Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 19 of 144
Found at i:4738072 original size:12 final size:12
Alignment explanation
Indices: 4738055--4738098 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 12
4738045 TTGTTTTTAA
4738055 TAATTAAATATT
1 TAATTAAATATT
4738067 TAATTAAATATTTT
1 TAATTAAATA--TT
4738081 TAATTAAATATT
1 TAATTAAATATT
4738093 TGAATT
1 T-AATT
4738099 GTTTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 13 0.45
13 4 0.14
14 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:4738084 original size:14 final size:14
Alignment explanation
Indices: 4738055--4738093 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
4738045 TTGTTTTTAA
4738055 TAATTAAATA--TT
1 TAATTAAATATTTT
4738067 TAATTAAATATTTT
1 TAATTAAATATTTT
4738081 TAATTAAATATTT
1 TAATTAAATATTT
4738094 GAATTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 10 0.40
14 15 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAATTAAATATTTT
Found at i:4738137 original size:94 final size:94
Alignment explanation
Indices: 4738025--4738233 Score: 273
Period size: 94 Copynumber: 2.2 Consensus size: 94
4738015 ATTATTAAAC
* *
4738025 TAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATAT-TT-TTAATTAA
1 TAAATATTTAAATATTTGGATTATTTTTAATAATTAAATATTTAATTAAATATATTATTAATTAA
4738088 ATATTTGAATTGTTTT-TTA-TAAATGACTATT
66 ATATTTGAATTGTTTTATTATTAAAT---TA-T
*
4738119 TAAATATTTAAATATTTGGGTTATTTTTAATAATTAAATATTTAATTAAATATAATTAATTAATT
1 TAAATATTTAAATATTTGGATTATTTTTAATAATTAAATATTTAATTAAATAT-ATT-ATTAATT
* *
4738184 AATTATTTGAGTTGTTTTAAATTATTAAATTAT
64 AAATATTTGAATTGTTTT--ATTATTAAATTAT
4738217 TAAATATTTAAATATTT
1 TAAATATTTAAATATTT
4738234 AATTAAACGT
Statistics
Matches: 102, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
94 50 0.49
96 2 0.02
98 40 0.39
99 2 0.02
101 3 0.03
102 5 0.05
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (94 bp):
TAAATATTTAAATATTTGGATTATTTTTAATAATTAAATATTTAATTAAATATATTATTAATTAA
ATATTTGAATTGTTTTATTATTAAATTAT
Found at i:4738161 original size:42 final size:42
Alignment explanation
Indices: 4738067--4738163 Score: 99
Period size: 42 Copynumber: 2.4 Consensus size: 42
4738057 ATTAAATATT
* * *
4738067 TAATTAAATATTT--TTAATTAAATATTTGAATTGTTTTTTA
1 TAATTAAATATTTAAATAATTAAATATTTGAATTATTTTTAA
* * * * **
4738107 TAAATGACTATTTAAATATTTAAATATTTGGGTTATTTTTAA
1 TAATTAAATATTTAAATAATTAAATATTTGAATTATTTTTAA
4738149 TAATTAAATATTTAA
1 TAATTAAATATTTAA
4738164 TTAAATATAA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
40 10 0.23
42 33 0.77
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (42 bp):
TAATTAAATATTTAAATAATTAAATATTTGAATTATTTTTAA
Found at i:4738166 original size:12 final size:13
Alignment explanation
Indices: 4738149--4738181 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
4738139 TTATTTTTAA
4738149 TAATTAAATAT-T
1 TAATTAAATATAT
4738161 TAATTAAATATAAT
1 TAATTAAATAT-AT
4738175 TAATTAA
1 TAATTAA
4738182 TTAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTAAATATAT
Found at i:4740795 original size:41 final size:41
Alignment explanation
Indices: 4740735--4740876 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 41
4740725 TTGCTCTGAA
* * *
4740735 AAGCGTCGCTAATGATCTGACCTTTAGCGATGCTTTCTCAT
1 AAGCGCCGCTAATGCTCTGACCTTTAGCGATGTTTTCTCAT
* * * *
4740776 AAGCGTCGCTAATGCTCTGACCTTTAGCGACGTTTTCCTTAG
1 AAGCGCCGCTAATGCTCTGACCTTTAGCGATGTTTT-CTCAT
* * * *
4740818 AAGCGCCGTTAATGCTCTCACCTTTAGCGGTGTTTTTCCCAT
1 AAGCGCCGCTAATGCTCTGACCTTTAGCGATG-TTTTCTCAT
*
4740860 AAACGCCGCTAATGCTC
1 AAGCGCCGCTAATGCTC
4740877 ATTCCCATAT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 33 0.39
42 47 0.56
43 4 0.05
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTCTGACCTTTAGCGATGTTTTCTCAT
Found at i:4740835 original size:42 final size:41
Alignment explanation
Indices: 4740735--4740846 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
4740725 TTGCTCTGAA
* * *
4740735 AAGCGTCGCTAATGATCTGACCTTTAGCGATGCTTTCTCAT
1 AAGCGTCGCTAATGCTCTGACCTTTAGCGACGCTTTCTCAG
* *
4740776 AAGCGTCGCTAATGCTCTGACCTTTAGCGACGTTTTCCTTAG
1 AAGCGTCGCTAATGCTCTGACCTTTAGCGACGCTTT-CTCAG
* * *
4740818 AAGCGCCGTTAATGCTCTCACCTTTAGCG
1 AAGCGTCGCTAATGCTCTGACCTTTAGCG
4740847 GTGTTTTTCC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
41 33 0.53
42 29 0.47
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (41 bp):
AAGCGTCGCTAATGCTCTGACCTTTAGCGACGCTTTCTCAG
Found at i:4742951 original size:56 final size:56
Alignment explanation
Indices: 4742852--4742962 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 56
4742842 ACGTCGCTAA
* * * *
4742852 TGCTCTGACTTTTAGCGGCGCTTTGCCAGAAACGCCACTAATGCTATGATCTTTAG
1 TGCTCTGACCTTTAGCGGCGCTTTCCCAGAAACGCCACCAATGCTATGACCTTTAG
* * * * * *
4742908 TGCTCTGACCTTTAGCGGTGCTTTCCCATAAGCGTCGCCAATGCTCTGACCTTTA
1 TGCTCTGACCTTTAGCGGCGCTTTCCCAGAAACGCCACCAATGCTATGACCTTTA
4742963 TCGACGCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (56 bp):
TGCTCTGACCTTTAGCGGCGCTTTCCCAGAAACGCCACCAATGCTATGACCTTTAG
Found at i:4742972 original size:41 final size:41
Alignment explanation
Indices: 4742908--4743005 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
4742898 TGATCTTTAG
** * *
4742908 TGCTCTGACCTTTAGCGGTGCTTTCCCATAAGCGTCGCCAA
1 TGCTCTGACCTTTAGCGACGCTTTCCCACAAGCGCCGCCAA
* *
4742949 TGCTCTGACCTTTATCGACGCTTTCCCACAAGCGCCGCTAA
1 TGCTCTGACCTTTAGCGACGCTTTCCCACAAGCGCCGCCAA
*
4742990 TGCTCTGACTTTTAGC
1 TGCTCTGACCTTTAGC
4743006 AGCTTTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (41 bp):
TGCTCTGACCTTTAGCGACGCTTTCCCACAAGCGCCGCCAA
Found at i:4745727 original size:21 final size:21
Alignment explanation
Indices: 4745701--4745742 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4745691 AACATAACCT
*
4745701 CATAAATTTAA-AAGTCAAAAC
1 CATAAAGTTAATAAG-CAAAAC
4745722 CATAAAGTTAATAAGCAAAAC
1 CATAAAGTTAATAAGCAAAAC
4745743 TACGCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (21 bp):
CATAAAGTTAATAAGCAAAAC
Found at i:4749578 original size:67 final size:66
Alignment explanation
Indices: 4749411--4749578 Score: 232
Period size: 67 Copynumber: 2.5 Consensus size: 66
4749401 ATGGGTTGTA
* *
4749411 ATGGGGTATAATGTGT-AACCATAGCTCAGCCATGGAAACATAGAGAGTCCGCCAAGAAATTAAA
1 ATGGGGTATAATGTGTAAACCATAGCTCAGCTATGAAAACATAGAGAGTCCGCCAAGAAATTAAA
4749475 C
66 C
* * *
4749476 ATGGGGTATAATGTGTAAAGCCATATCTCGGCTATGAAAACATAGAGAGT-CGACCAAGACATTA
1 ATGGGGTATAATGTGTAAA-CCATAGCTCAGCTATGAAAACATAGAGAGTCCG-CCAAGAAATTA
4749540 AAC
64 AAC
* *
4749543 ATGGGGTATAATGTGTAAGATCATAGCTCAACTATG
1 ATGGGGTATAATGTGTAA-ACCATAGCTCAGCTATG
4749579 GTAGCATATG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
65 16 0.18
66 4 0.04
67 69 0.77
68 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (66 bp):
ATGGGGTATAATGTGTAAACCATAGCTCAGCTATGAAAACATAGAGAGTCCGCCAAGAAATTAAA
C
Found at i:4752187 original size:3 final size:3
Alignment explanation
Indices: 4752181--4752205 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4752171 TTGTTGCGAC
4752181 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
4752206 CGGGAAACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:4757163 original size:140 final size:141
Alignment explanation
Indices: 4756978--4757318 Score: 355
Period size: 140 Copynumber: 2.4 Consensus size: 141
4756968 TTTCTATATT
* * *
4756978 AAAGATATAAAATGATAAAAACATCCTTAAAATAATATATTTTACTTTGTAAAGTAAAGATATTT
1 AAAGATATAAAATGA-CAAAACAT--TCAAAATAATATAATTTACTTTGTAAAGTAAAGATATTT
* * * * * *
4757043 TTATCAATTATCAA-CTGAGTTGGTGTTATATTGACTCGTGACATCAAACTCAGCAAAGGGTTTA
63 TCATCAATTATCAATC-GAGTTGGTATTATATTGACTCATGACACCAAACTCAGCAAAGAGATTA
* *
4757107 ATATTAGTGGAGTTA
127 ATATTAGTAGAGATA
* * *
4757122 AAAGATATAAAATGACAAAA-ATTCAAAATAATCTAATTTACTTTGTGAAA-TTAGGATATTTTC
1 AAAGATATAAAATGACAAAACATTCAAAATAATATAATTTACTTTGT-AAAGTAAAGATATTTTC
* * * * * * *
4757185 ATCATTTATCAATCGAGTTGGTATTTTGTTGACTCATGACACCAAATTTAGTAAATAGATTAATA
65 ATCAATTATCAATCGAGTTGGTATTATATTGACTCATGACACCAAACTCAGCAAAGAGATTAATA
*
4757250 TTAGTAGTGATA
130 TTAGTAGAGATA
* * *
4757262 GAAGTTATAAAAATGACAAATGCACCTTCAAAATAATATAATTTACTTTGTAAAGTA
1 AAAGATAT-AAAATGACAAA---ACATTCAAAATAATATAATTTACTTTGTAAAGTA
4757319 TGAATATTTT
Statistics
Matches: 162, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
140 97 0.60
141 15 0.09
142 2 0.01
143 4 0.02
144 19 0.12
145 25 0.15
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (141 bp):
AAAGATATAAAATGACAAAACATTCAAAATAATATAATTTACTTTGTAAAGTAAAGATATTTTCA
TCAATTATCAATCGAGTTGGTATTATATTGACTCATGACACCAAACTCAGCAAAGAGATTAATAT
TAGTAGAGATA
Found at i:4763206 original size:19 final size:20
Alignment explanation
Indices: 4763165--4763206 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4763155 GGTTTCTTTA
* * *
4763165 CAATTTGATTTTTCTCCATC
1 CAATTTCATATTTCTCCACC
4763185 CAATTTCATATTT-TCCACC
1 CAATTTCATATTTCTCCACC
4763204 CAA
1 CAA
4763207 AACTTTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.26, C:0.29, G:0.02, T:0.43
Consensus pattern (20 bp):
CAATTTCATATTTCTCCACC
Found at i:4763378 original size:17 final size:18
Alignment explanation
Indices: 4763342--4763416 Score: 93
Period size: 17 Copynumber: 4.3 Consensus size: 18
4763332 CATTTTAAAG
4763342 ATTTATTTTAAGAA-TTAA
1 ATTTATTTTAA-AATTTAA
*
4763360 ATTTATTTT-GAATTTAA
1 ATTTATTTTAAAATTTAA
4763377 ATTTATTTT-AAATTTAA
1 ATTTATTTTAAAATTTAA
* *
4763394 TTTTGTTTTAAAATTTAA
1 ATTTATTTTAAAATTTAA
4763412 ATTTA
1 ATTTA
4763417 AATTTAAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 2 0.04
17 27 0.55
18 20 0.41
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTATTTTAAAATTTAA
Found at i:4763387 original size:35 final size:35
Alignment explanation
Indices: 4763342--4763431 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
4763332 CATTTTAAAG
*
4763342 ATTTATTTTAAGAATTAAATTTATTTT-GAATTTAA
1 ATTTATTTTAA-AATTAAATTTATTTTAAAATTTAA
* * *
4763377 ATTTATTTTAAATTTAATTTTGTTTTAAAATTTAA
1 ATTTATTTTAAAATTAAATTTATTTTAAAATTTAA
* *
4763412 ATTTAAATTTAAAACTAAAT
1 ATTT-ATTTTAAAATTAAAT
4763432 ATAAATATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
34 12 0.27
35 22 0.49
36 11 0.24
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (35 bp):
ATTTATTTTAAAATTAAATTTATTTTAAAATTTAA
Found at i:4763410 original size:7 final size:6
Alignment explanation
Indices: 4763356--4763444 Score: 58
Period size: 6 Copynumber: 15.0 Consensus size: 6
4763346 ATTTTAAGAA
* * * ***
4763356 TTAAAT TT-ATT TTGAAT TTAAAT TT-ATT TTAAAT TT-AAT TTTGTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
4763401 TTAAAAT TTAAAT TTAAAT TTAAAA CTAAAT ATAAAT ATTAAAT
1 TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT
4763445 ATCCAAATAC
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
5 13 0.21
6 42 0.67
7 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:4763421 original size:12 final size:12
Alignment explanation
Indices: 4763356--4763444 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 12
4763346 ATTTTAAGAA
*
4763356 TTAAATTT-ATT
