Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 163 of 163
Found at i:47027819 original size:23 final size:21
Alignment explanation
Indices: 47027768--47027821 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 21
47027758 AAACAAAGAT
47027768 AAAAAAAAAAACATTAACAAA
1 AAAAAAAAAAACATTAACAAA
* * * *
47027789 TACTAAAAAGATATATTAACAAA
1 -A-AAAAAAAAAACATTAACAAA
47027812 AAAAAAAAAA
1 AAAAAAAAAA
47027822 TCTCTGTCTC
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
21 6 0.25
22 2 0.08
23 16 0.67
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAAAAAAAAACATTAACAAA
Found at i:47028378 original size:3 final size:3
Alignment explanation
Indices: 47028370--47028402 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47028360 TTATTACCCC
47028370 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47028403 TAATTCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47028805 original size:30 final size:30
Alignment explanation
Indices: 47028742--47028804 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
47028732 AATTTATATC
* *
47028742 TTTATCATTTTTATAAGATTAAATCAAATT
1 TTTATCATTTTTAGAAGATAAAATCAAATT
47028772 TTTATCATTTTTAAGAAGATAAAAT-ACAATT
1 TTTATCATTTTT-AGAAGATAAAATCA-AATT
47028803 TT
1 TT
47028805 ACTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTATCATTTTTAGAAGATAAAATCAAATT
Found at i:47031527 original size:29 final size:30
Alignment explanation
Indices: 47031472--47031529 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
47031462 CTCTATTCAT
* * **
47031472 TTGATTCTTTTTAATAGTATAGCGACTAAA
1 TTGATTCTATTTAATAGTAGAAAGACTAAA
47031502 TTGA-TCTATTTAATAGTAGAAAGACTAA
1 TTGATTCTATTTAATAGTAGAAAGACTAA
47031530 TTTGGTCAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (30 bp):
TTGATTCTATTTAATAGTAGAAAGACTAAA
Found at i:47035021 original size:37 final size:35
Alignment explanation
Indices: 47034980--47035062 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
47034970 ATTGATTAAC
* * *
47034980 GAAGATACAATCAAGGGCAATGCACAACAAACTACAT
1 GAAGACACAATCAAGAGCAA--CACAACAAAATACAT
* *
47035017 GAAGACACGATCAAGAGTAACACAACAAAATACAT
1 GAAGACACAATCAAGAGCAACACAACAAAATACAT
47035052 GAAGACACAAT
1 GAAGACACAAT
47035063 GATGACACAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 24 0.60
37 16 0.40
ACGTcount: A:0.52, C:0.20, G:0.16, T:0.12
Consensus pattern (35 bp):
GAAGACACAATCAAGAGCAACACAACAAAATACAT
Found at i:47037097 original size:25 final size:25
Alignment explanation
Indices: 47037069--47037120 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
47037059 TGAAGAACTC
* *
47037069 TTCTTCTACTTTTCTTTTACGGTTA
1 TTCTTCCACTTTTCGTTTACGGTTA
47037094 TTCTTCCACTTTTCGTTTACGGTTA
1 TTCTTCCACTTTTCGTTTACGGTTA
47037119 TT
1 TT
47037121 TTTTTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.10, T:0.58
Consensus pattern (25 bp):
TTCTTCCACTTTTCGTTTACGGTTA
Found at i:47038234 original size:30 final size:30
Alignment explanation
Indices: 47038198--47038257 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
47038188 CATAGAAAAA
47038198 CCAGAAGAGAAAGAGTTAAAAGACACTCAT
1 CCAGAAGAGAAAGAGTTAAAAGACACTCAT
*
47038228 CCAGAAGAGAAAGAGTTAAAAGATACTCAT
1 CCAGAAGAGAAAGAGTTAAAAGACACTCAT
47038258 GTCATCACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (30 bp):
CCAGAAGAGAAAGAGTTAAAAGACACTCAT
Found at i:47048614 original size:19 final size:18
Alignment explanation
Indices: 47048585--47048621 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
47048575 ATAAATGATA
47048585 ATTTTGTATTTAAGTTTG
1 ATTTTGTATTTAAGTTTG
*
47048603 ATTTTAGTATTTAATTTTG
