Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 18 of 175
Found at i:4889337 original size:18 final size:18
Alignment explanation
Indices: 4889298--4889337 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4889288 TAAGAATTTT
** *
4889298 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
4889316 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
4889334 ATTA
1 ATTA
4889338 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:4889351 original size:121 final size:120
Alignment explanation
Indices: 4889095--4889402 Score: 519
Period size: 121 Copynumber: 2.6 Consensus size: 120
4889085 CCACAAAATC
* *
4889095 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATCCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
4889160 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
4889215 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* * *
4889280 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
65 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
* * * *
4889336 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
4889400 TTA
66 TTA
4889403 TTAAATTATA
Statistics
Matches: 178, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
119 4 0.02
120 62 0.35
121 112 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (120 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:4889669 original size:45 final size:44
Alignment explanation
Indices: 4889583--4889673 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
4889573 ACCTCTATTC
* *
4889583 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
4889627 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
4889672 CA
1 CA
4889674 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:4889673 original size:16 final size:16
Alignment explanation
Indices: 4889652--4889721 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
4889642 TTGATTTGCT
4889652 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
4889668 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
4889684 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
4889700 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
4889716 AATACA
1 ATTACA
4889722 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:4892726 original size:19 final size:20
Alignment explanation
Indices: 4892681--4892730 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4892671 AAATAAAATA
**
4892681 TTTTTATTTATTTTGAAGAT
1 TTTTTATTTATTTACAAGAT
* *
4892701 GTCTTATTT-TTTACAAGAT
1 TTTTTATTTATTTACAAGAT
4892720 TTTTTATTTAT
1 TTTTTATTTAT
4892731 ATTTCTATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTTATTTATTTACAAGAT
Found at i:4894573 original size:126 final size:125
Alignment explanation
Indices: 4894334--4894779 Score: 653
Period size: 126 Copynumber: 3.6 Consensus size: 125
4894324 AGGATAATGA
*
4894334 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAAT--CGCCCTCGTGGACGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
* * ** * **
4894397 AGTTGGCCCCGAAAAAAAATAATTTCGAGTTGACGTTTCTGAGTGAATAGTATAAAAATGGC
66 AGTAGGTCTTG-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAA-GGC
* * * **
4894459 TTCTAGCAAGATGCGTTATGAGAAGAATTTGTGAAATCATGCCCACGTGGACGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
4894524 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAGGC
66 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAGGC
* *
4894585 TTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
* *
4894650 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAACGC
66 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAGGC
* * * * *
4894710 TTTTAGCAGGATGTTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCACTTTTGCTAT
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
4894775 AGTAG
66 AGTAG
4894780 CATGTTCGGT
Statistics
Matches: 294, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 106 0.36
126 152 0.52
127 36 0.12
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAGGC
Found at i:4896066 original size:20 final size:20
Alignment explanation
Indices: 4896041--4896078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4896031 TTTTTTAAAA
4896041 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
4896061 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
4896079 TACCTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:4897074 original size:51 final size:51
Alignment explanation
Indices: 4897013--4897112 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
4897003 AAATTATTTA
* *
4897013 AAATAGGGATTTACGAGAAATTTA-AGAGGAAATTGAGAGTAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * *
4897064 AAATATGGATTTAAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
4897113 GAAAATTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:4897110 original size:11 final size:11
Alignment explanation
Indices: 4897090--4897146 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
4897080 GAAATTTGGA
*
4897090 AGGAATTTGAG
1 AGGAAATTGAG
*
4897101 AGCAAATTGAG
1 AGGAAATTGAG
* *
4897112 AGAAAATTTAG
1 AGGAAATTGAG
4897123 AGGAAATTGAG
1 AGGAAATTGAG
4897134 AGGAAATTTGAG
1 AGGAAA-TTGAG
4897146 A
1 A
4897147 AAGGATTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 33 0.85
12 6 0.15
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.23
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:4897127 original size:33 final size:34
Alignment explanation
Indices: 4897072--4897146 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
4897062 TTAAATATGG
* * *
4897072 ATTTAAGAGAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
*
4897106 A-TTGAGAGAAAATTTAG-AGGAAATTGAGAGGAA
1 ATTTGAGAG-AAATTTAGAAGGAAATTGAGAGCAA
4897139 ATTTGAGA
1 ATTTGAGA
4897147 AAGGATTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.45, C:0.01, G:0.28, T:0.25
Consensus pattern (34 bp):
ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:4897129 original size:22 final size:23
Alignment explanation
Indices: 4897093--4897146 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
4897083 ATTTGGAAGG
4897093 AATTTGAGAGCAAATTGAGAGAA
1 AATTTGAGAGCAAATTGAGAGAA
* *
4897116 AATTT-AGAGGAAATTGAGAGGA
1 AATTTGAGAGCAAATTGAGAGAA
4897138 AATTTGAGA
1 AATTTGAGA
4897147 AAGGATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (23 bp):
AATTTGAGAGCAAATTGAGAGAA
Found at i:4897390 original size:39 final size:40
Alignment explanation
Indices: 4897313--4897410 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 40
4897303 GTCTACATAA
* * *
4897313 ACGCGCTTTGCTGACATGGACGCAAGTCGCGCATACGTGG
1 ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
* * * * *
4897353 ATGCGATTTGTTGCCACGTACGCAA-TCGTGCTTACGTGG
1 ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
4897392 ACGCGATTTGCTGACACGT
1 ACGCGATTTGCTGACACGT
4897411 CCCCTGACAT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
39 28 0.60
40 19 0.40
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (40 bp):
ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
Found at i:4898785 original size:13 final size:13
Alignment explanation
Indices: 4898748--4898798 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
4898738 TTTGGCAATG
4898748 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
4898761 -ATGTGAAAAAGTA
1 CTTTTG-AAAAGTA
* *
4898774 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
4898787 CTTTTGAAAAGT
1 CTTTTGAAAAGT
4898799 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.10
13 23 0.79
14 3 0.10
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:4900606 original size:32 final size:31
Alignment explanation
Indices: 4900570--4900634 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
4900560 AAAATTTCAA
4900570 AATTCAAAAAAGTAGAAG-GACTAAAATTGATC
1 AATTCAAAAAA-TA-AAGAGACTAAAATTGATC
* *
4900602 AATTCAAAAAATACAGATACTAAAATTGATC
1 AATTCAAAAAATAAAGAGACTAAAATTGATC
4900633 AA
1 AA
4900635 ATTAAAGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 17 0.57
32 11 0.37
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (31 bp):
AATTCAAAAAATAAAGAGACTAAAATTGATC
Found at i:4902507 original size:308 final size:308
Alignment explanation
Indices: 4901901--4902636 Score: 795
Period size: 308 Copynumber: 2.4 Consensus size: 308
4901891 CAAACTCATG
*
4901901 CCAAGTGCATTAGTAAAACATTTAATTTACCACTCAACTAAAGCTTCATTTTAATATTTTTATAC
1 CCAATTGCATTA-TAAAACATTTAATTTACCACTCAACTAAA-CTTCATTTTAATATTTTTATAC
* * *
4901966 ATTTTAGTTTTATTATGCACATTCTATTA--TCTCCA--TA-A-ATGTATA-TTTATATCTATCT
64 ATTTTAATTTTATTATGCACATTCTATTACCTCACCAGTTATATATCTATACTTTATATCTATCT
* * * * * * * * *
4902024 ATACTATTGTTTAAACTCTTGACTGAGTTGGTGTCGCAAGTTAACTGAGCACGAACTAATTGGTT
129 ACACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAACAGAGCACCAACTAATTGG-T
* *
4902089 AGGAAATTACGGGAATGCACATCCTTAATTAAAATAAGTAATATTATTCGGGGTATTTTAGTCTT
193 -GGAAATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCGGGGTATTTTAGTCTT
* ** * * * *
4902154 TTCAATTCAAAAAAATAATAAAAATATGTATATGGTGAGATTTGAATCTACA
257 TTCAATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
* ** * *
4902206 CCATTTGCATTATAAAACCCTTAATTTACCACTCAAGTAAACATTCATTTTAATATTTTTATAAA
1 CCAATTGCATTATAAAACATTTAATTTACCACTCAACTAAAC-TTCATTTTAATATTTTTATACA
*
4902271 TTTTAATTTTATTATGCACATTCTATTACCTCCACCAGTTATATATCTATACTTGTATAT-TATT
65 TTTTAATTTTATTATGCACATTCTATTACCT-CACCAGTTATATATCTATACTT-TATATCTATC
* * *
4902335 TACACTATTATTTCAGCTCCT-ACTGAGTTGATGTCAC-CCTCAACCAG-GTCACCAACTCAATT
128 TACACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAA-CAGAG-CACCAACT-AATT
* * * * *
4902397 -G-GGAAGTTACGGGAATGCGCTTTCATAATTAAAATAAATAATATTATTCGAGTGTATTTTAGT
190 GGTGGAAATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCG-GGGTATTTTAGT
* * *
4902460 CTTTTCACTT-AAAAAACCAATAAAAATATACATATGGTAAAATTTGAACCCACG
254 CTTTTCAATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
* * *
4902514 CCAATTGCATTGATAAAACATTTAATTTACCA-TGCAACTAAAGTTTA-TATATATATTTTTATA
1 CCAATTGCATT-ATAAAACATTTAATTTACCACT-CAACTAAACTTCATTTTA-ATATTTTTATA
** *
4902577 CATTTTAATTTTATTATGCACACTT-TATTACCTTCATTAGTTGTATATCTATACTGTTAT
63 CATTTTAATTTTATTATGCACA-TTCTATTACC-TCACCAGTTATATATCTATACT-TTAT
4902637 TTAAATTCTT
Statistics
Matches: 361, Mismatches: 50, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
303 1 0.00
304 74 0.20
305 10 0.03
306 1 0.00
307 7 0.02
308 152 0.42
309 51 0.14
310 5 0.01
311 30 0.08
312 25 0.07
313 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (308 bp):
CCAATTGCATTATAAAACATTTAATTTACCACTCAACTAAACTTCATTTTAATATTTTTATACAT
TTTAATTTTATTATGCACATTCTATTACCTCACCAGTTATATATCTATACTTTATATCTATCTAC
ACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAACAGAGCACCAACTAATTGGTGGA
AATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCGGGGTATTTTAGTCTTTTCA
ATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
Found at i:4908885 original size:25 final size:25
Alignment explanation
Indices: 4908851--4908902 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4908841 GGTCACCGTG
4908851 AGGCTCCATCACATCGATCAGCCTA
1 AGGCTCCATCACATCGATCAGCCTA
4908876 AGGCTCCATCACATCGATCAGCCTA
1 AGGCTCCATCACATCGATCAGCCTA
4908901 AG
1 AG
4908903 TCTATGGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (25 bp):
AGGCTCCATCACATCGATCAGCCTA
Found at i:4909089 original size:13 final size:13
Alignment explanation
Indices: 4909058--4909097 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
4909048 CTTTTCAAAT
4909058 ACAGATA-ACAGA
1 ACAGATATACAGA
*
4909070 ATTAGATATACAGA
1 A-CAGATATACAGA
4909084 ACAGATATACAGA
1 ACAGATATACAGA
4909097 A
1 A
4909098 TCCTACCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 17 0.71
14 6 0.25
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (13 bp):
ACAGATATACAGA
Found at i:4912642 original size:18 final size:17
Alignment explanation
Indices: 4912607--4912642 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4912597 CAATTTGGGT
*
4912607 CATGTGGGCCACATGGG
1 CATGTGGGCCACACGGG
4912624 CATGTGGGCCCACACGGG
1 CATGTGGG-CCACACGGG
4912642 C
1 C
4912643 GAATAGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.31, G:0.39, T:0.14
Consensus pattern (17 bp):
CATGTGGGCCACACGGG
Found at i:4913626 original size:18 final size:18
Alignment explanation
Indices: 4913603--4913642 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4913593 GTTTTAAAAT
*
4913603 TGAATAACGATTTGTAAA
1 TGAATAACGATTTGGAAA
* *
4913621 TGAATAATGTTTTGGAAA
1 TGAATAACGATTTGGAAA
4913639 TGAA
1 TGAA
4913643 CGACACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (18 bp):
TGAATAACGATTTGGAAA
Found at i:4918045 original size:22 final size:21
Alignment explanation
Indices: 4918020--4918091 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
4918010 TCAACTATCT
4918020 TATATGAAGATAATACAACATG
1 TATATGAAGATAAT-CAACATG
* * *
4918042 TATAGGAAGAGAAGTCAACTATCT
1 TATATGAAGATAA-TCAAC-AT-G
*
4918066 TATCTGAAGATAATGCAACATG
1 TATATGAAGATAAT-CAACATG
4918088 TATA
1 TATA
4918092 GCTCAATTGC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 18 0.47
23 6 0.16
24 14 0.37
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (21 bp):
TATATGAAGATAATCAACATG
Found at i:4918048 original size:46 final size:46
Alignment explanation
Indices: 4917996--4918092 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
4917986 AATTTGTCTT
*
4917996 TATAGGAAGAGATGTCAACTATCTTATATGAAGATAATACAACATG
1 TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
* *
4918042 TATAGGAAGAGAAGTCAACTATCTTATCTGAAGATAATGCAACATG
1 TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
4918088 TATAG
1 TATAG
4918093 CTCAATTGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (46 bp):
TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
Found at i:4918074 original size:24 final size:24
Alignment explanation
Indices: 4917995--4918075 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
4917985 TAATTTGTCT
* *
4917995 TTATAGGAAGAGATGTCAACTATC
1 TTATATGAAGAGAAGTCAACTATC
*
4918019 TTATATGAAGATAA-TACAAC-AT-
1 TTATATGAAGAGAAGT-CAACTATC
* *
4918041 GTATAGGAAGAGAAGTCAACTATC
1 TTATATGAAGAGAAGTCAACTATC
*
4918065 TTATCTGAAGA
1 TTATATGAAGA
4918076 TAATGCAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
22 15 0.34
23 6 0.14
24 23 0.52
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (24 bp):
TTATATGAAGAGAAGTCAACTATC
Found at i:4918084 original size:24 final size:24
Alignment explanation
Indices: 4918011--4918084 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
4918001 GAAGAGATGT
*
4918011 CAACTATCTTATATGAAGATAATA
1 CAACTATCTTATATGAAGATAATG
* * *
4918035 CAAC-AT-GTATAGGAAGAGAA-G
1 CAACTATCTTATATGAAGATAATG
*
4918056 TCAACTATCTTATCTGAAGATAATG
1 -CAACTATCTTATATGAAGATAATG
4918081 CAAC
1 CAAC
4918085 ATGTATAGCT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 15 0.39
23 4 0.11
24 18 0.47
25 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (24 bp):
CAACTATCTTATATGAAGATAATG
Found at i:4919335 original size:22 final size:22
Alignment explanation
Indices: 4919292--4919337 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4919282 GTATAATTAT
**
4919292 AATTACAAAAATATATCTAATC
1 AATTACAAAAATATATAGAATC
4919314 AATTA-AAATAATATATAGAATC
1 AATTACAAA-AATATATAGAATC
4919336 AA
1 AA
4919338 CTCAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
AATTACAAAAATATATAGAATC
Found at i:4921403 original size:28 final size:27
Alignment explanation
Indices: 4921363--4921429 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 27
4921353 TTTTTTGCCC
4921363 ATTTATTATTATTGTCGTTATTATTTTATT
1 ATTTATT-TTATT-TC-TTATTATTTTATT
*
4921393 -TTTATTTTA-TTCTTGTTATTTTATT
1 ATTTATTTTATTTCTTATTATTTTATT
*
4921418 ATTTCTTTTATT
1 ATTTATTTTATT
4921430 ATTCTCACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 12 0.36
26 10 0.30
27 2 0.06
28 3 0.09
29 6 0.18
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (27 bp):
ATTTATTTTATTTCTTATTATTTTATT
Found at i:4922142 original size:15 final size:15
Alignment explanation
Indices: 4922122--4922153 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4922112 TACTTAAGTG
4922122 ATTTTAAATATCAGT
1 ATTTTAAATATCAGT
*
4922137 ATTTTATATATCAGT
1 ATTTTAAATATCAGT
4922152 AT
1 AT
4922154 GCAAGGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
ATTTTAAATATCAGT
Found at i:4923048 original size:16 final size:17
Alignment explanation
Indices: 4923027--4923061 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4923017 TGATATTTGG
4923027 ATGATTAAAAT-TTTTT
1 ATGATTAAAATATTTTT
*
4923043 ATGATTAAATTATTTTT
1 ATGATTAAAATATTTTT
4923060 AT
1 AT
4923062 TAAATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
ATGATTAAAATATTTTT
Found at i:4931406 original size:19 final size:18
Alignment explanation
Indices: 4931362--4931406 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4931352 GTGTCGTTCG
4931362 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* * *
4931380 TTTACAAATCGTTATTCAA
1 TTTCCAAAACATTATTC-A
4931399 TTTCCAAA
1 TTTCCAAA
4931407 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:4933753 original size:12 final size:12
Alignment explanation
Indices: 4933738--4933766 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4933728 TTATATTAAT
4933738 TATATTATTATA
1 TATATTATTATA
4933750 TATATTATTATA
1 TATATTATTATA
4933762 TATAT
1 TATAT
4933767 AAAACAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATTATTATA
Found at i:4935370 original size:45 final size:45
Alignment explanation
Indices: 4935301--4935388 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
4935291 GCCGACTACT
* *
4935301 GTTATTGTTACTGATTCGATACTTTGTGTG-TCGAATACTGTTACC
1 GTTATTGTTACAGATTCGATACTTTGTATGCT-GAATACTGTTACC
4935346 GTTATTGTTACAGATTC-ATCACTTTGTATGCTGAATACTGTTA
1 GTTATTGTTACAGATTCGAT-ACTTTGTATGCTGAATACTGTTA
4935389 TTGCTACCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 2 0.05
45 36 0.92
46 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (45 bp):
GTTATTGTTACAGATTCGATACTTTGTATGCTGAATACTGTTACC
Found at i:4936116 original size:17 final size:18
Alignment explanation
Indices: 4936085--4936118 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4936075 ATAAATAGAA
4936085 ATGATAATGAATGAGTTG
1 ATGATAATGAATGAGTTG
*
4936103 ATGA-AATGATTGAGTT
1 ATGATAATGAATGAGTT
4936119 TGTATGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (18 bp):
ATGATAATGAATGAGTTG
Found at i:4942358 original size:21 final size:21
Alignment explanation
Indices: 4942334--4942411 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
4942324 AAACTATTGC
4942334 TTTCCAAAAGAAAACAGAGGA
1 TTTCCAAAAGAAAACAGAGGA
*
4942355 TTTCCAAAAGAAAACAAAGGA
1 TTTCCAAAAGAAAACAGAGGA
* *
4942376 TTTCCAAAAGAAGACAGAAGA
1 TTTCCAAAAGAAAACAGAGGA
* *
4942397 TTTTCAACAGAAAAC
1 TTTCCAAAAGAAAAC
4942412 TAAGGTGTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (21 bp):
TTTCCAAAAGAAAACAGAGGA
Found at i:4944483 original size:3 final size:3
Alignment explanation
Indices: 4944475--4944499 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4944465 TTTAACCTTG
4944475 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4944500 TACTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4949844 original size:13 final size:13
Alignment explanation
Indices: 4949826--4949858 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4949816 GGAATGTTTC
4949826 ATAAAAAGAAAAA
1 ATAAAAAGAAAAA
*
4949839 ATAAAAAGAAAGA
1 ATAAAAAGAAAAA
4949852 A-AAAAAG
1 ATAAAAAG
4949859 GAGAGGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
ATAAAAAGAAAAA
Found at i:4951005 original size:132 final size:132
Alignment explanation
Indices: 4950837--4951140 Score: 441
Period size: 132 Copynumber: 2.3 Consensus size: 132
4950827 CAGATCAAAA
* *
4950837 ACTGGTCATATCTTCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
1 ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
* * *
4950902 AGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTGCC-AAGGCAGTAGAGAAGTAGATTTAA
66 AGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTT-CCTAAGGCAGTAGAGAAGTAGATTTAA
4950966 GCC
130 GCC
* *
4950969 ACTGGTCCTATCTCCCT-ACGCAGTAATGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAG
1 ACTGGTCCTATCTCCCTGA-GCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAG
* * * *
4951033 TAGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAATGTAGTAGGGAAGTGGATTTAA
65 TAGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAAGGCAGTAGAGAAGTAGATTTAA
*
4951098 GTC
130 GCC
* * *
4951101 ACTAGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAA
1 ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAA
4951141 AATCGTAGAT
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
131 3 0.02
132 150 0.97
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (132 bp):
ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
AGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAAGGCAGTAGAGAAGTAGATTTAAG
CC
Found at i:4951287 original size:44 final size:44
Alignment explanation
Indices: 4951212--4951306 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
4951202 TTGAAATTTT
* *
4951212 AGTGGAGTAGATTGAAGATACAAGTCTTATCTCCCCGAAGTTGC
1 AGTGGAGTAGACTGAAGATACAAGTCCTATCTCCCCGAAGTTGC
* **
4951256 AGTGGAGTAGACTGAAGCTACTAA-TCCTATCTCCTTGAAGTTGC
1 AGTGGAGTAGACTGAAGATAC-AAGTCCTATCTCCCCGAAGTTGC
4951300 AGTGGAG
1 AGTGGAG
4951307 CGGATTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGTAGACTGAAGATACAAGTCCTATCTCCCCGAAGTTGC
