Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 96 of 167
Found at i:31839697 original size:18 final size:19
Alignment explanation
Indices: 31839674--31839711 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
31839664 CCGAATGTAC
31839674 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
31839692 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
31839711 T
1 T
31839712 AATTTGTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:31839976 original size:41 final size:43
Alignment explanation
Indices: 31839893--31840023 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
31839883 GCCAACATTT
* *
31839893 CAGACATGGTCTTACATGCAATCACATATCGATGCCACTGTCC
1 CAGACAGGGTCTTACATGCAATCACATATCGATGCCAATGTCC
* * *
31839936 CGGATAGGGTCTTACATG-AATCAAATA-CGATGCCAATGTCC
1 CAGACAGGGTCTTACATGCAATCACATATCGATGCCAATGTCC
** * *
31839977 CAGACATAGTCTTACACGTAATCACATATCGATGCCAATGTCC
1 CAGACAGGGTCTTACATGCAATCACATATCGATGCCAATGTCC
31840020 CAGA
1 CAGA
31840024 TGTATTCTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 26 0.35
42 16 0.21
43 33 0.44
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
CAGACAGGGTCTTACATGCAATCACATATCGATGCCAATGTCC
Found at i:31840046 original size:43 final size:43
Alignment explanation
Indices: 31839901--31840037 Score: 163
Period size: 43 Copynumber: 3.2 Consensus size: 43
31839891 TTCAGACATG
* * *
31839901 GTCTTACATGCAATCACATATCGATGCCACTGTCCCGGATAG-G
1 GTCTTACATGCAATCACATATCGATGCCAATGTCCCAGAT-GTA
* **
31839944 GTCTTACATG-AATCAAATA-CGATGCCAATGTCCCAGACATA
1 GTCTTACATGCAATCACATATCGATGCCAATGTCCCAGATGTA
* *
31839985 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGATGTA
1 GTCTTACATGCAATCACATATCGATGCCAATGTCCCAGATGTA
*
31840028 TTCTTACATG
1 GTCTTACATG
31840038 AGAACACATT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 25 0.32
42 16 0.20
43 38 0.48
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCTTACATGCAATCACATATCGATGCCAATGTCCCAGATGTA
Found at i:31847392 original size:46 final size:46
Alignment explanation
Indices: 31847325--31847437 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 46
31847315 GTGCTAATAC
* * *
31847325 CATGTCCTAGACACGATCTTACACTGGCTCAT-ATCTC-AAGTCGATG
1 CATGTCCCAGACATG-TCTTACACTGACT-ATCATCTCGAAGTCGATG
*
31847371 CCATG-CCCAGACATTGTCTTACACTGACTATCATCTCGTAGTCGATG
1 -CATGTCCCAGACA-TGTCTTACACTGACTATCATCTCGAAGTCGATG
31847418 CATGTCCCAGACATGTCTTA
1 CATGTCCCAGACATGTCTTA
31847438 GGCTAGCTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
45 2 0.03
46 35 0.60
47 21 0.36
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAAGTCGATG
Found at i:31853423 original size:30 final size:30
Alignment explanation
Indices: 31853389--31853446 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31853379 CCCGAGCCTA
31853389 GGGGCAAAAGTGTAAATATGCAAAAGTTCG
1 GGGGCAAAAGTGTAAATATGCAAAAGTTCG
* * *
31853419 GGGGCAAAATTGTAATTTTGCAAAAGTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTT
31853447 TGAGTTAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.26
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTCG
Found at i:31854383 original size:50 final size:50
Alignment explanation
Indices: 31854252--31854445 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 50
31854242 TATATGTAGC
* * * * **
31854252 TAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAA-T
* * * * *
31854303 TCGATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAAATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAAT
* * *
31854353 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAAT
* * * *
31854403 T-GGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
31854446 GATAGTTTGG
Statistics
Matches: 119, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 35 0.29
50 46 0.39
51 38 0.32
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAAT
Found at i:31864879 original size:47 final size:47
Alignment explanation
Indices: 31864822--31865837 Score: 1735
Period size: 47 Copynumber: 21.3 Consensus size: 47
31864812 TATTTGAATA
31864822 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
31864869 AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31864916 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