1 ATTTT-GTATTTAAGTTTG
47048622 GTATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (18 bp):
ATTTTGTATTTAAGTTTG
Found at i:47064289 original size:6 final size:6
Alignment explanation
Indices: 47064278--47064313 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
47064268 TTATATTTAA
47064278 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT AGAGTG
1 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT -GAGTG
47064314 AAAGAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (6 bp):
GAGTGT
Found at i:47069082 original size:17 final size:16
Alignment explanation
Indices: 47069033--47069078 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
47069023 TTTACACACG
47069033 TAAATACATAAAATAGA
1 TAAATACATAAAATA-A
*
47069050 TAAGA-AAATAAAATAA
1 TAA-ATACATAAAATAA
47069066 TAAATACATAAAA
1 TAAATACATAAAA
47069079 ATAAGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 12 0.48
18 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (16 bp):
TAAATACATAAAATAA
Found at i:47073436 original size:247 final size:248
Alignment explanation
Indices: 47072994--47073493 Score: 912
Period size: 247 Copynumber: 2.0 Consensus size: 248
47072984 TCATAAAATT
47072994 ATTTAATGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
1 ATTTAATGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
* *
47073059 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGGTGTTTAGGGGCCCAAACT
66 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGATGTTTAGCGGCCCAAACT
* *
47073124 GCTTTTTGAGTTGTCTTGTTTTATTGCATCTTCCTTAGCATAAATGTGTACCTCTTCTTTTAATA
131 GCTTTCTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTCTTCTTTTAATA
*
47073189 TTACAA-TTTTAGAAAATTTAAGGCGTAGATTTTTATCTTATTTATTAGTTAC
196 TTACAATTTTTAGAAAATTTAAGGCGTAGATTTGTATCTTATTTATTAGTTAC
*
47073241 ATTTACTGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
1 ATTTAATGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
*
47073306 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGATGTTTAGCGGCCCAAATT
66 TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGATGTTTAGCGGCCCAAACT
*
47073371 GCTTTCTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACTTCTTCTTTTAATA
131 GCTTTCTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTCTTCTTTTAATA
47073436 TTACAATTTTTTAGAAAATTTAAGGCGTAGATTTGTATCTTATTTATTAGTTAC
196 TTACAA-TTTTTAGAAAATTTAAGGCGTAGATTTGTATCTTATTTATTAGTTAC
47073490 ATTT
1 ATTT
47073494 TTTTTGTTTT
Statistics
Matches: 243, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
247 194 0.80
249 49 0.20
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (248 bp):
ATTTAATGTAGGTAGAATGCATTCTTGTATGCTTGGAGGAAACCATATGAAGATTGGGTTTATTG
TCCTTTGTGTGCATTTTGTCAGAATAGAGCTGCTGAATTTTGAAGGATGTTTAGCGGCCCAAACT
GCTTTCTGAGTTGTCTTGTTTTATTGCACCTTCCTTAGCATAAATGTGTACCTCTTCTTTTAATA
TTACAATTTTTAGAAAATTTAAGGCGTAGATTTGTATCTTATTTATTAGTTAC
Found at i:47089033 original size:2 final size:2
Alignment explanation
Indices: 47089028--47089061 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
47089018 ACACACACAC
47089028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47089062 TAATGTGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47101857 original size:3 final size:3
Alignment explanation
Indices: 47101849--47101882 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
47101839 CACGTCCTTC
47101849 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
47101883 ACACTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47103698 original size:21 final size:21
Alignment explanation