Found at i:4952325 original size:16 final size:16
Alignment explanation
Indices: 4952304--4952345 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
4952294 TGCTGTTTTG
4952304 CCCGACCCGCGTGCGA
1 CCCGACCCGCGTGCGA
4952320 CCCGACCCGCGTGCGA
1 CCCGACCCGCGTGCGA
4952336 CCCGACCCGC
1 CCCGACCCGC
4952346 TCCAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.55, G:0.29, T:0.05
Consensus pattern (16 bp):
CCCGACCCGCGTGCGA
Found at i:4952776 original size:3 final size:3
Alignment explanation
Indices: 4952768--4952825 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
4952758 TTTAACCTTG
4952768 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4952816 TAC TAT TAT T
1 TAT TAT TAT T
4952826 TACTCATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4954439 original size:5 final size:6
Alignment explanation
Indices: 4954423--4954480 Score: 55
Period size: 6 Copynumber: 8.8 Consensus size: 6
4954413 GAGGCAACCC
4954423 ATTTTT ATTTTT ATTTTT ATTTGTTT ATATACTTT ATTTTT ATTTTCT
1 ATTTTT ATTTTT ATTTTT A-TT-TTT AT-T--TTT ATTTTT ATTTT-T
4954471 A-TTTT ATTTT
1 ATTTTT ATTTT
4954481 CTCGCATGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
5 2 0.04
6 27 0.60
7 5 0.11
8 6 0.13
9 5 0.11
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:4960602 original size:23 final size:22
Alignment explanation
Indices: 4960559--4960603 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4960549 TTTTTTTAAA
**
4960559 AATATTTATATTATTTTAATTT
1 AATATTTATATTATTGAAATTT
*
4960581 AATATTTTTATATATTGAAATTT
1 AATATTTATAT-TATTGAAATTT
4960604 TTATATAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AATATTTATATTATTGAAATTT
Found at i:4973503 original size:11 final size:11
Alignment explanation
Indices: 4973487--4973511 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4973477 GTTTAGGTGA
4973487 TTTTTTTATTT
1 TTTTTTTATTT
4973498 TTTTTTTATTT
1 TTTTTTTATTT
4973509 TTT
1 TTT
4973512 GCTTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:4981517 original size:20 final size:20
Alignment explanation
Indices: 4981476--4981512 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4981466 ACAGAAATAA
4981476 TGTCAAGTATATAATATTAT
1 TGTCAAGTATATAATATTAT
4981496 TGTCAAGTA-ATAA-ATTA
1 TGTCAAGTATATAATATTA
4981513 CATTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTCAAGTATATAATATTAT
Found at i:4984114 original size:57 final size:58
Alignment explanation
Indices: 4984046--4984164 Score: 177
Period size: 57 Copynumber: 2.1 Consensus size: 58
4984036 TTTTTTTTGA
* *
4984046 AATAGAATTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATTT
1 AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
* * * *
4984103 AATAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTT
1 AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
4984161 AATA
1 AATA
4984165 TTAAAGTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 36 0.65
58 19 0.35
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (58 bp):
AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
Found at i:4984177 original size:58 final size:56
Alignment explanation
Indices: 4984051--4984184 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 56
4984041 TTTGAAATAG
* *
4984051 AATT-AATATTAAATTAAATTTAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 AATTAAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAAT
* * * *
4984106 AGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAAT
1 A-ATTAAATATTAAATTAAATCTAATACTTATCTTAAT-AGTATTATATTAATTTAAT
*
4984164 -ATTAAAGTGATTAAGTTAAAT
1 AATTAAA-T-ATTAAATTAAAT
4984185 TATAGTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
55 1 0.02
56 8 0.12
57 29 0.44
58 28 0.42
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (56 bp):
AATTAAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAAT
Found at i:4989968 original size:14 final size:15
Alignment explanation
Indices: 4989944--4989972 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4989934 TTTATTTTGG
4989944 TTTCGATTTAATCTT
1 TTTCGATTTAATCTT
4989959 TTTC-ATTTAATCTT
1 TTTCGATTTAATCTT
4989973 GCCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.14, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTCGATTTAATCTT
Found at i:4990117 original size:14 final size:14
Alignment explanation
Indices: 4990090--4990123 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4990080 TTTTAGTTCA
* *
4990090 TTTTTGTTTTTATT
1 TTTTTATTTATATT
4990104 TTTTTATTTATATT
1 TTTTTATTTATATT
4990118 TTTTTA
1 TTTTTA
4990124 ATGTTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTATTTATATT
Found at i:4993992 original size:17 final size:17
Alignment explanation
Indices: 4993972--4994024 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
4993962 ATAGCAAAAA
4993972 AAAAAAGGAGAAGAGAG
1 AAAAAAGGAGAAGAGAG
4993989 AAAAGAA-GAGAA-AGAAG
1 AAAA-AAGGAGAAGAG-AG
4994006 AAAAAAGGAGGAAGA-AG
1 AAAAAAGGA-GAAGAGAG
4994023 AA
1 AA
4994025 TAGGGAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 4 0.13
17 21 0.68
18 5 0.16
19 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAGAAGAGAG
Found at i:4994114 original size:17 final size:16
Alignment explanation
Indices: 4994104--4994155 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
4994094 AAGAAAAAGG
4994104 AAAGAAAAAG-AAGAA
1 AAAGAAAAAGAAAGAA
4994119 GAAAGGAAAAA-AAAGAA
1 -AAA-GAAAAAGAAAGAA
4994136 AAAGAAAAAGGAAAGAA
1 AAAGAAAAA-GAAAGAA
4994153 AAA
1 AAA
4994156 AACAGTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.19
16 6 0.19
17 20 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:4994121 original size:26 final size:25
Alignment explanation
Indices: 4994085--4994157 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
4994075 GTTCGGCCCG
4994085 AAGAAGAAG-AAGAAAAAGGAAAGAAA
1 AAGAAGAAGAAAGAAAAA--AAAGAAA
4994111 AAGAAGAAGAAAGGAAAAAAAAGAAA
1 AAGAAGAAGAAA-GAAAAAAAAGAAA
*
4994137 AAGAAAAAGGAAAGAAAAAAA
1 AAGAAGAA-GAAAGAAAAAAA
4994158 CAGTCGGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 31 0.72
27 6 0.14
28 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AAGAAGAAGAAAGAAAAAAAAGAAA
Found at i:4994247 original size:19 final size:20
Alignment explanation
Indices: 4994223--4994271 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4994213 GTATCAGCCA
4994223 ACCCAGCAGGCCA-GCCAG-C
1 ACCCAGCAGG-CAGGCCAGAC
*
4994242 ACCCAGCAAGCAGGCCAGAC
1 ACCCAGCAGGCAGGCCAGAC
4994262 AGCCCAGCAG
1 A-CCCAGCAG
4994272 TAGGCAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 2 0.08
21 7 0.28
ACGTcount: A:0.31, C:0.43, G:0.27, T:0.00
Consensus pattern (20 bp):
ACCCAGCAGGCAGGCCAGAC
Found at i:4999798 original size:27 final size:27
Alignment explanation
Indices: 4999760--4999813 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4999750 ATTTAACGAG
4999760 TGGTGGTGGATTTTAAGAAAGTTCTTA
1 TGGTGGTGGATTTTAAGAAAGTTCTTA
4999787 TGGTGGTGGATTTTAAGAAAGTTCTTA
1 TGGTGGTGGATTTTAAGAAAGTTCTTA
4999814 CTGAGCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.41
Consensus pattern (27 bp):
TGGTGGTGGATTTTAAGAAAGTTCTTA
Found at i:4999903 original size:10 final size:10
Alignment explanation
Indices: 4999888--4999917 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
4999878 TCATTGAATG
4999888 TATTGAAGAT
1 TATTGAAGAT
4999898 TATTGAAGAT
1 TATTGAAGAT
4999908 TATTGAAGAT
1 TATTGAAGAT
4999918 GAATTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TATTGAAGAT
Found at i:5001636 original size:15 final size:17
Alignment explanation
Indices: 5001599--5001640 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
5001589 TGAAAATATC
*
5001599 AAAAATAATAAGAAATA
1 AAAAATAACAAGAAATA
5001616 ATAAAATAACAAG-AATA
1 A-AAAATAACAAGAAATA
5001633 AAAAATAA
1 AAAAATAA
5001641 TAACGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAATAACAAGAAATA
Found at i:5001649 original size:16 final size:16
Alignment explanation
Indices: 5001599--5001656 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
5001589 TGAAAATATC
5001599 AAAAATAATAAGAAATA
1 AAAAATAATAAG-AATA
*
5001616 ATAAAATAACAAGAATA
1 A-AAAATAATAAGAATA
5001633 AAAAATAATAACG-ATA
1 AAAAATAATAA-GAATA
*
5001649 ATAAATAA
1 AAAAATAA
5001657 AAAAATTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 19 0.53
17 7 0.19
18 10 0.28
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAATAATAAGAATA
Found at i:5001757 original size:12 final size:12
Alignment explanation
Indices: 5001726--5001769 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
5001716 GTAATACATA
*
5001726 AATATAAATAGAT
1 AATAAAAATA-AT
5001739 AAT-AAAATAAT
1 AATAAAAATAAT
5001750 AATAAAAATAAT
1 AATAAAAATAAT
5001762 AAATAAAA
1 -AATAAAA
5001770 CAAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 10 0.36
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:5001768 original size:13 final size:13
Alignment explanation
Indices: 5001718--5001781 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
5001708 ATAAAAAAGT
*
5001718 AATACATAAATATA
1 AATA-ATAAATAAA
5001732 AATAGAT-AAT-AA
1 AATA-ATAAATAAA
5001744 AATAAT-AATAAA
1 AATAATAAATAAA
5001756 AATAATAAATAAA
1 AATAATAAATAAA
5001769 ACA-AATAAATAAA
1 A-ATAATAAATAAA
5001782 TGCTCGATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 5 0.11
12 13 0.29
13 20 0.44
14 7 0.16
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:5001895 original size:14 final size:14
Alignment explanation
Indices: 5001876--5001907 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5001866 GCAAATAAAT
5001876 AAAATAATACATAA
1 AAAATAATACATAA
*
5001890 AAAATAATATATAA
1 AAAATAATACATAA
5001904 AAAA
1 AAAA
5001908 ATCTATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATACATAA
Found at i:5005720 original size:14 final size:14
Alignment explanation
Indices: 5005703--5005729 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5005693 GATTACTTGT
5005703 TTATGATTTTATGC
1 TTATGATTTTATGC
5005717 TTATGATTTTATG
1 TTATGATTTTATG
5005730 TGCATGGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (14 bp):
TTATGATTTTATGC
Found at i:5014202 original size:14 final size:14
Alignment explanation
Indices: 5014185--5014211 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5014175 TTGGTCCCAC
5014185 AATTTATTTTTATA
1 AATTTATTTTTATA
5014199 AATTTATTTTTAT
1 AATTTATTTTTAT
5014212 TTATATGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTATTTTTATA
Found at i:5015501 original size:101 final size:101
Alignment explanation
Indices: 5015321--5015625 Score: 520
Period size: 101 Copynumber: 3.0 Consensus size: 101
5015311 CAACCACATA
5015321 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
*
5015386 AAATGAAAGATTAGGTGAGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
* *
5015422 GTTAATAGATGATGAAGTAGGCAACTGTGACATGACACCTATCATTTCGAATATTATGTGGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
5015487 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
* * * * * *
5015523 GTTAATAGATGATGAAGTAGGCAACTACGGCATGATACCTACCATTTTGAATATTGTGTAGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
*
5015588 AAATGAAAGGTTAGGTGTGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
5015624 GT
1 GT
5015626 ATAGTTTTTC
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 192 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (101 bp):
GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
Found at i:5017417 original size:19 final size:19
Alignment explanation
Indices: 5017393--5017437 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5017383 ATTTATTTTT
*
5017393 TTATTA-ATTGATAATGTAA
1 TTATTATATTCAT-ATGTAA
*
5017412 TTATTATTTTCATATGTAA
1 TTATTATATTCATATGTAA
5017431 TTATTAT
1 TTATTAT
5017438 TTCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTATTATATTCATATGTAA
Found at i:5017471 original size:18 final size:18
Alignment explanation
Indices: 5017448--5017514 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
5017438 TTCTTTTTTA
5017448 TATATATGTATATTTATG
1 TATATATGTATATTTATG
5017466 TATATAT-T-TATTTCCATG
1 TATATATGTATATTT--ATG
*
5017484 TATATATACGTATATTTTTG
1 TATATAT--GTATATTTATG
*
5017504 AATATAATGTA
1 TATAT-ATGTA
5017515 GTTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 6 0.15
21 3 0.08
22 5 0.12
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (18 bp):
TATATATGTATATTTATG
Found at i:5023774 original size:88 final size:88
Alignment explanation
Indices: 5023625--5024046 Score: 648
Period size: 88 Copynumber: 4.8 Consensus size: 88
5023615 AGCAGATCAG
* *
5023625 TAAAAATAACAGATCTTGCCTTCCTTCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
5023690 CCTTGGGATACAGCGGAGCAGGT
66 CCTTGGGTTGCAGCGGAGCAGGT
* * * *
5023713 TAAAAATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
5023778 CCCTGGGTTGCAGCGGAGCAGGT
66 CCTTGGGTTGCAGCGGAGCAGGT
* * * * * *
5023801 AAAAAACAACAGATCTTGCCTTCCTACACCGATAGCAAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
5023866 CAC-TAGGTTGCAGCGGAGTAGGT
66 C-CTTGGGTTGCAGCGGAGCAGGT
5023889 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
5023954 CCTTGGGTTGCAGCGGAGCAGGT
66 CCTTGGGTTGCAGCGGAGCAGGT
* **
5023977 TAAAAATAACAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTATCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
5024042 CCTTG
66 CCTTG
5024047 AGCAACAGTG
Statistics
Matches: 300, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 298 0.99
89 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (88 bp):
TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCTTGGGTTGCAGCGGAGCAGGT
Found at i:5024019 original size:45 final size:45
Alignment explanation
Indices: 5023876--5024019 Score: 132
Period size: 45 Copynumber: 3.2 Consensus size: 45
5023866 CACTAGGTTG
* * *
5023876 CAGCGGAGTAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCACTGA
* ** * * * * ***
5023921 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCC-TCCTTGGGTTG-
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCC-TGCACTGA
*
5023964 CAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCACTGA
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCACTGA
5024009 CAGCGAAGCAG
1 CAGCGAAGCAG
5024020 ATCGAAGACA
Statistics
Matches: 70, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 21 0.30
44 19 0.27
45 30 0.43
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.19
Consensus pattern (45 bp):
CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCACTGA
Found at i:5024101 original size:44 final size:44
Alignment explanation
Indices: 5024035--5024364 Score: 242
Period size: 44 Copynumber: 7.6 Consensus size: 44
5024025 AGACACCAGC
* * *
5024035 CTTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * ** *
5024079 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCCAG-C
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
* *
5024122 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * ** *
5024166 CTTATTTCCCTAAGCAGTAGTGGAGTA-GATCAAAGTCCCCAG-C
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
* **
5024209 CTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * **
5024253 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCTAG-T
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTAC-AGAT
* * * * *
5024296 CTTGTCTCCCTGAA-CAGCAATGGAATATGTTGAAAATTACATAT
1 CTTATCTCCCT-AAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
*
5024340 CTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGCAGTGGAG
5024365 CAGATCGAGG
Statistics
Matches: 207, Mismatches: 68, Indels: 22
0.70 0.23 0.07
Matches are distributed among these distances:
43 92 0.44
44 115 0.56
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
Found at i:5024132 original size:43 final size:43
Alignment explanation
Indices: 5024078--5024306 Score: 183
Period size: 43 Copynumber: 5.3 Consensus size: 43
5024068 AAATTACAGA
*
5024078 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
* * * * * * * **
5024121 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-TACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGTCCCCAG
* *
5024164 ATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCAAAGTCCCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
* * ** * * * * **
5024208 CCTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAAT-TACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGTCCCCAG
* *
5024251 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
*
5024295 TCTTGTCTCCCT
1 TCTTATCTCCCT
5024307 GAACAGCAAT
Statistics
Matches: 134, Mismatches: 46, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
43 73 0.54
44 61 0.46
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
Found at i:5024136 original size:87 final size:87
Alignment explanation
Indices: 5024015--5024372 Score: 563
Period size: 87 Copynumber: 4.1 Consensus size: 87
5024005 CTGACAGCGA
* * * * *
5024015 AGCAGATCGAAGACACCAGCCTTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
5024080 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
5024102 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
*
5024167 TTATTTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* * * *
5024189 AGTAGATCAAAGTCCCCAGCCTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
5024254 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* * * * * * *
5024276 AGCAGATCGAAGTCCCTAGTCTTGTCTCCCTGAACAGCAATGGAATATGTTGAAAATTACATATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
5024341 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
5024363 AGCAGATCGA
1 AGCAGATCGA
5024373 GGATGGTAAA
Statistics
Matches: 249, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
TTATCTCCCTAAGCAGTAGTGG
Found at i:5024478 original size:44 final size:44
Alignment explanation
Indices: 5024381--5024484 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
5024371 GAGGATGGTA
* * * *
5024381 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAACCGAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
* * * *
5024425 AATCCTATCTCCCTGAGGTTATAGCGGAGCGGATTAAAA-TAAC
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
*
5024468 AGATCTTATCTCTCTGA
1 A-ATCTTATCTCCCTGA
5024485 AATTATGGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
43 2 0.04
44 47 0.96
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
Found at i:5024884 original size:13 final size:14
Alignment explanation
Indices: 5024868--5024901 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5024858 GCCCAATAAG
5024868 GCCCAAAT-TGCTA
1 GCCCAAATCTGCTA
*
5024881 GCCCTAATCTGCTA
1 GCCCAAATCTGCTA
5024895 GCCCAAA
1 GCCCAAA
5024902 AAACACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (14 bp):
GCCCAAATCTGCTA
Found at i:5025788 original size:23 final size:24
Alignment explanation
Indices: 5025752--5025796 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5025742 TACAATTAAG
*
5025752 TTTATTTTATTTTTAAATTTCATC
1 TTTAATTTATTTTTAAATTTCATC
5025776 TTTAATTTATTTTT-AATTTCA
1 TTTAATTTATTTTTAAATTTCA
5025797 ATTTGGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTAATTTATTTTTAAATTTCATC
Found at i:5025792 original size:11 final size:11
Alignment explanation
Indices: 5025752--5025794 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
5025742 TACAATTAAG
*
5025752 TTTATTTTATT
1 TTTAATTTATT
*
5025763 TTTAAATTTCATC
1 TTT-AATTT-ATT
5025776 TTTAATTTATT
1 TTTAATTTATT
5025787 TTTAATTT
1 TTTAATTT
5025795 CAATTTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 9 0.33
13 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:5031221 original size:18 final size:19
Alignment explanation
Indices: 5031198--5031236 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5031188 TAAAATAAAA
5031198 TGAT-AAAATGCCACTATT
1 TGATAAAAATGCCACTATT
*
5031216 TGATAAAAATGCCGCTATT
1 TGATAAAAATGCCACTATT
5031235 TG
1 TG
5031237 CTTACCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TGATAAAAATGCCACTATT
Found at i:5031657 original size:21 final size:19
Alignment explanation
Indices: 5031619--5031663 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
5031609 CCCTAACCCT
*
5031619 TAAACACAACCATAAACCA
1 TAAACACAAACATAAACCA
*
5031638 TAAACACTAAACATTAAACCC
1 TAAACAC-AAACA-TAAACCA
5031659 TAAAC
1 TAAAC
5031664 TTACACCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAACACAAACATAAACCA
Found at i:5031673 original size:13 final size:14
Alignment explanation
Indices: 5031638--5031675 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
5031628 CCATAAACCA
*
5031638 TAAACACTAAACAT
1 TAAACCCTAAACAT
5031652 TAAACCCTAAAC-T
1 TAAACCCTAAACAT
*
5031665 TACACCCTAAA
1 TAAACCCTAAA
5031676 TTATAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:5031711 original size:7 final size:7
Alignment explanation
Indices: 5031699--5031851 Score: 82
Period size: 7 Copynumber: 21.9 Consensus size: 7
5031689 ACTCTTAACA
5031699 CTAAACC
1 CTAAACC
5031706 CTAAACC
1 CTAAACC
*
5031713 TTAAACC
1 CTAAACC
* *
5031720 CCAACCCC
1 CTAA-ACC
*
5031728 CTAAATC
1 CTAAACC
5031735 CTAAACC
1 CTAAACC
* *
5031742 TTAAA-A
1 CTAAACC
5031748 CTAAACC
1 CTAAACC
* *
5031755 ATAAACT
1 CTAAACC
*
5031762 CTAAATC
1 CTAAACC
*
5031769 CTAAACT
1 CTAAACC
5031776 CT-AACC
1 CTAAACC
5031782 CTTAAACCC
1 C-TAAA-CC
5031791 CT-AACAC
1 CTAAAC-C
5031798 CTAAACC
1 CTAAACC
*
5031805 TTAAA-C
1 CTAAACC
*
5031811 ATAAAACC
1 CT-AAACC
5031819 CTAAACC
1 CTAAACC
*