31864965 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31865014 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865061 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865108 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865157 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865204 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865253 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865300 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865349 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865396 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865445 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865492 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865539 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865586 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865635 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31865682 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31865729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
31865776 AATGTGAAAGTGTATATATGTGATAAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAA-GGCCTAATGGCCGATGTGATG
*
31865824 GATGTGAAAGTGTA
1 AATGTGAAAGTGTA
31865838 ACGTGATGGA
Statistics
Matches: 927, Mismatches: 29, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
47 574 0.62
48 30 0.03
49 323 0.35
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31864948 original size:96 final size:96
Alignment explanation
Indices: 31864822--31865837 Score: 1773
Period size: 96 Copynumber: 10.7 Consensus size: 96
31864812 TATTTGAATA
*
31864822 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
31864885 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
31864916 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
*
31864981 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
31865014 AATGTGAAA-T-TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31865077 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
31865108 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31865173 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
31865204 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31865269 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
31865300 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31865365 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
31865396 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31865461 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
*
31865492 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865555 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
*
31865586 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865651 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
*
31865682 GATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865745 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATAGCCGATGTGATG
* * * * *
31865776 AATGTGAAAGTG--TATATATGTGATAAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 AATGTGAAAGTGTATATATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
31865838 ACGTGATGGA
Statistics
Matches: 893, Mismatches: 20, Indels: 17
0.96 0.02 0.02
Matches are distributed among these distances:
94 253 0.28
95 31 0.03
96 566 0.63
97 1 0.00
98 42 0.05
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:31864981 original size:143 final size:141
Alignment explanation
Indices: 31864822--31865837 Score: 1735
Period size: 143 Copynumber: 7.1 Consensus size: 141
31864812 TATTTGAATA
*
31864822 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
31864887 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
31864952 GGCCGATGTGATG
129 GGCCGATGTGATG
*
31864965 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865030 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
31865095 AGCCGATGTGATG
129 GGCCGATGTGATG
31865108 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865173 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
31865238 ATGGCCGATGTGATG
127 ATGGCCGATGTGATG
*
31865253 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
31865318 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
31865383 AGCCGATGTGATG
129 GGCCGATGTGATG
31865396 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31865461 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
31865526 GGCCGATGCGATG
129 GGCCGATGTGATG
31865539 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
31865604 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