Indices: 47103662--47103723 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
47103652 TATAAATATT
*
47103662 ATATAATAAT-TAAATAAAAA
1 ATATTATAATGTAAATAAAAA
47103682 ATATTATAATGTAAATATTAAAAA
1 ATATTATAATGT-AA-A-TAAAAA
47103706 ATATACTATAATGTAAAT
1 ATAT--TATAATGTAAAT
47103724 TTGAGTGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 2 0.06
23 2 0.06
24 11 0.31
25 2 0.06
26 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
ATATTATAATGTAAATAAAAA
Found at i:47103708 original size:24 final size:25
Alignment explanation
Indices: 47103676--47103723 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
47103666 AATAATTAAA
47103676 TAAAAAATAT-TATAATGTAAATAT
1 TAAAAAATATATATAATGTAAATAT
47103700 TAAAAAATATACTATAATGTAAAT
1 TAAAAAATATA-TATAATGTAAAT
47103724 TTGAGTGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAAATATATATAATGTAAATAT
Found at i:47107134 original size:31 final size:30
Alignment explanation
Indices: 47107068--47107139 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
47107058 GTTACGTGTA
* *
47107068 ACAAAACAGTCACTCAATTTTGAAAATATG
1 ACAAAACAGTCACTAAATTTCGAAAATATG
*
47107098 ACAAAACAGTCACTAAAGTTATCGAAAA-GTG
1 ACAAAACAGTCACTAAA-TT-TCGAAAATATG
*
47107129 ACAAAATAGTC
1 ACAAAACAGTC
47107140 CTCTTGTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 16 0.44
31 14 0.39
32 6 0.17
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (30 bp):
ACAAAACAGTCACTAAATTTCGAAAATATG
Found at i:47109189 original size:2 final size:2
Alignment explanation
Indices: 47109176--47109214 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
47109166 CATTCAACCA
*
47109176 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
47109215 AACTTGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:47112651 original size:18 final size:18
Alignment explanation
Indices: 47112601--47112652 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
47112591 TTTTTTTGTT
47112601 TGGTTTTTTGCTATATATA
1 TGGTTTTTTGCTATAT-TA
*
47112620 T-TTTTTTTG--A-ATTA
1 TGGTTTTTTGCTATATTA
47112634 TGGTTTTTTGCTATATTA
1 TGGTTTTTTGCTATATTA
47112652 T
1 T
47112653 AGAGAACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 1 0.04
17 1 0.04
18 12 0.44
19 1 0.04
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.63
Consensus pattern (18 bp):
TGGTTTTTTGCTATATTA
Found at i:47120619 original size:16 final size:18
Alignment explanation
Indices: 47120587--47120619 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
47120577 GACAGAAAGC
47120587 TTAATCATTGAAAGAAAA
1 TTAATCATTGAAAGAAAA
47120605 TTAA-CATTG-AAGAAA
1 TTAATCATTGAAAGAAA
47120620 GGAGATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (18 bp):
TTAATCATTGAAAGAAAA
Found at i:47129943 original size:23 final size:23
Alignment explanation
Indices: 47129909--47130056 Score: 108
Period size: 23 Copynumber: 6.5 Consensus size: 23
47129899 ATGCTAGCAC
*
47129909 GCTTACTATTTCGCACTTTGTGT
1 GCTTACTGTTTCGCACTTTGTGT
*
47129932 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTTCGCACTTTGTGT
* * *
47129955 GGTTACTGTTTCGCACCTCGTGT
1 GCTTACTGTTTCGCACTTTGTGT
* * * *
47129978 GCCTACTGACTTCG--CTATGTGC
1 GCTTACTG-TTTCGCACTTTGTGT
* *
47130000 GCCTACTGATTT--CACTATGTGT
1 GCTTACTG-TTTCGCACTTTGTGT
* * *
47130022 GCCTACTGGATT-GCACTGTGTGT
1 GCTTACT-GTTTCGCACTTTGTGT
47130045 GCTTACTGTTTC
1 GCTTACTGTTTC
47130057 CCCATAGTCA
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
22 34 0.33
23 64 0.63
24 4 0.04
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTTTGTGT
Found at i:47130004 original size:22 final size:22
Alignment explanation
