Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 700 of 770
Found at i:220904878 original size:80 final size:80
Alignment explanation
Indices: 220904767--220904917 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
220904757 TGATATAGCT
* * * * * * *
220904767 ACTCGCTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTAATTCGCGCAAATGCCTTCGGGACT
1 ACTCGCACAATTGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAAT
220904831 TAACCCGGATTTGGTA
65 TAACCCGGATTTGGTA
220904847 ACTCGCACAATTGCCTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
1 ACTCGCACAATTGCCTTCGGGACA-TAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
220904911 TAACCCG
65 TAACCCG
220904918 TATATCATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.02
80 59 0.95
81 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTCGCACAATTGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATT
AACCCGGATTTGGTA
Found at i:220912834 original size:39 final size:40
Alignment explanation
Indices: 220912742--220912877 Score: 179
Period size: 40 Copynumber: 3.4 Consensus size: 40
220912732 GCTCGATTGT
* * *
220912742 CTTCGGGACA-TAGCCCGG-TTATAGTAATTCGCGCAAATGC
1 CTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCACAAATGC
* * *
220912782 CTTCGGGACTTAACCCGGATTTGGTAACTCGC-CAATTGC
1 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
220912821 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
220912861 CTTCGGGAATTAACCCG
1 CTTCGGGAATTAACCCG
220912878 ATATCATTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 36 0.42
40 47 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:220912838 original size:79 final size:80
Alignment explanation
Indices: 220912728--220912877 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 80
220912718 CGATATAGCT
* * * * * *
220912728 ACTCGCTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTAATTCGCGCAAATGCCTTCGGGACT
1 ACTCGCTCAATTGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAAT
220912792 TAACCCGGATTTGGTA
65 TAACCCGGATTTGGTA
220912808 ACTCGC-CAATTGCCTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
1 ACTCGCTCAATTGCCTTCGGGACA-TAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
220912871 TAACCCG
65 TAACCCG
220912878 ATATCATTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.02
79 53 0.85
80 8 0.13
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
ACTCGCTCAATTGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATT
AACCCGGATTTGGTA
Found at i:220917499 original size:42 final size:40
Alignment explanation
Indices: 220917452--220917583 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
220917442 CGGAATATAA
220917452 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTCTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTC-T-TAGC
* ** * *
220917494 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
220917534 CCGGATATAGCCACTTGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
220917574 CCGGATATAA
1 CCGGATATAA
220917584 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 44 0.59
41 1 0.01
42 28 0.38
43 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:220921931 original size:21 final size:18
Alignment explanation
Indices: 220921907--220921950 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
220921897 AAATCTCAAG
220921907 ATAAAATAGTATTAAAAGAAA
1 ATAAAATAGT-TT-AAAG-AA
*
220921928 ATAAAGTAGTTTAAAGAA
1 ATAAAATAGTTTAAAGAA
220921946 ATAAA
1 ATAAA
220921951 GATACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 2 0.09
21 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (18 bp):
ATAAAATAGTTTAAAGAA
Found at i:220921935 original size:18 final size:18
Alignment explanation
Indices: 220921914--220921951 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
220921904 AAGATAAAAT
220921914 AGTA-TTAAAAGAAAATAA
1 AGTAGTTAAAAG-AAATAA
*
220921932 AGTAGTTTAAAGAAATAA
1 AGTAGTTAAAAGAAATAA
220921950 AG
1 AG
220921952 ATACACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (18 bp):
AGTAGTTAAAAGAAATAA
Found at i:220925279 original size:2 final size:2
Alignment explanation
Indices: 220925272--220925296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
220925262 TACCAGAAAC
220925272 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
220925297 CATTCCGGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:220940193 original size:39 final size:40
Alignment explanation
Indices: 220940093--220940276 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
220940083 TCGAATGATG
* *
220940093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
220940133 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
220940172 TTCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
220940212 TCCGGGTTTAGTCCCGAAGGCATTTGTGGGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
220940252 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
220940277 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 45 0.38
40 67 0.56
41 8 0.07
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:220940259 original size:79 final size:80
Alignment explanation
Indices: 220940094--220940274 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
220940084 CGAATGATGT
* * *
220940094 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
*
220940158 GTGCGAGTTACTAATT
65 GTGCGAGTTACTAATA
* * ** *
220940174 CTGGGCTAAGCCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTTAG-TCCCGAAGGCATTT
1 CCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
220940237 GTGGGAGTTACT-ATAA
65 GTGCGAGTTACTAAT-A
* *
220940253 CCGGGCTATGTCCGAAGGCATT
1 CCGGGCTAAGCCCGAAGGCATT
220940275 TGAATGAGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.04
79 67 0.79
80 15 0.18
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAATA
Found at i:220944846 original size:40 final size:40
Alignment explanation
Indices: 220944797--220944964 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
220944787 TCTTCGGAAT
* * *
220944797 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
220944836 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
220944876 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
220944916 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
220944956 TTAGCCCGG
1 TTAGCCCGG
220944965 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:220952847 original size:56 final size:56
Alignment explanation
Indices: 220952761--220952874 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
220952751 GACTTTTCCG
220952761 ATGCACATGTAAACATACCTTATCGTATGGGTTTTTCGAGCGTATTAATTGAATTT
1 ATGCACATGTAAACATACCTTATCGTATGGGTTTTTCGAGCGTATTAATTGAATTT
220952817 ATGCACATGTAAACATACCTTATCGTATGGGTTTTTCGAGCGTATTAATTGAATTT
1 ATGCACATGTAAACATACCTTATCGTATGGGTTTTTCGAGCGTATTAATTGAATTT
220952873 AT
1 AT
220952875 TACAGCACCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (56 bp):
ATGCACATGTAAACATACCTTATCGTATGGGTTTTTCGAGCGTATTAATTGAATTT
Found at i:220952982 original size:40 final size:39
Alignment explanation
Indices: 220952918--220953085 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
220952908 TCTTCAGAAT
* **
220952918 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
220952957 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
*
220952997 TTAGCCCGGATATAACAACTCGCACGAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
** * * *
220953037 TTAGCCCGGATATAATTACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTCGCA-CAATGCCTTCGGGTC
220953077 TTAGCCCGG
1 TTAGCCCGG
220953086 GTATCGTTCA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 99 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:220953066 original size:80 final size:80
Alignment explanation
Indices: 220952918--220953085 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
220952908 TCTTCAGAAT
* * ** *
220952918 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
*
220952982 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGAC
** * * *
220952997 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTTGGGTCTTAGCCCGGATATAATTACTAGCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
*
220953061 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
220953077 TTAGCCCGG
1 TTAGCCCGG
220953086 GTATCGTTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 4 0.05
80 69 0.92
81 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
AAATGCCTTCGGGAC
Found at i:220954856 original size:71 final size:71
Alignment explanation