31865669 GGCCGATGTGATG
129 GGCCGATGTGATG
*
31865682 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
31865747 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGGCCGAGTG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTAATG
* *
31865812 GCCAACGTGATG
130 GCCGATGTGATG
*
31865824 GATGTGAAAGTGTA
1 AATGTGAAAGTGTA
31865838 ACGTGATGGA
Statistics
Matches: 838, Mismatches: 24, Indels: 23
0.95 0.03 0.03
Matches are distributed among these distances:
141 107 0.13
142 31 0.04
143 473 0.56
145 227 0.27
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:31865841 original size:22 final size:22
Alignment explanation
Indices: 31865815--31865859 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
31865805 CCGAGTGGCC
31865815 AACGTGATGGATGTGAAAGTGT
1 AACGTGATGGATGTGAAAGTGT
31865837 AACGTGATGGATGTGAAAGTGT
1 AACGTGATGGATGTGAAAGTGT
31865859 A
1 A
31865860 TAAATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.27
Consensus pattern (22 bp):
AACGTGATGGATGTGAAAGTGT
Found at i:31878178 original size:47 final size:47
Alignment explanation
Indices: 31878107--31878227 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
31878097 GGTAAGGTGC
* **
31878107 CGATGCCATGTCCTAGACACGGTCTTACACTGGCTTATC-TCTCA-AG
1 CGATGCCATGTCCTAGACATGGTCTTACACTAAC-TATCTTCTCATAG
*
31878153 TCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCTTCTCATAG
1 -CGATGCCATGTCCTAGACATGGTCTTACACTAACTATCTTCTCATAG
31878201 CTGATG-CATGTCCTAGACAT-GTCTTAC
1 C-GATGCCATGTCCTAGACATGGTCTTAC
31878228 GCTAGCTCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 11 0.17
47 49 0.74
48 6 0.09
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAACTATCTTCTCATAG
Found at i:31882911 original size:46 final size:46
Alignment explanation
Indices: 31882822--31882989 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 46
31882812 GTAGCTGATT
*
31882822 CATGTCCCAGACATGTCTTACACTGGCTTACATCTAGAGGCCGAAG-
1 CATGTCCCAGACATGTCTTACACTAGC-TACATCTAGAGGCCGAAGC
* * *
31882868 CATGTCCCAGACATGTCTTACACTAGC-ACCTGTCTCA-ATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTA-C-ATCT-AGAGGCCGAAGC
* * * *
31882915 CATGTCCCAGACATGGTCTTACACTAGTTCT-CATAATA-TGGACGATG-
1 CATGTCCCAGACAT-GTCTTACACTAG--CTACAT-CTAGAGGCCGAAGC
*
31882962 TATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
31882990 CTGTAACACC
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 48 0.47
47 28 0.27
48 20 0.19
49 2 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTACATCTAGAGGCCGAAGC
Found at i:31884371 original size:27 final size:27
Alignment explanation
Indices: 31884341--31884518 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
31884331 ATATTGAGCC
* *
31884341 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31884368 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31884395 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31884423 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31884450 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
31884477 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
31884504 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
31884519 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31884480 original size:82 final size:81
Alignment explanation
Indices: 31884362--31884517 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
31884352 TGCTATATAA
* *
31884362 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31884427 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
31884444 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
31884508 CCCTTAGTGC
65 CACTTAGTGC
31884518 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31892771 original size:46 final size:46
Alignment explanation
Indices: 31892713--31892883 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
31892703 ACCTCTCGTA
*
31892713 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
1 GCCGAAGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
* * * *
31892759 GCCGAAGCATGTCCCAGACATGTCTTATACTAGC--ACTTGTCTCAAT
1 GCCGAAGCATGTCCCAGACATGTCTTACACTGGCTTAC--ATCTCAAG
* * **
31892805 GTC-AATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGAA-G-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCAAG
*
31892853 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGAAGCATGTCCCAGACATGTCTTACACT
31892884 AGCTCACACA
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 50 0.50