Indices: 47129978--47130029 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
47129968 CACCTCGTGT
*
47129978 GCCTACTGACTTCGCTATGTGC
1 GCCTACTGACTTCACTATGTGC
* *
47130000 GCCTACTGATTTCACTATGTGT
1 GCCTACTGACTTCACTATGTGC
47130022 GCCTACTG
1 GCCTACTG
47130030 GATTGCACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (22 bp):
GCCTACTGACTTCACTATGTGC
Found at i:47135341 original size:23 final size:22
Alignment explanation
Indices: 47135307--47135433 Score: 85
Period size: 23 Copynumber: 5.5 Consensus size: 22
47135297 ACGCTAGCGC
*
47135307 GCTTACTATTTCGCACTTTGTGT
1 GCTTACTGTTT-GCACTTTGTGT
* *
47135330 GCTTACTGTTTCGCACCTCGTGT
1 GCTTACTGTTT-GCACTTTGTGT
* * * *
47135353 GCCTACTGATTTGCGCTATGTGC
1 GCTTACTG-TTTGCACTTTGTGT
*
47135376 GCCTACTGATTT-CACTGTGTGTGT
1 GCTTACTG-TTTGCACT-T-TGTGT
* * *
47135400 GCCTACTGGATTGCACTGTGTGT
1 GCTTACT-GTTTGCACTTTGTGT
47135423 GCTTACTGTTT
1 GCTTACTGTTT
47135434 CCCCAACACT
Statistics
Matches: 83, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
22 6 0.07
23 56 0.67
24 16 0.19
25 5 0.06
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (22 bp):
GCTTACTGTTTGCACTTTGTGT
Found at i:47135417 original size:25 final size:24
Alignment explanation
Indices: 47135371--47135424 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
47135361 ATTTGCGCTA
*
47135371 TGTGCGCCTACTGATTTCACTGTG
1 TGTGCGCCTACTGATTGCACTGTG
*
47135395 TGTGTGCCTACTGGATTGCACTGTG
1 TGTGCGCCTACT-GATTGCACTGTG
47135420 TGTGC
1 TGTGC
47135425 TTACTGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.11, C:0.22, G:0.30, T:0.37
Consensus pattern (24 bp):
TGTGCGCCTACTGATTGCACTGTG
Found at i:47156031 original size:21 final size:20
Alignment explanation
Indices: 47155998--47156038 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
47155988 CTTTAAGTTA
47155998 ACTTTTTAATTTAATATTTT
1 ACTTTTTAATTTAATATTTT
* *
47156018 ACTTATTTATTTTATTATTTT
1 ACTT-TTTAATTTAATATTTT
47156039 TCACATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
ACTTTTTAATTTAATATTTT
Found at i:47158709 original size:33 final size:33
Alignment explanation
Indices: 47158672--47158739 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
47158662 TACAATAAAA
47158672 AAGAGTAGAATATTTACAGTCCAAAACAACGTT
1 AAGAGTAGAATATTTACAGTCCAAAACAACGTT
* *
47158705 AAGAGTAGCATATTTACAGTCCAAAACAATGTT
1 AAGAGTAGAATATTTACAGTCCAAAACAACGTT
47158738 AA
1 AA
47158740 AATAAAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (33 bp):
AAGAGTAGAATATTTACAGTCCAAAACAACGTT
Found at i:47158932 original size:13 final size:14
Alignment explanation
Indices: 47158910--47158939 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47158900 TTGAAGAAGC
47158910 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
47158924 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
47158938 TT
1 TT
47158940 GCTATTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTGTTTTTTTTT
Found at i:47172048 original size:25 final size:25
Alignment explanation
Indices: 47172019--47172069 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
47172009 AATGGCCAAA
*
47172019 TATATATTAGTATTTGTTAATTTTT
1 TATATATTAATATTTGTTAATTTTT
*
47172044 TATATATTAATATTTTTTAATTTTT
1 TATATATTAATATTTGTTAATTTTT
47172069 T
1 T
47172070 TGTATTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (25 bp):
TATATATTAATATTTGTTAATTTTT
Found at i:47176127 original size:14 final size:14
Alignment explanation
Indices: 47176108--47176137 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47176098 CCTCCTAAGT
*
47176108 AATTCTTAAAATCA
1 AATTCTTAAAACCA