5031826 ATAAA-C
1 CTAAACC
*
5031832 ATAAACC
1 CTAAACC
*
5031839 ATAAACC
1 CTAAACC
*
5031846 ATAAAC
1 CTAAAC
5031852 ATACACCCAA
Statistics
Matches: 112, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
6 17 0.15
7 79 0.71
8 13 0.12
9 3 0.03
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:5031717 original size:14 final size:14
Alignment explanation
Indices: 5031700--5031851 Score: 96
Period size: 14 Copynumber: 10.9 Consensus size: 14
5031690 CTCTTAACAC
5031700 TAAACCCTAAACCT
1 TAAACCCTAAACCT
* * *
5031714 TAAACCCCAACCCCC
1 TAAACCCTAA-ACCT
*
5031729 TAAATCCTAAACCT
1 TAAACCCTAAACCT
* *
5031743 TAAA-ACTAAACCA
1 TAAACCCTAAACCT
*
5031756 TAAACTCTAAATCC-
1 TAAACCCTAAA-CCT
* *
5031770 TAAACTCTAACCCT
1 TAAACCCTAAACCT
5031784 TAAACCCCTAACACC-
1 TAAA-CCCTAA-ACCT
* *
5031799 TAAACCTTAAACAT
1 TAAACCCTAAACCT
* *
5031813 AAAACCCTAAACCA
1 TAAACCCTAAACCT
* *
5031827 TAAA-CATAAACCA
1 TAAACCCTAAACCT
*
5031840 TAAACCATAAAC
1 TAAACCCTAAAC
5031852 ATACACCCAA
Statistics
Matches: 109, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
13 27 0.25
14 59 0.54
15 21 0.19
16 2 0.02
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:5031754 original size:29 final size:29
Alignment explanation
Indices: 5031699--5031754 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
5031689 ACTCTTAACA
* *
5031699 CTAAACCCTAAACCTTAAACCCCAACCCC
1 CTAAACCCTAAACCTTAAAACCAAACCCC
* *
5031728 CTAAATCCTAAACCTTAAAACTAAACC
1 CTAAACCCTAAACCTTAAAACCAAACC
5031755 ATAAACTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (29 bp):
CTAAACCCTAAACCTTAAAACCAAACCCC
Found at i:5031851 original size:20 final size:20
Alignment explanation
Indices: 5031799--5031854 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
5031789 CCCTAACACC
* *
5031799 TAAACCTTAAACATAAAACCC
1 TAAACCATAAACAT-AAACCA
5031820 TAAACCATAAACATAAACCA
1 TAAACCATAAACATAAACCA
5031840 TAAACCATAAACATA
1 TAAACCATAAACATA
5031855 CACCCAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAACCATAAACATAAACCA
Found at i:5031851 original size:63 final size:62
Alignment explanation
Indices: 5031707--5031851 Score: 136
Period size: 63 Copynumber: 2.3 Consensus size: 62
5031697 CACTAAACCC
** * *
5031707 TAAACCTTAAACCCCAACCCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCC
1 TAAACC-TAAACCATAAACCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCA
* * *
5031770 TAAACTCTAACCCTTAAACCCCTAACA-CCTAAACCTT-AAACATAAAACCCTAAAC-CATAAA-
1 TAAAC-CTAAACCATAAACCCCTAA-ATCCTAAACCTTAAAAC-T-AAACCATAAACTC-TAAAT
5031831 CA
61 CA
5031833 TAAACCATAAACCATAAAC
1 TAAACC-TAAACCATAAAC
5031852 ATACACCCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
62 5 0.07
63 47 0.69
64 16 0.24
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (62 bp):
TAAACCTAAACCATAAACCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCA
Found at i:5032594 original size:50 final size:50
Alignment explanation
Indices: 5032479--5032769 Score: 393
Period size: 50 Copynumber: 5.7 Consensus size: 50
5032469 GATAATAACA
* **
5032479 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
5032530 TACCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
5032580 TGCCAATGTCATGTCTCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
5032630 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
5032680 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
*
5032735 ATGCCAATGCCATGTCCCAAACATGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
5032770 AGATCTCTTT
Statistics
Matches: 214, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
50 143 0.67
51 32 0.15
53 5 0.02
55 2 0.01
56 32 0.15
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:5036513 original size:12 final size:13
Alignment explanation
Indices: 5036498--5036526 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5036488 GTGTGAATTT
5036498 ATTT-GTGTGAAA
1 ATTTCGTGTGAAA
5036510 ATTTCGTGTGAAA
1 ATTTCGTGTGAAA
5036523 ATTT
1 ATTT
5036527 TATCGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
ATTTCGTGTGAAA
Found at i:5036513 original size:16 final size:15
Alignment explanation
Indices: 5036480--5036508 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5036470 ATTTTATGTG
5036480 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
5036495 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
5036509 AATTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:5037694 original size:64 final size:63
Alignment explanation
Indices: 5037591--5037900 Score: 196
Period size: 64 Copynumber: 5.0 Consensus size: 63
5037581 TTAGTTAATG
* * * *
5037591 TATATTTGAGTTTTATAAGTTAAAAT-AAA-TTACAGAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTTGTAAGTT-GAATGAAATTTA-ATAAATTCTATATATATTTAGCCGAATATA
* * *
5037654 TATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTAC-ATATAT-GTTAGCCGAATGTA
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATT-CTATATATATTTAGCCGAATATA
* * * * * * * * *
5037717 TATATAT--GTTTTG-AATTTTATTAAAATGT-ATGAATTGTATATATATATGTGTTAGTC-AAT
1 TATATCTGAGTTTTGTAAGTTGAATGAAATTTAAT-AAAT-TCTATATATA--T-TTAGCCGAAT
*
5037777 GTA
61 ATA
* ** **
5037780 TAT-T-TGAGTTTTATAAGATAAAAT-AAATTGCATAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAATATA
* ** *
5037841 TATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGGATATAT-GTTAGCCGAAT
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAAT
5037901 GTATGTATTG
Statistics
Matches: 189, Mismatches: 37, Indels: 42
0.71 0.14 0.16
Matches are distributed among these distances:
58 2 0.01
59 14 0.07
60 18 0.10
61 10 0.05
62 3 0.02
63 62 0.33
64 71 0.38
65 9 0.05
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (63 bp):
TATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAATATA
Found at i:5037720 original size:63 final size:62
Alignment explanation
Indices: 5037635--5037904 Score: 189
Period size: 63 Copynumber: 4.3 Consensus size: 62
5037625 GAAATTCTAT
* *
5037635 ATATAT-TTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
1 ATATATGTTAGCCGAATGTATATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
* * * * * **
5037697 ATATATGTTAGCCGAATGTATATATAT--GTTTTG-AATTTTATTAAAATGTATGAATTGTATAT
1 ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAGTTGAATGAAAT-T-T-AA-TAAAT-T
*
5037759 AT
61 AC
* * * ** **
5037761 ATATGTGTTAGTC-AATGTATAT-T-TGAGTTTTATAAGATAAAAT-AAATTGCATAAATT-C
1 ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAATTAC
* * * **
5037819 TATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGG
1 -ATATAT-GTTAGCCGAATGTATATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
5037884 ATATATGTTAGCCGAATGTAT
1 ATATATGTTAGCCGAATGTAT
5037905 GTATTGAATT
Statistics
Matches: 156, Mismatches: 34, Indels: 35
0.69 0.15 0.16
Matches are distributed among these distances:
59 16 0.10
60 15 0.10
61 11 0.07
62 11 0.07
63 52 0.33
64 48 0.31
65 3 0.02
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (62 bp):
ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
Found at i:5037786 original size:187 final size:188
Alignment explanation
Indices: 5037549--5037904 Score: 624
Period size: 187 Copynumber: 1.9 Consensus size: 188
5037539 AAGTTAAAAA
* *
5037549 TAAAATGTATGAATTGTATATATATATGTGTGTTAGTTAATGTATATTTGAGTTTTATAAGTTAA
1 TAAAATGTATGAATTGTATATATATA-GTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAA
*
5037614 AATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAA
65 AATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAA
5037679 TGAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
130 TGAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
5037738 TAAAATGTATGAATTGTATATATATA-TGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
1 TAAAATGTATGAATTGTATATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
* *
5037802 ATAAATTGCATAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
66 ATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
* **
5037867 GAAATTTAATGAATTGGATATATGTTAGCCGAATGTAT
131 GAAATTTAATAAATTACATATATGTTAGCCGAATGTAT
5037905 GTATTGAATT
Statistics
Matches: 159, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
187 133 0.84
189 26 0.16
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (188 bp):
TAAAATGTATGAATTGTATATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
ATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
GAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
Found at i:5038280 original size:41 final size:41
Alignment explanation
Indices: 5038235--5038366 Score: 203
Period size: 41 Copynumber: 3.2 Consensus size: 41
5038225 GCTCGATGCT
5038235 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
1 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
*
5038276 TAGCAGGCTTAATGCCGGTGAATTATTTCAGATTTTATGTC
1 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
* * * *
5038317 TAGCAGGCTTAAGGCCGGTGAAATGA-TTCGGACTTTAAGTC
1 TAGCAGGCTTAATGCCGGTG-AATTATTTCAGACTTTATGTC
5038358 TAGCAGGCT
1 TAGCAGGCT
5038367 AAGTGTCGGT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 80 0.95
42 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
Found at i:5038377 original size:41 final size:42
Alignment explanation
Indices: 5038235--5038461 Score: 161
Period size: 41 Copynumber: 5.5 Consensus size: 42
5038225 GCTCGATGCT
* * *
5038235 TAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGACTTTATGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGTC
* * * *
5038276 TAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGATTTTATGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGTC
5038317 TAGCAGGCTTAAG-GCCGGTGAAATGATTCGGACTTTAAGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGTC
* ** * **
5038358 TAGCAGGC-TAAGTGTCGGTGATCTGAATCAGG--TTATAAACC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTT-TAAGTC
* ** * * *
5038399 TAGCAGGC-TAAGTGCCAGTGATCTGAATCAGG-CTATAAGCC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTTTAAGTC
5038440 TAGCAGGC-TAAGTGCCGGTGAA
1 TAGCAGGCTTAAGTGCCGGTGAA
5038462 TATGTTAAAT
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
40 6 0.04
41 150 0.92
42 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGTC
Found at i:5044243 original size:12 final size:13
Alignment explanation
Indices: 5044228--5044256 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5044218 GTGTGAATTT
5044228 ATTT-GTGTGAAA
1 ATTTCGTGTGAAA
5044240 ATTTCGTGTGAAA
1 ATTTCGTGTGAAA
5044253 ATTT
1 ATTT
5044257 TATCGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
ATTTCGTGTGAAA
Found at i:5044243 original size:16 final size:15
Alignment explanation
Indices: 5044210--5044238 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5044200 ATTTTATGTG