47 28 0.28
48 15 0.15
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGAAGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
Found at i:31895166 original size:39 final size:39
Alignment explanation
Indices: 31895002--31895184 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
31894992 TTGAATGCTG
* * * * * * *
31895002 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
31895042 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
31895082 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
31895122 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
31895161 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
31895185 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:31895204 original size:79 final size:80
Alignment explanation
Indices: 31895038--31895219 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
31895028 GCTAAGTGAA
* * * *
31895038 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
31895102 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
31895118 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
31895182 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
31895197 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
31895220 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:31902443 original size:80 final size:79
Alignment explanation
Indices: 31902359--31902528 Score: 189
Period size: 79 Copynumber: 2.1 Consensus size: 79
31902349 GGACTAAGAT
* * *
31902359 CCGAAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
31902423 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* ** * * * *
31902439 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
31902504 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
*
31902518 CCGAATGCATT
1 CCGAAGGCATT
31902529 TGAACGAGGA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 36 0.48
80 36 0.48
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:31902510 original size:39 final size:39
Alignment explanation
Indices: 31902306--31902528 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
31902296 TTGAATGCTG
* * * * * *
31902306 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
31902346 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
31902385 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
31902426 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
31902466 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
31902505 ACCGGGCTATGTCCCGAATGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31902529 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 38 0.25
40 105 0.68
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:31902548 original size:79 final size:80
Alignment explanation
Indices: 31902386--31902563 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 80
31902376 AGATACAAAT
* * * *
31902386 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
31902451 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * * *
31902466 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAATGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
31902530 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
31902545 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31902564 TACGTGATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 48 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:31904023 original size:43 final size:42
Alignment explanation
Indices: 31903970--31904136 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 42
31903960 TTTTACAATT
31903970 CCAATGTCCCAAACGTGGTCTTACATGCAATCACATATCGATG
1 CCAATGTCCCAAACGTGGTCTTACATG-AATCACATATCGATG
* * * * *
31904013 CCACTGTCCCAAACAG-GGTCTTACACGAATCAAATA-CAATT
1 CCAATGTCCCAAAC-GTGGTCTTACATGAATCACATATCGATG
* * * *
31904054 CCAATATCTCAGACATGGTCTTACATGTAATCACATATCGATG
1 CCAATGTCCCAAACGTGGTCTTACATG-AATCACATATCGATG
* *
31904097 CCAATGTCCCAAATGTGGTCTTACATGATAACACATATCG
1 CCAATGTCCCAAACGTGGTCTTACATGA-ATCACATATCG
31904137 GAAATCCTAC
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
41 23 0.23
42 17 0.17
43 58 0.59
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
CCAATGTCCCAAACGTGGTCTTACATGAATCACATATCGATG
Found at i:31908084 original size:27 final size:27
Alignment explanation
Indices: 31908051--31908238 Score: 196
Period size: 27 Copynumber: 7.0 Consensus size: 27