47176122 AATTCTTAAAACCA
1 AATTCTTAAAACCA
47176136 AA
1 AA
47176138 GCAAATAACA
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:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTCTTAAAACCA
Found at i:47188822 original size:19 final size:17
Alignment explanation
Indices: 47188784--47188816 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47188774 ATTTTTAGAG
47188784 ATTCTAATTAAGAGATT
1 ATTCTAATTAAGAGATT
47188801 ATTCTAATTAAGAGAT
1 ATTCTAATTAAGAGAT
47188817 ATTATTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
ATTCTAATTAAGAGATT
Found at i:47207847 original size:17 final size:17
Alignment explanation
Indices: 47207825--47207859 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47207815 CATTCTTCAT
47207825 ATTATATGA-TATTAAAA
1 ATTATAT-ATTATTAAAA
47207842 ATTATATATTATTAAAA
1 ATTATATATTATTAAAA
47207859 A
1 A
47207860 AGGTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTATATATTATTAAAA
Found at i:47226247 original size:61 final size:59
Alignment explanation
Indices: 47226135--47226249 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 59
47226125 AAAAATTTTA
*
47226135 GGGAAAAAATGGGAAGCAGTAAAAGTTTTGGAGAAAAATAAAAAGTTTTGAGGGTTTTGG
1 GGGAAAAAATGGGAAGCAGTAAAAGTTTTGGAGAAAAATAAAAAG-ATTGAGGGTTTTGG
*
47226195 GGGAAATAAATGGGAAG-AGTTAAA-TTTTGGATGGAAAATATTAAAAA-ATTGAGGG
1 GGGAAA-AAATGGGAAGCAGTAAAAGTTTTGGA--GAAAA-A-TAAAAAGATTGAGGG
47226250 GAAATGGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
59 7 0.15
60 12 0.25
61 22 0.46
62 1 0.02
63 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.30, T:0.25
Consensus pattern (59 bp):
GGGAAAAAATGGGAAGCAGTAAAAGTTTTGGAGAAAAATAAAAAGATTGAGGGTTTTGG
Found at i:47227255 original size:14 final size:15
Alignment explanation
Indices: 47227222--47227277 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
47227212 ACAATGCAAT
47227222 AATATAATTAATTAA
1 AATATAATTAATTAA
* *
47227237 AATATAA-TATTTTA
1 AATATAATTAATTAA
** *
47227251 AATATAAAAAACTAA
1 AATATAATTAATTAA
47227266 AATATAAATTAA
1 AATAT-AATTAA
47227278 AATATATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 12 0.39
15 15 0.48
16 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATAATTAATTAA
Found at i:47227288 original size:27 final size:29
Alignment explanation
Indices: 47227234--47227289 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
47227224 TATAATTAAT
*
47227234 TAAAATATAATATTTTAAATATAAAAAAC
1 TAAAATATAATATTTAAAATATAAAAAAC
47227263 TAAAATATAA-A-TTAAAATATATAAAAA
1 TAAAATATAATATTTAAAATATA-AAAAA
47227290 TAATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 6 0.24
29 10 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (29 bp):
TAAAATATAATATTTAAAATATAAAAAAC
Found at i:47239607 original size:114 final size:116
Alignment explanation
Indices: 47239466--47239701 Score: 422
Period size: 115 Copynumber: 2.0 Consensus size: 116
47239456 TTTACTGTAT
*
47239466 GTTTATTACAATAGTTAGATATAAAAT-AAAAATAATTAGTATAAATTTAAACTTGAAATTAAAA
1 GTTTATTACAATAGTTAGATATAAAATAAAAAATAATTAATATAAATTTAAACTTGAAATTAAAA
47239530 ATATGAGAA-TTTTTTTGTAAACAACAAGACTTCTACAAAGTAAGCAAAAA
66 ATATGAGAATTTTTTTTGTAAACAACAAGACTTCTACAAAGTAAGCAAAAA
47239580 GTTTATTACAATAGTTAGATATAAAATAAAAAATAATTAATATAAATTTAAACTTGAAATTAAAA
1 GTTTATTACAATAGTTAGATATAAAATAAAAAATAATTAATATAAATTTAAACTTGAAATTAAAA
*
47239645 ATATGAGAATTTTTTTTTTGTAAAGAACAAGACTTCTACAAAGTAAGCAAAAA
66 ATATGAGAA--TTTTTTTTGTAAACAACAAGACTTCTACAAAGTAAGCAAAAA
47239698 GTTT
1 GTTT
47239702 TCCTTATTTT
Statistics
Matches: 116, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
114 27 0.23
115 45 0.39