1 TTAAATTTAAAT
*
4763367 TTGAATTTAAAT
1 TTAAATTTAAAT
*
4763379 TT-ATTTTAAAT
1 TTAAATTTAAAT
***
4763390 TT-AATTTTGTT
1 TTAAATTTAAAT
4763401 TTAAAATTTAAAT
1 TT-AAATTTAAAT
*
4763414 TTAAATTTAAAA
1 TTAAATTTAAAT
* *
4763426 CTAAATATAAAT
1 TTAAATTTAAAT
4763438 ATTAAAT
1 -TTAAAT
4763445 ATCCAAATAC
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
11 24 0.41
12 22 0.37
13 13 0.22
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:4765248 original size:31 final size:31
Alignment explanation
Indices: 4765191--4765506 Score: 190
Period size: 29 Copynumber: 10.7 Consensus size: 31
4765181 GAAGGTCTCT
* *
4765191 AAACTGTCCAAAAATTATA-TTTTGACCCTC
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
* * *
4765221 GAACTTTTTTAAAATTATATTTTTGACCC-C
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
*
4765251 TAAACTTTCTAAAAATTACATTTTT-ACCCTC
1 -AAACTTTCTAAAAATTATATTTTTGACCCTC
* **
4765282 AAAC-TTCCAAAAATTCCATTTTT-ACCCT-
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
*
4765310 AAACTTTCTAAAAATTACA-TTTT-ACCC-C
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
**
4765338 TAAACTTTCT-AAAATT-TCATTTTAAACCCT-
1 -AAACTTTCTAAAAATTAT-ATTTTTGACCCTC
* *
4765368 AAACTTTCCAAAAATTACATTTTT-A-CC-C
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
* * ** * *
4765396 GAACTTCCT-AAAATTCCATTTTTGACCTTA
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
* *
4765426 AAACTTTC-GAAAATTACATTTTT-ACCCTC
1 AAACTTTCTAAAAATTATATTTTTGACCCTC
* * * *
4765455 GAAC-TCCCAAAAATT-TCATTTTT-AACCTC
1 AAACTTTCTAAAAATTAT-ATTTTTGACCCTC
4765484 GAAACTTT-TAAAAATTATCATTT
1 -AAACTTTCTAAAAATTAT-ATTT
4765507 ACCCTCGGAT
Statistics
Matches: 227, Mismatches: 37, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
27 13 0.06
28 30 0.13
29 80 0.35
30 67 0.30
31 37 0.16
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (31 bp):
AAACTTTCTAAAAATTATATTTTTGACCCTC
Found at i:4765294 original size:29 final size:29
Alignment explanation
Indices: 4765191--4765506 Score: 232
Period size: 30 Copynumber: 10.7 Consensus size: 29
4765181 GAAGGTCTCT
* *
4765191 AAACTGTCCAAAAATTATATTTTGACCCTC
1 AAACT-TCCAAAAATTACATTTTTACCCTC
* *** *
4765221 GAACTTTTTTAAAATTATATTTTTGACCC-C
1 AAAC-TTCCAAAAATTACATTTTT-ACCCTC
*
4765251 TAAACTTTCTAAAAATTACATTTTTACCCTC
1 -AAAC-TTCCAAAAATTACATTTTTACCCTC
*
4765282 AAACTTCCAAAAATTCCATTTTTACCCT-
1 AAACTTCCAAAAATTACATTTTTACCCTC
*
4765310 AAACTTTCTAAAAATTACA-TTTTACCC-C
1 AAAC-TTCCAAAAATTACATTTTTACCCTC
* * * *
4765338 TAAACTTTCTAAAATTTCATTTTAAACCCT-
1 -AAACTTCCAAAAATTACATTTT-TACCCTC
4765368 AAACTTTCCAAAAATTACATTTTTA-CC-C
1 AAAC-TTCCAAAAATTACATTTTTACCCTC
* * * * *
4765396 GAACTTCCTAAAATTCCATTTTTGACCTTA
1 AAACTTCCAAAAATTACATTTTT-ACCCTC
* *
4765426 AAACTTTCGAAAATTACATTTTTACCCTC
1 AAACTTCCAAAAATTACATTTTTACCCTC
* * * *
4765455 GAACTCCCAAAAATTTCATTTTTAACCTC
1 AAACTTCCAAAAATTACATTTTTACCCTC
**
4765484 GAAACTTTTAAAAATTATCATTT
1 -AAACTTCCAAAAATTA-CATTT
4765507 ACCCTCGGAT
Statistics
Matches: 225, Mismatches: 44, Indels: 33
0.75 0.15 0.11
Matches are distributed among these distances:
27 17 0.08
28 28 0.12
29 74 0.33
30 75 0.33
31 31 0.14
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCTC
Found at i:4765329 original size:58 final size:59
Alignment explanation
Indices: 4765189--4765652 Score: 350
Period size: 58 Copynumber: 7.9 Consensus size: 59
4765179 CTGAAGGTCT
* * * * *** **
4765189 CTAAACTGTCCAAAAATTATATTTTGACCCTCGAACTTTTTTAAAATTATATTTTTGACCC
1 CTAAACTTTCTAAAAATTACATTTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTGA-CC
*
4765250 CTAAACTTTCTAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTT-ACC
1 CTAAACTTTCTAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACC
* * * * **
4765308 CTAAACTTTCTAAAAATTACA-TTTTACCC-CTAAACTTTCTAAAATTTCATTTTAAACC
1 CTAAACTTTCTAAAAATTACATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTGACC
* *
4765366 CTAAACTTTCCAAAAATTACATTTTTA-CC-CGAACTTCCTAAAATTCCATTTTTGACC
1 CTAAACTTTCTAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACC
* * * * *
4765423 TTAAAACTTTC-GAAAATTACATTTTTACCCTCGAACTCCCAAAAATTTCATTTTTAACC
1 CT-AAACTTTCTAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACC
* * * *
4765482 TCGAAACTTT-TAAAAATTATCA--TTTACCCTCGGA-TGTCCAAAAATTCCGTTTTTGATCT
1 -CTAAACTTTCTAAAAATTA-CATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGA-CC
* *** * * * *
4765541 CGATTTTTTCT-AAAATTATC-GTTTTACCCCCG-AGTGTCCAAAAATTCTA-TTTTGACC
1 CTAAACTTTCTAAAAATTA-CATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGACC
* * *
4765598 TCAAAACTTTC-AAAAATTACCA-TTTTACCCCCGAA-TGTCCAAAAATTCCGTTTTT
1 -CTAAACTTTCTAAAAATTA-CATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTT
4765653 AATCTCGATT
Statistics
Matches: 334, Mismatches: 49, Indels: 42
0.79 0.12 0.10
Matches are distributed among these distances:
56 1 0.00
57 67 0.20
58 146 0.44
59 73 0.22
60 16 0.05
61 31 0.09
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (59 bp):
CTAAACTTTCTAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACC
Found at i:4765556 original size:117 final size:117
Alignment explanation
Indices: 4765430--4765683 Score: 311
Period size: 117 Copynumber: 2.2 Consensus size: 117
4765420 ACCTTAAAAC
* * *
4765430 TTTCGAAAATTA-CATTTTTACCCTCGAACT-CCCAAAAATT-TCATTTTTAACCTCGAAACTTT
1 TTTCTAAAATTACCATTTTTACCCCCG-ACTGCCCAAAAATTCT-A-TTTTAACCTCAAAACTTT
* * * * *
4765492 TAAAAATTATCA-TTTACCCTCGGATGTCCAAAAATTCCGTTTTTGATCTCGATTT
63 CAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTAATCTCGA-TT
* * * * *
4765547 TTTCTAAAATTATC-GTTTTACCCCCGAGTGTCCAAAAATTCTATTTTGACCTCAAAACTTTCAA
1 TTTCTAAAATTACCATTTTTACCCCCGACTGCCCAAAAATTCTATTTTAACCTCAAAACTTTCAA
4765611 AAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTAATCTCGATT
66 AAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTAATCTCGATT
4765663 TTTCTAAAATTTACCATTTTT
1 TTTCTAAAA-TTACCATTTTT
4765684 GCCTTCGAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
116 39 0.33
117 72 0.62
118 6 0.05
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (117 bp):
TTTCTAAAATTACCATTTTTACCCCCGACTGCCCAAAAATTCTATTTTAACCTCAAAACTTTCAA
AAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTAATCTCGATT
Found at i:4765640 original size:29 final size:29
Alignment explanation
Indices: 4765552--4765644 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
4765542 GATTTTTTCT
* * *
4765552 AAAATTATCGTTTTACCCCCGAGTGTCCA
1 AAAATTACCATTTTACCCCCGAATGTCCA
* * ** *
4765581 AAAATT-CTATTTTGACCTCAAAACT-TTCA
1 AAAATTACCATTTT-ACCCCCGAA-TGTCCA
4765610 AAAATTACCATTTTACCCCCGAATGTCCA
1 AAAATTACCATTTTACCCCCGAATGTCCA
4765639 AAAATT
1 AAAATT
4765645 CCGTTTTTAA
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
28 5 0.11
29 35 0.74
30 7 0.15
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATGTCCA
Found at i:4765672 original size:58 final size:58
Alignment explanation
Indices: 4765494--4765682 Score: 213
Period size: 58 Copynumber: 3.2 Consensus size: 58
4765484 GAAACTTTTA
* * *
4765494 AAAATTATCA-TTTACCCTCGGATGTCCAAAAATTCCGTTTTTGATCTCGATTTTTTCT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTGATCTCGA-TTTTTCT
* * * * * ** *
4765552 AAAATTATCGTTTTACCCCCGAGTGTCCAAAAATT-C-TATTTTGACCTCAAAACTTTCA
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGT-TTTTGATCTC-GATTTTTCT
*
4765610 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTAATCTCGATTTTTCT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTGATCTCGATTTTTCT
4765668 AAAATTTACCATTTT
1 AAAA-TTACCATTTT
4765683 TGCCTTCGAG
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 64 0.60
59 41 0.38
60 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCGTTTTTGATCTCGATTTTTCT
Found at i:4771468 original size:49 final size:49
Alignment explanation
Indices: 4771290--4771616 Score: 148
Period size: 50 Copynumber: 6.6 Consensus size: 49
4771280 TACAGGTCTC
* * *
4771290 AGTACCATGAAGACA-TAAAGGGAAAGATCTAAGACCGCAACGATG-GATCC-
1 AGTACCATGAAGACACGAAA-GGAAAGATTTAAG-CCGCAACG--GCGAACCG
* ** * * * * * * *
4771340 AATACCACAAAGATACAAAAGGGAAAGGTCTAAGTCGTAACGGCAGGACCG
1 AGTACCATGAAGACACGAAA-GGAAAGATTTAAGCCGCAACGGC-GAACCG
* * * *
4771391 TGTACCTTAGAAGACACGAAGGGAAAGATTTAAGCCGCAACGGCGAATTC-
1 AGTACCAT-GAAGACACGAAAGGAAAGATTTAAGCCGCAACGGCGAA-CCG
* * ** * * *
4771441 AGTACCATGAAGACATGAAAGGAAAGATCTAATATCGCAACGGCGGATCT
1 AGTACCATGAAGACACGAAAGGAAAGATTTAA-GCCGCAACGGCGAACCG
** * * * * * *
4771491 AGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCAACAGCGGACCG
1 AGTACCATGAAGACACGAAA-GGAAAGATTTAAGCCGCAACGGCGAACCG
* * *
4771541 TGTACC-TCAGAAG--ACGAAGGGAAAGATTTTAGCCGCAACGGCGAATCC-
1 AGTACCAT--GAAGACACGAAAGGAAAGATTTAAGCCGCAACGGCGAA-CCG
* *
4771589 AATACCATGAAGACATGAAAGGAAAGAT
1 AGTACCATGAAGACACGAAAGGAAAGAT
4771617 GAAGCTTTAA
Statistics
Matches: 205, Mismatches: 57, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
47 4 0.02
48 26 0.13
49 42 0.20
50 72 0.35
51 53 0.26
52 8 0.04
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (49 bp):
AGTACCATGAAGACACGAAAGGAAAGATTTAAGCCGCAACGGCGAACCG
Found at i:4771616 original size:148 final size:150
Alignment explanation
Indices: 4771292--4771616 Score: 494
Period size: 151 Copynumber: 2.2 Consensus size: 150
4771282 CAGGTCTCAG
*
4771292 TACCATGAAGACAT-AAAGGGAAAGATCTAAGACCGCAACGATGGATCCAATACCACAAAGATAC
1 TACCATGAAGACATGAAA-GGAAAGATCTAAGACCGCAACGACGGATCCAATACCACAAAGATAC
* * *
4771356 AAAAGGGAAAGGTCTAAGTCGTAACGGCAGGACCGTGTACCTTAGAAGACACGAAGGGAAAGATT
65 AAAAGGGAAAGGTCTAAGTCGCAACAGCAGGACCGTGTACCTCAGAAGA-ACGAAGGGAAAGATT
* *
4771421 TAAGCCGCAACGGCGAATTCAG
129 TAAGCCGCAACGGCGAATCCAA
* * * * *
4771443 TACCATGAAGACATGAAAGGAAAGATCTAATATCGCAACGGCGGATCTAGTACCACAAAGATACA
1 TACCATGAAGACATGAAAGGAAAGATCTAAGACCGCAACGACGGATCCAATACCACAAAGATACA
* *
4771508 AAAGGGAAAGGTTTAAGTCGCAACAGC-GGACCGTGTACCTCAGAAG-ACGAAGGGAAAGATTTT
66 AAAGGGAAAGGTCTAAGTCGCAACAGCAGGACCGTGTACCTCAGAAGAACGAAGGGAAAGATTTA
4771571 AGCCGCAACGGCGAATCCAA
131 AGCCGCAACGGCGAATCCAA
4771591 TACCATGAAGACATGAAAGGAAAGAT
1 TACCATGAAGACATGAAAGGAAAGAT
4771617 GAAGCTTTAA
Statistics
Matches: 160, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
148 60 0.38
150 18 0.11
151 79 0.49
152 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (150 bp):
TACCATGAAGACATGAAAGGAAAGATCTAAGACCGCAACGACGGATCCAATACCACAAAGATACA
AAAGGGAAAGGTCTAAGTCGCAACAGCAGGACCGTGTACCTCAGAAGAACGAAGGGAAAGATTTA
AGCCGCAACGGCGAATCCAA
Found at i:4771962 original size:78 final size:78
Alignment explanation
Indices: 4771828--4772075 Score: 284
Period size: 78 Copynumber: 3.2 Consensus size: 78
4771818 AGTGAAGTTA
** * *
4771828 CATCGTCAACCAATCTCTTACCCCGAGCCTAGGGTAGATTGAAGCCATTTGATCTTTTAACCTGA
1 CATCGTCAACCAATCTCTTACCCCGAGAATAGGGCAGATTGAAGCCATTTGATCTTTTAACCCGA
4771893 GCTTGGGGCAGAT
66 GCTTGGGGCAGAT
* * * *
4771906 CATCATCAACCAATCTCTTACCCCGAGAATGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGA
1 CATCGTCAACCAATCTCTTACCCCGAGAATAGGGCAGATTGAAGCCATTTGATCTTTTAACCCGA
*
4771971 GCTTGGGGTAGAT