Indices: 220954767--220954930 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
220954757 GAGATGTATC
220954767 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
220954832 AGGACA
66 AGGACA
*
220954838 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
220954903 CGGACA
66 AGGACA
220954909 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
220954931 AGACAAATCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:220958360 original size:30 final size:30
Alignment explanation
Indices: 220958324--220958454 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
220958314 GACAAGATTG
* * * * *
220958324 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
220958354 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
220958382 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
220958412 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
220958441 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220958455 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:220958415 original size:58 final size:58
Alignment explanation
Indices: 220958324--220958454 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
220958314 GACAAGATTG
* * * * * *
220958324 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
220958382 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
220958441 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220958455 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:220966307 original size:30 final size:30
Alignment explanation
Indices: 220966271--220966401 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
220966261 GACAAGATTG
* * * * *
220966271 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
220966301 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
220966329 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
220966359 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
220966388 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220966402 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:220966362 original size:58 final size:58
Alignment explanation
Indices: 220966271--220966401 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
220966261 GACAAGATTG
* * * * * *
220966271 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
220966329 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
220966388 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220966402 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:220974577 original size:30 final size:30
Alignment explanation
Indices: 220974541--220974600 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
220974531 TTCCCGAGCC
220974541 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
220974571 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
220974601 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:220975070 original size:47 final size:46
Alignment explanation
Indices: 220975019--220975195 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 46
220975009 TGGTTGAACA
220975019 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
220975066 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
220975111 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
220975159 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220975196 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.33
47 58 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:220982117 original size:30 final size:30
Alignment explanation
Indices: 220982081--220982140 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
220982071 TTCCCGAGCC
220982081 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
220982111 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
220982141 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:220982605 original size:46 final size:48
Alignment explanation
Indices: 220982555--220982645 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 48
220982545 TAGGATGGTT
*
220982555 GAACATCCGA-AC-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAACACCCGACACGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
220982601 GAACACCCGAGCTCGTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACACCCGA-CACGTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220982646 GCGGGTTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 9 0.22
48 1 0.03
49 30 0.75
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (48 bp):
GAACACCCGACACGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:220989232 original size:27 final size:28
Alignment explanation
Indices: 220989176--220989245 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
220989166 AAATTTGTAC
220989176 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
220989204 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
220989231 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
220989246 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:220989256 original size:27 final size:27
Alignment explanation
Indices: 220989176--220989257 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
220989166 AAATTTGTAC
* *
220989176 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
220989204 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
220989231 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
220989258 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:220992540 original size:30 final size:30
Alignment explanation
Indices: 220992504--220992563 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
220992494 TTACCGAGCC
220992504 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
220992534 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
220992564 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:220993034 original size:47 final size:47
Alignment explanation
Indices: 220992983--220993159 Score: 177
Period size: 47 Copynumber: 3.8 Consensus size: 47
220992973 TGGTTGAACA
220992983 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
* * * * *
220993030 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--ATG
* * *
220993075 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG--ATCA
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAT-G
* *
220993123 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
220993160 GCGGGCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 2 0.02
46 36 0.34
47 56 0.52
48 2 0.02
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
Found at i:220999240 original size:40 final size:40
Alignment explanation
Indices: 220999113--220999242 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
220999103 ATGCTGGAAA
* *
220999113 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
220999153 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
220999193 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
220999233 TTATATCCGG
1 TTATATCCGG
220999243 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:220999241 original size:80 final size:80
Alignment explanation
Indices: 220999075--220999242 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
220999065 CAATTGAATG
* * *
220999075 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
220999140 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
220999155 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
220999219 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
220999235 ATATCCGG
1 ATATCCGG
220999243 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:221007159 original size:124 final size:124
Alignment explanation
Indices: 221006937--221007161 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
221006927 GAATTATGTG
* * * ** * * *
221006937 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
221007002 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
221007061 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
221007126 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
221007162 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:221007283 original size:40 final size:40
Alignment explanation
Indices: 221007156--221007285 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
221007146 ATGCTGGAAA
* *
221007156 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
221007196 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
221007236 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
221007276 TTATATCCGG
1 TTATATCCGG
