Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 22 of 253
Found at i:6028433 original size:24 final size:25
Alignment explanation
Indices: 6028360--6028512 Score: 106
Period size: 24 Copynumber: 6.1 Consensus size: 25
6028350 TATATACATG
* *
6028360 ATATACATAATATGGTACTAAGAATAT
1 ATATACATAATATAGTATTAA-AA-AT
*
6028387 ATATATATAATATAGTATTTAAAAAT
1 ATATACATAATATAGTA-TTAAAAAT
*
6028413 ATATACATAATATGGTA-TAAAAAT
1 ATATACATAATATAGTATTAAAAAT
*
6028437 ATGTACATGGAA-AT-GTA-TAAGAAAT
1 ATATACAT--AATATAGTATTAA-AAAT
*
6028462 ATAT--ATAACTAGTAATATTAAAAAT
1 ATATACATAA-TA-TAGTATTAAAAAT
* *
6028487 ATATACATAACATA-TA-TAAACAT
1 ATATACATAATATAGTATTAAAAAT
6028510 ATA
1 ATA
6028513 CAATATATAC
Statistics
Matches: 105, Mismatches: 10, Indels: 26
0.74 0.07 0.18
Matches are distributed among these distances:
21 2 0.02
23 12 0.11
24 23 0.22
25 21 0.20
26 23 0.22
27 21 0.20
28 3 0.03
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
ATATACATAATATAGTATTAAAAAT
Found at i:6028509 original size:15 final size:15
Alignment explanation
Indices: 6028484--6028525 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6028474 TAATATTAAA
6028484 AATATATACATA-AC
1 AATATATACATATAC
*
6028498 ATATATAAACATATAC
1 A-ATATATACATATAC
6028514 AATATATACATA
1 AATATATACATA
6028526 CATTAGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 20 0.83
16 3 0.12
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATATACATATAC
Found at i:6028657 original size:17 final size:17
Alignment explanation
Indices: 6028635--6028674 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6028625 ATAACATTAA
6028635 AAATATATGAT-ATATAT
1 AAATATAT-ATAATATAT
6028652 AAATATATATAATATAT
1 AAATATATATAATATAT
*
6028669 ACATAT
1 AAATAT
6028675 CTTAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATATATATAATATAT
Found at i:6028659 original size:19 final size:19
Alignment explanation
Indices: 6028632--6028669 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6028622 TAAATAACAT
*
6028632 TAAAAATATATGATATATA
1 TAAAAATATATAATATATA
*
6028651 TAAATATATATAATATATA
1 TAAAAATATATAATATATA
6028670 CATATCTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAAAATATATAATATATA
Found at i:6028800 original size:21 final size:20
Alignment explanation
Indices: 6028776--6028842 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
6028766 TACTAGTACT
* *
6028776 AATAATATTAATAATAGATAC
1 AATAATAATAATAATAG-TAA
6028797 AATAATAATAATAATAGTAA
1 AATAATAATAATAATAGTAA
*
6028817 AATAATTAATTGA-AATAGTAA
1 AATAA-TAA-TAATAATAGTAA
6028838 AATAA
1 AATAA
6028843 CTAAAAAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 7 0.17
21 32 0.78
22 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAATAGTAA
Found at i:6030752 original size:17 final size:17
Alignment explanation
Indices: 6030730--6030768 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6030720 TATTTCAAAC
* *
6030730 TTTTAATTAAAATTATT
1 TTTTAATCAAAATTATA
*
6030747 TTTTAATCAAAGTTATA
1 TTTTAATCAAAATTATA
6030764 TTTTA
1 TTTTA
6030769 TGTTTTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTAATCAAAATTATA
Found at i:6031517 original size:111 final size:109
Alignment explanation
Indices: 6031287--6031517 Score: 281
Period size: 111 Copynumber: 2.1 Consensus size: 109
6031277 GTACAAAGAC
* *
6031287 ATTTAAAAAAAAATTTGGTGTTAGCCAGTAGATGGCCGGCACCAAGTACAATTTTCAGTTCCCAA
1 ATTTAAAAAAAAATTTGGTGCTAGCCAGTAGATGGCCGGCACCAAGTACAATTTTCACTTCCCAA
* * *
6031352 GGCACTTTTTTTTTTACTTTGGGACACTGATGGTCGGCATCAGTGT
66 GGCA--TTTTTTTTTACTTTGGAACACTGATGGTCGGCACCAATGT
* * * *
6031398 ATTT-AAAAAAAATTTGGGTGCTGGTCAGTAGATGGCCTGCACCAAGTACAATTTTCGACTT-TC
1 ATTTAAAAAAAAATTT-GGTGCTAGCCAGTAGATGGCCGGCACCAAGTACAATTTTC-ACTTCCC
* * *
6031461 AATGCA-TTTTTTTTATTTTGGAATACTGATGG-CAGGCACCAATGT
64 AAGGCATTTTTTTTTACTTTGGAACACTGATGGTC-GGCACCAATGT
6031506 ATTTAAAAAAAA
1 ATTTAAAAAAAA
6031518 TAAGTGCTGG
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
107 1 0.01
108 36 0.35
109 7 0.07
110 11 0.11
111 46 0.44
112 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (109 bp):
ATTTAAAAAAAAATTTGGTGCTAGCCAGTAGATGGCCGGCACCAAGTACAATTTTCACTTCCCAA
GGCATTTTTTTTTACTTTGGAACACTGATGGTCGGCACCAATGT
Found at i:6031649 original size:44 final size:44
Alignment explanation
Indices: 6031600--6031745 Score: 238
Period size: 44 Copynumber: 3.3 Consensus size: 44
6031590 TTCTTATTCC
** * *
6031600 TAATTTAAAACATGTTAAATTATAATACAATACACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
6031644 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
6031688 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
6031732 TAATTTAAAACACA
1 TAATTTAAAACACA
6031746 ATAATGAAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:6031907 original size:46 final size:47
Alignment explanation
Indices: 6031783--6032062 Score: 353
Period size: 47 Copynumber: 6.0 Consensus size: 47
6031773 AAATTATTAT
*
6031783 GAAAAAAATGAAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAT-TAAATTAAAATGGAAA-AAAGATAATTTAAATGAAATGA
*
6031832 GAAAAAAATTAAATTAAAAT--AAAATAA-ATAATTTAAATGATATGA
1 GAAAAAAATTAAATTAAAATGGAAAA-AAGATAATTTAAATGAAATGA
6031877 GAAAAAAACTTAAATTAAAAT-GAAAAAA-ATAATTTAAATGAAATGA
1 GAAAAAAA-TTAAATTAAAATGGAAAAAAGATAATTTAAATGAAATGA
* * * * *
6031923 GGAAAAAA-TAAATTTAAATGGAAAAAA-TTAATTTAAGTGGAAT-A
1 GAAAAAAATTAAATTAAAATGGAAAAAAGATAATTTAAATGAAATGA
*
6031967 GGAAAAAAATTAAATTAAAATTAGAAAAAAGATAATTTAAATGAAATGA
1 -GAAAAAAATTAAATTAAAA-TGGAAAAAAGATAATTTAAATGAAATGA
*
6032016 G-AAAAAATTAAATTAAAATGAAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTAAAATG-GAAAAAAGATAATTTAAATGAAATGA
6032063 AATAGAAATA
Statistics
Matches: 205, Mismatches: 16, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.05
45 53 0.26
46 53 0.26
47 54 0.26
48 24 0.12
49 10 0.05
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (47 bp):
GAAAAAAATTAAATTAAAATGGAAAAAAGATAATTTAAATGAAATGA
Found at i:6032050 original size:21 final size:21
Alignment explanation
Indices: 6031979--6032059 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 21
6031969 AAAAAAATTA
* *
6031979 AATTAAAATTAGAAAAAAGAT
1 AATTAAAATGAAAAAAAAGAT
* *
6032000 AATTTAAATGAAATGAGAAAAAATT
1 AATTAAAATGAAA--A-AAAAGA-T
6032025 AAATTAAAATGAAAAAAAAGAT
1 -AATTAAAATGAAAAAAAAGAT
*
6032047 AATTTAAATGAAA
1 AATTAAAATGAAA
6032060 TGAAATAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
21 22 0.46
22 1 0.02
23 6 0.12
24 6 0.12
25 1 0.02
26 12 0.25
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (21 bp):
AATTAAAATGAAAAAAAAGAT
Found at i:6032072 original size:6 final size:6
Alignment explanation
Indices: 6032052--6032099 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
6032042 AAGATAATTT
* *
6032052 AAAT-G AAAT-G AAATAG AAATAC AAATA- AAATA- AAATAA AAATAG
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
6032096 AAAT
1 AAAT
6032100 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 19 0.49
6 20 0.51
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (6 bp):
AAATAG
Found at i:6032082 original size:22 final size:22
Alignment explanation
Indices: 6032052--6032109 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
6032042 AAGATAATTT
* * *
6032052 AAATGAAATGAAATAGAAATAC
1 AAATAAAATAAAATAAAAATAC
*
6032074 AAATAAAATAAAATAAAAATAG
1 AAATAAAATAAAATAAAAATAC
*
6032096 AAATTAAAAAAAAA
1 AAA-TAAAATAAAA
6032110 ATGAAAAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (22 bp):
AAATAAAATAAAATAAAAATAC
Found at i:6032105 original size:13 final size:11
Alignment explanation
Indices: 6032057--6032116 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
6032047 AATTTAAATG
* *
6032057 AAATGAAATAG
1 AAATAAAATAA
6032068 AAATACAAAT-A
1 AAATA-AAATAA
6032079 AAATAAAATAA
1 AAATAAAATAA
6032090 AAATAGAAATTAA
1 AAATA-AAA-TAA
*
6032103 AAAAAAAATGAA
1 AAATAAAAT-AA
6032115 AA
1 AA
6032117 GACATGTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 16 0.39
12 14 0.34
13 7 0.17
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:6032389 original size:18 final size:18
Alignment explanation
Indices: 6032362--6032407 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 18
6032352 CTAACTAATA
6032362 TGAAAAAAAATGAATTGAAT
1 TGAAAAAAAA--AATTGAAT
6032382 TGAAAAAAAAAATTGAAT
1 TGAAAAAAAAAATTGAAT
6032400 TGAAAAAA
1 TGAAAAAA
6032408 GATTAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 16 0.62
20 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (18 bp):
TGAAAAAAAAAATTGAAT
Found at i:6033356 original size:158 final size:158
Alignment explanation
Indices: 6033169--6033486 Score: 367
Period size: 158 Copynumber: 2.0 Consensus size: 158
6033159 AAATACCAGT
** * * *
6033169 ATTTAAAAAAAACTTTGGTTTTGGCCATGTAATGGCC-GACACCAGAGATGTAAAATAAAAAAAT
1 ATTTAAAAAAAACTTTGGTGCTGCCCATGTAATGACCTG-CACCAGAGATGTAAAA-AAAAAAAA
* *
6033233 TTGTG-TA-GGCCAGTAGATAGCAGGCACCAGGGACCATTTTCATGTCCCAATGCA-ATTTTTTT
64 TTG-GATACGGCCAGTACATAGCAGGCACCAGAGACCATTTTCATGTCCCAAT--ATATTTTTTT
* *
6033295 TACTTTGGTACATTGATGGCTGGCACCAGTTAA
126 TACTTTGGTACACTGATGACTGGCACCAGTTAA
* *
6033328 ATTTAAAAAAAA-TTTTGTGCTGCCCATGTAATGACCTGCATCAGAGATGTAAAAAAAAAAAATT