118 44 0.38
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (116 bp):
GTTTATTACAATAGTTAGATATAAAATAAAAAATAATTAATATAAATTTAAACTTGAAATTAAAA
ATATGAGAATTTTTTTTGTAAACAACAAGACTTCTACAAAGTAAGCAAAAA
Found at i:47241707 original size:11 final size:12
Alignment explanation
Indices: 47241682--47241719 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
47241672 CATCAACTAT
47241682 CTCAATGAGCTC
1 CTCAATGAGCTC
47241694 CTCAATGA-CTC
1 CTCAATGAGCTC
47241705 CTCAATGAGC-C
1 CTCAATGAGCTC
47241716 CTCA
1 CTCA
47241720 GGTAACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.26, C:0.37, G:0.13, T:0.24
Consensus pattern (12 bp):
CTCAATGAGCTC
Found at i:47242959 original size:7 final size:7
Alignment explanation
Indices: 47242947--47242974 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47242937 TCTTCAGGTC
47242947 ATATATA
1 ATATATA
47242954 ATATATA
1 ATATATA
47242961 ATATATA
1 ATATATA
47242968 ATATATA
1 ATATATA
47242975 TTTTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:47245816 original size:5 final size:5
Alignment explanation
Indices: 47245796--47245834 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
47245786 AAATTGACCA
*
47245796 AAAAT AATATT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47245835 TTTTAGTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:47250365 original size:54 final size:54
Alignment explanation
Indices: 47250263--47250365 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
47250253 GTGAAAGAAA
* * * * *
47250263 GTTCATGTTACCTGATTCTCAACATCCATATACTTTGATTGAGGTGAAAAGATT
1 GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAAAGATT
* * *
47250317 GTTCATATTACCTGATTATCAACATTCATAGCCTCTGATTGTGATGAAA
1 GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAA
47250366 TAGGTATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAAAGATT
Found at i:47251888 original size:123 final size:125
Alignment explanation
Indices: 47251737--47251987 Score: 434
Period size: 125 Copynumber: 2.0 Consensus size: 125
47251727 TAAGAAAATA
* *
47251737 ATATATAAACAATTAAGAAAGGAGTGTAAA-CTTAAAAATGTTACTTCGTTGTTGGCATA-AATT
1 ATATATAAACAATTAAGAAAGGAGTGTAAACCCTAAAAATGTTACTTCGTTGTTGGCATATAACT
*
47251800 AGAATAATGAAATCAAAATTAATTGTAGCATTTGGGTTTTGATATATATCAAGCAACATT
66 AGAATAATGAAATCAAAATTAATTGTAGCATTTGGGTTTTGAAATATATCAAGCAACATT
47251860 ATATATAAACAATTAAGAAAGGAGTGTAAACCCTAAAAATGTTACTTCGTTGTTGGCATATAACT
1 ATATATAAACAATTAAGAAAGGAGTGTAAACCCTAAAAATGTTACTTCGTTGTTGGCATATAACT
* * *
47251925 AGAATGATGAAATCAAAATTAATTGTAGCTTTTGGGTTTTGAAATATATCAAGCAGCATT
66 AGAATAATGAAATCAAAATTAATTGTAGCATTTGGGTTTTGAAATATATCAAGCAACATT
47251985 ATA
1 ATA
47251988 GTATTATAGC
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
123 30 0.25
124 28 0.23
125 62 0.52
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (125 bp):
ATATATAAACAATTAAGAAAGGAGTGTAAACCCTAAAAATGTTACTTCGTTGTTGGCATATAACT
AGAATAATGAAATCAAAATTAATTGTAGCATTTGGGTTTTGAAATATATCAAGCAACATT
Found at i:47251995 original size:8 final size:8
Alignment explanation
Indices: 47251979--47252008 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47251969 TATATCAAGC
47251979 AGCATTAT
1 AGCATTAT
*
47251987 AGTATTAT
1 AGCATTAT
47251995 AGCATTAT
1 AGCATTAT
47252003 AGCATT
1 AGCATT
47252009 TGGTACCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (8 bp):
AGCATTAT
Found at i:47254737 original size:16 final size:16
Alignment explanation
Indices: 47254718--47254750 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47254708 TAAATATCAA
*
47254718 TTTTAATATTTACATT
1 TTTTAATATTAACATT