221007286 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:221007284 original size:80 final size:80
Alignment explanation
Indices: 221007118--221007285 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
221007108 CAATTGAATG
* * *
221007118 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
221007183 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
221007198 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
221007262 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
221007278 ATATCCGG
1 ATATCCGG
221007286 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:221010299 original size:50 final size:50
Alignment explanation
Indices: 221010204--221010327 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 50
221010194 GCCGAATGTT
* * * * *
221010204 CAAGGT-CAATTATAACACCACGTAAATACTTACCTATATAACTGAATATA
1 CAAGGTCCAA-TATATCATCACATAAATACTTACATATATAACTGAATACA
* * **
221010254 CAAGGTCCAATATATCATCTCATAAATACTTACATGTATGGCTGAATACA
1 CAAGGTCCAATATATCATCACATAAATACTTACATATATAACTGAATACA
* * *
221010304 TAAGGTTCATTATATCATCACATA
1 CAAGGTCCAATATATCATCACATA
221010328 TGGCCGAATA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 57 0.95
51 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (50 bp):
CAAGGTCCAATATATCATCACATAAATACTTACATATATAACTGAATACA
Found at i:221010377 original size:35 final size:35
Alignment explanation
Indices: 221010319--221010434 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
221010309 TTCATTATAT
*
221010319 CATCACATATGGCCGAATATACAAGTTAGATAGAA
1 CATCACATATGGCCGAATATACAAGTTAGATACAA
* * * * * *
221010354 CATCACATGTAGCCAAATTTACAAATTCA-ATACAT
1 CATCACATATGGCCGAATATACAAGTT-AGATACAA
*
221010389 CATCACATATGGCCGAATATACAAGTTAGATATAA
1 CATCACATATGGCCGAATATACAAGTTAGATACAA
221010424 CATCACATATG
1 CATCACATATG
221010435 TACATACCTA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.02
35 63 0.97
36 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (35 bp):
CATCACATATGGCCGAATATACAAGTTAGATACAA
Found at i:221010683 original size:41 final size:41
Alignment explanation
Indices: 221010620--221010697 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
221010610 TCTGATATTT
221010620 ATTCACCGGCACTAAGGCTGCTAGGCACAAAGCCCGATCAA
1 ATTCACCGGCACTAAGGCTGCTAGGCACAAAGCCCGATCAA
**
221010661 ATTCACCGGCAC-AAGGCTTGCTAGGCTTAAAGCCCGA
1 ATTCACCGGCACTAAGGC-TGCTAGGCACAAAGCCCGA
221010698 ATATCATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (41 bp):
ATTCACCGGCACTAAGGCTGCTAGGCACAAAGCCCGATCAA
Found at i:221014772 original size:20 final size:20
Alignment explanation
Indices: 221014747--221014815 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
221014737 CTATCACAAA
221014747 TCACATAGTTCATATACATT
1 TCACATAGTTCATATACATT
*
221014767 TCACATA-TTCCCA-ATTCATT
1 TCACATAGTT--CATATACATT
221014787 TGCACTATAGTTCATATACATT
1 T-CAC-ATAGTTCATATACATT
221014809 TCACATA
1 TCACATA
221014816 TTCCCAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
19 2 0.05
20 17 0.41
21 10 0.24
22 10 0.24
23 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (20 bp):
TCACATAGTTCATATACATT
Found at i:221014799 original size:42 final size:43
Alignment explanation
Indices: 221014751--221014839 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 43
221014741 CACAAATCAC
221014751 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCAC-T
1 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
221014793 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
1 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
221014836 ATAG
1 ATAG
221014840 CATAATTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (43 bp):
ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
Found at i:221014835 original size:21 final size:20
Alignment explanation
Indices: 221014763--221014837 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 20
221014753 AGTTCATATA
221014763 CATTTCACATATTCCCAATT
1 CATTTCACATATTCCCAATT
*
221014783 CATTTGCACTATAGTT--CATATA
1 CATTT-CAC-ATA-TTCCCA-ATT
221014805 CATTTCACATATTCCCAATT
1 CATTTCACATATTCCCAATT
221014825 CATTTGCACATAT
1 CATTT-CACATAT
221014838 AGCATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 17 0.37
22 10 0.22
23 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (20 bp):
CATTTCACATATTCCCAATT
Found at i:221015136 original size:42 final size:43
Alignment explanation
Indices: 221015027--221015197 Score: 120
Period size: 43 Copynumber: 4.0 Consensus size: 43
221015017 AACTCGTACA
* ***
221015027 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
**
221015070 ATGCCACTGTCCCAGGTA-GAGTCTTACACAAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATG-GTCTTACACAAAATCAAATATCG
* *
221015112 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC-AAAATC-AAATATCG
* * * ** *
221015156 ATGCCAAC-ATCCCAGACGTGGTTTTACATGAAATCACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACAAAATCAAATATC
221015198 AAAATCCTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 29 0.29
43 45 0.45
44 27 0.27
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
Found at i:221015147 original size:43 final size:42
Alignment explanation
Indices: 221015035--221015161 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 42
221015025 CAATGCCAAC
* *
221015035 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCCA-T
** *
221015078 GTCCCAGGTA-GAGTCTTACAC-AAAATCAAATACGATGCCGAT
1 GTCCCAGACATG-GTCTTACACGTAAATCAAATACGATGCC-AT
221015120 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCA
1 GTCCCAGACATGGTCTTACACGTAAA--TCAAATACGATGCCA
221015162 ACATCCCAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
42 26 0.38
43 30 0.43
44 7 0.10
45 6 0.09
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAT
Found at i:221016788 original size:40 final size:41
Alignment explanation
Indices: 221016743--221016909 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
221016733 CGGAATATAA
*
221016743 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
221016783 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
221016823 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
221016863 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
221016902 CCGGATAT
1 CCGGATAT
221016910 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:221017758 original size:17 final size:19
Alignment explanation
Indices: 221017735--221017780 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
221017725 AAGAAGCATG
221017735 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
221017753 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
221017771 AATCATGCTC
1 AATCATGCTC
221017781 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:221021950 original size:17 final size:18
Alignment explanation
Indices: 221021908--221021956 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
221021898 AGTTGAAAAG
221021908 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
221021927 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
221021944 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
221021957 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:221022844 original size:40 final size:40
Alignment explanation
Indices: 221022778--221022928 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
221022768 AAATTGAATG
* * *
221022778 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
221022817 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
221022857 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
221022897 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
221022929 ACTGATTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:221029957 original size:17 final size:18
Alignment explanation
Indices: 221029915--221029963 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
221029905 AGTTGAAAAG
221029915 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
221029934 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
221029951 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
221029964 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:221030851 original size:40 final size:40
Alignment explanation
Indices: 221030785--221030935 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
221030775 AAATTGAATG
* * *
221030785 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
221030824 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
221030864 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
221030904 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