1 ATTTAAAAAAAACTTTGGTGCTGCCCATGTAATGACCTGCACCAGAGATGTAAAAAAAAAAAATT
* * * * ** * **
6033392 GGATACTGGCCAGTACATGGCCGGCACTAGATACTTTTTTCGTGTGTCAATATATTTTTTTTACT
66 GGATAC-GGCCAGTACATAGCAGGCACCAGAGACCATTTTCATGTCCCAATATATTTTTTTTACT
6033457 TTGGTACACTGATGACTGGCACCAGTTAA
130 TTGGTACACTGATGACTGGCACCAGTTAA
6033486 A
1 A
6033487 ATTTTTAAAA
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
156 1 0.01
157 13 0.10
158 74 0.55
159 46 0.34
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (158 bp):
ATTTAAAAAAAACTTTGGTGCTGCCCATGTAATGACCTGCACCAGAGATGTAAAAAAAAAAAATT
GGATACGGCCAGTACATAGCAGGCACCAGAGACCATTTTCATGTCCCAATATATTTTTTTTACTT
TGGTACACTGATGACTGGCACCAGTTAA
Found at i:6033891 original size:5 final size:5
Alignment explanation
Indices: 6033883--6033950 Score: 55
Period size: 5 Copynumber: 12.4 Consensus size: 5
6033873 TAACTTTTTT
*
6033883 TTTCA TTTCCA TTTTAA TTTTCA TTTTCA TTTTCA TTTCA TTTCA TTTCA
1 TTTCA TTT-CA -TTTCA T-TTCA -TTTCA -TTTCA TTTCA TTTCA TTTCA
* *
6033933 TTTTAA CTTCA TTTCA TT
1 -TTTCA TTTCA TTTCA TT
6033951 GAAATTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 28 0.54
6 20 0.38
7 4 0.08
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:6033902 original size:6 final size:6
Alignment explanation
Indices: 6033882--6033936 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
6033872 TTAACTTTTT
* *
6033882 TTTTCA TTTCCA TTTTAA TTTTCA TTTTCA TTTTCA -TTTCA -TTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
6033928 -TTTCA TTTT
1 TTTTCA TTTT
6033937 AACTTCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 15 0.34
6 29 0.66
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTCA
Found at i:6033909 original size:24 final size:24
Alignment explanation
Indices: 6033868--6033935 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
6033858 CAAGCCCTAT
*
6033868 CATTTTAACTTTT-TTTTTCATTTC
1 CATTTTAA-TTTTCATTTTCATTTC
*
6033892 CATTTTAATTTTCATTTTCATTTT
1 CATTTTAATTTTCATTTTCATTTC
*
6033916 CA-TTTCA-TTTCA-TTTCATTT
1 CATTTTAATTTTCATTTTCATTT
6033936 TAACTTCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 8 0.20
22 5 0.12
23 8 0.20
24 19 0.47
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (24 bp):
CATTTTAATTTTCATTTTCATTTC
Found at i:6033958 original size:21 final size:21
Alignment explanation
Indices: 6033919--6033958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6033909 TCATTTTCAT
** *
6033919 TTCATTTCATTTCATTTTAAC
1 TTCATTTCATTGAAATTTAAC
6033940 TTCATTTCATTGAAATTTA
1 TTCATTTCATTGAAATTTA
6033959 TTTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (21 bp):
TTCATTTCATTGAAATTTAAC
Found at i:6034122 original size:23 final size:23
Alignment explanation
Indices: 6034055--6034125 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
6034045 CTTTTATTCT
* *
6034055 ATTTAATAATCATCATTTCATTTC
1 ATTTAATATTCAT-ATTTCATTTA
* * * *
6034079 ATATTCAT-TACAAATTACATTTA
1 AT-TTAATATTCATATTTCATTTA
6034102 ATTTAATATTCATATTTCATTTA
1 ATTTAATATTCATATTTCATTTA
6034125 A
1 A
6034126 CATTTCATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
22 4 0.11
23 23 0.66
24 4 0.11
25 4 0.11
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATATTCATATTTCATTTA
Found at i:6034261 original size:27 final size:27
Alignment explanation
Indices: 6034239--6034294 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
6034229 TCCATTTTAT
*
6034239 TTTAATTTTTTCCTTATTTCATTTAAA
1 TTTAATTTTTTCATTATTTCATTTAAA
*
6034266 TTTAATTTTTTTATTATTTCATTTAAA
1 TTTAATTTTTTCATTATTTCATTTAAA
6034293 TT
1 TT
6034295 ATCTATCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTAATTTTTTCATTATTTCATTTAAA
Found at i:6034290 original size:21 final size:21
Alignment explanation
Indices: 6034265--6034345 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 21
6034255 TTTCATTTAA
6034265 ATTTAATTTTTTTATTATTTC
1 ATTTAATTTTTTTATTATTTC
* * * *
6034286 ATTTAAATTATCTATCT-TCTC
1 ATTTAATTTTTTTAT-TATTTC
*
6034307 ATTTTAATTTATTTTTTTCATTTC
1 A-TTTAATTT-TTTTATT-ATTTC
6034331 ATTTAAATTATTTTT
1 ATTT-AATT-TTTTT
6034346 TTCCATGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
21 16 0.36
22 9 0.20
23 6 0.14
24 12 0.27
25 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTAATTTTTTTATTATTTC
Found at i:6034309 original size:48 final size:46
Alignment explanation
Indices: 6034257--6034363 Score: 130
Period size: 45 Copynumber: 2.3 Consensus size: 46
6034247 TTTCCTTATT
*
6034257 TCATTTAAATTTAATTTTTTTATTATTTCATTTAAATTATCTATCTTC
1 TCATTTAAATTTAATTTTTTT-TCATTTCATTTAAATTAT-TATCTTC
* * *
6034305 TCATTTTAATTT-A-TTTTTTTCATTTCATTTAAATTATTTTTTTC
1 TCATTTAAATTTAATTTTTTTTCATTTCATTTAAATTATTATCTTC
*
6034349 -CATGTAAATTTAATT
1 TCATTTAAATTTAATT
6034364 ATTTATTCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
43 9 0.18
44 6 0.12
45 18 0.35
46 6 0.12
47 1 0.02
48 11 0.22
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (46 bp):
TCATTTAAATTTAATTTTTTTTCATTTCATTTAAATTATTATCTTC
Found at i:6034363 original size:24 final size:24
Alignment explanation
Indices: 6034309--6034391 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 24
6034299 ATCTTCTCAT
**
6034309 TTTAATTTATTTTTTT-CAT-TTCA
1 TTTAA-TTATTTTTTTCCATGTAAA
6034332 TTTAAATTATTTTTTTCCATGTAAA
1 TTT-AATTATTTTTTTCCATGTAAA
*
6034357 TTTAATTA-TTTATTCCATGTAAA
1 TTTAATTATTTTTTTCCATGTAAA
6034380 TTTACATT-TTTT
1 TTTA-ATTATTTT
6034392 CATATTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
23 31 0.60
24 16 0.31
25 5 0.10
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTAATTATTTTTTTCCATGTAAA
Found at i:6034499 original size:16 final size:17
Alignment explanation
Indices: 6034468--6034500 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6034458 ACTGTATTAT
6034468 ATTTAATCAAATGTATA
1 ATTTAATCAAATGTATA
*
6034485 ATTTAATTAAA-GTATA
1 ATTTAATCAAATGTATA
6034501 TTATTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTAATCAAATGTATA
Found at i:6036411 original size:24 final size:24
Alignment explanation
Indices: 6036357--6036419 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
6036347 TAATTTAAAT
* **
6036357 TATTATTCATTTTAAAATTTTATA
1 TATTATTTATTTTAAAATACTATA
6036381 TACATTATTTATTTTAAAATACTATA
1 T--ATTATTTATTTTAAAATACTATA
6036407 TATTATTTATTTT
1 TATTATTTATTTT
6036420 GAAGTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.38
26 21 0.62
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATTTATTTTAAAATACTATA
Found at i:6036618 original size:14 final size:14
Alignment explanation
Indices: 6036592--6036624 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6036582 TACATTGAAC
6036592 TATTTTGTATATAT
1 TATTTTGTATATAT
6036606 ATATTTT-TATATAT
1 -TATTTTGTATATAT
6036620 TATTT
1 TATTT
6036625 ATTTCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 7 0.39
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTGTATATAT
Found at i:6040641 original size:44 final size:44
Alignment explanation
Indices: 6040559--6040642 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
6040549 TAATTTAAAG
* * **
6040559 CCTATTCTATTACTTCAAATTACTTTTAGTCCTTTTTTTTAATT
1 CCTATTCTATTACTTCAAATTACTTTAAATCCACTTTTTTAATT
*
6040603 CCTATTC-ATTACTTTAAATTACTTTAAATCCCACTTTTTT
1 CCTATTCTATTACTTCAAATTACTTTAAAT-CCACTTTTTT
6040643 TATTTAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 19 0.56
44 15 0.44
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.54
Consensus pattern (44 bp):
CCTATTCTATTACTTCAAATTACTTTAAATCCACTTTTTTAATT
Found at i:6040750 original size:19 final size:20
Alignment explanation
Indices: 6040718--6040756 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6040708 TAATTTATCC
*
6040718 TTAAATTATATATTTTTAAA
1 TTAAAATATATATTTTTAAA
6040738 TTAAAATAT-TATTTTTAAA
1 TTAAAATATATATTTTTAAA
6040757 AACATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAATATATATTTTTAAA
Found at i:6045790 original size:50 final size:51
Alignment explanation
Indices: 6045684--6045812 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 51
6045674 TTGGGTACAG
* *
6045684 GCCATGTAATGGTCGGCACCAGAGATGT--AAAAAAAAATTTTAGGTGCTG
1 GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAAAAATTTTAGGTGCTA
* * * **
6045733 GTCATGTAATAGCCGGTACCAGAGATGTAAAAAAAAAAATTTT-TTTGCTA
1 GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAAAAATTTTAGGTGCTA
*
6045783 GCCATGTAATAGTCGGCACTAGAGATGTAA
1 GCCATGTAATAGTCGGCACCAGAGATGTAA
6045813 GTTTTTTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
49 24 0.36
50 30 0.45
51 13 0.19
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (51 bp):
GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAAAAATTTTAGGTGCTA
Found at i:6046137 original size:6 final size:6
Alignment explanation
Indices: 6046119--6046173 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
6046109 TTATTTATCA
* * *
6046119 TTTCAA TTT-AT TTTCA- TTTCAAT TTTTAT TTTTAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTC-AT TTTCAT TTTCAT TTTCAT TTTCAT
6046166 TTTCAT TT
1 TTTCAT TT
6046174 AAATTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
5 8 0.19
6 32 0.74
7 3 0.07
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCAT
Found at i:6046158 original size:35 final size:35
Alignment explanation
Indices: 6046093--6046197 Score: 117
Period size: 36 Copynumber: 3.0 Consensus size: 35
6046083 TTTAACTTCG
6046093 TTTCATTTAAATTTATT-TATTTATCATTTCAATTTAT
1 TTTCATTTAAATTT-TTATATTTAT--TTTCAATTTAT
* * *
6046130 TTTCATTTCAATTTTTATTTTTATTTTCATTTTCAT
1 TTTCATTTAAATTTTTATATTTATTTTCAATTT-AT
*
6046166 TTTCATTTAAATTTATA-ATTTATTTTC-ATTTA
1 TTTCATTTAAATTTTTATATTTATTTTCAATTTA
6046198 AACTTTTATT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
33 1 0.02
34 3 0.05
35 17 0.29
36 19 0.32
37 19 0.32
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.65
Consensus pattern (35 bp):
TTTCATTTAAATTTTTATATTTATTTTCAATTTAT
Found at i:6046179 original size:12 final size:12
Alignment explanation
Indices: 6046128--6046204 Score: 59
Period size: 12 Copynumber: 6.4 Consensus size: 12
6046118 ATTTCAATTT
*
6046128 ATTTTCATTTCA
1 ATTTTCATTTAA
* **
6046140 ATTTTTATTTTT
1 ATTTTCATTTAA
**
6046152 ATTTTCATTTTC
1 ATTTTCATTTAA
6046164 ATTTTCATTTAA
1 ATTTTCATTTAA
*
6046176 ATTTATAATTT--
1 ATTT-TCATTTAA
6046187 ATTTTCATTTAA
1 ATTTTCATTTAA
6046199 ACTTTT
1 A-TTTT
6046205 ATTCTATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
10 5 0.10
11 4 0.08
12 34 0.65
13 9 0.17
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTCATTTAA
Found at i:6046207 original size:18 final size:17
Alignment explanation
Indices: 6046038--6046179 Score: 76
Period size: 18 Copynumber: 8.2 Consensus size: 17
6046028 TTTTAACTTT
* *
6046038 TTTTATTTCCATTTTAA
1 TTTTATTTTCATTTAAA
*
6046055 TTTTAATTTTCATTT-CA
1 TTTT-ATTTTCATTTAAA
* *
6046072 TTTCA-TTTCATTTTAA
1 TTTTATTTTCATTTAAA
* **
6046088 -CTTCGTTTCATTTAAA
1 TTTTATTTTCATTTAAA
*
6046104 TTTATTTATTTATCATTTCAA
1 --T-TTTATTT-TCATTTAAA
*
6046125 -TTTATTTTCATTTCAAT
1 TTTTATTTTCATTT-AAA
* **
6046142 TTTTATTTTTATTTTCA
1 TTTTATTTTCATTTAAA
6046159 TTTTCATTTTCATTTAAA
1 TTTT-ATTTTCATTTAAA
6046177 TTT
1 TTT
6046180 ATAATTTATT
Statistics
Matches: 93, Mismatches: 21, Indels: 21
0.69 0.16 0.16
Matches are distributed among these distances:
15 9 0.10
16 18 0.19
17 20 0.22
18 34 0.37
20 4 0.04
21 8 0.09
ACGTcount: A:0.24, C:0.11, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTATTTTCATTTAAA
Found at i:6047711 original size:7 final size:7
Alignment explanation
Indices: 6047690--6047731 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
6047680 ATTAAATAAC
6047690 AATAATA
1 AATAATA
6047697 AGATAATA
1 A-ATAATA
6047705 AATAAT-
1 AATAATA
6047711 AATAATA
1 AATAATA
6047718 AAGT-ATA
1 AA-TAATA
6047725 AATAATA
1 AATAATA
6047732 GTGATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:6047731 original size:3 final size:3
Alignment explanation
Indices: 6047571--6047718 Score: 90
Period size: 3 Copynumber: 49.0 Consensus size: 3
6047561 AATAAGGAGG
* *
6047571 TAA TAC TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
6047619 TAA TGAA -AA CAA -AA GTAT TAA GTTA CAA TTAG TAA -AA TAA TAA TAG
1 TAA T-AA TAA TAA TAA -TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA
* * * * *
6047665 TGA TAA TCA TAA T-A TAT TAAA TAA CAA TAA TAA -GA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA
6047710 TAA TAA TAA
1 TAA TAA TAA
6047719 AGTATAAATA
Statistics
Matches: 110, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
2 9 0.08
3 90 0.82
4 11 0.10
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6048066 original size:3 final size:3
Alignment explanation
Indices: 6047963--6048054 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
6047953 AATATTTTAA
* * * * *
6047963 AAT AAT AAT AAT AAT AGT AAC AAA AATT AA- AA- AAT GAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * * *
6048007 AAT AAA AAT AAA AAT AAT AGT AAT GAT AAT ACATT AAG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
6048054 A
1 A
6048055 TGTTAATAAT
Statistics
Matches: 66, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 4 0.06
3 56 0.85
4 4 0.06
5 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6048149 original size:3 final size:3
Alignment explanation
Indices: 6048143--6048193 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
6048133 GTATTAACAA
* * *
6048143 AAT AAT AAT GAT AAT AAT AAC AAT AAT AAT AAT AAG AGAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
6048189 AAT AA
1 AAT AA
6048194 ATTTAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.95
4 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6049616 original size:26 final size:25
Alignment explanation
Indices: 6049587--6049720 Score: 94
Period size: 26 Copynumber: 5.6 Consensus size: 25
6049577 TTTTTTCCTT
6049587 ATTTCATTTAAATATAATTTTTTATC
1 ATTTCATTTAAAT-TAATTTTTTATC
*
6049613 ATTTCATTTAAATT-A---TCTATC
1 ATTTCATTTAAATTAATTTTTTATC
*
6049634 -TTATCATTTTAATTTAATTTTTT-TC
1 ATT-TCA-TTTAAATTAATTTTTTATC
6049659 ATTTCATTTAAATT-ATTTTTT-TC
1 ATTTCATTTAAATTAATTTTTTATC
* *
6049682 ----CATGTAAATTTAATTTTTTTTC
1 ATTTCATTTAAA-TTAATTTTTTATC
6049704 TTATTTCATTTAAATTA
1 --ATTTCATTTAAATTA
6049721 TCTTTTTTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 31
0.70 0.05 0.25
Matches are distributed among these distances:
19 7 0.08
20 4 0.05
21 15 0.17
22 9 0.10
23 10 0.12
24 8 0.09
25 6 0.07
26 17 0.20
27 3 0.03
28 7 0.08
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTTCATTTAAATTAATTTTTTATC
Found at i:6049652 original size:47 final size:44
Alignment explanation
Indices: 6049590--6049726 Score: 168
Period size: 47 Copynumber: 3.0 Consensus size: 44
6049580 TTTCCTTATT
*
6049590 TCATTTAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTA
1 TCATTTAAATTTAATTTTTT-TCATTTCATTTAAATTATCT-T-TTA
* *
6049637 TCATTTTAATTTAATTTTTTTCATTTCATTTAAATTAT-TTTTT
1 TCATTTAAATTTAATTTTTTTCATTTCATTTAAATTATCTTTTA
*
6049680 TCCATGTAAATTTAATTTTTTTTCTTATTTCATTTAAATTATCTTTT
1 T-CATTTAAATTTAA-TTTTTTTC--ATTTCATTTAAATTATCTTTT
6049727 TTTCCAAGTA
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
43 3 0.04
44 12 0.15
45 9 0.11
46 18 0.22
47 34 0.43
48 4 0.05
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (44 bp):
TCATTTAAATTTAATTTTTTTCATTTCATTTAAATTATCTTTTA
Found at i:6049728 original size:49 final size:47
Alignment explanation
Indices: 6049595--6049752 Score: 189
Period size: 46 Copynumber: 3.4 Consensus size: 47
6049585 TTATTTCATT
* * * * *
6049595 TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTAT-CATT
1 TAAATTTAATTTTTTTTCATTTCATTTAAATTATCT-TTTTTTCCATG
*
6049642 TTAATTTAA-TTTTTTTCATTTCATTTAAATTA--TTTTTTTCCATG
1 TAAATTTAATTTTTTTTCATTTCATTTAAATTATCTTTTTTTCCATG
*
6049686 TAAATTTAATTTTTTTTCTTATTTCATTTAAATTATCTTTTTTTCCAAG
1 TAAATTTAATTTTTTTTC--ATTTCATTTAAATTATCTTTTTTTCCATG
6049735 TAAATTTAATTATTTTTT
1 TAAATTTAATT-TTTTTT
6049753 TCCATGTAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
43 4 0.04
44 12 0.12
45 8 0.08
46 22 0.23
47 22 0.23
49 22 0.23
50 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (47 bp):
TAAATTTAATTTTTTTTCATTTCATTTAAATTATCTTTTTTTCCATG
Found at i:6049755 original size:24 final size:24
Alignment explanation
Indices: 6049664--6049776 Score: 99
Period size: 22 Copynumber: 4.7 Consensus size: 24
6049654 TTTTCATTTC
*
6049664 ATTTAAATTATTTTTTTCCATGTAA
1 ATTT-AATTATTTTTTTCCAAGTAA
** * **
6049689 ATTTAA-T-TTTTTTTCTTATTTC
1 ATTTAATTATTTTTTTCCAAGTAA
6049711 ATTTAAATTATCTTTTTTTCCAAGTAA
1 ATTT-AATTA--TTTTTTTCCAAGTAA
*
6049738 ATTTAATTATTTTTTTCCATGTAA
1 ATTTAATTATTTTTTTCCAAGTAA
6049762 ATTT-A-TATTTTTTTC
1 ATTTAATTATTTTTTTC
6049777 ATATTAATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
22 23 0.32
23 4 0.06
24 21 0.30
25 4 0.06
26 5 0.07
27 14 0.20
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTTAATTATTTTTTTCCAAGTAA
Found at i:6049773 original size:93 final size:90
Alignment explanation
Indices: 6049595--6049773 Score: 200
Period size: 93 Copynumber: 1.9 Consensus size: 90
6049585 TTATTTCATT
** *
6049595 TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTATCATTTTAATTTAATTTTTTTCA
1 TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTATCAAGTAAATTTAATTTTTTT-A
* * *
6049660 TTTCATTTAAATTATTTTTTTCCATG
65 TTCCATGTAAATTATATTTTTCCATG
* * * *
6049686 TAAATTTAATTTTTTTTCTTATTTCATTTAAATTATCT-TTTTTTCCAAGTAAATTTAATTATTT
1 TAAATATAATTTTTTATC--ATTTCATTTAAATTATCTATCTTAT-CAAGTAAATTTAATT-TTT
6049750 TT-TTCCATGTAAATTTATATTTTT
62 TTATTCCATGTAAA-TTATATTTTT
6049774 TTCATATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
91 16 0.22
92 13 0.18
93 39 0.53
94 5 0.07
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (90 bp):
TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTATCAAGTAAATTTAATTTTTTTAT
TCCATGTAAATTATATTTTTCCATG
Found at i:6049785 original size:21 final size:22
Alignment explanation
Indices: 6049714--6049786 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 22
6049704 TTATTTCATT
*
6049714 TAAA-TTATCTTTTTTTCCA-A
1 TAAATTTATATTTTTTTCCATA
*
6049734 GTAAATTTAATTATTTTTTTCCATG
1 -TAAATTT-A-TATTTTTTTCCATA
6049759 TAAATTTATATTTTTTT-CATA
1 TAAATTTATATTTTTTTCCATA
*
6049780 TTAATTT
1 TAAATTT
6049787 TCTCTCATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.30
22 11 0.25
23 2 0.05
24 18 0.41