5044210 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
5044225 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
5044239 AATTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:5045486 original size:19 final size:19
Alignment explanation
Indices: 5045435--5045486 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
5045425 GTTAGCCGAA
*
5045435 TGTATATATATGTTTTGAAT
1 TGTATATATATG-TATGAAT
* *
5045455 TTTAT-TAAAATGTATGAAT
1 TGTATAT-ATATGTATGAAT
5045474 TGTATATATATGT
1 TGTATATATATGT
5045487 GTTAGTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (19 bp):
TGTATATATATGTATGAAT
Found at i:5045546 original size:184 final size:186
Alignment explanation
Indices: 5045273--5045623 Score: 607
Period size: 184 Copynumber: 1.9 Consensus size: 186
5045263 AAGTTAAAAA
*
5045273 TAAAATGTATGAATTGTATATATATGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAA
1 TAAAATGTATGAATTGTATATATA-GTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAA
*
5045338 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATG
65 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATG
5045403 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
130 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
5045460 TAAAATGTATGAATTGTATATATA-TGTGTTAGTCAATGTATATTTGAG-TTTATAAGATAAAAT
1 TAAAATGTATGAATTGTATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAAT
* * *
5045523 AAATTGCATAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGA
66 AAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGA
* **
5045588 AATTTAATGAATTGGATATATGTTAGCCGAATGTAT
131 AATTTAATAAATTACATATATGTTAGCCGAATGTAT
5045624 GTATTGAATT
Statistics
Matches: 156, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
184 108 0.69
185 24 0.15
187 24 0.15
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (186 bp):
TAAAATGTATGAATTGTATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAAT
AAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGA
AATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
Found at i:5045564 original size:62 final size:62
Alignment explanation
Indices: 5045313--5045573 Score: 164
Period size: 63 Copynumber: 4.2 Consensus size: 62
5045303 TTAGTCAATG
* * * *
5045313 TATATTTGAGTTTTATAAGTTAAAATAAATTACAGAAATTCTATATATATCTAGCCGAATATA
1 TATATCTGAG-TTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
* * * ** * *
5045376 TATATGCTGGGTTTTGTAAGTT-GAATGAAATTTAATAAATTAC-ATATAT-GTTAGCCGAATGT
1 TATAT-CTGAG-TTTATAAGTTAAAAT-AAATTGCATAAATT-CTATATATATTTAGCCGAATAT
5045438 A
62 A
* ** * * * * * * *
5045439 TATATAT--GTTT-TGAA-TTTTATTAAAATGTATGAATTGTATATATATGTGTTAGTC-AATGT
1 TATATCTGAGTTTAT-AAGTTAAAATAAATTGCATAAATTCTATATATA--T-TTAGCCGAATAT
5045499 A
62 A
*
5045500 TAT-T-TGAGTTTATAAGATAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
5045560 TATATGCTGAGTTT
1 TATAT-CTGAGTTT
5045574 TGTAAGTTGA
Statistics
Matches: 150, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
58 19 0.13
59 13 0.09
60 11 0.07
61 16 0.11
62 29 0.19
63 31 0.21
64 30 0.20
65 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (62 bp):
TATATCTGAGTTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
Found at i:5045607 original size:62 final size:62
Alignment explanation
Indices: 5045313--5045619 Score: 188
Period size: 64 Copynumber: 5.0 Consensus size: 62
5045303 TTAGTCAATG
* * * * * *
5045313 TATATTTGAGTTTTATAAGTTAAAAT-AAA-TTACAGAAATTCTATATATATCTAGCCGAATATA
1 TATATCTGAGTTTTGTAAGTT-GAATGAAATTTA-ATAAATTATATATATGT-TAGCCGAATATA
* * *
5045376 TATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTACATATATGTTAGCCGAATGTA
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAATATA
* * * * * * * * *
5045439 TATATAT--GTTTTG-AATTTTATTAAAATGT-ATGAATTGTATATATATGTGTTAGTC-AATGT
1 TATATCTGAGTTTTGTAAGTTGAATGAAATTTAAT-AAAT-TATATATA--TGTTAGCCGAATAT
5045499 A
62 A
* ** **
5045500 TAT-T-TGAG-TTTATAAGATAAAAT-AAATTGCATAAATTCTATATATAT-TTAGCCGAATATA
1 TATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAA-T-TATATATATGTTAGCCGAATATA
* **
5045560 TATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGGATATATGTTAGCCGAAT
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAAT
5045620 GTATGTATTG
Statistics
Matches: 187, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
58 2 0.01
59 20 0.11
60 26 0.14
61 19 0.10
62 29 0.16
63 43 0.23
64 45 0.24
65 3 0.02
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (62 bp):
TATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAATATA
Found at i:5045691 original size:184 final size:185
Alignment explanation
Indices: 5045273--5045693 Score: 559
Period size: 184 Copynumber: 2.3 Consensus size: 185
5045263 AAGTTAAAAA
* * *
5045273 TAAAATGTATGAATTGTATATATATGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAA
1 TAAAATGTATCAATTGAATATATATGT-TGTTAGTCAATGTATATTTGAG-TTTATAAGATAAAA
*
5045338 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATG
64 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATG
* * *
5045403 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
129 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGATTCGAATTTGAT
* *
5045460 TAAAATGTATGAATTGTATATATATG-TGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATA
1 TAAAATGTATCAATTGAATATATATGTTGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATA
* * *
5045524 AATTGCATAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAA
66 AATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAA
* ** * *
5045589 ATTTAATGAATTGGATATATGTTAGCCGAATGTATGTAT-TGAATTCG-A-TTGGT
131 ATTTAATAAATTACATATATGTTAGCCGAATGTATATATATG-ATTCGAATTTGAT
* *
5045642 TGAAAT-TAATC-ATATGAAT-TATATGTATGTTAGCCAATGTATGATTTGAGTT
1 TAAAATGT-ATCAAT-TGAATATATATGT-TGTTAGTCAATGTAT-ATTTGAGTT
5045694 CGATAATTTG
Statistics
Matches: 211, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
181 9 0.04
182 14 0.07
183 17 0.08
184 123 0.58
185 22 0.10
187 26 0.12
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (185 bp):
TAAAATGTATCAATTGAATATATATGTTGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATA
AATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAA
ATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGATTCGAATTTGAT
Found at i:5046002 original size:41 final size:40
Alignment explanation
Indices: 5045957--5046144 Score: 132
Period size: 41 Copynumber: 4.6 Consensus size: 40
5045947 GGCTCGATGC
* *
5045957 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATGA-TTCAGACTTTAAGT
* * *
5045998 CTAGCAGGCTTAAGGCCGGTGAAATGATTCGGTCTTTAAGT
1 CTAGCAGGCTTAATGCCGGTG-AATGATTCAGACTTTAAGT
* * * **
5046039 CTAGCAGGC-TAAGTGCCGGTGATCTGAATCAG-GTTATAAAC
1 CTAGCAGGCTTAA-TGCCGGTGA-ATGATTCAGACTT-TAAGT
* * * * *
5046080 CTAGCAGGC-TAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTTAA-TGCCGGTGA-ATGATTCAGACTTTAAGT
*
5046121 CTAGCAGGC-TAAGTGCTGGTGAAT
1 CTAGCAGGCTTAA-TGCCGGTGAAT
5046145 ATGTTAAATT
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
40 7 0.06
41 113 0.90
42 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATGATTCAGACTTTAAGT
Found at i:5048366 original size:12 final size:12
Alignment explanation
Indices: 5048349--5048377 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5048339 TTTAATTTAT
5048349 TAATAATAATAG
1 TAATAATAATAG
5048361 TAATAATAATAG
1 TAATAATAATAG
5048373 TAATA
1 TAATA
5048378 CATATACCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:5058266 original size:20 final size:18
Alignment explanation
Indices: 5058229--5058281 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
5058219 CAAAAGTTAT
*
5058229 AAAAATTATTAAATTTTA
1 AAAAATTATTAAAATTTA
5058247 AAAAATATATTTAAAATTTA
1 AAAAAT-TA-TTAAAATTTA
5058267 TTAAAAATT-TTAAAA
1 --AAAAATTATTAAAA
5058282 AATATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 9 0.30
21 1 0.03
22 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATTAAAATTTA
Found at i:5058268 original size:30 final size:31
Alignment explanation
Indices: 5058228--5058287 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
5058218 ACAAAAGTTA
5058228 TAAAAATTATT-AAATTTTAAAAAATATATT
1 TAAAAATTATTAAAATTTTAAAAAATATATT
*
5058258 TAAAATTTATTAAAAATTTTAAAAAATATA
1 TAAAAATTATT-AAAATTTTAAAAAATATA
5058288 AATATCGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.37
32 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAAATTATTAAAATTTTAAAAAATATATT
Found at i:5058298 original size:18 final size:17
Alignment explanation
Indices: 5058277--5058328 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
5058267 TTAAAAATTT
*
5058277 TAAAAAATATAAATATCG
1 TAAAAAATATAAA-ATCA
**
5058295 TAAAATTTTATAAAATCA
1 TAAAA-AATATAAAATCA
5058313 TAAATAAATATAAAAT
1 TAAA-AAATATAAAAT
5058329 GTATCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAAATATAAAATCA
Found at i:5058309 original size:37 final size:33
Alignment explanation
Indices: 5058228--5058326 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 33
5058218 ACAAAAGTTA
*
5058228 TAAAAATTATT-AAATTTTAAAAAATAT--ATT
1 TAAAATTTATTAAAATTTTAAAAAATATAAATT
5058258 TAAAATTTATTAAAAATTTTAAAAAATATAAATAT
1 TAAAATTTATT-AAAATTTTAAAAAATATAAAT-T
**
5058293 CGTAAAATTT-TATAAAATCATAAATAAATATAAA
1 --TAAAATTTAT-TAAAATTTTAAA-AAATATAAA
5058327 ATGTATCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
30 10 0.18
32 16 0.28
34 2 0.04
35 1 0.02
36 10 0.18
37 18 0.32
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (33 bp):
TAAAATTTATTAAAATTTTAAAAAATATAAATT
Found at i:5059469 original size:30 final size:31
Alignment explanation
Indices: 5059421--5059483 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
5059411 TTTCTTATGT
5059421 CAATATTTCGAAACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
*
5059452 CAATATTT-GACACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
5059482 CA
1 CA
5059484 TAATATGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (31 bp):
CAATATTTCGAAACCCATATCTTTGACTTTC
Found at i:5059475 original size:15 final size:16
Alignment explanation
Indices: 5059433--5059478 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
5059423 ATATTTCGAA
5059433 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
** *
5059449 TTCCA-ATATTTGAC-
1 ACCCATATCTTTGACT
5059463 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
5059479 TTCCATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (16 bp):
ACCCATATCTTTGACT
Found at i:5063871 original size:27 final size:27
Alignment explanation
Indices: 5063821--5063874 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5063811 GAGGTTCAGC
*
5063821 AAATTTTGCCTACGTCTTCAGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
* * *