66 GCTTGGGGCAGAT
* * * * * * * *
4771984 CATCGCCAACCAATCTCTTACCCCGAG-CTAGAGGTAAATT-ACAGCCACTCGATCTCTTATCCC
1 CATCGTCAACCAATCTCTTACCCCGAGAATAG-GGCAGATTGA-AGCCATTTGATCTTTTAACCC
*
4772047 GAGCTTGAGGCAGAT
64 GAGCTTGGGGCAGAT
* *
4772062 CACCGTTAACCAAT
1 CATCGTCAACCAAT
4772076 ACCCTACCCC
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
77 2 0.01
78 141 0.99
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (78 bp):
CATCGTCAACCAATCTCTTACCCCGAGAATAGGGCAGATTGAAGCCATTTGATCTTTTAACCCGA
GCTTGGGGCAGAT
Found at i:4771978 original size:39 final size:39
Alignment explanation
Indices: 4771840--4772061 Score: 119
Period size: 39 Copynumber: 5.7 Consensus size: 39
4771830 TCGTCAACCA
* * * *
4771840 ATCTCTTACCCCGAGCCTAGGGTAGATTGAAGCCATTTG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTG
* * * * ****
4771879 ATCTTTTAACCTGAGCTTGGGGCAGATCAT-CA-TCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT--TGCAGCCATTTG
**
4771918 ATCTCTTACCCCGAGAATGGGGCAGATTGCAGCCATTTG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTG
* * ****
4771957 ATCTTTTACCCCGAGCTTGGGGTAGA-T-CATCGCCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCA--GCCATTTG
* * * * * * *
4771996 ATCTCTTACCCCGAGCTAGAGGTAAATTACAGCCACTCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTG
* *
4772035 ATCTCTTATCCCGAGCTTGAGGCAGAT
1 ATCTCTTACCCCGAGCTTGGGGCAGAT
4772062 CACCGTTAAC
Statistics
Matches: 134, Mismatches: 41, Indels: 16
0.70 0.21 0.08
Matches are distributed among these distances:
37 3 0.02
38 3 0.02
39 123 0.92
40 2 0.01
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTTG
Found at i:4772477 original size:201 final size:201
Alignment explanation
Indices: 4772114--4773482 Score: 2058
Period size: 201 Copynumber: 6.8 Consensus size: 201
4772104 AATTATCCAC
* *
4772114 AAAC-AGTGAGACGATCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* *
4772178 GAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCGGGTCAAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
*
4772243 TTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
4772308 GAATTG
196 GAATTG
* *
4772314 AAACAAGTGAGGAGGTTATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
4772379 AAGCAAATCTTCGAACCCCAGCTTTCTGATGAGATACTGAGAAGTGGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
* * * *
4772444 TTAGCTTCATGATAAGATACTGAGAAATGGACCAAATTTATCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
4772509 GAATTG
196 GAATTG
* * * * * *
4772515 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTC--A---AGGCTC
* * * * * *
4772580 GATGTGAGCAAATCTTTGAATCTCGGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAA
61 AATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAA
* * * *
4772645 AATGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGA
126 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGA
4772710 GAAGCGAATTG
191 GAAGCGAATTG
*
4772721 AAACAAGTGAGGAGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
*
4772786 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGTAATAAAATGG
66 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
*
4772851 TTAGCTTCCTGATGAGATACTGAGAAGTGGACTAAATTCATCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
4772916 GAATTG
196 GAATTG
* *
4772922 AAACAAGTGAGGCGATCATCTTCCTGATGAGGTACAGAGAAGTATACCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * * * *
4772987 GAGCAAATCTTCAAACCCCAGCTTCCTGATGAGGTATTGAGAAACGGGTCGAAGCAATGAAATGG
66 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
*
4773052 TTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
4773117 GAATTG
196 GAATTG
* **
4773123 AAACAAGTGAGGCGGTCATCTTCCTGATGAGGTACAGAGAAGTATACCAACTCAAGGCTCAATAA
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
4773188 GAGCAAATCTTCGGACCCCAGCTTTCTGATGAGATACTAAGAAGCGGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
* *
4773253 TTAGCTTCCTGATGAGATACTGAGAAATGGACCAAATTTATCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
*
4773318 GGATTG
196 GAATTG
* * ** * * * * *
4773324 AAACAACTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAAACACGCTCGA
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTC--A-AGGCTCAA
* * * * * *
4773389 TGTGAGCAAATCTTTGAATCTC-GCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAA
63 TGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAA
*
4773453 TGGTTAACTTCCTGATGAGATACTGAGAAG
128 TGGTTAGCTTCCTGATGAGATACTGAGAAG
4773483 AAGGTCAAGT
Statistics
Matches: 1056, Mismatches: 104, Indels: 15
0.90 0.09 0.01
Matches are distributed among these distances:
200 4 0.00
201 784 0.74
203 68 0.06
204 23 0.02
206 177 0.17
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (201 bp):
AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAATGG
TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
GAATTG
Found at i:4773858 original size:18 final size:17
Alignment explanation
Indices: 4773835--4773923 Score: 79
Period size: 18 Copynumber: 5.1 Consensus size: 17
4773825 CATTTTAAAG
4773835 ATTTATTTTAAGAATTAA
1 ATTTATTTTAA-AATTAA
*
4773853 ATTTATTTTAAATTTAA
1 ATTTATTTTAAAATTAA
*
4773870 ATTTGTTTTAAAATTTAA
1 ATTTATTTTAAAA-TTAA
* * ** *
4773888 TTTTAATTTAAGTTTAG
1 ATTTATTTTAAAATTAA
*
4773905 ATTTATATTTAAATTTAA
1 ATTTAT-TTTAAAATTAA
4773923 A
1 A
4773924 ACTTAATATA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 23 0.41
18 33 0.59
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTATTTTAAAATTAA
Found at i:4773870 original size:6 final size:6
Alignment explanation
Indices: 4773849--4773923 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 6
4773839 ATTTTAAGAA
* ** *
4773849 TTAAAT TT-ATT TTAAAT TTAAAT TT-GTT TTAAAAT TT-AAT TTTAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
* * *
4773895 TTAAGT TTAGAT TTATAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
4773924 ACTTAATATA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 12 0.23
6 38 0.72
7 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:4773898 original size:35 final size:35
Alignment explanation
Indices: 4773835--4773943 Score: 105
Period size: 35 Copynumber: 3.1 Consensus size: 35
4773825 CATTTTAAAG
*
4773835 ATTTATTTTAAGAA-TTAAATTTATTTTAAATTTAA
1 ATTTATTTTAA-AATTTAAATTTAATTTAAATTTAA
* * * *
4773870 ATTTGTTTTAAAATTTAATTTTAATTTAAGTTTAG
1 ATTTATTTTAAAATTTAAATTTAATTTAAATTTAA
* *
4773905 ATTTATATTT-AAATTTAAAACTTAATATAAATATTAA
1 ATTTAT-TTTAAAATTT-AAATTTAATTTAAAT-TTAA
4773942 AT
1 AT
4773944 GTCCAAATAC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.03
35 38 0.64
36 14 0.24
37 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (35 bp):
ATTTATTTTAAAATTTAAATTTAATTTAAATTTAA
Found at i:4774868 original size:23 final size:24
Alignment explanation
Indices: 4774841--4774886 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
4774831 TCAAGACCCC
*
4774841 AAAACTGATTTT-TTAAAAAAAAG
1 AAAACAGATTTTATTAAAAAAAAG
4774864 AAAACAGATTTTGATTAAAAAAA
1 AAAACAGATTTT-ATTAAAAAAA
4774887 TCAGAAGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAACAGATTTTATTAAAAAAAAG
Found at i:4775797 original size:29 final size:29
Alignment explanation
Indices: 4775755--4776064 Score: 206
Period size: 30 Copynumber: 10.5 Consensus size: 29
4775745 GAGCTACTCC
* * *
4775755 AAAATTATATTTTTGACACTGAACTTTTTA
1 AAAATTACATTTTT-ACCCTGAACTTTCTA
* *
4775785 AAAATGACATTTTTACCCCTAAACTTCTCT-
1 AAAATTACATTTTTA-CCCTGAACTT-TCTA
* *
4775815 AAAATTATATTTTAACCCTTGAACTTTCTA
1 AAAATTACATTTTTACCC-TGAACTTTCTA
*
4775845 AAAATTACATTTTTACCCTTGAACTTTCCA
1 AAAATTACATTTTTACCC-TGAACTTTCTA
*
4775875 AAAA-TATCATTTTTA-CCTCAAACTTTCTA
1 AAAATTA-CATTTTTACCCT-GAACTTTCTA
* *
4775904 AAAATTACATTTTTACCCCTAAACTTAC-A
1 AAAATTACATTTTTA-CCCTGAACTTTCTA
* * * *
4775933 AAAATTCCATTTTTGACCTTTAAAC-TTCCA
1 AAAATTACATTTTT-ACC-CTGAACTTTCTA
* * * *
4775963 AAAAGTACATTTTTACCCTCAAAC-TCCAA
1 AAAATTACATTTTTACCCT-GAACTTTCTA
* *
4775992 AAAATTCCATTTTTGACCCTAAAACTTTC-A
1 AAAATTACATTTTT-ACCCT-GAACTTTCTA
* *
4776022 AAAATTATCA-TTTTACCCTCGAA-TATCCA
1 AAAATTA-CATTTTTACCCT-GAACTTTCTA
*
4776051 AAAATTCCATTTTT
1 AAAATTACATTTTT
4776065 GATCTCGATT
Statistics
Matches: 230, Mismatches: 32, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.03
29 89 0.39
30 125 0.54
31 9 0.04
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTGAACTTTCTA
Found at i:4775819 original size:60 final size:57
Alignment explanation
Indices: 4775716--4775980 Score: 226
Period size: 60 Copynumber: 4.5 Consensus size: 57
4775706 GAGGTCCCTA
* * * ** * *
4775716 AACTATCTAAAAATTATATTTTGACCCCCGAGCTACTCCAAAATTATATTTTTGACACTG
1 AACTTTCTAAAAATTACATTTTTACCCCTAAACT-TTCCAAAATTATATTTTT-AC-CTG
* * * *
4775776 AACTTTTTAAAAATGACATTTTTACCCCTAAACTTCTCTAAAATTATATTTTAACCCTTG
1 AACTTTCTAAAAATTACATTTTTACCCCTAAACTT-TCCAAAATTATATTTTTA-CC-TG
* * * *
4775836 AACTTTCTAAAAATTACATTTTTACCCTTGAACTTTCCAAAAATATCATTTTTACCTCA
1 AACTTTCTAAAAATTACATTTTTACCCCTAAACTTTCCAAAATTAT-ATTTTTACCT-G
* * ** *
4775895 AACTTTCTAAAAATTACATTTTTACCCCTAAACTTACAAAAATTCCATTTTTGACCTTTA
1 AACTTTCTAAAAATTACATTTTTACCCCTAAACTTTCCAAAATTATATTTTT-ACC--TG
* *
4775955 AAC-TTCCAAAAAGTACATTTTTACCC
1 AACTTTCTAAAAATTACATTTTTACCC
4775981 TCAAACTCCA
Statistics
Matches: 169, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
58 7 0.04
59 76 0.45
60 85 0.50
61 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (57 bp):
AACTTTCTAAAAATTACATTTTTACCCCTAAACTTTCCAAAATTATATTTTTACCTG
Found at i:4775819 original size:90 final size:90
Alignment explanation
Indices: 4775711--4775980 Score: 220
Period size: 90 Copynumber: 3.0 Consensus size: 90
4775701 CCCTGGAGGT
* * * * *
4775711 CCCTAAACTATCT-AAAAATTATATTTTGACCCCCGAGCTACTC-CAAAATTATATTTTTGACAC
1 CCCTAAACT-TCTCTAAAATTATATTTTAACCCCCGAACT-CTCTAAAAATTACATTTTT-ACAC
**
4775774 -TGAACTTTTTAAAAATGA-CATTTTTAC
63 TTGAACTTTCCAAAAAT-ATCATTTTTAC
** * *
4775801 CCCTAAACTTCTCTAAAATTATATTTTAACCCTTGAACTTTCTAAAAATTACATTTTTACCCTTG
1 CCCTAAACTTCTCTAAAATTATATTTTAACCCCCGAACTCTCTAAAAATTACATTTTTACACTTG
4775866 AACTTTCCAAAAATATCATTTTTAC
66 AACTTTCCAAAAATATCATTTTTAC
* * * ** *
4775891 CTC-AAACTT-TCTAAAAATTACATTTTTACCCCTAAACT-TAC-AAAAATTCCATTTTTGAC-C
1 CCCTAAACTTCTCT-AAAATTATATTTTAACCCCCGAACTCT-CTAAAAATTACATTTTT-ACAC
*
4775951 TTTAAAC-TTCCAAAAAGTA-CATTTTTAC
63 -TTGAACTTTCCAAAAA-TATCATTTTTAC
4775979 CC
1 CC
4775981 TCAAACTCCA
Statistics
Matches: 152, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
88 38 0.25
89 46 0.30
90 68 0.45
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.38
Consensus pattern (90 bp):
CCCTAAACTTCTCTAAAATTATATTTTAACCCCCGAACTCTCTAAAAATTACATTTTTACACTTG
AACTTTCCAAAAATATCATTTTTAC
Found at i:4775921 original size:59 final size:61
Alignment explanation
Indices: 4775714--4776066 Score: 256
Period size: 59 Copynumber: 6.0 Consensus size: 61
4775704 TGGAGGTCCC
* * * * * * *
4775714 TAAACTATCTAAAAATTATATTTTGACCCCCGAGCTACTCCAAAATTAT--ATTTTTGACAC-
1 TAAACTTTCTAAAAATTACATTTTTACCCCCAAACT-TTCCAAAAATATCCATTTTTGAC-CT
* * * * * * *