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (22 bp):
TAAATTTATATTTTTTTCCATA
Found at i:6051512 original size:22 final size:22
Alignment explanation
Indices: 6051481--6051522 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6051471 AATTTAATTA
*
6051481 AAATCGGCCATTAAGAGGCCTG
1 AAATCAGCCATTAAGAGGCCTG
6051503 AAATCAGCCATTAAGAGGCC
1 AAATCAGCCATTAAGAGGCC
6051523 ATCCGAAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
AAATCAGCCATTAAGAGGCCTG
Found at i:6051707 original size:50 final size:46
Alignment explanation
Indices: 6051593--6051713 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 46
6051583 CAAGCCACAT
* *
6051593 TTTTTTTTAATTTAAAGCCTATTCTATTACTTCAAATTACTTTAAATC
1 TTTTTTTT-ATTTAAATCCTATTC-ATTACTTCAAATTACTTAAAATC
* *
6051641 --TTTTTT-TTTAATTCCTATTCATTACTTTAAATTACTTAAAATCCCAC
1 TTTTTTTTATTTAAATCCTATTCATTACTTCAAATTACTTAAAAT----C
6051688 TTTTTTTTATTTAAATCCTATTCATT
1 TTTTTTTTATTTAAATCCTATTCATT
6051714 CATTAGTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
43 20 0.33
44 12 0.20
46 6 0.10
47 1 0.02
49 6 0.10
50 16 0.26
ACGTcount: A:0.29, C:0.16, G:0.01, T:0.55
Consensus pattern (46 bp):
TTTTTTTTATTTAAATCCTATTCATTACTTCAAATTACTTAAAATC
Found at i:6051805 original size:20 final size:17
Alignment explanation
Indices: 6051782--6051820 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
6051772 AAATTATATA
6051782 TTTTTTAATTAAAATATTAT
1 TTTTTTAA--AAAA-ATTAT
6051802 TTTTTTAAAAAAATTAT
1 TTTTTTAAAAAAATTAT
6051819 TT
1 TT
6051821 CAAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
20 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAAAAAAATTAT
Found at i:6052199 original size:10 final size:11
Alignment explanation
Indices: 6052171--6052199 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6052161 TAATTTTACT
6052171 ATTCATTTTAG
1 ATTCATTTTAG
6052182 ATTCATTTTAG
1 ATTCATTTTAG
6052193 A-TCATTT
1 ATTCATTT
6052200 AAGTGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (11 bp):
ATTCATTTTAG
Found at i:6055718 original size:20 final size:20
Alignment explanation
Indices: 6055693--6055739 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6055683 TAACTTATCC
6055693 TTCTTTTTCTTTGCT-TTCCT
1 TTCTTTTTCTTTGCTCTT-CT
* *
6055713 TTCTTTCTCTTTTCTCTTCT
1 TTCTTTTTCTTTGCTCTTCT
6055733 TTCTTTT
1 TTCTTTT
6055740 CCTCTCTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (20 bp):
TTCTTTTTCTTTGCTCTTCT
Found at i:6055726 original size:16 final size:16
Alignment explanation
Indices: 6055707--6055793 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 16
6055697 TTTTCTTTGC
6055707 TTTCCTTTCTTTCTCT
1 TTTCCTTTCTTTCTCT
6055723 TTT-CTCTTCTTTCT-T
1 TTTCCT-TTCTTTCTCT
*
6055738 TTCCTCTCTTCGTCTCTCTCT
1 TT--TC-CTT--TCTTTCTCT
* *
6055759 TTTTCTTTCCTTCTCCT
1 TTTCCTTTCTTTCT-CT
* *
6055776 TTTCTTTTCCTTCTCT
1 TTTCCTTTCTTTCTCT
6055792 TT
1 TT
6055794 CTTCCTCCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
15 5 0.09
16 20 0.36
17 15 0.27
18 4 0.07
19 3 0.05
20 6 0.11
21 3 0.05
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (16 bp):
TTTCCTTTCTTTCTCT
Found at i:6055784 original size:17 final size:16
Alignment explanation
Indices: 6055754--6055790 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
6055744 TCTTCGTCTC
*
6055754 TCTCTTTTTCTTTCCT
1 TCTCCTTTTCTTTCCT
6055770 TCTCCTTTTCTTTTCCT
1 TCTCCTTTTC-TTTCCT
6055787 TCTC
1 TCTC
6055791 TTTCTTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TCTCCTTTTCTTTCCT
Found at i:6055819 original size:27 final size:27
Alignment explanation
Indices: 6055760--6055843 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
6055750 TCTCTCTCTT
* *
6055760 TTTCTTTCCTT-CTCCT-TTTCTTTTCC
1 TTTCTTT-CTTCCTCCTCTTCCTTTCCC
6055786 TTCTCTTTCTTCCTCCTCTTCCTTTCCC
1 TT-TCTTTCTTCCTCCTCTTCCTTTCCC
*
6055814 TTTCTTCTCTCTCCCTTCTCTTCCTCTTCC
1 TTTCTT-TCT-T-CCTCCTCTTCCT-TTCC
6055844 TCCTCCTCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.10
27 14 0.29
28 13 0.27
29 1 0.02
30 11 0.23
31 4 0.08
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTCTTTCTTCCTCCTCTTCCTTTCCC
Found at i:6065290 original size:20 final size:20
Alignment explanation
Indices: 6065267--6065307 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6065257 TTAATTTTAG
*
6065267 TAAAAGTATATTAAATATGA
1 TAAAAATATATTAAATATGA
* *
6065287 TAAAAATATTTTAATTATGA
1 TAAAAATATATTAAATATGA
6065307 T
1 T
6065308 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TAAAAATATATTAAATATGA
Found at i:6069334 original size:21 final size:21
Alignment explanation
Indices: 6069286--6069335 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6069276 TAACCTGACC
*
6069286 CAAAAGTATCGGTACTCTTAA
1 CAAAAGTATCAGTACTCTTAA
*
6069307 C-AAAGTATCAGTAC-CTTTCA
1 CAAAAGTATCAGTACTC-TTAA
6069327 CAAAAGTAT
1 CAAAAGTAT
6069336 TGTTGATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 16 0.64
21 8 0.32
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (21 bp):
CAAAAGTATCAGTACTCTTAA
Found at i:6074773 original size:14 final size:14
Alignment explanation
Indices: 6074754--6074782 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6074744 AATTTTAAAT
6074754 TTTATTATTTTATG
1 TTTATTATTTTATG
6074768 TTTATTATTTTATG
1 TTTATTATTTTATG
6074782 T
1 T
6074783 AAATTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTATTATTTTATG
Found at i:6076751 original size:20 final size:20
Alignment explanation
Indices: 6076713--6076760 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
6076703 TAAATTCTAA
* **
6076713 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
6076733 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
6076753 AAA-ATAAA
1 AAAGATAAA
6076761 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:6083640 original size:29 final size:28
Alignment explanation
Indices: 6083595--6083651 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
6083585 TTTTAACCCC
* *
6083595 TTTTTTATTTTTAAATT-TTGTTATTTTA
1 TTTTTTATATATAAATTATT-TTATTTTA
6083623 TTTTTTATATATATAATTATTTTATTTTA
1 TTTTTTATATATA-AATTATTTTATTTTA
6083652 GATAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 12 0.48
30 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTATATATAAATTATTTTATTTTA
Found at i:6083738 original size:24 final size:24
Alignment explanation
Indices: 6083711--6083773 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
6083701 ATCTTTTATC
*
6083711 ATATATTATTTTCCTAA-ATATATT
1 ATATATTATTTT-ATAACATATATT
* *
6083735 ATATTTTATTATATAACATATATT
1 ATATATTATTTTATAACATATATT
6083759 ATATATATATTTTAT
1 ATATAT-TATTTTAT
6083774 GTTATGTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 3 0.09
24 22 0.69
25 7 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTATTTTATAACATATATT
Found at i:6087716 original size:14 final size:14
Alignment explanation
Indices: 6087697--6087726 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6087687 AAGATATTCT
6087697 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
6087711 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
6087725 TT
1 TT
6087727 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:6103492 original size:205 final size:205
Alignment explanation
Indices: 6103132--6103886 Score: 1201
Period size: 205 Copynumber: 3.7 Consensus size: 205
6103122 GCAGATCTGG
* * * *
6103132 CTGAAGCAAGATCCAAGATGGTTTCGCATTCTTGTGCTTACAAGGAACAAACCAAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTAGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
6103197 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATC-AAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * **
6103261 AGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGAGTGGATACATAGCAGATCTCACCTTC
130 AGAGCAAATCGAAGTCTGGAATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTC
6103326 AGATGTTTATA
195 AGATGTTTATA
* * *
6103337 CTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGCTTACAGGGAGCAAATCGAATACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
6103402 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTTTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
6103467 GAGCAAATCGAAGTCTGGTATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
131 GAGCAAATCGAAGTCTGGAATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
6103532 GATGTTTATA
196 GATGTTTATA
* * *
6103542 CTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTG
1 CTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
6103607 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
6103672 GAGCAAATCGAAGTCTGGAATCTCCACTTCAACGGGGAGCAGATACATAGCATATCTCACCTTCA
131 GAGCAAATCGAAGTCTGGAATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
* *
6103737 GATAATTT-CA
196 GAT-GTTTATA
* * *
6103747 CTGAAGTAAGATCCAATATGATTT-GACATTCTTATGCTTACAAGGAACAAATCGAAGACATAGC
1 CTGAAG-CAGATCCAAGATGATTTAG-CATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
* * * *
6103811 TGATTTGGCTTTTACGTGCTTACGATGAAGCAAATCTAAGATGATTTAGCATCTCTATATTGTCA
64 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
*
6103876 GAGAACAAATC
129 GAGAGCAAATC
6103887 AAAGAAGCAG
Statistics