221030936 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:221030949 original size:40 final size:40
Alignment explanation
Indices: 221030821--221030951 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
221030811 TATGCTGGAA
* * * *
221030821 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
221030861 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
221030901 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
221030941 ATTATATCCGG
1 ATTATATCCGG
221030952 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:221035611 original size:93 final size:93
Alignment explanation
Indices: 221035452--221035622 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
221035442 GGATGGTTGA
* * *
221035452 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAAAGTCCGAACTCGTTGAGT
221035517 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
221035545 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAAG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAAAGTCC-GAACTCGTTGAG
221035609 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
221035623 ACTTAGGGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGAGAAAGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:221035625 original size:46 final size:45
Alignment explanation
Indices: 221035456--221035627 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
221035446 GGTTGAGCAT
* * * *
221035456 CCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAAG
* * * ** *
221035501 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACT-AGGCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TGAGAAAG
221035549 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAAG
*
221035594 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
221035628 GGGCCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 6 0.06
46 60 0.59
47 31 0.30
48 3 0.03
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAAG
Found at i:221035888 original size:19 final size:20
Alignment explanation
Indices: 221035851--221035888 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
221035841 ATAAGGTGGT
221035851 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
221035871 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
221035889 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:221039040 original size:54 final size:55
Alignment explanation
Indices: 221038962--221039067 Score: 205
Period size: 54 Copynumber: 1.9 Consensus size: 55
221038952 TCGATTGCTC
221038962 CATATAGAATGGCACCAACAGAGTTGAAAGAATTAAAGTCGCAGTTGCAAGATTG
1 CATATAGAATGGCACCAACAGAGTTGAAAGAATTAAAGTCGCAGTTGCAAGATTG
221039017 CATAT-GAATGGCACCAACAGAGTTGAAAGAATTAAAGTCGCAGTTGCAAGA
1 CATATAGAATGGCACCAACAGAGTTGAAAGAATTAAAGTCGCAGTTGCAAGA
221039068 GTTGGCTGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 46 0.90
55 5 0.10
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (55 bp):
CATATAGAATGGCACCAACAGAGTTGAAAGAATTAAAGTCGCAGTTGCAAGATTG
Found at i:221043119 original size:46 final size:46
Alignment explanation
Indices: 221043069--221043240 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
221043059 TGGTTGAGCA
221043069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
221043115 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
221043160 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
221043208 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
221043241 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 34 0.31
46 29 0.27
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:221043184 original size:47 final size:47
Alignment explanation
Indices: 221043066--221043238 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 47
221043056 GGATGGTTGA
*
221043066 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
221043114 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* *
221043157 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
221043207 GC--CC-AGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
221043239 TAGGGCGGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 31 0.29
47 29 0.27
48 5 0.05
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:221043500 original size:19 final size:20
Alignment explanation
Indices: 221043463--221043500 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
221043453 ATAAGGTGGT
221043463 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
221043483 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
221043501 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:221045190 original size:42 final size:43
Alignment explanation
Indices: 221045088--221045246 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
221045078 GGAATTTAGA
* *
221045088 AATCTGAGCTCGTTGAGTGGTCCAGGTTCGTGATATATGTGAG
1 AATCTGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
* *
221045131 AATCTGAACTTGTTGAGTGGTCCAAGTTCATGATATATGTG-G
1 AATCTGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
* * * * * ** *
221045173 AATCCGAGCTCATTGAGTAGTCCGAGTTCATTATGGATGCGAG
1 AATCTGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
* ** * *
221045216 CATCCAAGCTCGTTGGGTGGTCCGAGTTCAT
1 AATCTGAGCTCGTTGAGTGGTCCAAGTTCAT
221045247 TATGGATGTG
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.33
43 64 0.67
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
AATCTGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGTGAG
Found at i:221055686 original size:46 final size:48
Alignment explanation
Indices: 221055629--221055762 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
221055619 GGGATATTTG
221055629 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
221055676 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
221055722 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
221055763 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:221058729 original size:15 final size:15
Alignment explanation
Indices: 221058709--221058777 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
221058699 GTATCTTGGG
221058709 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
221058724 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
221058739 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
221058754 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
221058769 TTTCTTTAT
1 TTTCTTTAT
221058778 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:221058778 original size:30 final size:30
Alignment explanation
Indices: 221058700--221058787 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
221058690 CATAGTATCG
* * * *
221058700 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
221058730 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
221058760 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
221058788 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:221061221 original size:46 final size:48
Alignment explanation
Indices: 221061167--221061300 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
221061157 TGGATATTTG
221061167 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
221061214 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
221061260 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
221061301 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:221062961 original size:40 final size:40
Alignment explanation
Indices: 221062887--221063032 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
221062877 CCGCACCAAG
* * * * * *
221062887 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
221062927 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
221062967 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
221063007 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
221063033 TTTTCAGCAC
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:221063042 original size:40 final size:40
Alignment explanation
Indices: 221062919--221063070 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 40
221062909 ATCACGATTT
* *
221062919 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT--
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A-AACTTCA
* *
221062959 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAAACTTC-A
* **
221062999 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAACTTCA
* *
221063039 GCACAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
221063071 CATTCAATTT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
37 3 0.03
39 2 0.02
40 86 0.90