4775774 TGAACTTTTTAAAAATGACATTTTTACCCCTAAACTTCTCTAAAATTAT--A-TTTTAACCCT
1 TAAACTTTCTAAAAATTACATTTTTACCCCCAAACTT-TCCAAAAATATCCATTTTTGA-CCT
* ***
4775834 TGAACTTTCTAAAAATTACATTTTTACCCTTGAACTTTCCAAAAATAT-CATTTTT-ACCT
1 TAAACTTTCTAAAAATTACATTTTTACCCCCAAACTTTCCAAAAATATCCATTTTTGACCT
* * *
4775893 CAAACTTTCTAAAAATTACATTTTTACCCCTAAAC-TTACAAAAAT-TCCATTTTTGACCTT
1 TAAACTTTCTAAAAATTACATTTTTACCCCCAAACTTTCCAAAAATATCCATTTTTGACC-T
* * *
4775953 TAAAC-TTCCAAAAAGTACATTTTTACCCTCAAAC--TCCAAAAA-ATTCCATTTTTGACCCT
1 TAAACTTTCTAAAAATTACATTTTTACCCCCAAACTTTCCAAAAATA-TCCATTTTTGA-CCT
* * * *
4776012 AAAACTTTC-AAAAATTATCA-TTTTACCCTCGAA-TATCCAAAAAT-TCCATTTTTGA
1 TAAACTTTCTAAAAATTA-CATTTTTACCCCCAAACTTTCCAAAAATATCCATTTTTGA
4776067 TCTCGATTTT
Statistics
Matches: 245, Mismatches: 32, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
57 1 0.00
58 23 0.09
59 123 0.50
60 94 0.38
61 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (61 bp):
TAAACTTTCTAAAAATTACATTTTTACCCCCAAACTTTCCAAAAATATCCATTTTTGACCT
Found at i:4776085 original size:59 final size:59
Alignment explanation
Indices: 4775839--4776211 Score: 198
Period size: 59 Copynumber: 6.3 Consensus size: 59
4775829 ACCCTTGAAC
* * * **
4775839 TTTCTAAAAATTA-CATTTTTACCCTTGAACTTTCCAAAAATAT-CATTTTT-ACCTC-AAAC
1 TTTC-AAAAATTACCA-TTTTACCCTCGAA-TGTCCAAAAAT-TCCATTTTTGATCTCGAATT
* * * ** **
4775898 TTTCTAAAAATTA-CATTTTTACCC-CTAAACT-TACAAAAATTCCATTTTTGACCTTTAAAC
1 TTTC-AAAAATTACCA-TTTTACCCTC-GAA-TGTCCAAAAATTCCATTTTTGATCTCGAATT
* * ** * * **
4775958 TTCCAAAAAGTA-CATTTTTACCCTC-AAACTCCAAAAAATTCCATTTTTGA-CCCTAAAAC
1 TTTCAAAAATTACCA-TTTTACCCTCGAATGTCC-AAAAATTCCATTTTTGATCTC-GAATT
* * *
4776017 TTTCAAAAATTATCATTTTACCCTCGAATATCCAAAAATTCCATTTTTGATCTCGATTT
1 TTTCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTTGATCTCGAATT
* * * * * ** * *
4776076 TTTCTAAAATTACCCTTTTACCCT-TAGGTGTCC-AAAATTTCATTTTTGCCCCCGTAAAT
1 TTTCAAAAATTACCATTTTACCCTCGA-ATGTCCAAAAATTCCATTTTTGATCTCG-AATT
* * * *
4776135 TTT-AAAAATTACCATTTTACCCCCGGATGTCCAAAAATTCCGTTTTTGATCT-TAATT
1 TTTCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTTGATCTCGAATT
4776192 TTTCTAAAAATTACCATTTT
1 TTTC-AAAAATTACCATTTT
4776212 TGCCTCCGAG
Statistics
Matches: 252, Mismatches: 45, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
57 7 0.03
58 60 0.24
59 168 0.67
60 17 0.07
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTTGATCTCGAATT
Found at i:4778190 original size:19 final size:19
Alignment explanation
Indices: 4778166--4778205 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
4778156 GTTACAAACT
*
4778166 AAAGTTTCCATATGGTACC
1 AAAGTTTCCATATAGTACC
4778185 AAAGTTTCCATATAGTACC
1 AAAGTTTCCATATAGTACC
4778204 AA
1 AA
4778206 TTCACAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAGTTTCCATATAGTACC
Found at i:4778851 original size:23 final size:25
Alignment explanation
Indices: 4778825--4778870 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4778815 CCAATTAGGG
4778825 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
4778848 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
4778871 TGGATTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:4779172 original size:11 final size:11
Alignment explanation
Indices: 4779141--4779182 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4779131 CCCTACTTGG
4779141 ATTTTAAATTA
1 ATTTTAAATTA
* *
4779152 AGTTTGAATTA
1 ATTTTAAATTA
*
4779163 ATTTTAAATTT
1 ATTTTAAATTA
4779174 A-TTTAAATT
1 ATTTTAAATT
4779183 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:4779182 original size:17 final size:17
Alignment explanation
Indices: 4779143--4779204 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
4779133 CTACTTGGAT
*
4779143 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
4779159 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
4779175 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
4779192 TTTAAATTTAAAT
1 TTTAAATTTAAAT
4779205 ACATTTAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:4779185 original size:22 final size:22
Alignment explanation
Indices: 4779141--4779182 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4779131 CCCTACTTGG
*
4779141 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
4779163 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
4779183 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:4779188 original size:27 final size:27
Alignment explanation
Indices: 4779149--4779201 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
4779139 GGATTTTAAA
* *
4779149 TTAAGTTTGAATTAATTTTAAATTTAT
1 TTAAATTTAAATTAATTTTAAATTTAT
**
4779176 TTAAATTTAAATTTGTTTTAAATTTA
1 TTAAATTTAAATTAATTTTAAATTTA
4779202 AATACATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
TTAAATTTAAATTAATTTTAAATTTAT
Found at i:4781217 original size:30 final size:31
Alignment explanation
Indices: 4781173--4781394 Score: 136
Period size: 30 Copynumber: 7.5 Consensus size: 31
4781163 CTAGCTTTCC
4781173 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTTAACCCCGATTTCACCA
*
4781203 AAAATTACCA-TTTTACCCCCGAACTTT--CC-
1 AAAATTACCATTTTTAACCCCG-A-TTTCACCA
* * *
4781232 ACAA-TCCCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTTAACCCCGATTTCACCA
* ** **
4781262 AAAATTATCA-TTTT-ACCCTCGAGCTGTCC-
1 AAAATTACCATTTTTAACCC-CGATTTCACCA
*
4781291 AAAA-TCCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTTAACCCCGATTTCACCA
* *
4781321 AAAATTACC-GTTTT-ACCCCTAAACTTT--CC-
1 AAAATTACCATTTTTAACCCC--GA-TTTCACCA
** *
4781350 AAAATT-CCATTTTTAACCCTAATTTAACCA
1 AAAATTACCATTTTTAACCCCGATTTCACCA
4781380 AAAATTA-CATTTTTA
1 AAAATTACCATTTTTA
4781395 CCCGCGAAAG
Statistics
Matches: 146, Mismatches: 24, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
27 6 0.04
28 11 0.08
29 50 0.34
30 62 0.42
31 11 0.08
32 6 0.04
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCCGATTTCACCA
Found at i:4781259 original size:59 final size:59
Alignment explanation
Indices: 4781167--4781402 Score: 321
Period size: 59 Copynumber: 4.0 Consensus size: 59
4781157 AGTCCCCTAG
*
4781167 CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAA
1 CTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAA
* * * * *
4781226 CTTTCCACAATCCCATTTTTAACCCCGGTTTCACCAAAAATTATCATTTTACCCTCGAG
1 CTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAA
* * **
4781285 CTGTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCGTTTTACCCCTAAA
1 CTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAA
* ** * *
4781344 CTTTCCAAAATTCCATTTTTAACCCTAATTTAACCAAAAATTA-CATTTTTACCCGCGAA
1 CTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA-TTTTACCCCCGAA
4781403 AGTAAAAAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
58 1 0.01
59 151 0.99
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (59 bp):
CTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAA
Found at i:4783426 original size:49 final size:50
Alignment explanation
Indices: 4783373--4783480 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 50
4783363 TAGAATTCGA
*
4783373 ATGTTTC-ACCATCCTAGATAGCCTGACAATGATGGCTTTCACTATTTAC
1 ATGTTTCTACCATCCTAGATAGCCCGACAATGATGGCTTTCACTATTTAC
* * * * *
4783422 ATG-TTCTACCATCTTGGATGGCCCGACAATGATGGTTTTCACTATTTGC
1 ATGTTTCTACCATCCTAGATAGCCCGACAATGATGGCTTTCACTATTTAC
4783471 ATG-TTCTACC
1 ATGTTTCTACC
4783481 GTCTCGAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 3 0.06
49 49 0.94
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (50 bp):
ATGTTTCTACCATCCTAGATAGCCCGACAATGATGGCTTTCACTATTTAC
Found at i:4783495 original size:49 final size:49
Alignment explanation
Indices: 4783397--4783495 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
4783387 TAGATAGCCT
* * *
4783397 GACAATGATGGCTTTCACTATTTACATGTTCTACCATCTTGGATGGCCC
1 GACAATGATGGCTTTCACTATTTACATGTTCTACCATCTCGAATCGCCC
* * *
4783446 GACAATGATGGTTTTCACTATTTGCATGTTCTACCGTCTCGAATCGCCC
1 GACAATGATGGCTTTCACTATTTACATGTTCTACCATCTCGAATCGCCC
4783495 G
1 G
4783496 GCAACGACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (49 bp):
GACAATGATGGCTTTCACTATTTACATGTTCTACCATCTCGAATCGCCC
Found at i:4785122 original size:30 final size:31
Alignment explanation
Indices: 4785088--4785158 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
4785078 AGTTTTGGAT
*
4785088 CCCCTTTAAAGTTGG-AGAAA-TTTTTTTAGA
1 CCCCTTAAAAGTTGGTA-AAATTTTTTTTAGA
4785118 CCCCTTAAAAGTTGGTAAAATTTTTTTTAGA
1 CCCCTTAAAAGTTGGTAAAATTTTTTTTAGA
4785149 CCCCTTAAAA
1 CCCCTTAAAA
4785159 ACTAAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 17 0.45
31 21 0.55
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (31 bp):
CCCCTTAAAAGTTGGTAAAATTTTTTTTAGA
Found at i:4785172 original size:32 final size:31
Alignment explanation
Indices: 4785108--4785173 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4785098 GTTGGAGAAA
** ***
4785108 TTTTTTTAGACCCCTTAAAAGTTGGTAAAAT
1 TTTTTTTAGACCCCTTAAAAACTAAAAAAAT
4785139 TTTTTTTAGACCCCTTAAAAACTAAAAATAAT
1 TTTTTTTAGACCCCTTAAAAACTAAAAA-AAT
4785171 TTT
1 TTT
4785174 GAACCCTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (31 bp):
TTTTTTTAGACCCCTTAAAAACTAAAAAAAT
Found at i:4788323 original size:20 final size:20
Alignment explanation
Indices: 4788276--4788327 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
4788266 GTATCGATCT
** *
4788276 GGTATCGATACCTTTTGTAA
1 GGTATCGATATATTTTCTAA
4788296 GCGTATCGATATATTTTCTAA
1 G-GTATCGATATATTTTCTAA
4788317 GGTATCGATAT
1 GGTATCGATAT
4788328 TCCTGCTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
GGTATCGATATATTTTCTAA
Found at i:4791820 original size:29 final size:29
Alignment explanation
Indices: 4791788--4791876 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
4791778 TTGATTTAAT
4791788 GTGCAATTATATACATGAACTTTAATTTG
1 GTGCAATTATATACATGAACTTTAATTTG
* * * *
4791817 GTGCAATTATACACGTAAATTTCTAATTGTG
1 GTGCAATTATATACATGAACTT-TAATT-TG
* *
4791848 GTTCACA-TGTATACATGAAACTTTAATTT
1 GTGCA-ATTATATACATG-AACTTTAATTT
4791877 TGATGTGATC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
29 18 0.39
30 6 0.13
31 17 0.37
32 5 0.11
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (29 bp):
GTGCAATTATATACATGAACTTTAATTTG
Found at i:4792236 original size:41 final size:41
Alignment explanation
Indices: 4792177--4792558 Score: 324
Period size: 41 Copynumber: 9.3 Consensus size: 41
4792167 CTATTGCATA
* * * *
4792177 ACCTTTAGCAGCGTTTTTCCTATAAATGTCGCTAATGCTCTT
1 ACCTTTAGCGGCG-TTTTCCTATAAACGCCGCTAATGCTCTG
*
4792219 ACCTTTAGCGGCGTTTT-CTCATAAACGCCACTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTG
*
4792260 ACCTTTAGCGGCGTTTT-CTCATAAACACCGCTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTG
* * * * * * *
4792301 ACATTTAGCAGCTTTTTCCCACAAATGCCACTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTG
* * * *
4792342 ACCTCTAACGGCATTTT-TTGATAAACGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTG
* * *
4792383 ACCTTTAGCGACGTTTTCCCACAAACGCCGCTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTG
* * * * ** * * *