47254734 TTTTAATATTAACATT
1 TTTTAATATTAACATT
47254750 T
1 T
47254751 ATTGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATATTAACATT
Found at i:47254801 original size:21 final size:20
Alignment explanation
Indices: 47254776--47254821 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
47254766 TTTAAAAGTA
47254776 GCATTAAAAAAATTGACCGTT
1 GCATTAAAAAAA-TGACCGTT
47254797 GCATTAAAAAAATGACCGTT
1 GCATTAAAAAAATGACCGTT
47254817 GCATT
1 GCATT
47254822 TACTGCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
GCATTAAAAAAATGACCGTT
Found at i:47257000 original size:7 final size:7
Alignment explanation
Indices: 47256975--47257013 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
47256965 GGAGGGGGTT
47256975 GGGGCTC
1 GGGGCTC
*
47256982 GAGGGATC
1 G-GGGCTC
47256990 GGGGCTC
1 GGGGCTC
47256997 GGGGCTC
1 GGGGCTC
*
47257004 GGGGTTC
1 GGGGCTC
47257011 GGG
1 GGG
47257014 TTGGGGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.05, C:0.21, G:0.59, T:0.15
Consensus pattern (7 bp):
GGGGCTC
Found at i:47257021 original size:7 final size:7
Alignment explanation
Indices: 47257011--47257212 Score: 68
Period size: 7 Copynumber: 28.9 Consensus size: 7
47257001 CTCGGGGTTC
*
47257011 GGGTTGG
1 GGGTTTG
*
47257018 GGGTTTA
1 GGGTTTG
47257025 GGGTTTG
1 GGGTTTG
47257032 GGGTTT-
1 GGGTTTG
*
47257038 GGGTTCG
1 GGGTTTG
* *
47257045 AGGCTTG
1 GGGTTTG
* * *
47257052 AGCTTTA
1 GGGTTTG
*
47257059 GGGTTTA
1 GGGTTTG
47257066 GGGTTTAG
1 GGGTTT-G
*
47257074 GGGTTTA
1 GGGTTTG
*
47257081 GGGTTTA
1 GGGTTTG
*
47257088 AGGTTT-
1 GGGTTTG
*
47257094 AGGTTTG
1 GGGTTTG
47257101 GGGTTTCG
1 GGGTTT-G
* *
47257109 GGCTTCG
1 GGGTTTG
* *
47257116 GGCTTCG
1 GGGTTTG
* *
47257123 GGCTTCG
1 GGGTTTG
**
47257130 GGGTCCG
1 GGGTTTG
**
47257137 GGGTCCG
1 GGGTTTG
* **
47257144 GTGTCCG
1 GGGTTTG
* *
47257151 GGGGTCG
1 GGGTTTG
47257158 GGGTTTG
1 GGGTTTG
47257165 GGGTTTG
1 GGGTTTG
47257172 GGGTTCT-
1 GGGTT-TG
*
47257179 TGGTTTG
1 GGGTTTG
*
47257186 GGGTTTA
1 GGGTTTG
*
47257193 GGGTTTA
1 GGGTTTG
*
47257200 GGGTTTA
1 GGGTTTG
47257207 GGGTTT
1 GGGTTT
47257213 TAGGGTTTAA
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
6 12 0.08
7 136 0.85
8 12 0.08
ACGTcount: A:0.06, C:0.09, G:0.48, T:0.37
Consensus pattern (7 bp):
GGGTTTG
Found at i:47257028 original size:14 final size:13
Alignment explanation
Indices: 47257004--47257042 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
47256994 CTCGGGGCTC
*
47257004 GGGGTTCGGGTTG
1 GGGGTTTGGGTTG
*
47257017 GGGGTTTAGGGTTT
1 GGGGTTT-GGGTTG
47257031 GGGGTTTGGGTT
1 GGGGTTTGGGTT
47257043 CGAGGCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.03, C:0.03, G:0.56, T:0.38
Consensus pattern (13 bp):
GGGGTTTGGGTTG
Found at i:47257074 original size:14 final size:14
Alignment explanation
Indices: 47257018--47257106 Score: 76
Period size: 14 Copynumber: 6.4 Consensus size: 14
47257008 TTCGGGTTGG
*
47257018 GGGTTTAGGGTTTG
1 GGGTTTAGGGTTTA
*
47257032 GGGTTT-GGGTTCGA
1 GGGTTTAGGGTT-TA
* * *
47257046 GGCTTGA-GCTTTA
1 GGGTTTAGGGTTTA
47257059 GGGTTTAGGGTTTA
1 GGGTTTAGGGTTTA
47257073 GGGGTTTAGGGTTTA
1 -GGGTTTAGGGTTTA
* *
47257088 AGGTTTA-GGTTTG
1 GGGTTTAGGGTTTA
47257101 GGGTTT
1 GGGTTT
47257107 CGGGCTTCGG
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
13 21 0.36
14 24 0.41
15 14 0.24
ACGTcount: A:0.11, C:0.03, G:0.44, T:0.42
Consensus pattern (14 bp):
GGGTTTAGGGTTTA
Found at i:47257221 original size:7 final size:7
Alignment explanation
Indices: 47257158--47257253 Score: 81
Period size: 7 Copynumber: 13.7 Consensus size: 7
47257148 CCGGGGGTCG