5063848 AAATTTTGTCTATGTCCTCGGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
5063875 CCAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
AAATTTTGCCTACGTCCTCAGGCACTA
Found at i:5064129 original size:30 final size:31
Alignment explanation
Indices: 5064076--5064135 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
5064066 TTTCTTATGC
*
5064076 CAATATTTCGATACCCATTTCTTTGACTTTT
1 CAATATTTCGATACCCATATCTTTGACTTTT
*
5064107 CAATATTT-GATACCTATATCTTTGACTTT
1 CAATATTTCGATACCCATATCTTTGACTTT
5064136 CCATAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (31 bp):
CAATATTTCGATACCCATATCTTTGACTTTT
Found at i:5068173 original size:45 final size:45
Alignment explanation
Indices: 5067933--5068316 Score: 220
Period size: 45 Copynumber: 8.4 Consensus size: 45
5067923 AGCCACCAGC
** * *
5067933 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * ** * * * * *
5067978 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AA---AGATAGCAAAT
* * * * * * *
5068027 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * ** * * * **
5068068 CTTATCTCCCTGAAGTTGTAATAGAGCAAGTTGAAGTTA-TAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* *
5068112 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGGGTAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * * * *
5068157 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAAGCTACAAATGACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AAAG----ATA-G-CAAAT
**
5068209 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* ** * * *
5068254 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGACAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
5068299 CTTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
5068317 TAGCAGAGTA
Statistics
Matches: 254, Mismatches: 69, Indels: 32
0.72 0.19 0.09
Matches are distributed among these distances:
41 29 0.11
42 1 0.00
44 31 0.12
45 114 0.45
46 6 0.02
47 2 0.01
48 1 0.00
49 32 0.13
50 1 0.00
51 5 0.02
52 32 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
Found at i:5068546 original size:21 final size:19
Alignment explanation
Indices: 5068520--5068559 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
5068510 TTTTGCCCGG
5068520 ACCCAAAACTAAATAAATAAA
1 ACCCAAAA-TAAA-AAATAAA
5068541 ACCCAAAATAAAAAATAAA
1 ACCCAAAATAAAAAATAAA
5068560 CAGTCCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (19 bp):
ACCCAAAATAAAAAATAAA
Found at i:5070643 original size:21 final size:21
Alignment explanation
Indices: 5070619--5070661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5070609 GAGAAAAATT
*
5070619 AAAGATAAAGGTGAGGCAATA
1 AAAGATAAAGGTGAGACAATA
* *
5070640 AAAGTTACAGGTGAGACAATA
1 AAAGATAAAGGTGAGACAATA
5070661 A
1 A
5070662 GGCAAATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16
Consensus pattern (21 bp):
AAAGATAAAGGTGAGACAATA
Found at i:5073358 original size:57 final size:59
Alignment explanation
Indices: 5073252--5073393 Score: 173
Period size: 57 Copynumber: 2.4 Consensus size: 59
5073242 CGGTAGAAAG
*
5073252 GATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTGAAAAA
1 GATCTAGCCCGGACCGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-GAAAAA
* **
5073314 GATCTAGCCCGGACCGGTGAT-C-T-TGATATAGCCCTCCTGAAGAATATGTGGAAATG
1 GATCTAGCCCGGACCGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGAAAAA
* * *
5073370 GATTTAGCCCGGACGGGTAATCCA
1 GATCTAGCCCGGACCGGTGATCCA
5073394 AATTAGGGTC
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 22 0.31
57 27 0.38
59 1 0.01
61 1 0.01
62 20 0.28
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (59 bp):
GATCTAGCCCGGACCGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGAAAAA
Found at i:5076630 original size:21 final size:19
Alignment explanation
Indices: 5076593--5076631 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
5076583 GTCTTAAAAT
*
5076593 TTGTTTTAAATATATATAA
1 TTGTTTTAAATAAATATAA
5076612 TTGTTTTAAAAATAAATATA
1 TTGTTTT--AAATAAATATA
5076632 TAATTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTGTTTTAAATAAATATAA
Found at i:5077707 original size:15 final size:15
Alignment explanation
Indices: 5077689--5077718 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5077679 TTTGTTGAGG
5077689 GATAAAAACAATATA
1 GATAAAAACAATATA
*
5077704 GATAAAAACATTATA
1 GATAAAAACAATATA
5077719 AATATTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
GATAAAAACAATATA
Found at i:5081151 original size:27 final size:28
Alignment explanation
Indices: 5081085--5081156 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
5081075 GATGATGGGC
5081085 CTGCCAC-AGACGGCACCAAAGGTGCCTA
1 CTGCCACAAG-CGGCACCAAAGGTGCCTA
* * *
5081113 -TGGCAGAGGCGGCACCAAAGGTGCC-A
1 CTGCCACAAGCGGCACCAAAGGTGCCTA
5081139 CTGCCACAAGCGGCACCA
1 CTGCCACAAGCGGCACCA
5081157 CTTCAGTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.35, G:0.29, T:0.08
Consensus pattern (28 bp):
CTGCCACAAGCGGCACCAAAGGTGCCTA
Found at i:5081630 original size:76 final size:77
Alignment explanation
Indices: 5081425--5081645 Score: 234
Period size: 82 Copynumber: 2.8 Consensus size: 77
5081415 GTTTAGTTAT
* * *
5081425 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACT-ATATTATTGTTA--GTTA-TTAT
5081490 TTGGATTAGTAAAAACCC
62 TT-G-TTAGTAAAAACCC
* *** * *
5081508 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTATATTATTGTTAGTTATTATTT-
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATATTATTGTTAGTTATTATTTG
5081571 TTAGT-AAAACCC
65 TTAGTAAAAACCC
5081583 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTGTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAACTA-TATTA-T-TGTTAGTTATTA
5081646 GGATTAGTGG
Statistics
Matches: 117, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
75 25 0.21
76 26 0.22
77 1 0.01
78 12 0.10
79 6 0.05
80 4 0.03
82 29 0.25
83 14 0.12
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATATTATTGTTAGTTATTATTTGT
TAGTAAAAACCC
Found at i:5081638 original size:41 final size:41
Alignment explanation
Indices: 5081425--5081645 Score: 134
Period size: 40 Copynumber: 5.6 Consensus size: 41
5081415 GTTTAGTTAT
* *
5081425 TAATAATTATTGTTACTTAG-TATTATTGTT-AGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* * *
5081465 TAA-TATTATTATTATGGTTAGTTATT-TGGATT-AGTAAAAACCC
1 TAATTATTATTGTTA--GTTAGTTATTAT--TTTGAGTAAAAA-AC
* ****
5081508 TAATTATTATT-TTAGTTAG-TATGATTGTT-AGT-TTTTAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* * **
5081546 --ATTA-TATTATT-GTTAGTTATTATTTTTAGTAAAACCC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
5081583 TAATTATTATTGTTAGTTAG-TATTATTTTGAGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
5081623 T-ATTATTATTG-T-GTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTTATTA
5081646 GGATTAGTGG
Statistics
Matches: 141, Mismatches: 22, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
35 11 0.08
36 15 0.11
37 6 0.04
38 7 0.05
39 23 0.16
40 35 0.25
41 16 0.11
42 14 0.10
43 7 0.05
44 7 0.05
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (41 bp):
TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
Found at i:5085168 original size:12 final size:12
Alignment explanation
Indices: 5085151--5085196 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
5085141 GAATGTAATT
*
5085151 GCTCGGGATCTG
1 GCTCGGGATCTA
*
5085163 GCTCGGGCTCTA
1 GCTCGGGATCTA
*
5085175 GCTCGGGCTCTA
1 GCTCGGGATCTA
*
5085187 GTTCGGGATC
1 GCTCGGGATC
5085197 ATGATCTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (12 bp):
GCTCGGGATCTA
Found at i:5087211 original size:157 final size:154
Alignment explanation
Indices: 5086817--5087877 Score: 1335
Period size: 157 Copynumber: 6.9 Consensus size: 154
5086807 ACTTCAAAAC
* * * *
5086817 AAATTTATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTATTTTTTCT-CGGATTTTCTTACTTT
1 AAATTT-TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTT
*
5086881 CAATAAAAATATATTATTTTCTAATTTTATTACTTTACATTATTTTAGTACATTATGTTTGAAAT
65 CAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* *
5086946 GTATTAATTTA--GTGTATTTAAAA
130 GTATTAATTTAGTGTGTTTTTAAAT
* * *
5086969 AATATTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGGATTTTATTACTTT
1 AA-ATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTT
* *
5087034 CAATAAAAATATTTTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAAT
65 CAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
5087099 GTATTAATTTAGTGTGTGTTTTAAAT
130 GTATTAATTTAGTGTGT-TTTTAAAT
5087125 AAATTTTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTT
1 AAA-TTTT-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTT
* *
5087190 TCAATAAAAATATATTATTTTCTAATTTTACTATTTTACATTATTTTAGTACGTTATGTTTGAAA
64 TCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* * * ***
5087255 TATATTAATTAATTGTGTTTTTTTTT
129 TGTATTAATTTAGTGTGTTTTTAAAT
* * * *
5087281 AAA-TTT--AAAAAGCCTTATTTCGGCCCTTTATTC--A-TATTTTTCCCGATTTTATTACTTTC
1 AAATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTTC
5087340 AATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
66 AATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
5087404 GTATTAATTTA-T-TGTTTTT--TT
130 GTATTAATTTAGTGTGTTTTTAAAT
* * *
5087425 TAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTA-TTTTTTTCCTGAATTTTATTACT
1 AAATTT--TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCC-GGATTTTATTACT
*
5087489 TT-AA-AAAAATATACACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
63 TTCAATAAAAATAT--ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
5087552 AAATGTATTAATTTAGTGTGTTTTTTAAAT
126 AAATGTATTAATTTAGTGTG-TTTTTAAAT
* * * *
5087582 AAATTTCAAAAAATAACCCTTATTTCGGCCTTTTGTTCGTATTTTTTTCCCGAATTTTATTACTT
1 AAATTT-TAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTT
5087647 TCAATAAAAATATATTATTTTC-ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
64 TCAATAAAAATATATTATTTTCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
*
5087711 ACGTATTAATTTAGTGTGTTTTTTAAAT
128 ATGTATTAATTTAGTGTG-TTTTTAAAT
* * * * * * ** * *
5087739 AAA-TTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGA-TTTTTTACCGAAGCCTCATT-GT
1 AAATTTTA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGA-TTTTATTACT
* * *
5087801 TTC---AAAAACATATTATTTTCGT-AGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGA
63 TTCAATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
*
5087862 AATGCATTAATTTAGT
127 AATGTATTAATTTAGT
5087878 AAAAAACTCT
Statistics
Matches: 811, Mismatches: 64, Indels: 68
0.86 0.07 0.07
Matches are distributed among these distances:
144 4 0.00
145 2 0.00
146 7 0.01
147 2 0.00
148 92 0.11
149 26 0.03
150 8 0.01
151 37 0.05
152 180 0.22
153 93 0.11
154 5 0.01
155 26 0.03
156 54 0.07
157 257 0.32
158 10 0.01