4792424 ACCTTTAGTGTCGTTTTCCCACAAAAACTGATAATGCACTG
1 ACCTTTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTG
** * * **
4792465 ACCTTTAG-TACTGTTTTCCCACAAAAACCGCTAATGCTCTG
1 ACCTTTAGCGGC-GTTTTCCTATAAACGCCGCTAATGCTCTG
** *
4792506 ACCTTTAGTAGCGTTTT-CTCATAAACGTCGCTAATGCTCTG
1 ACCTTTAGCGGCGTTTTCCT-ATAAACGCCGCTAATGCTCTG
*
4792547 ACCTTTAACGGC
1 ACCTTTAGCGGC
4792559 TCTAAAAGTG
Statistics
Matches: 279, Mismatches: 54, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
40 4 0.01
41 261 0.94
42 14 0.05
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (41 bp):
ACCTTTAGCGGCGTTTTCCTATAAACGCCGCTAATGCTCTG
Found at i:4792284 original size:82 final size:82
Alignment explanation
Indices: 4792177--4792558 Score: 399
Period size: 82 Copynumber: 4.6 Consensus size: 82
4792167 CTATTGCATA
* * * * * *
4792177 ACCTTTAGCAGCGTTTT-TCCTATAAATGTCGCTAATGCTCTTACCTTTAGCGGCGTTTTCTCAT
1 ACCTTTAGCGGCGTTTTCT-C-ATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCCCAC
4792241 AAACGCCACTAATGCTCTG
64 AAACGCCACTAATGCTCTG
* * * *
4792260 ACCTTTAGCGGCGTTTTCTCATAAACACCGCTAATGCTCTGACATTTAGCAGCTTTTTCCCACAA
1 ACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCCCACAA
*
4792325 ATGCCACTAATGCTCTG
66 ACGCCACTAATGCTCTG
* * * * * *
4792342 ACCTCTAACGGCATTTTTTGATAAACGCCGCTAATGCTCTGACCTTTAGCGACGTTTTCCCACAA
1 ACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCCCACAA
*
4792407 ACGCCGCTAATGCTCTG
66 ACGCCACTAATGCTCTG
* * * * ** * * * **
4792424 ACCTTTAGTGTCGTTTTCCCACAAAAACTGATAATGCACTGACCTTTAG-TACTGTTTTCCCACA
1 ACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGC-GTTTTCCCACA
** *
4792488 AAAACCGCTAATGCTCTG
65 AACGCCACTAATGCTCTG
** * *
4792506 ACCTTTAGTAGCGTTTTCTCATAAACGTCGCTAATGCTCTGACCTTTAACGGC
1 ACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGC
4792559 TCTAAAAGTG
Statistics
Matches: 243, Mismatches: 53, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
81 2 0.01
82 222 0.91
83 18 0.07
84 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (82 bp):
ACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCCCACAA
ACGCCACTAATGCTCTG
Found at i:4792366 original size:123 final size:122
Alignment explanation
Indices: 4792177--4792553 Score: 409
Period size: 123 Copynumber: 3.1 Consensus size: 122
4792167 CTATTGCATA
* * * * * *
4792177 ACCTTTAGCAGCGTTTTTCCTATAAATGTCGCTAATGCTCTTACCTTTAGCGGCGTTTTCTCATA
1 ACCTTTAGCAGC-TTTTTCCCACAAATGCCACTAATGCTCTGACCTTTAACGGC-TTTTCTCATA
* *
4792242 AACGCCACTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACACCGCTAATGCTCTG
64 AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTG
* * * *
4792301 ACATTTAGCAGCTTTTTCCCACAAATGCCACTAATGCTCTGACCTCTAACGGCATTTTTTGATAA
1 ACCTTTAGCAGCTTTTTCCCACAAATGCCACTAATGCTCTGACCTTTAACGGC-TTTTCTCATAA
* * *
4792366 ACGCCGCTAATGCTCTGACCTTTAGCGACGTTTTCCCACAAACGCCGCTAATGCTCTG
65 ACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTG
* * ** * * * *
4792424 ACCTTTAG-TGTCGTTTTCCCACAAAAACTGA-TAATGCACTGACCTTTAGTACTG-TTTTCCCA
1 ACCTTTAGCAG-CTTTTTCCCACAAATGC-CACTAATGCTCTGACCTTTA--ACGGCTTTTCTCA
* ** ** *
4792486 CAAAAACCGCTAATGCTCTGACCTTTAGTAGCGTTTTCTCATAAACGTCGCTAATGCTCTG
62 TAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTG
4792547 ACCTTTA
1 ACCTTTA
4792554 ACGGCTCTAA
Statistics
Matches: 212, Mismatches: 37, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
122 1 0.00
123 196 0.92
124 12 0.06
125 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (122 bp):
ACCTTTAGCAGCTTTTTCCCACAAATGCCACTAATGCTCTGACCTTTAACGGCTTTTCTCATAAA
CGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACGCCGCTAATGCTCTG
Found at i:4793996 original size:41 final size:41
Alignment explanation
Indices: 4793946--4794069 Score: 131
Period size: 41 Copynumber: 3.0 Consensus size: 41
4793936 AAAAAATTAG
* * *
4793946 AGGTTAAGCAATAGCGACGTTTATGGGAAAAATATCGCTAA
1 AGGTCAAGCAATAGCGACGTTTATGAGAAAAATACCGCTAA
* * * *
4793987 AGGTCAAGCAATAGTGACGTTTATGAGAGAAATGCCGTTAA
1 AGGTCAAGCAATAGCGACGTTTATGAGAAAAATACCGCTAA
* * ** **
4794028 AGGTCAAGCAATAGCAATGTTTATTTGAAAAACGCCGCTAA
1 AGGTCAAGCAATAGCGACGTTTATGAGAAAAATACCGCTAA
4794069 A
1 A
4794070 AATAAAGAAC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (41 bp):
AGGTCAAGCAATAGCGACGTTTATGAGAAAAATACCGCTAA
Found at i:4796626 original size:26 final size:26
Alignment explanation
Indices: 4796569--4796626 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
4796559 TTCACATGTA
*
4796569 ATATATTTAATTATTAAAAATAACCC
1 ATATATTTAATTATTAAAAATAACAC
* **
4796595 AAATATTTAATTATTTAAATCTAA-AC
1 ATATATTTAATTA-TTAAAAATAACAC
4796621 ATATAT
1 ATATAT
4796627 CAACTATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (26 bp):
ATATATTTAATTATTAAAAATAACAC
Found at i:4796875 original size:6 final size:6
Alignment explanation
Indices: 4796864--4796890 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4796854 CTAGATGATA
4796864 AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA
4796891 CATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:4799661 original size:11 final size:10
Alignment explanation
Indices: 4799639--4799672 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4799629 ATAATATATA
*
4799639 TTTCATTTTT
1 TTTCTTTTTT
4799649 TTTCTTCTTTT
1 TTTCTT-TTTT
4799660 TTTCTTTTTT
1 TTTCTTTTTT
4799670 TTT
1 TTT
4799673 ATAAGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:4800272 original size:17 final size:17
Alignment explanation
Indices: 4800252--4800295 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4800242 GAATGCACTA
*
4800252 ACAAATAAAATGCAGTG
1 ACAAATAAAATGCAATG
*
4800269 ACAATTAAAAATGCAATG
1 ACAAAT-AAAATGCAATG
*
4800287 ACAACTAAA
1 ACAAATAAA
4800296 TAAAATGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.18
Consensus pattern (17 bp):
ACAAATAAAATGCAATG
Found at i:4800281 original size:18 final size:18
Alignment explanation
Indices: 4800258--4800295 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4800248 ACTAACAAAT
* *
4800258 AAAATGCAGTGACAATTA
1 AAAATGCAATGACAACTA
4800276 AAAATGCAATGACAACTA
1 AAAATGCAATGACAACTA
4800294 AA
1 AA
4800296 TAAAATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.18
Consensus pattern (18 bp):
AAAATGCAATGACAACTA
Found at i:4807937 original size:104 final size:104
Alignment explanation
Indices: 4807637--4807925 Score: 244
Period size: 108 Copynumber: 2.7 Consensus size: 104
4807627 TTTAAACGAA
* * * ** ** * *
4807637 ATATTCGATTACTTAGGTTCAAGGCAAAATCATACCCAACATATTA-AGGCACAATTTTTTGAGT
1 ATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGA-GCACAATTCCTCGACT
* * * *
4807701 TCCCTAAAAT-ACAGAATATTGAGCATTAATTGGTTCCT-AATAGG
65 TCCCTAAAATAAAAGAACATT--GCCTCAATT--TT--TGAATAGG
* * * *
4807745 ATATTTAATTATTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGGGCACACTTCCTCGACTT
1 ATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
4807810 CCCTAAAATAAAAGAACATTGCCTCAATTTTTGAATAGG
66 CCCTAAAATAAAAGAACATTGCCTCAATTTTTGAATAGG
* * * ** * ** *
4807849 GTATTCAATTACTTAGGTTCGAAGAAAAAATCGTACCCAGTACGTTTGAGCACAATTTTTCGAGT
1 ATATTCAATTACTTAGGTTCAAAG-AAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACT
4807914 TCCCT-AAATAAA
65 TCCCTAAAATAAA
4807926 GAAATATTGC
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
103 1 0.01
104 33 0.22
105 38 0.26
107 7 0.05
108 60 0.41
109 8 0.05
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (104 bp):
ATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTCCTCGACTT
CCCTAAAATAAAAGAACATTGCCTCAATTTTTGAATAGG
Found at i:4808482 original size:59 final size:58
Alignment explanation
Indices: 4808299--4808513 Score: 202
Period size: 59 Copynumber: 3.7 Consensus size: 58
4808289 ATCAAAAATG
* * *
4808299 AAATTTTAGAAAGTTT-GGGGGTAAATTCA-AATTTTTA-AGAAGTTTGAGGGTTAAATCT
1 AAATTTTGGAAAGTTTAGGGGTTAAA-ACATAATTTTTAGA-AAGTTT-AGGGTTAAATCT
* * * * * * * *
4808357 AAATATTGGAAAGTTAAGAGGTTAAAACTTAATTATTAGAAAGTTTGGGGTCAAAACAT
1 AAATTTTGGAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAGTTTAGGGTTAAATC-T
* * **
4808416 AATTTTTGGAAAGTTTAGGGGTCAAGTCATAATTTTTAGAAAGTTTAAGGGTTAAATCT
1 AAATTTTGGAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAGTTT-AGGGTTAAATCT
* *
4808475 AAATTTTGTGATAGTTTGGGGGTTAAAACATAATTTTTA
1 AAATTTTG-GAAAGTTTAGGGGTTAAAACATAATTTTTA
4808514 AATAAAATAG
Statistics
Matches: 122, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
58 22 0.18
59 66 0.54
60 34 0.28
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.37
Consensus pattern (58 bp):
AAATTTTGGAAAGTTTAGGGGTTAAAACATAATTTTTAGAAAGTTTAGGGTTAAATCT
Found at i:4808510 original size:30 final size:30
Alignment explanation
Indices: 4808302--4808513 Score: 152
Period size: 30 Copynumber: 7.2 Consensus size: 30
4808292 AAAAATGAAA
* *
4808302 TTTTAGAAAGTTT-GGGGGTAAATTCA-AAT
1 TTTTAGAAAGTTTAGGGGTTAAA-ACATAAT
* *
4808331 TTTTA-AGAAGTTT-GAGGGTTAAATC-TAAA
1 TTTTAGA-AAGTTTAG-GGGTTAAAACATAAT
* * * * *
4808360 TATTGGAAAGTTAAGAGGTTAAAACTTAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACATAAT
* *
4808390 TATTAGAAAGTTT-GGGGTCAAAACATAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACATAAT
* * **
4808419 TTTTGGAAAGTTTAGGGGTCAAGTCATAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACATAAT
* *
4808449 TTTTAGAAAGTTTAAGGGTTAAATC-TAAAT
1 TTTTAGAAAGTTTAGGGGTTAAAACAT-AAT
* *
4808479 TTTGT-GATAGTTTGGGGGTTAAAACATAAT
1 TTT-TAGAAAGTTTAGGGGTTAAAACATAAT
4808509 TTTTA
1 TTTTA
4808514 AATAAAATAG
Statistics
Matches: 147, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.01
29 58 0.39
30 86 0.59
31 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGGTTAAAACATAAT
Found at i:4811242 original size:52 final size:52
Alignment explanation
Indices: 4811164--4811455 Score: 433
Period size: 52 Copynumber: 5.6 Consensus size: 52
4811154 GTAAATACAA
* * * *
4811164 AAGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTAAGCATTGT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * *
4811216 AAGGTTCGATGACTATGTGTCATCGTGACTATATGAATCATTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * *
4811268 AAGGTCCGATAACTATGTGTCATCATGAGTATATGAATCCTATACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
*
4811320 AAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
4811372 AAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
4811424 GAGGTCCGATGA-TAATGTGTCATCATGAGTAT
1 AAGGTCCGATGACT-ATGTGTCATCGTGAGTAT
4811456 TAAATGAGAA
Statistics
Matches: 216, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
51 1 0.00
52 215 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:4812240 original size:21 final size:21
Alignment explanation
Indices: 4812216--4812266 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4812206 ATGATTTGTT
* * *
4812216 TCGGTAGAAGTTTCATTGGTA
1 TCGGTAGAACTATCATAGGTA
4812237 TCGGTAGAACTATCATAGGTA
1 TCGGTAGAACTATCATAGGTA
*
4812258 TCAGTAGAA
1 TCGGTAGAA
4812267 TTCTACACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGGTAGAACTATCATAGGTA
Found at i:4814962 original size:52 final size:52
