ****
48645587 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTGTCAGTAAGTTGTAGATAAATTGGTAG
1 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
* * * *
48645652 TAAGTTGTGGATAAACCATCTGTAATTGCAGAA-AAACTATCAGTAAGTTGT-GAATAAACCACT
1 TAAGTTATGGATAAACCACCAGGAATTGCA-AATAAACTATCAGTAAGTTGTAG-ATAAACCACT
48645715 AG
64 AG
*
48645717 TAA-TTATAGATAAAC
1 TAAGTTATGGATAAAC
48645732 TGCTAGTAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 11 0.16
65 54 0.81
66 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (65 bp):
TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
Found at i:48645731 original size:21 final size:22
Alignment explanation
Indices: 48645693--48645764 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
48645683 AAAAACTATC
* *
48645693 AGTAAGTTGTGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
**
48645715 AGTAA-TTAT-AGATAAACTGCT
1 AGTAATTTATGA-ATAAACCACT
48645736 AGTAATTTATGAATAAACCACT
1 AGTAATTTATGAATAAACCACT
*
48645758 AATAATT
1 AGTAATT
48645765 GCAAATAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.39
22 23 0.56
23 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (22 bp):
AGTAATTTATGAATAAACCACT
Found at i:48645732 original size:43 final size:42
Alignment explanation
Indices: 48645650--48645783 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 42
48645640 ATAAATTGGT
* *
48645650 AGTAAGTTGTGGATAAACCATCT-GTAATTGCAGAAAAACTATC
1 AGTAAGTTGTGAATAAACCA-CTAGTAATTGCAGATAAACT-TC
** *
48645693 AGTAAGTTGTGAATAAACCACTAGTAATTATAGATAAACTGC
1 AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
* * * *
48645735 TAGTAATTTATGAATAAACCACTAATAATTGCAAATAAACTGTC
1 -AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACT-TC
48645779 AGTAA
1 AGTAA
48645784 CTTCTTCTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.04
43 72 0.95
44 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (42 bp):
AGTAAGTTGTGAATAAACCACTAGTAATTGCAGATAAACTTC
Found at i:48650565 original size:6 final size:6
Alignment explanation
Indices: 48650549--48650594 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
48650539 TGGGTTTCCA
* *
48650549 AAAATG GAAATA AAAATG AAAATG AAAATG AAAATG AAAATAG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G AAA
48650595 CTTGCAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:48652333 original size:28 final size:28
Alignment explanation
Indices: 48652293--48652348 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
48652283 AACAAACCAA
*
48652293 AAGGAAATTGGTGCTCAGCTTTCACTTG
1 AAGGAAATTGGTGCTCAACTTTCACTTG
48652321 AAGGAAATTGGTGCTCAACTTTCACTTG
1 AAGGAAATTGGTGCTCAACTTTCACTTG
48652349 TTGGCACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (28 bp):
AAGGAAATTGGTGCTCAACTTTCACTTG
Found at i:48667226 original size:20 final size:20
Alignment explanation
Indices: 48667201--48667244 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
48667191 ACGAGGTAAG
*
48667201 TTCATATGTTATAATTTTAT
1 TTCATATGTTATAAGTTTAT
48667221 TTCATATGTTATAAGTTTAT
1 TTCATATGTTATAAGTTTAT
48667241 TTCA
1 TTCA
48667245 AATTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (20 bp):
TTCATATGTTATAAGTTTAT
Found at i:48670389 original size:21 final size:20
Alignment explanation
Indices: 48670348--48670386 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48670338 AAGATGACCA
48670348 TTTTAATTAAATTTTTTTATG
1 TTTTAATT-AATTTTTTTATG
*
48670369 TTTTAATT-ATTTTATTAT
1 TTTTAATTAATTTTTTTAT
48670387 ATGAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTAATTAATTTTTTTATG
Found at i:48680757 original size:27 final size:27
Alignment explanation
Indices: 48680726--48680820 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
48680716 TTAGTTTACC
** * *
48680726 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
* *
48680753 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTGTA
*
48680780 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTGTA
*
48680807 AAATTACCGAAATA
1 AAATTACCCAAATA
48680821 AGATAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 48 0.86
28 5 0.09
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTGTA
Found at i:48680855 original size:27 final size:27
Alignment explanation
Indices: 48680825--48680913 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
48680815 GAAATAAGAT
48680825 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
48680852 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
48680879 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
48680906 AAAATTAC
1 AGAATTAC
48680914 TGAAATACAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:48680932 original size:54 final size:54
Alignment explanation
Indices: 48680825--48680975 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 54
48680815 GAAATAAGAT
* *** *