31908041 TTACTTAGAC
** * *
31908051 CCCTTATGTGGTAAAATGATTATTTTT
1 CCCTTATAAGGTAAAATGATTGTTTTG
* *
31908078 CTCTTATAAGGTAAAATGACTGTTTTG
1 CCCTTATAAGGTAAAATGATTGTTTTG
*
31908105 CCTTTATAAGGTAAAATGATTGTTTTG
1 CCCTTATAAGGTAAAATGATTGTTTTG
* *
31908132 CTCTTATAAGGTAAAATGATCGTTTTG
1 CCCTTATAAGGTAAAATGATTGTTTTG
* * *
31908159 CCCTTATGAGGTAAAATGACTATTTTG
1 CCCTTATAAGGTAAAATGATTGTTTTG
** * * *
31908186 CCCTTATGTGGTAAAATAATTATTTTT
1 CCCTTATAAGGTAAAATGATTGTTTTG
* * *
31908213 CCCTTTTATGGTAAGATGATTGTTTT
1 CCCTTATAAGGTAAAATGATTGTTTT
31908239 ACCCCTATGT
Statistics
Matches: 135, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (27 bp):
CCCTTATAAGGTAAAATGATTGTTTTG
Found at i:31910121 original size:17 final size:17
Alignment explanation
Indices: 31910075--31910122 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
31910065 TTTTTATCAT
*
31910075 TTATCATTTGTCGGGCA
1 TTATCATTTATCGGGCA
* *
31910092 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
31910109 CTT-TCATTTATCGG
1 -TTATCATTTATCGG
31910123 TTTTTAATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:31912641 original size:25 final size:24
Alignment explanation
Indices: 31912603--31912672 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
31912593 TCTTGTACAT
** *
31912603 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTC-TACGAGCTACAAATCA
31912628 GTATGCTCTCACGAGCTACAAATCA
1 GTATGCTCT-ACGAGCTACAAATCA
*
31912653 GTAAGCTCTAACGAGCTACA
1 GTATGCTCT-ACGAGCTACA
31912673 GTCGGTAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (24 bp):
GTATGCTCTACGAGCTACAAATCA
Found at i:31915206 original size:24 final size:24
Alignment explanation
Indices: 31915179--31915287 Score: 103
Period size: 25 Copynumber: 4.4 Consensus size: 24
31915169 CTGGAGGCCT
*
31915179 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
31915203 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** * *
31915228 AGCCCTTTTCGGTAAACTAGGACAA
1 AGCCCTTTT-AATAAACTGGGGCAA
* *
31915253 AGCCCTTTTCAGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
31915278 AGCCCTTTTA
1 AGCCCTTTTA
31915288 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.01
24 15 0.21
25 57 0.78
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:31915229 original size:25 final size:25
Alignment explanation
Indices: 31915195--31915286 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
31915185 TTTTAATAAT
31915195 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTTGATAAAC
* *
31915220 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTTGATAAAC
* * *
31915245 TAGGACAAAGCCC-TTTTCAGTAAAC
1 TGGGGCAAAGCCCTTTTTGA-TAAAC
*
31915270 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
31915287 AGCACTTCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 3 0.05
25 49 0.89
26 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTTGATAAAC
Found at i:31915591 original size:54 final size:54
Alignment explanation
Indices: 31915491--31915622 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
31915481 GGCAAAATGG
* * * * *
31915491 TAATTTTACCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTGTTTCAG
1 TAATTTTACCCTACAAGGGTATTTTGGTAACTCTACCCTACAGGGGTATTTCAA
* *
31915545 TATTTTTACCCTACAAGGGTATTTTGGTAACTCTACCCTAGAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTTGGTAACTCTACCCTACAGGGGTATTTCAA
* *
31915599 TAATTCTACCCTACAGGGGTATTT
1 TAATTTTACCCTACAAGGGTATTT
31915623 CGATATTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
TAATTTTACCCTACAAGGGTATTTTGGTAACTCTACCCTACAGGGGTATTTCAA
Found at i:31915623 original size:27 final size:27
Alignment explanation
Indices: 31915490--31915623 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 27
31915480 GGGCAAAATG
* * * *
31915490 GTAATTTTACCCCACAAGGGTATCTT-G
1 GTAATTCTACCCTACAGGGGTAT-TTCA
*
31915517 GTAATTCTACCCTACAGGGGTGTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
31915544 GTATTTTTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
31915571 GTAACTCTACCCTAGAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
31915598 ATAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
31915624 GATATTTTAT
Statistics
Matches: 85, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:31915673 original size:27 final size:27
Alignment explanation
Indices: 31915613--31915768 Score: 158
Period size: 27 Copynumber: 5.8 Consensus size: 27
31915603 TCTACCCTAC