159 8 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (154 bp):
AAATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTTC
AATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
TATTAATTTAGTGTGTTTTTAAAT
Found at i:5087731 original size:457 final size:451
Alignment explanation
Indices: 5086817--5088066 Score: 1571
Period size: 457 Copynumber: 2.8 Consensus size: 451
5086807 ACTTCAAAAC
* * *
5086817 AAATTTATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTATTTTTTCTCGGATTTTCTTACTTTC
1 AAATTTA-TAAAAAA-CCTTATTTCGGCCCTTTGTTCATA-TTTTTC-CCGATTTTATTACTTTC
*
5086882 AATAAAAATATATTATTTTC-TAATTTTATTACTTTACATTATTTTAGTACATTATGTTTGAAAT
62 AATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
** **
5086946 GTATTAATTTAGTGTATTTAAAAAATATTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT
126 GTATTAATTTA-TGT-TTT--TTAAT-TTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT
* *
5087011 ATTTTCCCGGATTTTATTACTTTCAATAAAAATATTTTATTTTCTAATTTTATTATTTTACATTA
186 -TTTTTCCAGATTTTATTACTTT-AA-AAAAATATTTTATTTTCTAATTTTATTATTTTACATTA
* *
5087076 TTTTAGTACATTATTTTTGAAATGTATTAATTTAGTGTGTGTTTTAAATAAATTTTTAAAAAAAA
248 TTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA--TTTAAAAAAAA
* * *
5087141 CCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTTCAATAAAAATATATT
311 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATT
* * *
5087206 ATTTTCTAATTTTACTATTTTACATTATTTTAGTACGTTATGTTTGAAATATATTAATTAATTGT
376 ATTTTCTAATTTTACTATTTTACATTATTTTAGTACATTATGTTTGAAACATATTAATTAAGTGT
**
5087271 GTTTTTT-TTT
441 GTTTTTTAAAT
* *
5087281 AAA-TT-TAAAAAGCCTTATTTCGGCCCTTTATTCATATTTTTCCCGATTTTATTACTTTCAATA
1 AAATTTATAAAAAACCTTATTTCGGCCCTTTGTTCATATTTTTCCCGATTTTATTACTTTCAATA
5087344 AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
66 AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
*
5087409 AATTTATTGTTTTTTTTAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTTTC
131 AATTTA-TG--TTTTTTAATTTAGT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTC
* **
5087474 CTGAATTTTATTACTTTAAAAAAATATACACTATTTTCTAATTTTATTATTTTACATTATTTTAG
192 CAG-ATTTTATTACTTTAAAAAAATAT--TTTATTTTCTAATTTTATTATTTTACATTATTTTAG
5087539 TACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCTTA
254 TACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAA-AACCCTTA
*
5087604 TTTCGGCCTTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTC
317 TTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTC
* * *
5087669 -ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAACGTATTAATTTAGTGTGTTTT
382 TA-ATTTTACTATTTTACATTATTTTAGTACATTATGTTTGAAACATATTAATTAAGTGTGTTTT
5087733 TTAAAT
446 TTAAAT
* * * ** * *
5087739 AAATTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGAT-TTTTTACCGAAGCCTCATT-GTT
1 AAATTTA-TAAAAAAC-CTTATTTCGGCCCTTTGTTC--ATATTTTTCCCG-A-TTTTATTACTT
* * *
5087802 TC---AAAAACATATTATTTTCGTAGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAA
60 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* *
5087864 TG--------CA------TTAATTTAGTAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTT
125 TGTATTAATTTATGTTTTTTAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTT
* *
5087915 TTCCAGATTTTATTACTTTCAAAAAATATTTTATTTTCGT-ATTTTATTATTTTACATTCTTTTA
189 TTCCAGATTTTATTACTTTAAAAAAATATTTTATTTTC-TAATTTTATTATTTTACATTATTTTA
* * * *
5087979 GTACATTGTGTTTGAAATGTATTAATTTAGTGT-TTTTTTATATAAATTTAGTAAAAAACCTTTA
253 GTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAAACCCTTA
*
5088043 TTTTGGCCATTTGTTCGTATTTTT
317 TTTCGGCCATTTGTTCGTATTTTT
5088067 CTTATTTTCG
Statistics
Matches: 709, Mismatches: 55, Indels: 69
0.85 0.07 0.08
Matches are distributed among these distances:
439 30 0.04
440 19 0.03
441 62 0.09
442 1 0.00
443 51 0.07
444 20 0.03
453 1 0.00
455 11 0.02
456 19 0.03
457 254 0.36
458 93 0.13
459 12 0.02
460 23 0.03
461 72 0.10
462 17 0.02
463 10 0.01
464 10 0.01
465 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (451 bp):
AAATTTATAAAAAACCTTATTTCGGCCCTTTGTTCATATTTTTCCCGATTTTATTACTTTCAATA
AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
AATTTATGTTTTTTAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCAGA
TTTTATTACTTTAAAAAAATATTTTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTA
TGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTCGGCCA
TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTAC
TATTTTACATTATTTTAGTACATTATGTTTGAAACATATTAATTAAGTGTGTTTTTTAAAT
Found at i:5087820 original size:309 final size:301
Alignment explanation
Indices: 5086817--5088066 Score: 1486
Period size: 309 Copynumber: 4.1 Consensus size: 301
5086807 ACTTCAAAAC
* * * *
5086817 AAATTTATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCTCGGATTTTCTTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTC-CGAATTTTATTACTTT
*
5086881 CAATAAAAATATATTATTTTCTAATTTTATTACTTTACATTATTTTAGTACATTATGTTTGAAAT
65 C---AAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* *
5086946 GTATTAATTTAGTGTATTTAAAAAATATTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT
127 GTATTAATTTAGTGT-TTTTAAAAA-A--TTTCAAAAACCCTTATTTCGGCCCTTTGTTCGTATT
* * *
5087011 ATTTTCCCGGATTTTATTACTTTCAATAAAAATATTTTATTTTC-TAATTTTATTATTTTACATT
188 TTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATT
* *
5087075 ATTTTAGTACATTATTTTTGAAATGTATTAATTTAGTGTGTGTTTTAAAT
252 ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
* *
5087125 AAATTTTTA-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACT
1 AAA--TTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTTCCGAATTTTATTACT
* *
5087189 TTCAATAAAAATATATTATTTTCTAATTTTACTATTTTACATTATTTTAGTACGTTATGTTTGAA
63 TTC---AAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
* * *** * *
5087254 ATATATTAATTAATTGTGTTTTTTTTTAAATTT-AAAAAGCCTTATTTCGGCCCTTTATTC--AT
125 ATGTATTAATT--TAGTG-TTTTTAAAAAATTTCAAAAACCCTTATTTCGGCCCTTTGTTCGTAT
*
5087316 ATTTTTCCCG-ATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATT
187 TTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATT
5087380 ATTTTAGTACATTATGTTTGAAATGTATTAATTTA-T-TGTTTTTT---T
252 ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
* *
5087425 TAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTTTCCTGAATTTTATTACTT
1 AAATTTAGT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCC-GAATTTTATTACTT
* *
5087490 TAAAAAAATATACACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
64 T-CAAAAATAT--ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
*
5087555 TGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCTTATTTCGGCCTTTTGTTC
126 TGTATTAATTTA--GTG-TTTTTAAA-AAATTTC---AAA-AACCCTTATTTCGGCCCTTTGTTC
*
5087620 GTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTTTA
183 GTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
*
5087685 CATTATTTTAGTACATTATGTTTGAAACGTATTAATTTAGTGTGTTTTTTAAAT
248 CATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
* * * * * ** * *
5087739 AAATTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATT-GTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAA-TTTTATTACTTT
* * * *
5087803 CAAAAACATATTATTTTCGT-AGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGC
65 CAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
* *
5087867 ATTAATTTA--G----T-----A----AAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTT
129 ATTAATTTAGTGTTTTTAAAAAATTTCAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTC
* *
5087917 CC-AGATTTTATTACTTTC-A-AAAAATATTTTATTTTCGTATTTTATTATTTTACATTCTTTTA
194 CCGA-ATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTA
* *
5087979 GTACATTGTGTTTGAAATGTATTAATTTAGTGT-TTTTTTATAT
258 GTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
* * *
5088022 AAATTTAGTAAAAAACCTTTATTTTGGCCATTTGTTCGTATTTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTT
5088067 CTTATTTTCG
Statistics
Matches: 838, Mismatches: 71, Indels: 91
0.84 0.07 0.09
Matches are distributed among these distances:
283 47 0.06
284 71 0.08
285 2 0.00
286 48 0.06
287 3 0.00
294 1 0.00
298 13 0.02
299 9 0.01
300 115 0.14
301 6 0.01
303 7 0.01
304 1 0.00
305 89 0.11
306 32 0.04
308 39 0.05
309 178 0.21
310 91 0.11
311 23 0.03
312 15 0.02
313 39 0.05
314 9 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (301 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTTC
AAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAT
TAATTTAGTGTTTTTAAAAAATTTCAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCC
GAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTA
CATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
Found at i:5087944 original size:130 final size:131
Alignment explanation
Indices: 5087740--5088009 Score: 359
Period size: 132 Copynumber: 2.1 Consensus size: 131
5087730 TTTTTAAATA
* *
5087740 AATTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTGTTTCA
1 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTCTTTCA
*
5087805 AAAACATA-TTATTTTCGTAGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCAT
66 AAAACATATTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCAT
5087869 T
131 T
* * * ** *
5087870 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCC--AGATTTTATTACTT
1 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGA-TTTTTTACCGAAG-CCTCATT-CTT
* * *
5087933 TCAAAAA-ATATTTTATTTTCGTATTTTATTATTTTACATTCTTTTAGTACATTGTGTTTGAAAT
63 TCAAAAACATA-TTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
5087997 GTATT
127 GCATT
5088002 AATTTAGT
1 AATTTAGT
5088010 GTTTTTTTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
129 2 0.02
130 43 0.35
131 17 0.14
132 60 0.49
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (131 bp):
AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTCTTTCA
AAAACATATTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCAT
T
Found at i:5088450 original size:5 final size:5
Alignment explanation
Indices: 5088440--5088486 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
5088430 CTTCTTCTTC
* * *
5088440 TCCTT TCCTT TCCTT T-CTT CTCCTT TCCTT TTCTT TCTTT TTCTT TC
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TC
5088487 TTCTCCTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 3 0.09
5 28 0.82
6 3 0.09
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
TCCTT
Found at i:5088459 original size:20 final size:20
Alignment explanation
Indices: 5088434--5088478 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
5088424 CTCCCTCTTC
5088434 TTCTTCTCCTTTCCTTTCCT
1 TTCTTCTCCTTTCCTTTCCT
*
5088454 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTCCT
5088474 TTCTT
1 TTCTT
5088479 TTTCTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTCCTTTCCTTTCCT
Done.