Alignment explanation
Indices: 4814892--4815123 Score: 351
Period size: 52 Copynumber: 4.5 Consensus size: 52
4814882 AAAAGGTTCG
4814892 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTA-AGCATTATAAGGTCCA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAG-ATTATAAGGTCCA
*
4814944 ATGAATATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGT-CA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGTCCA
* *
4814995 TATGACTATGTGTCATCGTGAGTATATGAATCATTTACAGATTATAAGGTCCG
1 -ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGTCCA
* * * *
4815048 ATGACTATGTGTTATCGTGAGTATATGAATCCTTTTCGGATTATGAGGTCCA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGTCCA
* *
4815100 ATGACAAAGTGTCATCGTGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
4815124 TAAATGAGAA
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
51 2 0.01
52 159 0.97
53 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (52 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAAGGTCCA
Found at i:4815914 original size:21 final size:21
Alignment explanation
Indices: 4815866--4815919 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
4815856 GGAGTTTTTA
* * *
4815866 GTATCGGTAGAAGCATGATTT
1 GTATCGGTAGAAGCATCACTG
* *
4815887 GTTTCGGTAGAAGCTTCACTG
1 GTATCGGTAGAAGCATCACTG
4815908 GTATCGGTAGAA
1 GTATCGGTAGAA
4815920 CTGTCGTAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATCACTG
Found at i:4820691 original size:40 final size:40
Alignment explanation
Indices: 4820619--4820718 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
4820609 AAAATGCCGT
** *
4820619 AAAAGGTAAAGCAATAGCGGCGTTTTTACATAAACACCGC
1 AAAAGGTAAAGCAATAGCAACGTTTTTACATAAACACCAC
* **
4820659 AAAAGGTAAAGCAATAGCAACGCTTTTT-CATAAGCTTCAC
1 AAAAGGTAAAGCAATAGCAACG-TTTTTACATAAACACCAC
*
4820699 TAAAGGTCAAAGCAATAGCA
1 AAAAGGT-AAAGCAATAGCA
4820719 GAAGTGTCGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 34 0.67
41 17 0.33
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (40 bp):
AAAAGGTAAAGCAATAGCAACGTTTTTACATAAACACCAC
Found at i:4820895 original size:41 final size:41
Alignment explanation
Indices: 4820726--4820887 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
4820716 GCAGAAGTGT
* *
4820726 CGCTAAAGGTCAGAGCAATAGCGGCACTTATGGACAAGGGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGACAAGCGC
* *
4820767 CGCTAAAGGTGAGAGCAATAGCGGTGCTTATGGACAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGACAAGCGC
*
4820808 CGCTAAAGGTCAGAGCAATAGCGGTGCTTATGGGA-AAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GGACAAGCGC
* * *
4820849 CGCTAAAAGTCAGAGCAATAGCGGCGCTTAGGGGCAAGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGACAAGC
4820888 ACAGCTAATT
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
40 2 0.02
41 105 0.95
42 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.15
Consensus pattern (41 bp):
CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGACAAGCGC
Found at i:4825455 original size:43 final size:42
Alignment explanation
Indices: 4825407--4825688 Score: 368
Period size: 43 Copynumber: 6.6 Consensus size: 42
4825397 GGAAAAATGT
* * *
4825407 CGCTAAAAACCATGTTCTTTAGCGGCATTTGAGGTATAAGCGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGG-ATAAGCGC
* * *
4825450 CGCTAAAGA-CATTATTCTTTAGCGGCGTTTATGGGATAAGCTC
1 CGCTAAAGACCA-TGTTCTTTAGCGGCGTTTGT-GGATAAGCGC
* * * *
4825493 CGCTAAAGACAAGGTTCTTTAGCGGCGTTTGTGGGAAAAGCGT
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGT-GGATAAGCGC
4825536 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGATAAGCGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTG-GATAAGCGC
* *
4825579 CGCTAAAGACCATGTTCCTTAGCGGCGTTTGTGAGATAACCGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTG-GATAAGCGC
* * *
4825622 CACTAAAGACCATGTTCTTTAGCGGCGTTTTTGGGTAAGCGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGATAAGCGC
4825664 CGCTAAAGACCATGTTCTTTAGCGG
1 CGCTAAAGACCATGTTCTTTAGCGG
4825689 TGGTTTTCCA
Statistics
Matches: 210, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 34 0.16
43 173 0.82
44 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (42 bp):
CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGATAAGCGC
Found at i:4825617 original size:129 final size:129
Alignment explanation
Indices: 4825387--4825688 Score: 412
Period size: 129 Copynumber: 2.3 Consensus size: 129
4825377 TAATGTTACT
** *
4825387 GGCGTTTGTGGGAAAAATGTCGCTAAAAACCATGTTCTTTAGCGGCATTTGAGGTATAAGCGCCG
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCATTTGAGGTATAAGCGCCG
* * * * *
4825452 CTAAAGACATTATTCTTTAGCGGCGTTTATGGGATAAGCTCCGCTAAAGACAAGGTTCTTTAGC
66 CTAAAGACATTATTCCTTAGCGGCGTTTATGAGATAACCGCCACTAAAGACAAGGTTCTTTAGC
* *
4825516 GGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAG-ATAAGCGCC
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCATTTGAG-GTATAAGCGCC
* * * *
4825580 GCTAAAGACCA-TGTTCCTTAGCGGCGTTTGTGAGATAACCGCCACTAAAGACCATGTTCTTTAG
65 GCTAAAGA-CATTATTCCTTAGCGGCGTTTATGAGATAACCGCCACTAAAGACAAGGTTCTTTAG
4825644 C
129 C
* * *
4825645 GGCGTTTTTGGG-TAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
1 GGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGG
4825689 TGGTTTTCCA
Statistics
Matches: 154, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
128 30 0.19
129 121 0.79
130 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (129 bp):
GGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCATTTGAGGTATAAGCGCCG
CTAAAGACATTATTCCTTAGCGGCGTTTATGAGATAACCGCCACTAAAGACAAGGTTCTTTAGC
Found at i:4838273 original size:11 final size:10
Alignment explanation
Indices: 4838257--4838324 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
4838247 CTCTTATAAC
*
4838257 TTTTTTTCCT
1 TTTTTTTTCT
4838267 TTTTTTTTCT
1 TTTTTTTTCT
* *
4838277 TCTTCTTTCGT
1 TTTTTTTTC-T
4838288 TTTTCTTTTCT
1 TTTT-TTTTCT
*
4838299 TTTCTTATT-T
1 TTT-TTTTTCT
*
4838309 TTATTTTTCT
1 TTTTTTTTCT
4838319 TTTTTT
1 TTTTTT
4838325 AGGGCTGCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
9 4 0.09
10 25 0.56
11 11 0.24
12 5 0.11
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:4838285 original size:21 final size:21
Alignment explanation
Indices: 4838256--4838304 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4838246 CCTCTTATAA
4838256 CTTTT-TTTCCTTTTT-TTTT
1 CTTTTCTTTCCTTTTTCTTTT
*
4838275 CTTCTTCTTTCGTTTTTCTTTT
1 CTT-TTCTTTCCTTTTTCTTTT
4838297 CTTTTCTT
1 CTTTTCTT
4838305 ATTTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 14 0.54
22 7 0.27
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (21 bp):
CTTTTCTTTCCTTTTTCTTTT
Found at i:4838310 original size:20 final size:19
Alignment explanation
Indices: 4838256--4838321 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
4838246 CCTCTTATAA
4838256 CTTTT-TTTCCTTTTTTTTT
1 CTTTTCTTT-CTTTTTTTTT
4838275 CTTCTTCTTTCGTTTTTCTTTT
1 CTT-TTCTTTC-TTTTT-TTTT
4838297 CTTTTCTTAT-TTTTATTTTT
1 CTTTTCTT-TCTTTT-TTTTT
4838317 CTTTT
1 CTTTT
4838322 TTTAGGGCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.07
20 16 0.39
21 14 0.34
22 8 0.20
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
CTTTTCTTTCTTTTTTTTT
Found at i:4838323 original size:27 final size:27
Alignment explanation
Indices: 4838259--4838324 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
4838249 CTTATAACTT
* *
4838259 TTTTTCCTTTTTTTTTCTTCTTCTTTCG
1 TTTTT-CTTTTTTTTTCTTATTCTTTCA
*
4838287 TTTTTCTTTTCTTTTCTTATT-TTT-A
1 TTTTTCTTTTTTTTTCTTATTCTTTCA
4838312 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
4838325 AGGGCTGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.35
26 3 0.09
27 14 0.41
28 5 0.15
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTTTCTTTTTTTTTCTTATTCTTTCA
Found at i:4838435 original size:28 final size:28
Alignment explanation
Indices: 4838389--4838448 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
4838379 ATTTTCTCAC
*
4838389 ATTTTTTCACCATCTAATCACCA-CGAAA
1 ATTTTTTCACCATCCAATCACCATC-AAA
**
4838417 ATTTTTTCACTGTCCAATCACCATCAAA
1 ATTTTTTCACCATCCAATCACCATCAAA
4838445 ATTT
1 ATTT
4838449 CTTCTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (28 bp):
ATTTTTTCACCATCCAATCACCATCAAA
Found at i:4844206 original size:116 final size:116
Alignment explanation
Indices: 4844052--4844303 Score: 369
Period size: 116 Copynumber: 2.2 Consensus size: 116
4844042 CTACTCTGCA
* * * *
4844052 ACTTGTACCGATACAAGTATTTAAACTAGCAATACCTCAATGTACAGAACTACCGATACCTGTTA
1 ACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATATACAGAACTACCGATACCTGTTA
* * * *
4844117 TACAACTACTGAAACGACTCAAGTCAAAGAACAACCTCTCTTCTACCCTGT
66 TACAACTACCGAAACAACTCAAGTCAAAGAACAACCTCTCTCCTACCCTAT
** **
4844168 ACTTCTACCGATACAAGCATTTAAACTAATGATACCTCAATATACAGAACTATTGATACCTGTTA
1 ACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATATACAGAACTACCGATACCTGTTA
* * *
4844233 TACAACTACCGAAACAACTTATGTCAGAGAACAACCTCTCTCCTACCCTAT
66 TACAACTACCGAAACAACTCAAGTCAAAGAACAACCTCTCTCCTACCCTAT
4844284 ACTTCTACCGATACAAGCAT
1 ACTTCTACCGATACAAGCAT
4844304 GAGTTCTACC
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
116 121 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (116 bp):
ACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATATACAGAACTACCGATACCTGTTA
TACAACTACCGAAACAACTCAAGTCAAAGAACAACCTCTCTCCTACCCTAT
Found at i:4844876 original size:36 final size:35
Alignment explanation
Indices: 4844794--4844894 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 35
4844784 TCATTATTCG
**
4844794 TTTTACTCCCTATTGACCCCAAAGGTCATGATGCTGG
1 TTTTACTCCCT-TTGA-CCCAAAGGTCATGATGCTCA
* * *
4844831 TTCTACTCCCTGTTGACCCAAATGTCATTATGCTCA
1 TTTTACTCCCT-TTGACCCAAAGGTCATGATGCTCA
* *
4844867 TTTTTCTCCCATTTGGCCCAAAGGTCAT
1 TTTTACTCCC-TTTGACCCAAAGGTCAT
4844895 ACCTGTTACC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 38 0.72
37 15 0.28
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.36
Consensus pattern (35 bp):
TTTTACTCCCTTTGACCCAAAGGTCATGATGCTCA
Found at i:4845815 original size:20 final size:20
Alignment explanation
Indices: 4845792--4845837 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
4845782 TACTAAAAAT
4845792 AATCAAGGTTTACTCACCTA
1 AATCAAGGTTTACTCACCTA
4845812 AATCAAGGTTTACTCACCTA
1 AATCAAGGTTTACTCACCTA
4845832 AATCAA
1 AATCAA
4845838 AGCTCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (20 bp):
AATCAAGGTTTACTCACCTA
Found at i:4848724 original size:14 final size:15
Alignment explanation
Indices: 4848707--4848743 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
4848697 GAAAATTGGA
4848707 AAAAAAAGGAAA-AG
1 AAAAAAAGGAAATAG
4848721 AAAAAAA-GAAATAG
1 AAAAAAAGGAAATAG
4848735 AAAAAAAGG
1 AAAAAAAGG
4848744 TATAAAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 16 0.76
15 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAAAAGGAAATAG
Found at i:4857382 original size:6 final size:6
Alignment explanation
Indices: 4857348--4857390 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