Matches: 512, Mismatches: 34, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
204 85 0.17
205 305 0.60
206 122 0.24
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAGCAAATCGAAGTCTGGAATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
GATGTTTATA
Found at i:6105075 original size:15 final size:15
Alignment explanation
Indices: 6105055--6105084 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6105045 AGACCCTCAT
6105055 TCAGAGGATTTCACC
1 TCAGAGGATTTCACC
6105070 TCAGAGGATTTCACC
1 TCAGAGGATTTCACC
6105085 CCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
TCAGAGGATTTCACC
Found at i:6105577 original size:29 final size:28
Alignment explanation
Indices: 6105532--6105588 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
6105522 TTTAACCCCT
* *
6105532 TTTTTTATTTTTAAATT-TTGTTATTTTA
1 TTTTTTATATATAAATTATT-TTATTTTA
6105560 TTTTTTATATATATAATTATTTTATTTTA
1 TTTTTTATATATA-AATTATTTTATTTTA
6105589 GATAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 12 0.48
30 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTATATATAAATTATTTTATTTTA
Found at i:6105675 original size:24 final size:24
Alignment explanation
Indices: 6105648--6105710 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
6105638 ATCTTTTATC
*
6105648 ATATATTATTTTCCTAA-ATATATT
1 ATATATTATTTT-ATAACATATATT
* *
6105672 ATATTTTATTATATAACATATATT
1 ATATATTATTTTATAACATATATT
6105696 ATATATATATTTTAT
1 ATATAT-TATTTTAT
6105711 GTTATGTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 3 0.09
24 22 0.69
25 7 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTATTTTATAACATATATT
Found at i:6115698 original size:15 final size:15
Alignment explanation
Indices: 6115678--6115708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6115668 GGGGACTACC
*
6115678 AAGTTGATTCTAAGA
1 AAGTTGATTCCAAGA
6115693 AAGTTGATTCCAAGA
1 AAGTTGATTCCAAGA
6115708 A
1 A
6115709 TCAAACTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
AAGTTGATTCCAAGA
Found at i:6116002 original size:18 final size:19
Alignment explanation
Indices: 6115979--6116024 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
6115969 TATATATATT
6115979 TATATTTTAG-ATAA-TTAA
1 TATATTTTAGTA-AACTTAA
6115997 TATATTATTAGTAAACTTAA
1 TATATT-TTAGTAAACTTAA
6116017 TATATTTT
1 TATATTTT
6116025 GTTCCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TATATTTTAGTAAACTTAA
Found at i:6121012 original size:74 final size:74
Alignment explanation
Indices: 6120931--6121078 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
6120921 TATACCAGAC
**
6120931 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTAGTTAACACCACTAAATTACATAGAA
1 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATAGAA
6120996 ACTTGCTAA
66 ACTTGCTAA
* *
6121005 AAGTTGGTTAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATTGAA
1 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATAGAA
6121070 ACTTGCTAA
66 ACTTGCTAA
6121079 TTTAACTTGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (74 bp):
AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATAGAA
ACTTGCTAA
Found at i:6130598 original size:21 final size:21
Alignment explanation
Indices: 6130569--6130611 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6130559 TGTCCTAAGA
*
6130569 CGATGATGGGAAAATATCATG
1 CGATAATGGGAAAATATCATG
* *
6130590 CGATAATGGGTAAATCTCATG
1 CGATAATGGGAAAATATCATG
6130611 C
1 C
6130612 AATGATGAGT
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:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (21 bp):
CGATAATGGGAAAATATCATG
Found at i:6130713 original size:23 final size:23
Alignment explanation
Indices: 6130685--6130796 Score: 98
Period size: 23 Copynumber: 4.9 Consensus size: 23
6130675 CCAAGCAAAA
*
6130685 CCTTTGTGGCATATTTTGTATAG
1 CCTTTGTGGCATATTCTGTATAG
* *** * *
6130708 CATTTGTGATGTATTCTGAATAA
1 CCTTTGTGGCATATTCTGTATAG
* *
6130731 CCTTTGTGGCATATTCTGTCTGG
1 CCTTTGTGGCATATTCTGTATAG
* * *
6130754 CCTTTGTGGCGTATTTTGTATAC
1 CCTTTGTGGCATATTCTGTATAG
**
6130777 CCTTTGTGGTGTATTCTGTA
1 CCTTTGTGGCATATTCTGTA
6130797 AGGCTTTTAT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.46
Consensus pattern (23 bp):
CCTTTGTGGCATATTCTGTATAG
Found at i:6130760 original size:46 final size:46
Alignment explanation
Indices: 6130683--6130796 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
6130673 ATCCAAGCAA
* *
6130683 AACCTTTGTGGCATATTTTGTATAGCATTTGTGATGTATTCTGAAT
1 AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
* * * * * *
6130729 AACCTTTGTGGCATATTCTGTCTGGCCTTTGTGGCGTATTTTGTAT
1 AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
* **
6130775 ACCCTTTGTGGTGTATTCTGTA
1 AACCTTTGTGGCATATTCTGTA
6130797 AGGCTTTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.46
Consensus pattern (46 bp):
AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
Found at i:6134147 original size:20 final size:19
Alignment explanation
Indices: 6134111--6134154 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6134101 ATCCTTTTAT
* *
6134111 ATTTTTTCTTTATTTATTC
1 ATTTTTTATATATTTATTC
*
6134130 ATTTTTTATATATATTATTT
1 ATTTTTTATATAT-TTATTC
6134150 ATTTT
1 ATTTT
6134155 AATGGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTTATATATTTATTC
Found at i:6141504 original size:15 final size:15
Alignment explanation
Indices: 6141484--6141513 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6141474 CATTTTATTT
*
6141484 ATATTAGGATAATTA
1 ATATTAAGATAATTA
6141499 ATATTAAGATAATTA
1 ATATTAAGATAATTA
6141514 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:6145764 original size:52 final size:51
Alignment explanation
Indices: 6145581--6145787 Score: 200
Period size: 52 Copynumber: 3.9 Consensus size: 51
6145571 TTTTTGTTAC
*
6145581 AAGTGATAAGCGTTATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
1 AAGTGATAAGTG-TA-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * **
6145634 CAAGTAATAAGTGATATTCGTATAAGACCATAGCTGGGCTATGGCTTC-GATTA
1 -AAGTGATAAGTG-TA-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * *
6145687 TAGTGATACAAGTGAACCGTATAAGAACATAGCTGGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGTGTACCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * * *
6145740 AAGTGATAAGTGCTCCCGTGTAAGACCATATCTGGGATATGACATCGG
1 AAGTGATAAGTG-TACCGTATAAGACCATAGCTGGGCTATGGCATCGG
6145788 TATGATATAT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
51 5 0.04
52 61 0.48
53 13 0.10
54 47 0.37
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (51 bp):
AAGTGATAAGTGTACCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:6153340 original size:54 final size:50
Alignment explanation
Indices: 6153254--6153421 Score: 183
Period size: 53 Copynumber: 3.2 Consensus size: 50
6153244 CTATGACAAC
* *
6153254 AAGTGATAATCGATATCCGTATAAGACTATAGCTGGGCTATGGCCTCGGAAAA
1 AAGTGAT-A-CGATATCCGTATAAGACCATAGCTGGGCTATGGCATC-GAAAA
* **
6153307 TAAGTGATGAGCGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 -AAGTGAT-A-CGATATCCGTATAAGACCATAGCTGGGCTATGGCATC-GAAAA
* *
6153361 AAGTGATACAAGTGATTCGTATAAGACCATAGCTGGGCTATGGCATCGAAGAA
1 AAGTGATACGA-T-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGAA-AA
6153414 AAGTGATA
1 AAGTGATA
6153422 ATTGCTCACG
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.02
52 4 0.04
53 47 0.47
54 46 0.46
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (50 bp):
AAGTGATACGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGAAAA
Found at i:6153495 original size:13 final size:13
Alignment explanation
Indices: 6153477--6153503 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6153467 TATATGACTC
6153477 GTGTAAGACCATG
1 GTGTAAGACCATG
6153490 GTGTAAGACCATG
1 GTGTAAGACCATG
6153503 G
1 G
6153504 CTGGGCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (13 bp):
GTGTAAGACCATG
Found at i:6161739 original size:41 final size:40
Alignment explanation
Indices: 6161638--6161740 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
6161628 TTTAGTGGCT
* * *
6161638 TTAGCGTCGCTTTTTAAAAAAACGTCACTATAGATCAAGCA
1 TTAGCGGCGCTTTTT-AAAAAACGCCACTATAGATCAACCA
* * * * *
6161679 TTAGCGGCACTTTTTAAAAAATGCCGCTATAGGTCGACCA
1 TTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCAACCA
* *
6161719 TTAGTGGCGCTTTTTGAAAAAC
1 TTAGCGGCGCTTTTTAAAAAAC
6161741 ACTGCAAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
40 37 0.74
41 13 0.26
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCAACCA
Found at i:6161836 original size:40 final size:40
Alignment explanation
Indices: 6161781--6161885 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
6161771 GCTTTAATGG
** * *
6161781 CATTAGCAGTGCTTTTTGAAAAACACCGCTATAGATCGAG
1 CATTAGCAGCACTTTTTGAAAAACACCACTATAGATCGAC
* * * *
6161821 CATTAG-AGGCACTTTTTAAAAAACGCCACTATAGGTTGAC
1 CATTAGCA-GCACTTTTTGAAAAACACCACTATAGATCGAC
*
6161861 CATTAGCAGCGCTTTTTGAAAAACA
1 CATTAGCAGCACTTTTTGAAAAACA
6161886 TCACAAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.96
41 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (40 bp):
CATTAGCAGCACTTTTTGAAAAACACCACTATAGATCGAC
Found at i:6161991 original size:40 final size:40
Alignment explanation