* *
31915613 AGGGGTATTTCGAT-ATTTTATAAA-T
1 AGGGGTATTTTGATAATTTTACAAACT
* * * *
31915638 TGAGAGTATTTCGATAATTTCACAAA-T
1 AG-GGGTATTTTGATAATTTTACAAACT
* *
31915665 CAGGGGTATTTTGGTAATTTTACAAGCT
1 -AGGGGTATTTTGATAATTTTACAAACT
* *
31915693 AGAGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAACT
31915720 AGGGGTATTTT-AGTAATTTTACAAACT
1 AGGGGTATTTTGA-TAATTTTACAAACT
*
31915747 AGGGGTATTTTGGTAATTTTAC
1 AGGGGTATTTTGATAATTTTAC
31915769 TGATCGAGGG
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 11 0.10
27 96 0.87
28 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGATAATTTTACAAACT
Found at i:31915710 original size:54 final size:54
Alignment explanation
Indices: 31915612--31915821 Score: 205
Period size: 54 Copynumber: 3.9 Consensus size: 54
31915602 TTCTACCCTA
* * * * * * *
31915612 CAGGGGTATTTCGAT-ATTTTATAAA-TTGAGAGTATTTCGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGAG-GTATTTTGGTAATTTTACAAAT
*
31915665 CAGGGGTATTTTGGTAATTTTACAAGCTAGAGGTATTTTGGTAATTTTACAAA-
1 CAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAAT
* * **
31915718 CTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGAT
1 C-AGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAAT
** * *
31915773 C-GAGGGTATTTTGGTAATTTTGTAAATCAAG-GGTATTTTAGTAATTTTA
1 CAG-GGGTATTTTGGTAATTTTACAAA-CTAGAGGTATTTTGGTAATTTTA
31915822 TAAAGTGAGG
Statistics
Matches: 133, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
53 15 0.11
54 110 0.83
55 8 0.06
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAAT
Found at i:31915779 original size:27 final size:26
Alignment explanation
Indices: 31915668--31915821 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 26
31915658 CACAAATCAG
*
31915668 GGGTATTTTGGTAATTTTACAAGCTA
1 GGGTATTTTGGTAATTTTACAAACTA
31915694 GAGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
*
31915721 GGGGTATTTTAGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAAACTA
* * *
31915748 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTGGTAATTTTAC-AAACTA
** *
31915776 GGGTATTTTGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CTA
*
31915803 GGGTATTTTAGTAATTTTA
1 GGGTATTTTGGTAATTTTA
31915822 TAAAGTGAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 105 0.95
28 4 0.04
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:31915825 original size:27 final size:27
Alignment explanation
Indices: 31915643--31915821 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
31915633 TAAATTGAGA
* * * *
31915643 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAATCAAGG
* *
31915670 GTATTTTGGTAATTTTAC-AAGCTAGAG
1 GTATTTTGGTAATTTTACAAATCAAG-G
*
31915697 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTGGTAATTTTACAAATC-AAGG
* *
31915724 GTATTTTAGTAATTTTACAAA-CTAGGG
1 GTATTTTGGTAATTTTACAAATC-AAGG
** *
31915751 GTATTTTGGTAATTTTACTGATCGAGG
1 GTATTTTGGTAATTTTACAAATCAAGG
**
31915778 GTATTTTGGTAATTTTGTAAATCAAGG
1 GTATTTTGGTAATTTTACAAATCAAGG
*
31915805 GTATTTTAGTAATTTTA
1 GTATTTTGGTAATTTTA
31915822 TAAAGTGAGG
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 119 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAATCAAGG
Found at i:31915832 original size:27 final size:25
Alignment explanation
Indices: 31915627--31915834 Score: 139
Period size: 27 Copynumber: 7.7 Consensus size: 25
31915617 GTATTTCGAT
* * *
31915627 ATTTTATAAATTGAGAGTATTTCGATA
1 ATTTTATAAA-T-AGGGTATTTTGGTA
* *
31915654 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTATAAAT-A-GGGTATTTTGGTA
* *
31915681 ATTTTACAAGCTAGAGGTATTTTGGTA
1 ATTTTATAA-ATAG-GGTATTTTGGTA
* *
31915708 ATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTATAAA-TA-GGGTATTTTGGTA
*
31915735 ATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTATAAA-TA-GGGTATTTTGGTA
*
31915762 ATTTTACT-GATCGAGGGTATTTTGGTA
1 ATTTTA-TAAAT--AGGGTATTTTGGTA
* *
31915789 ATTTTGTAAATCAAGGGTATTTTAGTA
1 ATTTTATAAAT--AGGGTATTTTGGTA
31915816 ATTTTATAAAGTGAGGGTA
1 ATTTTATAAA-T-AGGGTA
31915835 AAACGGTAAT
Statistics
Matches: 152, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.03
27 143 0.94
28 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (25 bp):
ATTTTATAAATAGGGTATTTTGGTA
Found at i:31915834 original size:81 final size:81
Alignment explanation
Indices: 31915652--31915821 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
31915642 AGTATTTCGA
* *