41 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAACTTCA
Found at i:221071110 original size:40 final size:39
Alignment explanation
Indices: 221071020--221071170 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
221071010 ATCACGATTT
* * * *
221071020 GCACAAATGCCTTC-GGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-ACTACTA
221071059 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-CTACTA
* * **
221071099 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATACTACT-A
* *
221071139 GCACAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
221071171 CATTCAANNN
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
39 16 0.16
40 81 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATACTACTA
Found at i:221074101 original size:40 final size:39
Alignment explanation
Indices: 221074056--221074185 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
221074046 CGGAATACAA
221074056 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
221074096 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
221074136 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
221074176 CCGGATATAA
1 CCGGATATAA
221074186 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:221082165 original size:40 final size:39
Alignment explanation
Indices: 221082120--221082249 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
221082110 CGGAATACAA
221082120 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
221082160 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
221082200 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
221082240 CCGGATATAA
1 CCGGATATAA
221082250 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:221087017 original size:40 final size:40
Alignment explanation
Indices: 221086957--221087105 Score: 280
Period size: 40 Copynumber: 3.7 Consensus size: 40
221086947 TATTCGGATG
221086957 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
221086997 ATAATCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221087037 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221087077 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
221087106 AGCAAGTAGC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:221087119 original size:40 final size:40
Alignment explanation
Indices: 221086957--221087138 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
221086947 TATTCGGATG
*
221086957 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
*
221086997 ATAATCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG-AGCGAGTTACT
*
221087037 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
*
221087077 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* * *
221087117 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
221087139 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 16 0.12
40 114 0.88
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:221091815 original size:446 final size:446
Alignment explanation
Indices: 221090982--221091876 Score: 1745
Period size: 446 Copynumber: 2.0 Consensus size: 446
221090972 ATGATATTTT
*
221090982 GGTCTATTCGAGAAATGAAACCAATCATGCTGAACACCTGGGATTAGTGTTGCAAATTTTACGGG
1 GGTCTATTCGAGAAATGAAACCAATCATGCTAAACACCTGGGATTAGTGTTGCAAATTTTACGGG
221091047 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
66 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
221091112 CATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
131 CATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
221091177 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
196 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
*
221091242 TAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
261 TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
221091307 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
326 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
221091372 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
391 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
*
221091428 GGTCTATTCGAGAAATGAAACCGATCATGCTAAACACCTGGGATTAGTGTTGCAAATTTTACGGG
1 GGTCTATTCGAGAAATGAAACCAATCATGCTAAACACCTGGGATTAGTGTTGCAAATTTTACGGG
221091493 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
66 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
* *
221091558 CATGTGATATCTGCATTGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
131 CATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
221091623 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
196 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
221091688 TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
261 TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
221091753 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
326 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
221091818 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
391 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
221091874 GGT
1 GGT
221091877 TGGGTTGTGT
Statistics
Matches: 444, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
446 444 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (446 bp):
GGTCTATTCGAGAAATGAAACCAATCATGCTAAACACCTGGGATTAGTGTTGCAAATTTTACGGG
ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
CATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
Found at i:221095522 original size:40 final size:40
Alignment explanation
Indices: 221095432--221095616 Score: 333
Period size: 40 Copynumber: 4.7 Consensus size: 40
221095422 TATTCGGATG
221095432 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221095471 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
221095511 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221095551 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
221095591 ATAACC-GG--AAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
221095617 AGCAAGTCCC
Statistics
Matches: 143, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
37 18 0.13
39 37 0.26
40 88 0.62
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:221095625 original size:21 final size:21
Alignment explanation
Indices: 221095599--221095644 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
221095589 CTATAACCGG
221095599 AAGTCCCGAAGGCATTTGAGC
1 AAGTCCCGAAGGCATTTGAGC
221095620 AAGTCCCGAAGGCATTTGAGC
1 AAGTCCCGAAGGCATTTGAGC
221095641 AAGT
1 AAGT
221095645 AGCTATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (21 bp):
AAGTCCCGAAGGCATTTGAGC
Found at i:221104048 original size:46 final size:46
Alignment explanation
Indices: 221103998--221104173 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
221103988 TGGTTGAGCA
221103998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
221104044 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
221104089 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
221104137 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
221104174 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:221104154 original size:93 final size:93
Alignment explanation
Indices: 221103995--221104166 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
221103985 GGATGGTTGA
* *
221103995 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
221104060 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
221104088 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
221104153 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
221104167 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:221107151 original size:15 final size:15
Alignment explanation
Indices: 221107112--221107191 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
221107102 GTATCTTGGG
*
221107112 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
221107127 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
221107142 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
221107157 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
221107172 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
221107186 TTTCTT
1 TTTCTT
221107192 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:221107181 original size:30 final size:30
Alignment explanation
Indices: 221107103--221107190 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
221107093 CATAGTATCG
* * *
221107103 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
221107133 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
221107163 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