48680825 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACACTCGATTTAC
* * *
48680879 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACACTTGGTTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACACTCGATTTAC
* *** ** * *
48680933 AAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATAC
48680976 CCCTGGTTTG
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACACTCGATTTAC
Found at i:48680946 original size:27 final size:27
Alignment explanation
Indices: 48680865--48681031 Score: 109
Period size: 27 Copynumber: 6.2 Consensus size: 27
48680855 ATTACCGTTT
* * * ***
48680865 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
48680892 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
48680919 TACACTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * ** *
48680946 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
48680973 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *** *
48681000 TACCCCTGATTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
48681027 TACCC
1 TACCC
48681032 CTGTATGGTA
Statistics
Matches: 114, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:48680983 original size:54 final size:54
Alignment explanation
Indices: 48680874--48681004 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
48680864 TTACCCTCGA
* *** ** ** *
48680874 TTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACACTTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACACCTGG
* *
48680928 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACACCTGG
**
48680982 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
48681005 CTGATTTGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACACCTGG
Found at i:48681019 original size:54 final size:55
Alignment explanation
Indices: 48680933--48681058 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 55
48680923 CTTGGTTTAC
*
48680933 AAAATTACCAAAATA-CCCTCGATCAATAAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCTCGATCAATAAAATTACCAAAATACCCCT-GTATGGT
*** * *
48680987 AAAATTACCAAAATACCCCT-GATTTGTGAAATTACCGAAATACCCCTGTATGGT
1 AAAATTACCAAAATACCCCTCGATCAATAAAATTACCAAAATACCCCTGTATGGT
* *
48681041 AGAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
48681059 TTGTAGGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.03
54 56 0.90
55 4 0.06
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (55 bp):
AAAATTACCAAAATACCCCTCGATCAATAAAATTACCAAAATACCCCTGTATGGT
Found at i:48681032 original size:27 final size:26
Alignment explanation
Indices: 48680961--48681058 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
48680951 TCGATCAATA
*
48680961 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCT-GTTTGTG
48680988 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTG-TTTGTG
* *
48681015 AAATTACCGAAATACCCCTGTATG-G
1 AAATTACCAAAATACCCCTGTTTGTG
*
48681040 TAGAATTACCGAAATACCC
1 -A-AATTACCAAAATACCC
48681059 TTGTAGGGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 59 0.91
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGTTTGTG
Found at i:48681047 original size:81 final size:82
Alignment explanation
Indices: 48680962--48681158 Score: 206
Period size: 81 Copynumber: 2.4 Consensus size: 82
48680952 CGATCAATAA
* ** **
48680962 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCG
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTA-GAGTAG-AATTACCG
*
48681024 AAATACCCCTGTATGGTAG
64 AAATACCCCTGTAGGGTAG
* * ** *
48681043 AATTACCGAAATA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGAGTAGAATTATCGAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAA
48681107 ATACCCCTGTAGGGTAG
66 ATACCCCTGTAGGGTAG
* ** *
48681124 AATTACCGAGATA-CCCTTATGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCA
48681159 TTTTGCCCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 6 0.06
81 88 0.92
82 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAA
ATACCCCTGTAGGGTAG
Found at i:48681063 original size:27 final size:27
Alignment explanation
Indices: 48681016--48681157 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
48681006 TGATTTGTGA
*
48681016 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48681043 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48681070 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48681097 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
48681124 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
48681151 AATTACC
1 AATTACC
48681158 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:48681587 original size:31 final size:31
Alignment explanation
Indices: 48681552--48681631 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
48681542 TTGCATTCAC
* *
48681552 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
48681583 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