Indices: 6161935--6162118 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
6161925 AGCTTTAGTT
* * * * *
6161935 GCATTAGCGACGCTTTTTGAAAAACGCCGCTATATATCGA
1 GCATTAGCGGCTCTTTTTGAAAAACGCCACTATAGATTGA
* * *
6161975 GCATTAGCGGCTCTTTTTGAAAAAAAGCCGCTATAGGTTGA
1 GCATTAGCGGCTCTTTTTG-AAAAACGCCACTATAGATTGA
** * *
6162016 -CTATTAGCAACGCTTTTTGAAAAACGCTACTATAGATTGA
1 GC-ATTAGCGGCTCTTTTTGAAAAACGCCACTATAGATTGA
* **
6162056 GCATTAGCGG-TGCTTTTTAAAAAATTCCACTATAGATTGA
1 GCATTAGCGGCT-CTTTTTGAAAAACGCCACTATAGATTGA
*
6162096 CCATTAGCGG-TGCTTTTTGAAAA
1 GCATTAGCGGCT-CTTTTTGAAAA
6162119 GTGCCTCAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 86 0.73
41 32 0.27
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (40 bp):
GCATTAGCGGCTCTTTTTGAAAAACGCCACTATAGATTGA
Found at i:6162033 original size:81 final size:80
Alignment explanation
Indices: 6161936--6162118 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 80
6161926 GCTTTAGTTG
* *
6161936 CATTAGCGACGCTTTTTGAAAAACGCCGCTATATATCGAGCATTAGCGGCT-CTTTTTGAAAAAA
1 CATTAGCGACGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGG-TGCTTTTT-AAAAAA
* *
6162000 AGCCGCTATAGGTTGAC
64 AGCCACTATAGATTGAC
* * * * **
6162017 TATTAGCAACGCTTTTTGAAAAACGCTACTATAGATTGAGCATTAGCGGTGCTTTTTAAAAAATT
1 CATTAGCGACGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGTGCTTTTTAAAAAAAG
6162082 CCACTATAGATTGAC
66 CCACTATAGATTGAC
**
6162097 CATTAGCGGTGCTTTTTGAAAA
1 CATTAGCGACGCTTTTTGAAAA
6162119 GTGCCTCAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 38 0.44
81 49 0.56
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (80 bp):
CATTAGCGACGCTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGTGCTTTTTAAAAAAAG
CCACTATAGATTGAC
Found at i:6162074 original size:155 final size:155
Alignment explanation
Indices: 6161510--6162040 Score: 543
Period size: 156 Copynumber: 3.5 Consensus size: 155
6161500 GCGGTGCTGT
* * * * * * * * * *
6161510 TATAGATCGAGCATTAGCGGCGCTTTTTAAAAAATGTCATTATAAGTCGACCATTGGTAGCGCTT
1 TATAGATCGAGCATTAGAGGCACTTTTTAAAAAAAGCCACTATAGGTTGACCATTAGCAACGCTT
** * * * *
6161575 TTTGAAAAACGCCGCAAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCTTT
66 TTTGAAAAACATCACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAATGGCATT
* *
6161640 AGC-GTCGCTTTTT-AAAAAAACGTCAC
131 AGCAG-CGCTTTTTGAAAAACAC--CGC
* * * * * ***
6161666 TATAGATCAAGCATTAGCGGCACTTTTTAAAAAATGCCGCTATAGGTCGACCATTAGTGGCGCTT
1 TATAGATCGAGCATTAGAGGCACTTTTTAAAAAAAGCCACTATAGGTTGACCATTAGCAACGCTT
* * *
6161731 TTTGAAAAACA-CTGCAAAAAAATTAAACAC-A-G--G-C------CGTTGAGCTTTAATGGCAT
66 TTTGAAAAACATC-ACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAATGGCAT
*
6161784 TAGCAGTGCTTTTTGAAAAACACCGC
130 TAGCAGCGCTTTTTGAAAAACACCGC
* *
6161810 TATAGATCGAGCATTAGAGGCACTTTTTAAAAAACGCCACTATAGGTTGACCATTAGCAGCGCTT
1 TATAGATCGAGCATTAGAGGCACTTTTTAAAAAAAGCCACTATAGGTTGACCATTAGCAACGCTT
* *
6161875 TTTGAAAAACATCACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTTGCATT
66 TTTGAAAAACATCACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAATGGCATT
*
6161940 AGC-GACGCTTTTTGAAAAACGCCGC
131 AGCAG-CGCTTTTTGAAAAACACCGC
* * * * *
6161965 TATATATCGAGCATTAGCGGCTCTTTTTGAAAAAAAGCCGCTATAGGTTGACTATTAGCAACGCT
1 TATAGATCGAGCATTAGAGGCACTTTTT-AAAAAAAGCCACTATAGGTTGACCATTAGCAACGCT
6162030 TTTTGAAAAAC
65 TTTTGAAAAAC
6162041 GCTACTATAG
Statistics
Matches: 321, Mismatches: 37, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
144 86 0.27
145 29 0.09
146 9 0.03
148 1 0.00
149 1 0.00
151 1 0.00
152 1 0.00
154 2 0.01
155 65 0.20
156 126 0.39
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (155 bp):
TATAGATCGAGCATTAGAGGCACTTTTTAAAAAAAGCCACTATAGGTTGACCATTAGCAACGCTT
TTTGAAAAACATCACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAATGGCATT
AGCAGCGCTTTTTGAAAAACACCGC
Found at i:6162224 original size:153 final size:153
Alignment explanation
Indices: 6162018--6162298 Score: 391
Period size: 153 Copynumber: 1.8 Consensus size: 153
6162008 TAGGTTGACT
* * * * *
6162018 ATTAGCAACGCTTTTTGAAAAACGCTACTATAGATTGAGCATTAGCGGTGCTTTTTAAAAAATTC
1 ATTAGCAACGCTTTTTGAAAAACGCCACTATAGATCGAACATTAGCGGCGCTTTTTAAAAAATGC
* * ** *
6162083 CACTATAGATTGACCATTAGCGGTGCTTTTTGAAAAGTGCCTCAAAAAAATTAAGCACAACGCCG
66 CACTATAGATCGACCATTAGCGGTGCTTTTTAAAAAACGCCGCAAAAAAATTAAGCACAACGCCG
6162148 TCGTTTTATGTTGCTTTAGTGGC
131 TCGTTTTATGTTGCTTTAGTGGC
* * *
6162171 ATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAACATTAGCTGCGCTTTTTAAAAAATGC
1 ATTAGCAACGCTTTTTGAAAAACGCCACTATAGATCGAACATTAGCGGCGCTTTTTAAAAAATGC
** * * * *
6162236 TGCTATAGGTCGACCTTTAGTGGTGCTTTTTAAAAAACGCCGCAAAAAAATTAAGTACAACGC
66 CACTATAGATCGACCATTAGCGGTGCTTTTTAAAAAACGCCGCAAAAAAATTAAGCACAACGC
6162299 TGCAATTTGC
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
153 109 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (153 bp):
ATTAGCAACGCTTTTTGAAAAACGCCACTATAGATCGAACATTAGCGGCGCTTTTTAAAAAATGC
CACTATAGATCGACCATTAGCGGTGCTTTTTAAAAAACGCCGCAAAAAAATTAAGCACAACGCCG
TCGTTTTATGTTGCTTTAGTGGC
Found at i:6162225 original size:40 final size:40
Alignment explanation
Indices: 6162170--6162278 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
6162160 GCTTTAGTGG
*
6162170 CATTAGC-GACGCTTTTTGAAAAACGCCGCTATAGATCGAA
1 CATTAGCTG-CGCTTTTTAAAAAACGCCGCTATAGATCGAA
* * * *
6162210 CATTAGCTGCGCTTTTTAAAAAATGCTGCTATAGGTCGAC
1 CATTAGCTGCGCTTTTTAAAAAACGCCGCTATAGATCGAA
* *
6162250 CTTTAG-TGGTGCTTTTTAAAAAACGCCGC
1 CATTAGCT-GCGCTTTTTAAAAAACGCCGC
6162279 AAAAAAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 56 0.97
41 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
CATTAGCTGCGCTTTTTAAAAAACGCCGCTATAGATCGAA
Found at i:6164528 original size:43 final size:43
Alignment explanation
Indices: 6164469--6164608 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 43
6164459 GGGAGAGCGT
* * * * **
6164469 CGCTAAATGTCATGTTCTATAGCGATATTTTTAGGAAAAGTGC
1 CGCTAAAGGTCTTGTTCTATAGCGACATTTGTAGGAAAAACGC
* *
6164512 CGCTAAAGGTCTTGTTCTATAGCGGCATTTGTGGGAAAAACGC
1 CGCTAAAGGTCTTGTTCTATAGCGACATTTGTAGGAAAAACGC
* * * * *
6164555 CACTAAAGGTCTTGTTCTACAGTGGCGTTTGT-GGAAAAAGCGC
1 CGCTAAAGGTCTTGTTCTATAGCGACATTTGTAGGAAAAA-CGC
6164598 CGCTAAAGGTC
1 CGCTAAAGGTC
6164609 ATAGGCCACA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 7 0.08
43 76 0.92
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCTTGTTCTATAGCGACATTTGTAGGAAAAACGC
Found at i:6164646 original size:15 final size:15
Alignment explanation
Indices: 6164626--6164675 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6164616 ACACATTTTT
6164626 GCGGCGTTAGCTATA
1 GCGGCGTTAGCTATA
* *
6164641 GCGGCGTT---TTTT
1 GCGGCGTTAGCTATA
*
6164653 GCGGTGTTAGCTATA
1 GCGGCGTTAGCTATA
6164668 GCGGCGTT
1 GCGGCGTT
6164676 TTTTGCGGCG
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
12 9 0.35
15 17 0.65
ACGTcount: A:0.12, C:0.18, G:0.36, T:0.34
Consensus pattern (15 bp):
GCGGCGTTAGCTATA
Found at i:6164652 original size:27 final size:27
Alignment explanation
Indices: 6164621--6164685 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
6164611 AGGCCACACA
6164621 TTTTTGCGGCGTTAGCTATAGCGGCGT
1 TTTTTGCGGCGTTAGCTATAGCGGCGT
*
6164648 TTTTTGCGGTGTTAGCTATAGCGGCGT
1 TTTTTGCGGCGTTAGCTATAGCGGCGT
6164675 TTTTTGCGGCG
1 TTTTTGCGGCG
6164686 CTTATCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.09, C:0.17, G:0.34, T:0.40
Consensus pattern (27 bp):
TTTTTGCGGCGTTAGCTATAGCGGCGT
Found at i:6165182 original size:35 final size:34
Alignment explanation
Indices: 6165154--6165273 Score: 177
Period size: 34 Copynumber: 3.4 Consensus size: 34
6165144 GTTTTATATT
*
6165154 TTTTTAAAAAAATTAATTAAATTAGGTTTTAGAG
1 TTTTTAAAAAAATTAATTAAATTAGGGTTTAGAG
*
6165188 TTTTTAAATAAATTAATTAAATTAGGGTTTAGAG
1 TTTTTAAAAAAATTAATTAAATTAGGGTTTAGAG
*
6165222 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGTGAG
1 TTTTTAAAAAAATTAATTAAATTAGGGTTTA--GAG
6165258 TTTTTTAAAAATAATT
1 -TTTTTAAAAA-AATT
6165274 TTGTGTTTAG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
34 61 0.79
36 3 0.04
37 9 0.12
38 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (34 bp):
TTTTTAAAAAAATTAATTAAATTAGGGTTTAGAG
Found at i:6165468 original size:125 final size:126
Alignment explanation
Indices: 6165332--6165724 Score: 492
Period size: 125 Copynumber: 3.1 Consensus size: 126
6165322 TTTTGTTTTT
* * * *
6165332 TTTTTCTACAGTAGTTTCAG-AAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAATGTTAAAA
* * *
6165396 ACGCTTTAAGCAGGATGCACTGTCAGCAATATTACTGAAAAAAGCTCCCATGTGGACGCTC
66 ACGCTTTAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
6165457 TTTTTCTACAGTAG-TTCTTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAAAGTAAT-TTA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTATG-AAAAAA-TAATGTT-
* * * * * *
6165520 AAAAACACTTCAAGTAGGATGCACTGTTAGCAAAATTACTG-AAAAAGATCCCACATGGATGCTC
62 AAAAACGCTTTAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** *
6165584 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACTATTATGAAAAAATAGTG-TAAAC
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAATGTTAAA-
* * * **
6165648 AACGCTTTAAGTAGGATGCACTATCAGCAAAATTACT-AAAAAAACTCTCACGTATACGCTC