221107191 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:221111824 original size:28 final size:28
Alignment explanation
Indices: 221111784--221111896 Score: 111
Period size: 28 Copynumber: 4.0 Consensus size: 28
221111774 CATGACTGTA
*
221111784 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
221111812 AATGTGATTTGGGGCCTAATGGGCCACATA
1 AATGTGA-TT-GGGCCTAATGGGCCATATG
*
221111842 AATGTGAATGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * * * *
221111870 AAAGAGATTGGGCTTAGTAGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
221111897 ATATAGGTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
28 48 0.68
29 9 0.13
30 14 0.20
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:221113467 original size:30 final size:30
Alignment explanation
Indices: 221113431--221113531 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
221113421 GACAAGATTG
* * *
221113431 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221113461 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221113489 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
221113518 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
221113532 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:221113543 original size:29 final size:28
Alignment explanation
Indices: 221113460--221113535 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
221113450 AAAATTGTAC
* *
221113460 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
221113488 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
221113517 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
221113536 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:221121356 original size:30 final size:30
Alignment explanation
Indices: 221121320--221121420 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
221121310 GACAAGATTG
* * *
221121320 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221121350 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
221121378 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
221121407 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
221121421 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:221121432 original size:29 final size:28
Alignment explanation
Indices: 221121349--221121424 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
221121339 AAAATTGTAC
* *
221121349 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
221121377 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
221121406 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
221121425 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:221124625 original size:14 final size:13
Alignment explanation
Indices: 221124605--221124641 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
221124595 AATATTTGAC
221124605 TTGTTCTTAATTA
1 TTGTTCTTAATTA
221124618 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
221124632 TTGTT-TTAAT
1 TTGTTCTTAAT
221124642 ATTCTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:221126393 original size:29 final size:29
Alignment explanation
Indices: 221126351--221126411 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
221126341 TCTAATAAAA
221126351 AACATAATAAAATAATGCACCAGGTAGGT
1 AACATAATAAAATAATGCACCAGGTAGGT
*
221126380 AACATAATAAAATAATGCACCAGGTATGT
1 AACATAATAAAATAATGCACCAGGTAGGT
221126409 AAC
1 AAC
221126412 TCTAAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (29 bp):
AACATAATAAAATAATGCACCAGGTAGGT
Found at i:221128978 original size:41 final size:41
Alignment explanation
Indices: 221128921--221129017 Score: 194
Period size: 41 Copynumber: 2.4 Consensus size: 41
221128911 GGTTCTCATC
221128921 AGCTTGTGTGAGCAGCACTGTGTAGCTTTGCCATGACCATT
1 AGCTTGTGTGAGCAGCACTGTGTAGCTTTGCCATGACCATT
221128962 AGCTTGTGTGAGCAGCACTGTGTAGCTTTGCCATGACCATT
1 AGCTTGTGTGAGCAGCACTGTGTAGCTTTGCCATGACCATT
221129003 AGCTTGTGTGAGCAG
1 AGCTTGTGTGAGCAG
221129018 ACCCATGGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACTGTGTAGCTTTGCCATGACCATT
Found at i:221135908 original size:43 final size:41
Alignment explanation
Indices: 221135758--221135915 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 41
221135748 TGTTCTCGAT
* * *
221135758 TAAGACCACGTCT-GGACGTTGGCATTGATATGTGGTTACGA-G
1 TAAGACCACGTCTGGGACATTGGCATTG-TATG-AGATAC-ATG
* * * ** *
221135800 TAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCATG
1 TAAGACCACGTCTGGGACATTGGCATTGTATGAGATACATG
*
221135841 TAAGACC-CTGTCTGGGACAATGGCATTGATATGAGATAGCATG
1 TAAGACCAC-GTCTGGGACATTGGCATTG-TATGAGATA-CATG
* *
221135884 TAAGACCACGTCTAGGACGTTGGCATTGTATG
1 TAAGACCACGTCTGGGACATTGGCATTGTATG
221135916 GTATATGTGA
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 27 0.29
42 25 0.27
43 38 0.41
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACATTGGCATTGTATGAGATACATG
Found at i:221151417 original size:93 final size:93
Alignment explanation
Indices: 221151305--221151476 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
221151295 CGCCCATAAG
* *
221151305 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
221151370 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
221151398 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
221151463 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
221151477 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:221151473 original size:46 final size:46
Alignment explanation
Indices: 221151298--221151473 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
221151288 TGTAACCCGC
* * *
221151298 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
221151344 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
221151394 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
221151437 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
221151474 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:221158109 original size:93 final size:93
Alignment explanation
Indices: 221157997--221158168 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
221157987 CGCCCATAAG
* *
221157997 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
221158062 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
221158090 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
221158155 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
221158169 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:221158165 original size:46 final size:46
Alignment explanation
Indices: 221157990--221158165 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
221157980 TGTAACCCGC
* * *
221157990 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
221158036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
221158086 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
221158129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
221158166 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:221161675 original size:39 final size:39
Alignment explanation
Indices: 221161628--221161810 Score: 233
Period size: 39 Copynumber: 4.6 Consensus size: 39
221161618 AATGTTCGAG
221161628 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
221161667 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
221161706 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** *
221161745 TGATATCCGGG-TAAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCT-AAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
221161785 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
221161811 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 87 0.69
40 37 0.29
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:221168868 original size:93 final size:93
Alignment explanation
Indices: 221168756--221168927 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
221168746 GCCCATAAGT
* *
221168756 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221168821 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
221168849 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221168914 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
221168928 AAATATCCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:221168923 original size:46 final size:46
Alignment explanation
Indices: 221168748--221168923 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
221168738 TGTAACCCGC
* * *
221168748 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
221168794 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
221168844 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