48681614 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
48681632 ATTCTGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:48681594 original size:6 final size:6
Alignment explanation
Indices: 48681552--48681642 Score: 96
Period size: 6 Copynumber: 14.8 Consensus size: 6
48681542 TTGCATTCAC
* * *
48681552 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
48681601 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
48681643 AGTTTTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.04
6 60 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:48687600 original size:18 final size:20
Alignment explanation
Indices: 48687577--48687620 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
48687567 GTAATACATG
48687577 TATTTAATTA-T-TAAAAGA
1 TATTTAATTATTATAAAAGA
48687595 TATTT-ATTATTTATAAAAGA
1 TATTTAATTA-TTATAAAAGA
48687615 TATTTA
1 TATTTA
48687621 TATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 1 0.05
20 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAATTATTATAAAAGA
Found at i:48687974 original size:17 final size:17
Alignment explanation
Indices: 48687952--48687984 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48687942 GCAAGGGAGA
48687952 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
*
48687969 AAAAGAAAGGAAGAAA
1 AAAAGAAAGAAAGAAA
48687985 AGAGAAAATT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:48687975 original size:13 final size:13
Alignment explanation
Indices: 48687953--48687987 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
48687943 CAAGGGAGAA
48687953 AAAG-AAAGAAAG
1 AAAGAAAAGAAAG
48687965 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
48687978 GAAGAAAAGA
1 AAAGAAAAGA
48687988 GAAAATTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:48690021 original size:22 final size:20
Alignment explanation
Indices: 48689973--48690021 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
48689963 GGGCTAAGGG
*
48689973 CACGGGCGTGTCCTAAGCCA
1 CACGGGCGTGTCATAAGCCA
*
48689993 CATGGGCGTGATACATAAGCCA
1 CACGGGCGTG-T-CATAAGCCA
*
48690015 TACGGGC
1 CACGGGC
48690022 CTGTGGTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (20 bp):
CACGGGCGTGTCATAAGCCA
Found at i:48692164 original size:27 final size:26
Alignment explanation
Indices: 48692124--48692208 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
48692114 AGGAAGCGTC
* *
48692124 CTGGTGGCTATGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
48692151 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
48692179 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
48692205 CTGG
1 CTGG
48692209 CAGCCGTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.10
27 28 0.56
28 17 0.34
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:48699996 original size:27 final size:27
Alignment explanation
Indices: 48699956--48700067 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
48699946 AGGAAGCATC
*
48699956 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
48699983 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
48700010 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
48700038 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
48700064 CTGG
1 CTGG
48700068 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:48700062 original size:54 final size:54
Alignment explanation
Indices: 48699956--48700067 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
48699946 AGGAAGCATC
* *
48699956 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
48700010 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
48700064 CTGG
1 CTGG
48700068 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:48701264 original size:17 final size:16
Alignment explanation
Indices: 48701228--48701265 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48701218 GCCACATTCT
*
48701228 TATTGCTGTCGCAGCC
1 TATTGCTGTCGCAACC
48701244 TATTGCTGTCGCACACC
1 TATTGCTGTCGCA-ACC
48701261 TATTG
1 TATTG
48701266 TTGCTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (16 bp):
TATTGCTGTCGCAACC
Found at i:48704460 original size:55 final size:53
Alignment explanation
Indices: 48704352--48704546 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
48704342 ATTAGGGTTT
** * * *
48704352 AAGGATACCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGAC-ATTGG-AAAG-TTCATAAGGC
* *
48704407 AAGGAAATCATGTAAGACCATGTCAAGACATGACATT-GATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGA-AAGTT-C-ATAAGGC
* * * * *
48704462 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGAGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGAAAGTTCATAAGGC
*
48704515 AATGATACCATGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
48704547 GCAATGGTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 35 0.30