31915652 TAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTACAAGCTAGAGGTATTTTGGTAATTTTACA
1 TAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAGCGAGAGGTATTTTGGTAATTTTACA
*
31915716 AACTAGGGGTATTTTAG
65 AACTAAGGGTATTTTAG
* * **
31915733 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCGAG-GGTATTTTGGTAATTTTGTA
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC-AAGCGAGAGGTATTTTGGTAATTTTACA
31915797 AA-TCAAGGGTATTTTAG
65 AACT-AAGGGTATTTTAG
31915814 TAATTTTA
1 TAATTTTA
31915822 TAAAGTGAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
80 1 0.01
81 73 0.92
82 5 0.06
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (81 bp):
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGCGAGAGGTATTTTGGTAATTTTACAA
ACTAAGGGTATTTTAG
Found at i:31915843 original size:27 final size:27
Alignment explanation
Indices: 31915813--31915967 Score: 204
Period size: 27 Copynumber: 5.7 Consensus size: 27
31915803 GGGTATTTTA
*
31915813 GTAATTTTATAAAGT-GAGGGTAAAACG
1 GTAATTCTATAAA-TCGAGGGTAAAACG
* *
31915840 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
31915867 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
31915894 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
31915921 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
31915948 GTAATTTTCTAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
31915968 CATTTTAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:31915859 original size:81 final size:80
Alignment explanation
Indices: 31915703--31915981 Score: 231
Period size: 81 Copynumber: 3.5 Consensus size: 80
31915693 AGAGGTATTT
* * * ****
31915703 TGGTAATTTTACAAA-CTAGGGGTATTTTAGTAATTTTACAAACT-AGGGGTATTTTGGTAATTT
1 TGGTAATTTTATAAATC-AAGGGTATTTTAGTAATTTTATAAA-TGA-GGGTAAAACGGTAATTT
* ***
31915766 TACT-GATCGAGGGTATTT
63 TA-TAAATCGAGGGTAAAA
* *
31915784 TGGTAATTTTGTAAATCAAGGGTATTTTAGTAATTTTATAAAGTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTTTATAAATCAAGGGTATTTTAGTAATTTTATAAA-TGAGGGTAAAACGGTAATTTTA
*
31915849 TAAATTGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * *** * * * *
31915865 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTG
1 TGGTAATTTTATAAATCAAGGGTATTTTAGTAATTTTATAAAT-GAGGGTAAAACGGTAATTTTA
31915930 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * ** *
31915946 CGGTAATTTTCTAAATTGAGGGCATTTTAGTAATTT
1 TGGTAATTTTATAAATCAAGGGTATTTTAGTAATTT
31915982 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
80 2 0.01
81 153 0.97
82 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (80 bp):
TGGTAATTTTATAAATCAAGGGTATTTTAGTAATTTTATAAATGAGGGTAAAACGGTAATTTTAT
AAATCGAGGGTAAAA
Found at i:31915987 original size:54 final size:54
Alignment explanation
Indices: 31915785--31915981 Score: 193
Period size: 54 Copynumber: 3.6 Consensus size: 54
31915775 AGGGTATTTT
* * * **
31915785 GGTAATTTTGTAAATCAAGGGTATTTTAGTAATTTTATAAAGT-GAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTATAATAGTAATTTTATAAA-TCGAGGGTAAAAC
* * * * *
31915839 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTATAATAGTAATTTTATAAATCGAGGGTAAAAC
*
31915893 GGTAATTCTATAAATCGAGGGTA-AA-ACGATAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTATAATA-G-TAATTTTATAAATCGAGGGTAAAAC
* * * * **
31915947 GGTAATTTTCTAAATTGAGGGCATTTTAGTAATTT
1 GGTAATTCTATAAATCGAGGGTATAATAGTAATTT
31915982 GGTAAACTAA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
53 4 0.03
54 111 0.95
55 1 0.01
56 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.35
Consensus pattern (54 bp):
GGTAATTCTATAAATCGAGGGTATAATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:31918849 original size:40 final size:40
Alignment explanation
Indices: 31918794--31918872 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
31918784 AGAATTTTTG
* * *
31918794 GTTTAGCCAGATAGTACAGTTTATTCCTCTAAATTACCCC
1 GTTTAGCCAAATAGTACAGTTTATTCCTCAAAATCACCCC
*
31918834 GTTTAGCCAAATAGTACATTTTATTCCTCAAAATCACCC
1 GTTTAGCCAAATAGTACAGTTTATTCCTCAAAATCACCC
31918873 ATGATTCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (40 bp):
GTTTAGCCAAATAGTACAGTTTATTCCTCAAAATCACCCC
Found at i:31923936 original size:6 final size:6
Alignment explanation
Indices: 31923917--31923966 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
31923907 TGACCCCTTT
* * *
31923917 ATTAAA CATAAAA AATAAA ATTAAC ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA -ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