221168887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
221168924 TGCCAAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:221171330 original size:30 final size:30
Alignment explanation
Indices: 221171286--221171375 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
221171276 CAAATTATGG
*
221171286 AAAGAAAACC-GAATAAAGAAATCCAAGAT
1 AAAGAAACCCGGAATAAAGAAATCCAAGAT
*
221171315 AGAGAAACCCGGAATAAAGAAATCC-AGAAT
1 AAAGAAACCCGGAATAAAGAAATCCAAG-AT
* * *
221171345 AAAGAGATCCAGG-ATAAAGAAACCCAAGAT
1 AAAGA-AACCCGGAATAAAGAAATCCAAGAT
221171375 A
1 A
221171376 CGATACTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 10 0.20
30 34 0.67
31 7 0.14
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAAGAAACCCGGAATAAAGAAATCCAAGAT
Found at i:221171335 original size:15 final size:14
Alignment explanation
Indices: 221171286--221171369 Score: 60
Period size: 15 Copynumber: 5.7 Consensus size: 14
221171276 CAAATTATGG
*
221171286 AAAGAAAACCGAAT
1 AAAGAAACCCGAAT
* *
221171300 AAAGAAATCCAAGAT
1 AAAGAAACCCGA-AT
*
221171315 AGAGAAACCCGGAAT
1 AAAGAAACCC-GAAT
*
221171330 AAAGAAATCCAGAAT
1 AAAGAAA-CCCGAAT
* * *
221171345 AAAGAGATCCAGGAT
1 AAAGA-AACCCGAAT
221171360 AAAGAAACCC
1 AAAGAAACCC
221171370 AAGATACGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 13 0.24
15 38 0.69
16 4 0.07
ACGTcount: A:0.56, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAGAAACCCGAAT
Found at i:221171375 original size:15 final size:15
Alignment explanation
Indices: 221171298--221171375 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
221171288 AGAAAACCGA
221171298 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
221171313 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
221171327 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
221171342 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
221171358 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
221171373 ATA
1 ATA
221171376 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:221178818 original size:49 final size:49
Alignment explanation
Indices: 221178757--221178886 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 49
221178747 ACATCAAAGT
* *
221178757 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
221178806 CGATGCCGTGTCCCAGACAGGTCTCACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
221178855 CGATGCCATGTCCCAGACAGGTCTTACACTGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA
221178887 TACACAACAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:221181925 original size:29 final size:27
Alignment explanation
Indices: 221181883--221181945 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
221181873 TTTTCCATTT
*
221181883 ATTTCACATTTTAA-CCACTACCTTTACA
1 ATTTCACAATTTAATCC-CTA-CTTTACA
*
221181911 CATTTCACAATTTAATCCCTATTTTACA
1 -ATTTCACAATTTAATCCCTACTTTACA
221181939 ATTTCAC
1 ATTTCAC
221181946 CAAAAATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 6 0.19
29 16 0.52
30 2 0.06
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTCACAATTTAATCCCTACTTTACA
Found at i:221181998 original size:21 final size:20
Alignment explanation
Indices: 221181974--221182013 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
221181964 ACTTGTTTAA
*
221181974 CTATCAACAATTATTCAAAAT
1 CTATCAACAATCA-TCAAAAT
*
221181995 CTATCATCAATCATCAAAA
1 CTATCAACAATCATCAAAA
221182014 CTCATGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
CTATCAACAATCATCAAAAT
Found at i:221183350 original size:15 final size:15
Alignment explanation
Indices: 221183330--221183379 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
221183320 TAGTATTAAA
221183330 AGAAAACTATAGCTT
1 AGAAAACTATAGCTT
221183345 AGAAAATCTAT-G-TT
1 AGAAAA-CTATAGCTT
** *
221183359 CCAAAACTATAACTT
1 AGAAAACTATAGCTT
221183374 AGAAAA
1 AGAAAA
221183380 TCCATGTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 13 0.48
16 4 0.15
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (15 bp):
AGAAAACTATAGCTT
Found at i:221183365 original size:29 final size:29
Alignment explanation
Indices: 221183332--221183390 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
221183322 GTATTAAAAG
* *
221183332 AAAACTATAGCTTAGAAAATCTATGTTCC
1 AAAACTATAACTTAGAAAATCCATGTTCC
221183361 AAAACTATAACTTAGAAAATCCATGTTCC
1 AAAACTATAACTTAGAAAATCCATGTTCC
221183390 A
1 A
221183391 CTTCTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAACTATAACTTAGAAAATCCATGTTCC
Found at i:221186156 original size:40 final size:40
Alignment explanation
Indices: 221186097--221186238 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
221186087 AAATTGAATG
* * *
221186097 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
221186137 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
221186177 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
221186217 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
221186239 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:221186239 original size:40 final size:39
Alignment explanation
Indices: 221186136--221186264 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
221186126 TGCTGGAAAT
* * *
221186136 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
221186176 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
221186216 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
221186256 TATATCCGG
1 TATATCCGG
221186265 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:221202498 original size:40 final size:40
Alignment explanation
Indices: 221202436--221202526 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
221202426 TACACATTCA
*
221202436 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATT-CAGTAACTCGCACG
* * * *
221202476 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACATAACCCGGATTCAGTAACTCGCACG
*
221202516 AAAGCCTTCGG
1 AATGCCTTCGG
221202527 ATCTTAGTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTCAGTAACTCGCACG
Found at i:221202539 original size:40 final size:40
Alignment explanation
Indices: 221202463--221202618 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
221202453 GCCCGGTTAC
**
221202463 AGTAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTT
1 AGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATTT
* * *
221202503 AGTAGCTCGCTCGAAAGCCTTCGGATCTTAGTCCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
* *
221202543 AGTAACT--CACGTATGCCGTCGGATCTTAGTCCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
* * * *
221202581 AGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGCCCGGAT
1 AGTAAC-TCGCACGAATGCCTTC-GGATCTTAGTCCGGAT
221202619 ATCATTCGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
38 32 0.33
39 4 0.04
40 54 0.56
41 6 0.06
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
Found at i:221211280 original size:8 final size:8
Alignment explanation
Indices: 221211267--221211291 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
221211257 TCGTGTGCAA
221211267 ACATATAT
1 ACATATAT
221211275 ACATATAT
1 ACATATAT
221211283 ACATATAT
1 ACATATAT
221211291 A
1 A
221211292 TATGCTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
ACATATAT
Found at i:221213674 original size:66 final size:68
Alignment explanation
Indices: 221213598--221213784 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
221213588 TAGTACCACT
*
221213598 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
221213660 CACG
65 CACG
221213664 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
221213729 ATCACG
63 ATCACG
221213735 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
221213785 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:221213709 original size:71 final size:71
Alignment explanation
Indices: 221213621--221213784 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
221213611 CGATTTGTCT
221213621 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
221213686 CTTTCA
66 CTTTCA
221213692 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
221213757 CTTTCA
66 CTTTCA
221213763 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
221213785 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:221213822 original size:71 final size:70
Alignment explanation
Indices: 221213621--221213818 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
221213611 CGATTTGTCT
* * *
221213621 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
221213686 CTTTCA
65 CTTTCA
* * *
221213692 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