4857338 TTTGTGATCA
* * * *
4857348 AAATTG AAAGTG AAAGTG AAAATG AAATTG GAATTG AAATTG A
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG A
4857391 TATGAATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (6 bp):
AAATTG
Found at i:4857538 original size:41 final size:40
Alignment explanation
Indices: 4857492--4857592 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 40
4857482 TCGACCTTCA
**
4857492 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGA-TAG
1 GTCGATGAGACACTGGGTGTCACCATTTTACTTC-GACTAG
* **
4857532 ATTCGATGAGGTACT-GG-GT-ACCATTTTACTTCGACTAG
1 -GTCGATGAGACACTGGGTGTCACCATTTTACTTCGACTAG
*
4857570 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
4857593 TTTATTGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
37 12 0.26
38 16 0.34
39 4 0.09
40 4 0.09
41 11 0.23
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCATTTTACTTCGACTAG
Found at i:4859145 original size:20 final size:21
Alignment explanation
Indices: 4859108--4859146 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4859098 TCAACAACAA
4859108 AAAAATCAAAAAATATCAACT
1 AAAAATCAAAAAATATCAACT
4859129 AAAAAT-AATAAAA-ATCAA
1 AAAAATCAA-AAAATATCAA
4859147 ATTTTGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAATCAAAAAATATCAACT
Found at i:4859795 original size:128 final size:127
Alignment explanation
Indices: 4859608--4859855 Score: 372
Period size: 128 Copynumber: 1.9 Consensus size: 127
4859598 TAGTCAAACT
* * *
4859608 TAAAAAATTTGAGTGACGAACCGAAACTTGTAACACTCTGCTAACCGAGTTGCCTTGAGAAATAA
1 TAAAAAATTTAAGTGACAAACCGAAACTTGTAACACTCTGCTAACCGAGCTGCCTTGAGAAATAA
*
4859673 ACTTGGGACATGTCAAATTGAGTAACCGGGATGAGGTGATTGGGTTATCATCTCATCTCACG
66 ACTTGGGACATGTCAAATTGAGTAACCGAGATGAGGTGATTGGGTTATCATCTCATCTCACG
* * * *
4859735 TAAAAAGATTTAAGTGATAAACCGAAACTTGTAACA-TTTCGTTAACTGAGCTGCCTTGAGAAAT
1 TAAAAA-ATTTAAGTGACAAACCGAAACTTGTAACACTCT-GCTAACCGAGCTGCCTTGAGAAAT
* * *
4859799 AAACTTGGGACATGTCAAATTGAGTAACCGAGTTGAGGTGCTTGGGTTGTCATCTCA
64 AAACTTGGGACATGTCAAATTGAGTAACCGAGATGAGGTGATTGGGTTATCATCTCA
4859856 ATTCGCATAA
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 8 0.07
128 100 0.93
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (127 bp):
TAAAAAATTTAAGTGACAAACCGAAACTTGTAACACTCTGCTAACCGAGCTGCCTTGAGAAATAA
ACTTGGGACATGTCAAATTGAGTAACCGAGATGAGGTGATTGGGTTATCATCTCATCTCACG
Found at i:4865044 original size:13 final size:13
Alignment explanation
Indices: 4865022--4865084 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
4865012 TTTAACATTG
4865022 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
4865035 CTTTTAAAAAGT-
1 CTTTTGAAAAGTA
*
4865047 GTTTTGAAAAAGTGA
1 CTTTTG-AAAAGT-A
4865062 -TTTTGAAAAGTA
1 CTTTTGAAAAGTA
4865074 CTTTTGAAAAG
1 CTTTTGAAAAG
4865085 CTTGGTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
12 5 0.12
13 33 0.77
14 5 0.12
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:4865265 original size:16 final size:14
Alignment explanation
Indices: 4865238--4865273 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4865228 GAATATAGAA
*
4865238 AATAATTTATTATT
1 AATATTTTATTATT
4865252 -ATATTTTATTATT
1 AATATTTTATTATT
4865265 AATATTTTA
1 AATATTTTA
4865274 ATATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATATTTTATTATT
Found at i:4871985 original size:2 final size:2
Alignment explanation
Indices: 4871978--4872007 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4871968 TGTACATGGG
4871978 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4872008 AAAATAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4873835 original size:17 final size:15
Alignment explanation
Indices: 4873796--4873839 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
4873786 TGAATTGATG
4873796 AATTTTAAAATATTA
1 AATTTTAAAATATTA
*
4873811 ACATTTTAAAACTTTTTA
1 A-ATTTTAAAA--TATTA
4873829 AATTTTAAAAT
1 AATTTTAAAAT
4873840 TTCTCATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 9 0.36
18 5 0.20
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTTAAAATATTA
Found at i:4879642 original size:24 final size:24
Alignment explanation
Indices: 4879593--4879647 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4879583 TAAAGTAGGT
* *
4879593 TATA-TATTATTTTTCTAATATTA
1 TATATTATGATTTTTCTAATATCA
4879616 TATATTATGATTTTTACTAAT-TCA
1 TATATTATGATTTTT-CTAATATCA
*
4879640 TATTTTAT
1 TATATTAT
4879648 TAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 18 0.67
25 5 0.19
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATTATGATTTTTCTAATATCA
Found at i:4879766 original size:58 final size:57
Alignment explanation
Indices: 4879620--4879785 Score: 183
Period size: 58 Copynumber: 2.9 Consensus size: 57
4879610 ATATTATATA
* * * * *
4879620 TTATGATTTTTACT-AATTCATATTTTATTAATAATTATATTAAAAATATTATTAATTAT
1 TTATTATTTTTATTAAATT-ATA-TTTAATAATAATCATATT-AAAATATAATTAATTAT
* * *
4879679 ATATTA-TTTTATTAAATTGTATTTAATAATAATCATGTTAAAATATAATTAAGTTAT
1 TTATTATTTTTATTAAATTATATTTAATAATAATCATATTAAAATATAATTAA-TTAT
* * *
4879736 TTATTATTTTTATTAAATTATATTTCATAATAATCTTATTAAAATTTAAT
1 TTATTATTTTTATTAAATTATATTTAATAATAATCATATTAAAATATAAT
4879786 AACAATAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
56 12 0.13
57 24 0.27
58 46 0.51
59 8 0.09
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (57 bp):
TTATTATTTTTATTAAATTATATTTAATAATAATCATATTAAAATATAATTAATTAT
Found at i:4879961 original size:16 final size:16
Alignment explanation
Indices: 4879940--4879979 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4879930 TGAATTACTG
4879940 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
4879956 ATTACAGCTCTATTCT
1 ATTACAGCCCTATTCC
4879972 ATTACAGC
1 ATTACAGC
4879980 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:4880021 original size:3 final size:3
Alignment explanation
Indices: 4880013--4880040 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4880003 TGTTATATCC
4880013 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4880041 TGGTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4888894 original size:13 final size:14
Alignment explanation
Indices: 4888876--4888904 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4888866 AAATTGATAC
4888876 TAACATAAA-ATTT
1 TAACATAAATATTT
4888889 TAACATAAATATTT
1 TAACATAAATATTT
4888903 TA
1 TA
4888905 TGATATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TAACATAAATATTT
Found at i:4888941 original size:19 final size:19
Alignment explanation
Indices: 4888884--4888944 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
4888874 ACTAACATAA
*
4888884 AATTTTAACATAAATATTT
1 AATTTTAATATAAATATTT
* *
4888903 TATGATATAAT-T-AATAATTT
1 AAT--TTTAATATAAAT-ATTT
4888923 AATTTTAATATAAATATTT
1 AATTTTAATATAAATATTT
4888942 AAT
1 AAT
4888945 ATAATTAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
18 5 0.16
19 13 0.41
20 10 0.31
21 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTTTAATATAAATATTT
Found at i:4889154 original size:30 final size:30
Alignment explanation
Indices: 4889120--4889199 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
4889110 AAAGTTTTGG
4889120 GAGTAAAATTTTGAGAGAAAGTAAATAGGA
1 GAGTAAAATTTTGAGAGAAAGTAAATAGGA
*
4889150 GAGTAAAATTTTAAGAGAAAGTAAATAGGA
1 GAGTAAAATTTTGAGAGAAAGTAAATAGGA
* *
4889180 AAGTAAAATTTTGAAAGAAA
1 GAGTAAAATTTTGAGAGAAA
4889200 AGTATTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.24
Consensus pattern (30 bp):
GAGTAAAATTTTGAGAGAAAGTAAATAGGA
Found at i:4890437 original size:72 final size:72
Alignment explanation
Indices: 4890320--4890458 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
4890310 TGTGACAAGG
* * * *
4890320 AAAAATGGTCGTTGGGACGAGGACTTTGTTTTTGATAAAATTTGAGCCCTTTGGTACCTATTTCA
1 AAAAATGATCGTCGGGACGAGGACTTTGTTTTTGATAAAATTTGAGCCATTTAGTACCTATTTCA
4890385 AACGAGA
66 AACGAGA
4890392 AAAAATGATCGTCGGGACGAGGACTTTGTTTTTGATAAAATTTGAGCCATTTAGTACCTATTTCA
1 AAAAATGATCGTCGGGACGAGGACTTTGTTTTTGATAAAATTTGAGCCATTTAGTACCTATTTCA
4890457 AA
66 AA
4890459 GCTTTCAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (72 bp):
AAAAATGATCGTCGGGACGAGGACTTTGTTTTTGATAAAATTTGAGCCATTTAGTACCTATTTCA
AACGAGA
Found at i:4900826 original size:2 final size:2
Alignment explanation
Indices: 4900821--4900846 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4900811 GAGATAAAAA
4900821 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4900847 CATCTCGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4903304 original size:31 final size:31
Alignment explanation
Indices: 4903261--4903319 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4903251 TATTTAACCC
* * *
4903261 TAATATTTATAAGTTTTTATAATTTTTATAA
1 TAATATTTATAAGTCTATATAAATTTTATAA
4903292 TAAT-TTTAATAAGTCTATATAAATTTTA
1 TAATATTT-ATAAGTCTATATAAATTTTA
4903320 ATTTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (31 bp):
TAATATTTATAAGTCTATATAAATTTTATAA
Found at i:4904367 original size:45 final size:45
Alignment explanation
Indices: 4903633--4904370 Score: 633
Period size: 45 Copynumber: 16.7 Consensus size: 45
4903623 CCATCAAGTG
* * * * * *
4903633 TTTTACTCCTAGTCCAGAGAGGCAGATTGAAGCAACCATCCGACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* * *
4903678 TTTTACCCCTAATCTAAAGGGGCA-AGTT-AATGCCATCATCCAACT
1 TTTTACCCCTAATCCAGAGGGGCAGA-TTGAA-GCCATCATCCAACC
*
4903723 TTTTACCCCTAATCCAGAGGGGCAGGTTGAAGCCATCATCCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* * * *
4903768 TTTTACCCTTAATCTAAAGGGGTA-AGTTGAAGCCAT--T-CAACC
1 TTTTACCCCTAATCCAGAGGGGCAGA-TTGAAGCCATCATCCAACC
* * *
4903810 TTTTACCCTTAATCTAGAGGGGCAGGTTGAAGCCATCATCCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* * * *
4903855 TTTTACCCCAAATCTAGAGGGGTA-AGTTGAAG---TCATTCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGA-TTGAAGCCATCATCCAACC
* *
4903897 TCTTACCCTTAATCCAGAGGGGCA-AGTTGAAGCCATCATCCAATCC
1 TTTTACCCCTAATCCAGAGGGGCAGA-TTGAAGCCATCATCCAA-CC
* * * * *
4903943 -TTTACCTCTAATCTAAAGGGGTA-AGTTGAAG---TCATTCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGA-TTGAAGCCATCATCCAACC
* * *
4903984 TTTTACCCTTAATCCAAAGGGGCAGGTTGAAGCCATCATCCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* * ** * *
4904029 TTTTACCCCTAATCCAGAAGGGCAGGTTGAAGTTA-CTATCAAATC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATC-ATCCAACC
* * *
4904074 TTTTACCCCTAATCCAGAAGGGCAGATTGAAGCCATCATTCAATC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* ** *
4904119 TTTTACCCTTAATCCAGAGGGATAGATTGAAG-CAGTCATCCAATC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCA-TCATCCAACC
* *
4904164 TTTTACCCCTAATCCAAAGGGGTAGATTGAAGCCATCATCCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
* * * * *
4904209 TTTTACCCTTAATCCAAATGGCCAGGTTGAAGCCA-CAATCCAACC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATC-ATCCAACC
* * * * * *
4904254 TTTTACCACTAATTCAGAGGGGCATG-TTGAAGTCACCATTCAATC
1 TTTTACCCCTAATCCAGAGGGGCA-GATTGAAGCCATCATCCAACC
** * * **
4904299 TTTTA---C-AATTTAGAAGGGCAGATTGAAGCCATGATCCAGTC
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