54 4 0.03
55 64 0.56
56 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGGAAAGTTCATAAGGC
Found at i:48704558 original size:108 final size:110
Alignment explanation
Indices: 48704359--48704559 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
48704349 TTTAAGGATA
*
48704359 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
48704424 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* * *
48704469 CCATGTAAGACCATGCCAAGGCATGGC-ATTGG--AGAG-TTCATAAGGCAATGATACCATGTAA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAG-GTTTC-TAAGGCAAGGAAACCATGTAA
* *
48704530 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGACAATGATAAGTT
48704560 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 5 0.06
108 46 0.56
109 5 0.06
110 26 0.32
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:48704819 original size:16 final size:16
Alignment explanation
Indices: 48704798--48704828 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48704788 ATAAATTTGA
48704798 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48704814 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48704829 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48709311 original size:27 final size:27
Alignment explanation
Indices: 48709269--48709376 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
48709259 AATCTCATAT
* * *
48709269 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
48709296 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
48709323 CTATAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
48709350 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
48709377 TTGGTATACA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:48709392 original size:54 final size:54
Alignment explanation
Indices: 48709281--48709402 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
48709271 GTAGGCTAGT
* * * *
48709281 ATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATGCCCCTATAGGGTAGA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
*
48709335 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTGAAAT-ACCCT-T-GGTATACAAA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGG-AT--AAA
48709389 ATTACTG-AATACCC
1 ATTACTGAAATACCC
48709403 TTGGTTTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.03
52 2 0.03
53 10 0.17
54 45 0.76
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
Found at i:48709399 original size:26 final size:27
Alignment explanation
Indices: 48709361--48709428 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
48709351 TGTAGGGTAG
48709361 AATTACTGAAATACCCTTGGTATACAA
1 AATTACTGAAATACCCTTGGTATACAA
* *
48709388 AATTACTG-AATACCCTTGGTTTAGAA
1 AATTACTGAAATACCCTTGGTATACAA
**
48709414 AATTACCAAAATACC
1 AATTACTGAAATACC
48709429 TCTGGTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTATACAA
Found at i:48709434 original size:27 final size:26
Alignment explanation
Indices: 48709412--48709749 Score: 261
Period size: 27 Copynumber: 12.5 Consensus size: 26
48709402 CTTGGTTTAG
*
48709412 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
48709439 AAAATTACCAAAATACCCCTTG-TTTGT
1 AAAATTACCAAAATA-CCC-TGATTTGT
* *
48709466 AAAATTTCTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* * *
48709493 GAAATTATCAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* *
48709520 AAAATTACTAAAATACCCTCGATTGGT
1 AAAATTACCAAAATACCCT-GATTTGT
*
48709547 AAAATTACCAAAATACCATTGATTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
** * *
48709574 AAAATTTTCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTGATTTGT
* * *
48709601 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCC-TGATTTGT
**
48709628 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATA-CCCTGATTTGT
**
48709655 AAAATTATAAAAATACCCTTGACTTTCG-
1 AAAATTACCAAAATACCC-TGA-TTT-GT
* * *
48709683 AAAATTA-AAGAAATACCATTGGTTTGT
1 AAAATTACCA-AAATACC-CTGATTTGT
*
48709710 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* *
48709737 AGATTTACCAAAA
1 AAAATTACCAAAA
48709750 CACCTTATAG
Statistics
Matches: 259, Mismatches: 34, Indels: 36
0.79 0.10 0.11
Matches are distributed among these distances:
26 15 0.06
27 213 0.82
28 31 0.12
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:48709479 original size:54 final size:53
Alignment explanation
Indices: 48709396--48709737 Score: 309
Period size: 54 Copynumber: 6.3 Consensus size: 53
48709386 AAAATTACTG
* * *
48709396 AATACCCTTGGTTTAG-AAAATTACCAAAATACCTCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTT-GTAAAATTACTAAAATACC-CTGATTTGTAAAATTACCAA
* * *
48709450 AATACCCCTTG-TTTGTAAAATTTCTAAAATACCCTTGATTTGTGAAATTATCAA
1 AATA-CCCTTGATTTGTAAAATTACTAAAATACCC-TGATTTGTAAAATTACCAA
* * *