65 AACGCTTTAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
6165709 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
6165725 CTTATTTGGC
Statistics
Matches: 229, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
124 6 0.03
125 83 0.36
126 31 0.14
127 67 0.29
128 42 0.18
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAATGTTAAAA
ACGCTTTAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:6171915 original size:32 final size:32
Alignment explanation
Indices: 6171854--6171916 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
6171844 ACTAAGTGTG
**
6171854 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
6171886 TATATATGTGT-GATTGGATATAA-CCGAATGT
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGT
6171917 GTATCCAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.04
32 24 0.89
33 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.40
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:6178890 original size:21 final size:20
Alignment explanation
Indices: 6178851--6178891 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6178841 AGCATTTATA
*
6178851 ATTTAGTTTTTAGAGTTTTT
1 ATTTAGTTTTTAGAATTTTT
*
6178871 ATTTAGATTTTTATAATTTTT
1 ATTTAG-TTTTTAGAATTTTT
6178892 CCATTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
ATTTAGTTTTTAGAATTTTT
Found at i:6178946 original size:19 final size:19
Alignment explanation
Indices: 6178914--6178957 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6178904 TATTTATATT
*
6178914 TATTTTAGATAA-TTAATA
1 TATTTTAGAAAATTTAATA
6178932 TATTATTAGAAAATTTAATA
1 TATT-TTAGAAAATTTAATA
6178952 TATTTT
1 TATTTT
6178958 GTTCCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TATTTTAGAAAATTTAATA
Found at i:6189331 original size:42 final size:40
Alignment explanation
Indices: 6189245--6189411 Score: 219
Period size: 40 Copynumber: 4.1 Consensus size: 40
6189235 CTCGATATAT
6189245 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* *
6189285 TATATATCTGGGTCAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGT-A-A
* * * *
6189327 TATATATCCGGGTTAAATTCCGTAGGCTTCGTGCTAGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * *
6189367 TATATATCCAGGTTAAATCCTGCAGGCTT-AGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
6189407 TATAT
1 TATAT
6189412 CCAGGCTTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
40 74 0.68
41 2 0.02
42 33 0.30
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:6189385 original size:82 final size:82
Alignment explanation
Indices: 6189245--6189411 Score: 237
Period size: 82 Copynumber: 2.0 Consensus size: 82
6189235 CTCGATATAT
* **
6189245 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATATCTGGGTCAAATCCCGCAG
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAATATATATCCAGGTCAAATCCCGCAG
6189310 GCTTCA-TGCTGGTAATA
66 GCTT-AGTGCTGGTAATA
* * * * *
6189327 TATATATCCGGGTTAAATTCCGTAGGCTTCGTGCTAGTAATATATATCCAGGTTAAATCCTGCAG
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAATATATATCCAGGTCAAATCCCGCAG
*
6189392 GCTTAGTGCTGGTACTA
66 GCTTAGTGCTGGTAATA
6189409 TAT
1 TAT
6189412 CCAGGCTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
81 1 0.01
82 74 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (82 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAATATATATCCAGGTCAAATCCCGCAG
GCTTAGTGCTGGTAATA
Found at i:6197115 original size:42 final size:42
Alignment explanation
Indices: 6197061--6197187 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
6197051 CTCGATATAT
6197061 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
* * * * *
6197103 TATATATACGGGTTAAATTCCACAGGCTTCGTGTTGGT-A-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
* *
6197143 TATATATCCGGGTTAAATCCTGCAGGCTT-AGTGCTGGTACTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATA
6197185 TAT
1 TAT
6197188 CCAGGCCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
40 32 0.46
41 1 0.01
42 37 0.53
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
Found at i:6197146 original size:40 final size:40
Alignment explanation
Indices: 6197061--6197187 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
6197051 CTCGATATAT
* *
6197061 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGT-A-A
* * *
6197103 TATATATACGGGTTAAATTCCACAGGCTTCGTGTTGGTAA
1 TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAA
* *
6197143 TATATATCCGGGTTAAA-TCCTGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATTCC-GCAGGCTTCGTGCTGGTAA
6197183 TATAT
1 TATAT
6197188 CCAGGCCTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.04
40 37 0.50
41 1 0.01
42 33 0.45
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAA
Found at i:6204887 original size:42 final size:42
Alignment explanation
Indices: 6204833--6204959 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
6204823 CTCGATATAT
6204833 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
* * * * *
6204875 TATATATACGGGTTAAATTCCACAGGCTTCGTGTTGGT-A-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
* *
6204915 TATATATCCGGGTTAAATCCTGCAGGCTT-AGTGCTGGTACTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATA
6204957 TAT
1 TAT
6204960 CCAGGCCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
40 32 0.46
41 1 0.01
42 37 0.53
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
Found at i:6204918 original size:40 final size:40
Alignment explanation
Indices: 6204833--6204959 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
6204823 CTCGATATAT
* *
6204833 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGT-A-A
* * *
6204875 TATATATACGGGTTAAATTCCACAGGCTTCGTGTTGGTAA
1 TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAA
* *
6204915 TATATATCCGGGTTAAA-TCCTGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATTCC-GCAGGCTTCGTGCTGGTAA
6204955 TATAT
1 TATAT
6204960 CCAGGCCTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.04
40 37 0.50
41 1 0.01
42 33 0.45
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAA
Found at i:6214146 original size:21 final size:21
Alignment explanation
Indices: 6214117--6214162 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6214107 TGTCCTAGGA
*
6214117 CGATGATGGGCAAATCTCATG
1 CGATAATGGGCAAATCTCATG
*
6214138 CGATAATGGGTAAATCTCATG
1 CGATAATGGGCAAATCTCATG
6214159 CGAT
1 CGAT
6214163 GATGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
CGATAATGGGCAAATCTCATG
Found at i:6214270 original size:23 final size:23
Alignment explanation
Indices: 6214235--6214296 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
6214225 AAACAAAACC
* * *
6214235 TTTGTGGCATATTTTGTAGAGCA
1 TTTGTGGCGTATTCTGAAGAGCA
* * *
6214258 TTTGTGGTGTATTCTGAATAGCG
1 TTTGTGGCGTATTCTGAAGAGCA
6214281 TTTGTGGCGTATTCTG
1 TTTGTGGCGTATTCTG
6214297 TCTGGACTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.45
Consensus pattern (23 bp):
TTTGTGGCGTATTCTGAAGAGCA
Found at i:6219745 original size:15 final size:16
Alignment explanation
Indices: 6219727--6219771 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
6219717 TAATAATTAT
6219727 TAAAAT-TTAAATATA
1 TAAAATATTAAATATA
6219742 TAAAATCATTAAATATA
1 TAAAAT-ATTAAATATA
*
6219759 TGAAAAAATTAAA
1 T-AAAATATTAAA
6219772 GATAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATTAAATATA
Found at i:6220732 original size:18 final size:17
Alignment explanation
Indices: 6220693--6220734 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6220683 TATATATAAA
6220693 TAATTAAAATTAAAATT
1 TAATTAAAATTAAAATT
*
6220710 GAATTAATAAGTT-AAATT
1 TAATTAA-AA-TTAAAATT
6220728 TAATTAA
1 TAATTAA
6220735 CTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TAATTAAAATTAAAATT
Found at i:6221236 original size:18 final size:18
Alignment explanation
Indices: 6221213--6221257 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6221203 AGGGACTAAA
*
6221213 TTGAATAAATTATAATGT
1 TTGAATAAATTATAATGC
*
6221231 TTGAATAAATTGTAATGC
1 TTGAATAAATTATAATGC
6221249 TTGAATAAA
1 TTGAATAAA
6221258 ATGACAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGAATAAATTATAATGC
Found at i:6224180 original size:28 final size:28
Alignment explanation
Indices: 6224149--6224206 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
6224139 CCTTTTCGCC
6224149 CCCTTTTCTCTTCTCCC-TTCATCTTCTT
1 CCCTTTTCT-TTCTCCCTTTCATCTTCTT
* *
6224177 CCCTTTTCTTTTTCCCTTTCTTCTTCTT
1 CCCTTTTCTTTCTCCCTTTCATCTTCTT
6224205 CC
1 CC
6224207 TCTACCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (28 bp):
CCCTTTTCTTTCTCCCTTTCATCTTCTT
Found at i:6224198 original size:12 final size:13
Alignment explanation
Indices: 6224157--6224202 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
6224147 CCCCCTTTTC
*
6224157 TCTTC-TCCCTTCA
1 TCTTCTTCCCTT-T
6224170 TCTTCTTCCCTTT
1 TCTTCTTCCCTTT
*
6224183 TCTTTTTCCC-TT
1 TCTTCTTCCCTTT
6224195 TCTTCTTC
1 TCTTCTTC
6224203 TTCCTCTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 9 0.31
13 14 0.48
14 6 0.21
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCTTCCCTTT
Found at i:6224398 original size:13 final size:13
Alignment explanation
Indices: 6224382--6224406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6224372 TTTATATATT