*
4904340 TTTTACCCCTAATCTAGAGGGGCAGATTGAA
1 TTTTACCCCTAATCCAGAGGGGCAGATTGAA
4904371 ATTACAACAC
Statistics
Matches: 573, Mismatches: 89, Indels: 62
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.00
41 33 0.06
42 106 0.18
43 1 0.00
44 9 0.02
45 414 0.72
46 9 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
TTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCATCATCCAACC
Found at i:4905873 original size:35 final size:33
Alignment explanation
Indices: 4905823--4905938 Score: 108
Period size: 34 Copynumber: 3.3 Consensus size: 33
4905813 TTGGGTCCTC
* *
4905823 TTTTATATT-TTATTTATTTATTTATTTTGCAGTA
1 TTTTA-ATTATTATTTATTTATTTAATTCGCA-TA
* *
4905857 TTTTATTTATTCATTTATTTATTTAATTCGTATA
1 TTTTAATTATT-ATTTATTTATTTAATTCGCATA
* *
4905891 TTTTAATTATTATTTTTTATTTGTTTAATTTGCATGA
1 TTTTAATTATTA---TTTATTTATTTAATTCGCAT-A
4905928 TTTTAATTATT
1 TTTTAATTATT
4905939 TTATCATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
33 3 0.04
34 19 0.28
35 17 0.25
36 17 0.25
37 12 0.18
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (33 bp):
TTTTAATTATTATTTATTTATTTAATTCGCATA
Found at i:4908188 original size:30 final size:30
Alignment explanation
Indices: 4908154--4908225 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
4908144 TGTTTAAGGC
* *
4908154 ATTAAAAATTTAGATTAAAAAATAATTTAG
1 ATTAAAAATGTAGACTAAAAAATAATTTAG
* * **
4908184 ATTAAAAGTGTATACTGTAAAATAATTTAG
1 ATTAAAAATGTAGACTAAAAAATAATTTAG
4908214 ATTAAAAATGTA
1 ATTAAAAATGTA
4908226 TAATGTAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.36
Consensus pattern (30 bp):
ATTAAAAATGTAGACTAAAAAATAATTTAG
Found at i:4908226 original size:30 final size:30
Alignment explanation
Indices: 4908172--4908233 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
4908162 TTTAGATTAA
* *
4908172 AAAATAATTTAGATTAAAAGTGTATACTGT
1 AAAATAATTTAGATTAAAAATGTATAATGT
4908202 AAAATAATTTAGATTAAAAATGTATAATGT
1 AAAATAATTTAGATTAAAAATGTATAATGT
4908232 AA
1 AA
4908234 CAATGTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (30 bp):
AAAATAATTTAGATTAAAAATGTATAATGT
Found at i:4908341 original size:22 final size:23
Alignment explanation
Indices: 4908307--4908349 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
4908297 ATTTAGATTT
*
4908307 AAAAATAATAG-TTAATAAAATGG
1 AAAAATAACAGTTTAA-AAAATGG
4908330 AAAAA-AACAGTTTAAAAAAT
1 AAAAATAACAGTTTAAAAAAT
4908350 TGCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAATAACAGTTTAAAAAATGG
Found at i:4908935 original size:48 final size:48
Alignment explanation
Indices: 4908864--4908974 Score: 177
Period size: 48 Copynumber: 2.3 Consensus size: 48
4908854 AATATTAACT
* *
4908864 TAGGTGAGGGTTTAGATAAGGGCAACATTGTCAACTGTAGCCCAAATA
1 TAGGTGAGGGTTTAGATAAGGGCAACACTGTCAACTGTAGACCAAATA
* *
4908912 TAGGTGAGGGTTTAGATAAGGGCAATACTGTCAATTGTAGACCAAATA
1 TAGGTGAGGGTTTAGATAAGGGCAACACTGTCAACTGTAGACCAAATA
*
4908960 TAGGAGAGGGTTTAG
1 TAGGTGAGGGTTTAG
4908975 GTTGAGATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (48 bp):
TAGGTGAGGGTTTAGATAAGGGCAACACTGTCAACTGTAGACCAAATA
Found at i:4913428 original size:11 final size:11
Alignment explanation
Indices: 4913412--4913447 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
4913402 GAGACAGGGG
4913412 GAAGGGAGAAA
1 GAAGGGAGAAA
4913423 GAAGGGAGAAA
1 GAAGGGAGAAA
*
4913434 GAAGGGAGAGA
1 GAAGGGAGAAA
4913445 GAA
1 GAA
4913448 TGGGTGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (11 bp):
GAAGGGAGAAA
Found at i:4914652 original size:28 final size:27
Alignment explanation
Indices: 4914607--4914661 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
4914597 TTTGTTTTCG
*
4914607 TTTTTCAAAATATAA-TTTGAAACATTT
1 TTTTTCAAAAAATAATTTTGAAA-ATTT
*
4914634 TTTTTCAAAAAAATGATTTTGAAAATTT
1 TTTTTC-AAAAAATAATTTTGAAAATTT
4914662 ATATTTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 11 0.46
29 7 0.29
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (27 bp):
TTTTTCAAAAAATAATTTTGAAAATTT
Found at i:4922543 original size:18 final size:19
Alignment explanation
Indices: 4922520--4922557 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4922510 ACCCTTATTG
*
4922520 AATTCCTTTT-TTTTTTTT
1 AATTCCTTTTATTGTTTTT
4922538 AATTCCTTTTATTGTTTTT
1 AATTCCTTTTATTGTTTTT
4922557 A
1 A
4922558 TTTTCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (19 bp):
AATTCCTTTTATTGTTTTT
Found at i:4925848 original size:24 final size:24
Alignment explanation
Indices: 4925821--4925876 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
4925811 ATCTTCGAGG
*
4925821 TAAACTCTGTTTGTTTGTTTCAAT
1 TAAACTCTGTTTATTTGTTTCAAT
*
4925845 TAAACTCTGTTTATTTGTTTCAGT
1 TAAACTCTGTTTATTTGTTTCAAT
4925869 TAAACTCT
1 TAAACTCT
4925877 TATTAGTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (24 bp):
TAAACTCTGTTTATTTGTTTCAAT
Found at i:4940126 original size:24 final size:23
Alignment explanation
Indices: 4940090--4940145 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
4940080 ATCTTCGAGT
4940090 TAAACTCTATTTATTTATTTCAA
1 TAAACTCTATTTATTTATTTCAA
* * *
4940113 CTAAACTTTGTTTATTTGTTTCAA
1 -TAAACTCTATTTATTTATTTCAA
4940137 TAAAACTCT
1 T-AAACTCT
4940146 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
TAAACTCTATTTATTTATTTCAA
Found at i:4941383 original size:34 final size:34
Alignment explanation
Indices: 4941336--4941404 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
4941326 ATAAGTTAAG
4941336 AAATGAATAAATCAGTATAAAACCAAAACAAAAC
1 AAATGAATAAATCAGTATAAAACCAAAACAAAAC
* * * *
4941370 AAATGAATCAATCATTATAAGACCAAAACACAAC
1 AAATGAATAAATCAGTATAAAACCAAAACAAAAC
4941404 A
1 A
4941405 TTTGTTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.61, C:0.17, G:0.06, T:0.16
Consensus pattern (34 bp):
AAATGAATAAATCAGTATAAAACCAAAACAAAAC
Found at i:4955415 original size:27 final size:28
Alignment explanation
Indices: 4955380--4955432 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
4955370 AAGAATTTAG
4955380 AGAATTTTTATATTATTT-TTTTGAAGA
1 AGAATTTTTATATTATTTATTTTGAAGA
4955407 AGAATTTTTATATTATTTATTTTGAA
1 AGAATTTTTATATTATTTATTTTGAA
4955433 AACAGTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (28 bp):
AGAATTTTTATATTATTTATTTTGAAGA
Found at i:4955834 original size:27 final size:28
Alignment explanation
Indices: 4955793--4955849 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
4955783 AATTAAATTT
* *
4955793 TTATAATTTTTAAAATATTAAAT-TAAA
1 TTATAATTTTAAAAAAATTAAATATAAA
*
4955820 TTATTATTTTAAAAAAATTAAATATAAA
1 TTATAATTTTAAAAAAATTAAATATAAA
4955848 TT
1 TT
4955850 TACATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTATAATTTTAAAAAAATTAAATATAAA
Found at i:4955841 original size:35 final size:36
Alignment explanation
Indices: 4955805--4955883 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
4955795 ATAATTTTTA
*
4955805 AAATATTAAA-TTA-AATTATTATTTTAAAAAAATT
1 AAATATTAAATTTACAATTATTAATTTAAAAAAATT
*
4955839 AAATA-TAAATTTACATTTATTAATTTAAAAAAATTT
1 AAATATTAAATTTACAATTATTAATTTAAAAAAA-TT
4955875 AAAT-TTAAA
1 AAATATTAAA
4955884 AAACTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 4 0.10
34 8 0.21
35 17 0.44
36 10 0.26
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
AAATATTAAATTTACAATTATTAATTTAAAAAAATT
Found at i:4956935 original size:74 final size:74
Alignment explanation
Indices: 4956818--4956956 Score: 167
Period size: 74 Copynumber: 1.9 Consensus size: 74
4956808 TTTTAAAACT
4956818 GTTTTAAAACAATTTGAACCAAAATTAAATTCTTCTTTTAAAAC-TGGTTAATAAACTTTTTAAA
1 GTTTTAAAACAATTTGAACCAAAATTAAATTCTTCTTTTAAAACAT-GTTAATAAACTTTTTAAA
4956882 AAATTATTTA
65 AAATTATTTA
*** * * * *
4956892 GTTTTAAAACAA-TTGTTTCAAAATTAGATTGTT-TTTTCAAAAACATTTTAGTAAACTTTTTAA
1 GTTTTAAAACAATTTGAACCAAAATTAAATTCTTCTTTT--AAAACATGTTAATAAACTTTTTAA
4956955 AA
64 AA
4956957 TTAAATTCCG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
72 4 0.07
73 16 0.29
74 34 0.62
75 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (74 bp):
GTTTTAAAACAATTTGAACCAAAATTAAATTCTTCTTTTAAAACATGTTAATAAACTTTTTAAAA
AATTATTTA
Found at i:4960551 original size:67 final size:67
Alignment explanation
Indices: 4960463--4960603 Score: 255
Period size: 67 Copynumber: 2.1 Consensus size: 67
4960453 CTAAGCACAT
* * *
4960463 ATCCACAATGGTTATGGAAGATAAATCTTACAAACTTCAGGATAATATTTAAACAAATAAAAGAT
1 ATCCACAATGGCTATGAAAGATAAATCTTACAAACTTCAAGATAATATTTAAACAAATAAAAGAT
4960528 GA
66 GA
4960530 ATCCACAATGGCTATGAAAGATAAATCTTACAAACTTCAAGATAATATTTAAACAAATAAAAGAT
1 ATCCACAATGGCTATGAAAGATAAATCTTACAAACTTCAAGATAATATTTAAACAAATAAAAGAT
4960595 GA
66 GA
4960597 ATCCACA
1 ATCCACA
4960604 TATGTCAAAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (67 bp):
ATCCACAATGGCTATGAAAGATAAATCTTACAAACTTCAAGATAATATTTAAACAAATAAAAGAT
GA
Found at i:4963266 original size:31 final size:31
Alignment explanation
Indices: 4963228--4963300 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
4963218 TTAATGGCTC
*
4963228 AGTGACTAAAATGTTATAACACGTTAACATA
1 AGTGACTAAAATGCTATAACACGTTAACATA
4963259 AGTGACTAAAATGCTATAACACGTTAACATA
1 AGTGACTAAAATGCTATAACACGTTAACATA
*
4963290 AGTGATTAAAA
1 AGTGACTAAAA
4963301 CGTAACATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (31 bp):
AGTGACTAAAATGCTATAACACGTTAACATA
Found at i:4966215 original size:23 final size:23
Alignment explanation
Indices: 4966167--4966240 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
4966157 AACACTAGCA
* * *
4966167 TGCTCTCTGTTTAGGAC-GTCTCG
1 TGCTCTCTGATTAGCACTGTAT-G
*
4966190 TGCTCTTTGATTAGCACTGTATG
1 TGCTCTCTGATTAGCACTGTATG
* * *
4966213 TGCTATCTGATTAGCACTTTGTG
1 TGCTCTCTGATTAGCACTGTATG
4966236 TGCTC
1 TGCTC
4966241 AGTACTTTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 38 0.93
24 3 0.07
ACGTcount: A:0.14, C:0.22, G:0.23, T:0.42
Consensus pattern (23 bp):
TGCTCTCTGATTAGCACTGTATG
Found at i:4966274 original size:23 final size:23
Alignment explanation
Indices: 4966239--4966332 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
4966229 CTTTGTGTGC
*
4966239 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
4966262 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
4966285 TACCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
4966310 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
4966332 T
1 T
4966333 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:4973606 original size:23 final size:23
Alignment explanation
Indices: 4973560--4973654 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
4973550 AGCACGTCTC
* *
4973560 GTGCTCTCTTATTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
4973583 GTGCTCTCTGATTAGCGCTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
4973606 GTG--CTC-----AGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
4973622 GTACTCTCTGTTTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
4973645 GTGCTCTCTG
1 GTGCTCTCTG
4973655 TTACCCAGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
16 10 0.18
18 3 0.05
21 3 0.05
23 41 0.72
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Done.