48709504 AATACCCTCGACTTGTAAAATTACTAAAATACCCTCGATTGGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACTAAAATACCCT-GATTTGTAAAATTACCAA
* * * * * *
48709558 AATACCATTGATTTGTAAAATT-TTCAAAATACCCCTAATTTGGAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACT-AAAATA-CCCTGATTTGTAAAATTACCAA
* ** **
48709612 AATACCCTTGATTTGGAAAATTAC-AGAAATACCCCTGATTTACAAAATTATAAA
1 AATACCCTTGATTTGTAAAATTACTA-AAATA-CCCTGATTTGTAAAATTACCAA
* * *
48709666 AATACCCTTGACTTTCG-AAAATTA-AAGAAATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTT-GTAAAATTACTA-AAATACC-CTGATTTGTAAAATTACCAA
*
48709721 AATACCCTTGGTTTGTA
1 AATACCCTTGATTTGTA
48709738 GATTTACCAA
Statistics
Matches: 239, Mismatches: 35, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
53 11 0.05
54 176 0.74
55 51 0.21
56 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (53 bp):
AATACCCTTGATTTGTAAAATTACTAAAATACCCTGATTTGTAAAATTACCAA
Found at i:48709499 original size:81 final size:79
Alignment explanation
Indices: 48709386--48709737 Score: 325
Period size: 81 Copynumber: 4.3 Consensus size: 79
48709376 CTTGGTATAC
** * * *
48709386 AAAATTACTGAATACCCTTGGTTTAG-AAAATTACCAAAATACCTCTGGTTTGTAAAATTACCAA
1 AAAATTACAAAATACCCTTGATTT-GTAAAATTATCAAAATACC-CTGATTTGTAAAATTACCAA
48709450 AATACCCCTTG-TTTGT
64 AATA-CCCTTGATTTGT
* * * *
48709466 AAAATTTCTAAAATACCCTTGATTTGTGAAATTATCAAAATACCCTCGACTTGTAAAATTACTAA
1 AAAATTAC-AAAATACCCTTGATTTGTAAAATTATCAAAATACCCT-GATTTGTAAAATTACCAA
* *
48709531 AATACCCTCGATTGGT
64 AATACCCTTGATTTGT
* * * * * *
48709547 AAAATTACCAAAATACCATTGATTTGTAAAATTTTCAAAATACCCCTAATTTGGAAAATTATCGA
1 AAAATTA-CAAAATACCCTTGATTTGTAAAATTATCAAAATA-CCCTGATTTGTAAAATTACCAA
*
48709612 AATACCCTTGATTTGG
64 AATACCCTTGATTTGT
* ** * *
48709628 AAAATTACAGAAATACCCCTGATTTACAAAATTATAAAAATACCCTTGACTTTCG-AAAATTA-A
1 AAAATTACA-AAATACCCTTGATTTGTAAAATTATCAAAATACCC-TGA-TTT-GTAAAATTACC
* *
48709691 AGAAATACCATTGGTTTGT
62 A-AAATACCCTTGATTTGT
*
48709710 AAAATTACCAAAATACCCTTGGTTTGTA
1 AAAATTA-CAAAATACCCTTGATTTGTA
48709738 GATTTACCAA
Statistics
Matches: 220, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
80 20 0.09
81 147 0.67
82 50 0.23
83 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (79 bp):
AAAATTACAAAATACCCTTGATTTGTAAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAA
TACCCTTGATTTGT
Found at i:48710026 original size:41 final size:41
Alignment explanation
Indices: 48709980--48710103 Score: 162
Period size: 41 Copynumber: 3.0 Consensus size: 41
48709970 AACGGAGGAA
* * *
48709980 AATTGAGGATCGCATGGTCGCTTGACAACTGTGGATCCACC
1 AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
* * *
48710021 GATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
48710062 AATT-ATGGATCGTATGGTTGCTTGACGA-TCGTGGATCCACC
1 AATTGA-GGATCGTATGGTTGCTTGACGACT-GTGGATCCACC
48710103 A
1 A
48710104 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
Found at i:48710297 original size:22 final size:22
Alignment explanation
Indices: 48710245--48710306 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
48710235 GCCAATTATT
* *
48710245 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTCTGTGCTAAC
*
48710267 CT-ACATATGGCTCTGTGCTAAC
1 CTGA-TTATGGCTCTGTGCTAAC
*
48710289 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
48710307 CAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCTAAC
Found at i:48718478 original size:50 final size:49
Alignment explanation
Indices: 48718280--48718546 Score: 178
Period size: 46 Copynumber: 5.7 Consensus size: 49
48718270 TTTGTGTGCT
* *
48718280 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATAAT-GA-GAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACATGATGGATGAGCC
* * * *
48718326 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGC-C-TCGA--GATGTAAACC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAT-GATGGATG--AGCC
* * * *
48718372 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-T-A--GATGTGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACATGATGGATGAGCC
* *
48718416 AGTGCAAGACCATGTTTGGGACATGGCATCGGCACGGAT-ATGCGA-GAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC--ATGATG-GATGAGCC
* * *
48718466 AGTGTAAGACCATATTTGGGACATGGCATC--AACTTGATGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
*
48718513 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
48718547 TTTTACCCTA
Statistics
Matches: 179, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.02
44 12 0.07
45 16 0.09
46 74 0.41
47 35 0.20
48 6 0.03
49 1 0.01
50 30 0.17
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
Found at i:48732965 original size:29 final size:29
Alignment explanation
Indices: 48732932--48732989 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
48732922 ATCAAAAAGA
48732932 TAGAATGAACTAGAAATAACATCAGGCGC
1 TAGAATGAACTAGAAATAACATCAGGCGC
*
48732961 TAGAATGTACTAGAAATAACATCAGGCGC