221213757 CTTTCA
65 CTTTCA
* *
221213763 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
221213819 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:221221236 original size:66 final size:68
Alignment explanation
Indices: 221221160--221221346 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
221221150 TAGTACCACT
*
221221160 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
221221222 CACG
65 CACG
221221226 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
221221291 ATCACG
63 ATCACG
221221297 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
221221347 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:221221271 original size:71 final size:71
Alignment explanation
Indices: 221221183--221221346 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
221221173 CGATTTGTCT
221221183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
221221248 CTTTCA
66 CTTTCA
221221254 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
221221319 CTTTCA
66 CTTTCA
221221325 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
221221347 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:221221384 original size:71 final size:70
Alignment explanation
Indices: 221221183--221221380 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
221221173 CGATTTGTCT
* * *
221221183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
221221248 CTTTCA
65 CTTTCA
* * *
221221254 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
221221319 CTTTCA
65 CTTTCA
* *
221221325 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
221221381 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:221227585 original size:40 final size:40
Alignment explanation
Indices: 221227540--221227707 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
221227530 CGGAATATAA
221227540 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
221227580 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
221227620 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
221227660 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
221227700 CCGGATAT
1 CCGGATAT
221227708 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:221227690 original size:80 final size:80
Alignment explanation
Indices: 221227556--221227705 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
221227546 ATAATCACGT
*
221227556 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
221227620 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
221227636 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
221227699 CCCGGAT
64 CCCGGAT
221227706 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:221230048 original size:29 final size:29
Alignment explanation
Indices: 221229984--221230087 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
221229974 GTGACGAGAT
* * *
221229984 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * * *
221230013 CGACACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
221230042 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
221230071 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
221230088 ACTCTACACA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:221231641 original size:40 final size:40
Alignment explanation
Indices: 221231533--221231702 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
221231523 CGGGATTTAA
* * * * *
221231533 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
221231573 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221231613 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221231653 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221231693 CCGGATATAT
1 CCGGATATAT
221231703 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:221239668 original size:40 final size:40
Alignment explanation
Indices: 221239560--221239729 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
221239550 CGGGATTTAA
* * * * *
221239560 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
221239600 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221239640 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221239680 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
221239720 CCGGATATAT
1 CCGGATATAT
221239730 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:221244730 original size:93 final size:93
Alignment explanation
Indices: 221244618--221244788 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
221244608 GCCCATAAGT
* *
221244618 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221244683 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
221244711 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221244776 CGAGTTCGGATGC
66 CGAGTTCGGATGC
221244789 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:221244804 original size:46 final size:46
Alignment explanation
Indices: 221244610--221244790 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
221244600 TGTAACCCGC
* * *
221244610 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
221244656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
221244706 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
221244749 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
221244791 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:221247191 original size:29 final size:29
Alignment explanation
Indices: 221247152--221247239 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
221247142 CAAAGATAAC
*
221247152 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
221247181 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
221247210 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
221247240 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:221247210 original size:15 final size:15
Alignment explanation
Indices: 221247152--221247230 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
221247142 CAAAGATAAC
*
221247152 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
221247166 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
221247181 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
221247195 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
221247210 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
221247225 AAGAAA
1 AAGAAA
221247231 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:221247239 original size:15 final size:15
Alignment explanation
Indices: 221247163--221247239 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
221247153 AGAAAACCGA
221247163 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
221247178 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
221247192 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
221247206 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
221247222 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
221247237 ATA
1 ATA
221247240 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:221250300 original size:93 final size:93
Alignment explanation
Indices: 221250188--221250358 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
221250178 GCCCATAAGT
* *
221250188 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221250253 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
221250281 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
221250346 CGAGTTCGGATGC
66 CGAGTTCGGATGC
221250359 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:221250374 original size:46 final size:46
Alignment explanation
Indices: 221250180--221250360 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
221250170 TGTAACCCGC
* * *
221250180 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
221250226 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
221250276 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
221250319 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
221250361 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:221255674 original size:39 final size:39
Alignment explanation
Indices: 221255556--221255738 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
221255546 TCGTTCAAAC
* * ** * **
221255556 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
221255596 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
221255636 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
221255675 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
221255714 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
221255739 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Done.