*
47257158 GGGTTTG
1 GGGTTTA
*
47257165 GGGTTTG
1 GGGTTTA
47257172 GGGTTCT-
1 GGGTT-TA
* *
47257179 TGGTTTG
1 GGGTTTA
47257186 GGGTTTA
1 GGGTTTA
47257193 GGGTTTA
1 GGGTTTA
47257200 GGGTTTA
1 GGGTTTA
47257207 GGGTTTTA
1 GGG-TTTA
47257215 GGGTTTA
1 GGGTTTA
*
47257222 AGG-TTA
1 GGGTTTA
47257228 GGGTTTTA
1 GGG-TTTA
*
47257236 GGG-TTC
1 GGGTTTA
*
47257242 GGGCTTA
1 GGGTTTA
47257249 GGGTT
1 GGGTT
47257254 CGGGGTTCGG
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
6 11 0.15
7 50 0.67
8 14 0.19
ACGTcount: A:0.09, C:0.03, G:0.45, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:47257249 original size:13 final size:13
Alignment explanation
Indices: 47257233--47257271 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
47257223 GGTTAGGGTT
47257233 TTAGGGTTCGGGC
1 TTAGGGTTCGGGC
*
47257246 TTAGGGTTCGGGG
1 TTAGGGTTCGGGC
*
47257259 TTCGGGTTCGGGC
1 TTAGGGTTCGGGC
47257272 CTCGGCCTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.49, T:0.31
Consensus pattern (13 bp):
TTAGGGTTCGGGC
Found at i:47257276 original size:7 final size:7
Alignment explanation
Indices: 47257266--47257298 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
47257256 GGGTTCGGGT
47257266 TCGGGCC
1 TCGGGCC
47257273 TC-GGCC
1 TCGGGCC
47257279 TCGGGCC
1 TCGGGCC
47257286 TC-GGCC
1 TCGGGCC
47257292 TCGGGCC
1 TCGGGCC
47257299 AGGGTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.00, C:0.45, G:0.39, T:0.15
Consensus pattern (7 bp):
TCGGGCC
Found at i:47257276 original size:13 final size:13
Alignment explanation
Indices: 47257236--47257289 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
47257226 TAGGGTTTTA
* *
47257236 GGGTTCGGGCTTA
1 GGGTTCGGGCCTC
**
47257249 GGGTTCGGGGTTC
1 GGGTTCGGGCCTC
47257262 GGGTTCGGGCCTC
1 GGGTTCGGGCCTC
**
47257275 GGCCTCGGGCCTC
1 GGGTTCGGGCCTC
47257288 GG
1 GG
47257290 CCTCGGGCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.02, C:0.26, G:0.48, T:0.24
Consensus pattern (13 bp):
GGGTTCGGGCCTC
Found at i:47257290 original size:13 final size:13
Alignment explanation
Indices: 47257266--47257298 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
47257256 GGGTTCGGGT
47257266 TCGGGCCTCGGCC
1 TCGGGCCTCGGCC
47257279 TCGGGCCTCGGCC
1 TCGGGCCTCGGCC
47257292 TCGGGCC
1 TCGGGCC
47257299 AGGGTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.39, T:0.15
Consensus pattern (13 bp):
TCGGGCCTCGGCC
Found at i:47257335 original size:7 final size:7
Alignment explanation
Indices: 47257320--47257358 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
47257310 TTAGGGTTTT
*
47257320 GGGGTTC
1 GGGGCTC
47257327 GGGGCTC
1 GGGGCTC
47257334 GGGGCTC
1 GGGGCTC
47257341 GGGGCTC
1 GGGGCTC
*
47257348 GGGCCTC
1 GGGGCTC
47257355 GGGG
1 GGGG
47257359 TTTAGGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.00, C:0.26, G:0.59, T:0.15
Consensus pattern (7 bp):
GGGGCTC
Found at i:47257366 original size:7 final size:7
Alignment explanation
Indices: 47257355--47257441 Score: 129
Period size: 7 Copynumber: 12.4 Consensus size: 7
47257345 CTCGGGCCTC
47257355 GGGGTTT
1 GGGGTTT
*
47257362 AGGGTTT
1 GGGGTTT
*
47257369 AGGGTTT
1 GGGGTTT
*
47257376 AGGGTTT
1 GGGGTTT
*
47257383 AGGGTTT
1 GGGGTTT
47257390 GGGGTTT
1 GGGGTTT
47257397 GGGGTTT
1 GGGGTTT
47257404 GGGGTTT
1 GGGGTTT
*
47257411 TGGGTTT
1 GGGGTTT
47257418 GGGGTTT
1 GGGGTTT
47257425 GGGGTTT
1 GGGGTTT
47257432 GGGGTTT
1 GGGGTTT
47257439 GGG
1 GGG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 76 1.00
ACGTcount: A:0.05, C:0.00, G:0.53, T:0.43
Consensus pattern (7 bp):
GGGGTTT
Done.