1 TAGAATGAACTAGAAATAACATCAGGCGC
48732990 GGTAGCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (29 bp):
TAGAATGAACTAGAAATAACATCAGGCGC
Found at i:48736628 original size:47 final size:47
Alignment explanation
Indices: 48736570--48736690 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 47
48736560 GTATTGGCAC
*
48736570 TAAGACAAGGATAGCATGTAAGACCATGTTTGGAAAATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
** *
48736617 TAAGACAAGGATACCATGTAAGA-CATGTTTGGATCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
* * *
48736663 TATGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
48736691 CCAAGGCATG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 40 0.61
47 26 0.39
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
Found at i:48736798 original size:55 final size:54
Alignment explanation
Indices: 48736669--48736865 Score: 238
Period size: 54 Copynumber: 3.6 Consensus size: 54
48736659 TTGGTATGAT
* * *
48736669 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
48736723 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* *
48736779 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGC
* * *
48736831 AAGGATACCACGTAAGACCATGTCAATACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
48736866 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 43 0.35
55 41 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:48739165 original size:17 final size:17
Alignment explanation
Indices: 48739143--48739178 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48739133 CTACTGCTAC
48739143 TGTCCAAACTGTTTTAG
1 TGTCCAAACTGTTTTAG
48739160 TGTCCAAACTGTTTTAG
1 TGTCCAAACTGTTTTAG
48739177 TG
1 TG
48739179 CAAGCTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTCCAAACTGTTTTAG
Found at i:48739188 original size:15 final size:16
Alignment explanation
Indices: 48739146--48739188 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
48739136 CTGCTACTGT
48739146 CCAAACTGTTTTAGTG
1 CCAAACTGTTTTAGTG
48739162 TCCAAACTGTTTTAGTG
1 -CCAAACTGTTTTAGTG
*
48739179 -CAAGCTGTTT
1 CCAAACTGTTT
48739189 ATTACCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.36
17 16 0.64
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (16 bp):
CCAAACTGTTTTAGTG
Found at i:48752312 original size:92 final size:92
Alignment explanation
Indices: 48752155--48752334 Score: 333
Period size: 92 Copynumber: 2.0 Consensus size: 92
48752145 CGCTCTGGAG
*
48752155 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTTAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
48752220 CATCTACTAACAAAATCAGCTACATCC
66 CATCTACTAACAAAATCAGCTACATCC
*
48752247 TCCTGATTGGCTGAAGTAACCTAGGCGGACTTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
*
48752312 CATTTACTAACAAAATCAGCTAC
66 CATCTACTAACAAAATCAGCTAC
48752335 GTTCTTCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (92 bp):
TCCTGATTGGCTGAAGTAACCTAGGCGGACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
CATCTACTAACAAAATCAGCTACATCC
Found at i:48755864 original size:10 final size:10
Alignment explanation
Indices: 48755850--48755885 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
48755840 TAAGCTCGGT
48755850 TGAGCTCAAA
1 TGAGCTCAAA
* *
48755860 CGAGCTGAAA
1 TGAGCTCAAA
48755870 TGAGCTCAAA
1 TGAGCTCAAA
48755880 TGAGCT
1 TGAGCT
48755886 GAATTAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:48755873 original size:20 final size:20
Alignment explanation
Indices: 48755850--48755888 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48755840 TAAGCTCGGT
48755850 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
*
48755870 TGAGCTCAAATGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
48755889 TTAAGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:48755895 original size:20 final size:20
Alignment explanation
Indices: 48755852--48755895 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
48755842 AGCTCGGTTG
*
48755852 AGCTCAAACGAGCTGAAATG
1 AGCTCAAACGAGCTGAAATA
* *
48755872 AGCTCAAATGAGCTGAATTA
1 AGCTCAAACGAGCTGAAATA
48755892 AGCT
1 AGCT
48755896 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAAATA
Found at i:48758331 original size:40 final size:40
Alignment explanation
Indices: 48758273--48758490 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
48758263 CGGATGATAA
* *
48758273 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
48758313 CCAGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
48758353 CTGGGCTACGTCCCGAAGGTATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48758393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48758433 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48758473 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48758491 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.