6224382 TATTTTATTTTTC
1 TATTTTATTTTTC
6224395 TATTTTATTTTT
1 TATTTTATTTTT
6224407 AGTTTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTC
Found at i:6225918 original size:7 final size:6
Alignment explanation
Indices: 6225901--6225958 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
6225891 GTCCATTTGT
* * **
6225901 TTTTTA TTTTTA TCTTTTG TTTTTC GCTTTA TTTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
6225949 TGTTTA TTTT
1 TTTTTA TTTT
6225959 AAAGACTTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 5 0.12
6 31 0.76
7 5 0.12
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:6229291 original size:18 final size:20
Alignment explanation
Indices: 6229254--6229292 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6229244 ACAAAGCCCA
6229254 GACCGTGTGGCTCAAAACGT
1 GACCGTGTGGCTCAAAACGT
6229274 GACCGTGTGGC-C-AAACGT
1 GACCGTGTGGCTCAAAACGT
6229292 G
1 G
6229293 TCACAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (20 bp):
GACCGTGTGGCTCAAAACGT
Found at i:6236676 original size:15 final size:16
Alignment explanation
Indices: 6236658--6236702 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
6236648 TAATAATTAT
6236658 TAAAAT-TTAAATATA
1 TAAAATATTAAATATA
6236673 TAAAATCATTAAATATA
1 TAAAAT-ATTAAATATA
*
6236690 TGAAAAAATTAAA
1 T-AAAATATTAAA
6236703 GATAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATTAAATATA
Found at i:6237663 original size:18 final size:17
Alignment explanation
Indices: 6237624--6237665 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6237614 TATATATAAA
6237624 TAATTAAAATTAAAATT
1 TAATTAAAATTAAAATT
*
6237641 GAATTAATAAGTT-AAATT
1 TAATTAA-AA-TTAAAATT
6237659 TAATTAA
1 TAATTAA
6237666 CTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TAATTAAAATTAAAATT
Found at i:6238167 original size:18 final size:18
Alignment explanation
Indices: 6238144--6238188 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6238134 AGGGACTAAA
*
6238144 TTGAATAAATTATAATGT
1 TTGAATAAATTATAATGC
*
6238162 TTGAATAAATTGTAATGC
1 TTGAATAAATTATAATGC
6238180 TTGAATAAA
1 TTGAATAAA
6238189 ATGACAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGAATAAATTATAATGC
Found at i:6241332 original size:18 final size:18
Alignment explanation
Indices: 6241309--6241353 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6241299 AGGGACTAAA
*
6241309 TTGAATAAATTATAATGT
1 TTGAATAAATTATAATGC
*
6241327 TTGAATAAATTGTAATGC
1 TTGAATAAATTATAATGC
6241345 TTGAATAAA
1 TTGAATAAA
6241354 ATGACAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGAATAAATTATAATGC
Found at i:6244278 original size:28 final size:28
Alignment explanation
Indices: 6244247--6244304 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
6244237 CCTTTTCGCC
6244247 CCCTTTTCTCTTCTCCC-TTCATCTTCTT
1 CCCTTTTCT-TTCTCCCTTTCATCTTCTT
* *
6244275 CCCTTTTCTTTTTCCCTTTCTTCTTCTT
1 CCCTTTTCTTTCTCCCTTTCATCTTCTT
6244303 CC
1 CC
6244305 TCTACCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (28 bp):
CCCTTTTCTTTCTCCCTTTCATCTTCTT
Found at i:6244296 original size:12 final size:13
Alignment explanation
Indices: 6244255--6244300 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
6244245 CCCCCTTTTC
*
6244255 TCTTC-TCCCTTCA
1 TCTTCTTCCCTT-T
6244268 TCTTCTTCCCTTT
1 TCTTCTTCCCTTT
*
6244281 TCTTTTTCCC-TT
1 TCTTCTTCCCTTT
6244293 TCTTCTTC
1 TCTTCTTC
6244301 TTCCTCTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 9 0.31
13 14 0.48
14 6 0.21
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCTTCCCTTT
Found at i:6244496 original size:13 final size:13
Alignment explanation
Indices: 6244480--6244504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6244470 TTTATATATT
6244480 TATTTTATTTTTC
1 TATTTTATTTTTC
6244493 TATTTTATTTTT
1 TATTTTATTTTT
6244505 AGTTTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTC
Found at i:6253138 original size:15 final size:16
Alignment explanation
Indices: 6253120--6253164 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
6253110 TAATAATTAT
6253120 TAAAAT-TTAAATATA
1 TAAAATATTAAATATA
6253135 TAAAATCATTAAATATA
1 TAAAAT-ATTAAATATA
*
6253152 TGAAAAAATTAAA
1 T-AAAATATTAAA
6253165 GATAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATTAAATATA
Found at i:6254121 original size:18 final size:17
Alignment explanation
Indices: 6254082--6254123 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6254072 TGTATATAAA
6254082 TAATTAAAATTAAAATT
1 TAATTAAAATTAAAATT
*
6254099 GAATTAATAACTT-AAATT
1 TAATTAA-AA-TTAAAATT
6254117 TAATTAA
1 TAATTAA
6254124 CTAAATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTAAAATTAAAATT
Found at i:6260108 original size:138 final size:130
Alignment explanation
Indices: 6259864--6260131 Score: 419
Period size: 138 Copynumber: 2.0 Consensus size: 130
6259854 AGTGTGCTCT
6259864 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * **
6259929 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
6259994 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
*
6260059 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
6260124 ATGGCAAC
123 ATGGCAAC
6260132 ATAACAAAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
130 47 0.38
135 1 0.01
137 1 0.01
138 76 0.61
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6260150 original size:138 final size:130
Alignment explanation
Indices: 6259878--6260175 Score: 389
Period size: 138 Copynumber: 2.2 Consensus size: 130
6259868 TATGAAATGT
6259878 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATG
* * ** * * * ** **
6259943 GCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
66 GCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACAAAAAATAA
6260008 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAGACCATGGTTGAAAG
*
6260073 ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACA
58 ATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACA
6260138 AAAAATAA
123 AAAAATAA
* * *
6260146 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
6260176 TCACGTCAAA
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
130 33 0.23
135 1 0.01
137 1 0.01
138 110 0.76
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (130 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATG
GCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACAAAAAATAA
Found at i:6260165 original size:46 final size:46
Alignment explanation
Indices: 6259913--6260131 Score: 384
Period size: 46 Copynumber: 4.8 Consensus size: 46
6259903 TGGCAACCTG
6259913 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
6259959 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
6260005 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
6260051 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* **
6260097 AGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6260132 ATAACAAAAA
Statistics
Matches: 166, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:6260174 original size:46 final size:47
Alignment explanation
Indices: 6259916--6260175 Score: 251
Period size: 46 Copynumber: 5.6 Consensus size: 47
6259906 CAACCTGTGT
* * * * * *
6259916 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG-T
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
* * * * * *
6259962 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG-T
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
* * * * * * *
6260008 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATG-T
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
* * *
6260054 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
*
6260101 -TAAGACCATGGTTGAAAGATACCATGGCAACATAACA-AAAAATAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
* * *
6260146 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
6260176 TCACGTCAAA
Statistics
Matches: 199, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.03
46 193 0.97
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (47 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATAACATAAAAAGAA
Found at i:6261458 original size:25 final size:25
Alignment explanation
Indices: 6261430--6261477 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
6261420 GACCTCAACA
6261430 TGCTCTCTGATTACTAGCACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
*
6261455 TGCTCTCTGATTATTAGCACATT
1 TGCTCTCTGATTACTAGCACATT
6261478 CAACACATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:6265277 original size:46 final size:46
Alignment explanation
Indices: 6265225--6265498 Score: 413
Period size: 46 Copynumber: 6.0 Consensus size: 46
6265215 AGTGTGCTCT
6265225 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6265271 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6265317 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6265363 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
6265409 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * *
6265455 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6265499 TCACGTCAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 211 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Done.