31923966 A
1 A
31923967 ATTTTGAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (6 bp):
ATTAAA
Found at i:31931933 original size:42 final size:41
Alignment explanation
Indices: 31931873--31931983 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 41
31931863 TACAATGTCG
* *
31931873 ACGTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCC-
1 ACGTCCCAGAC-AGGTCTTACACGTAATCAAACA-CGATGCCA
* * *
31931915 ACGTCCCAGACAGAGTCTTCCACGAAATCAAATACGATGCCA
1 ACGTCCCAGACAG-GTCTTACACGTAATCAAACACGATGCCA
* *
31931957 ATGTCCTAGACATGGTCTTACACGTAA
1 ACGTCCCAGACA-GGTCTTACACGTAA
31931984 AACAGAAGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 8 0.14
42 48 0.84
43 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (41 bp):
ACGTCCCAGACAGGTCTTACACGTAATCAAACACGATGCCA
Found at i:31933071 original size:21 final size:22
Alignment explanation
Indices: 31933031--31933072 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
31933021 AATAATAAGC
31933031 CAAATCAGATAGGCACTTTTAA
1 CAAATCAGATAGGCACTTTTAA
31933053 CAAAT-AG-TAGGCAACTTTTA
1 CAAATCAGATAGGC-ACTTTTA
31933073 TCTTTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (22 bp):
CAAATCAGATAGGCACTTTTAA
Found at i:31934575 original size:93 final size:93
Alignment explanation
Indices: 31934467--31934638 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
31934457 GCCCATAAGT
* * * * *
31934467 GAACTCGGACTCAACTCAAGGAGCTCGGGCGTTTGCATCCATAAGTGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31934532 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* * *
31934560 GAACTCGGTCTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31934625 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
31934639 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:31934619 original size:46 final size:46
Alignment explanation
Indices: 31934459--31934634 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
31934449 TGTAACCCGC
* * * * *
31934459 CCATAAGTGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31934505 CCATAAGTGAACTCTGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* *** * *
31934551 ACATCTCTCGAACTCGGTCTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31934598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31934635 TGCCCAAACA
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 65 0.64
47 28 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31937064 original size:15 final size:15
Alignment explanation
Indices: 31937038--31937093 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
31937028 CAAGGAAACC
31937038 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
31937053 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
31937068 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
31937083 GAATAAAGAAA
1 GAATAAAGAAA
31937094 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:31940114 original size:46 final size:46
Alignment explanation
Indices: 31940047--31940265 Score: 284
Period size: 46 Copynumber: 4.7 Consensus size: 46
31940037 AACCCGCCCG
* * *
31940047 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
31940093 TAAGTGAACTCTGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--TCCA
***
31940139 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
31940186 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
31940232 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31940266 TGCCCAAACA
Statistics
Matches: 150, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
46 111 0.74
47 30 0.20
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:31941094 original size:52 final size:52
Alignment explanation
Indices: 31941016--31941118 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
31941006 GTTGAATTAC
*
31941016 TGCTAGCATAAGCTTAATCGAGCTACCAGGACTCCAAAAACGTAAAAATCAA
1 TGCTAGCATAAGCTTAATCGAGCTACCAAGACTCCAAAAACGTAAAAATCAA
31941068 TGCTAGCATAAGCTTAATCGAGCTACCAAGACTCCAAAAACGTAAAAATCA
1 TGCTAGCATAAGCTTAATCGAGCTACCAAGACTCCAAAAACGTAAAAATCA
31941119 TTAAAAATGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (52 bp):
TGCTAGCATAAGCTTAATCGAGCTACCAAGACTCCAAAAACGTAAAAATCAA
Found at i:31945448 original size:40 final size:40
Alignment explanation
Indices: 31945411--31945595 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
31945401 GCTACTCGTT
*
31945411 CAAATGCCTTCGGGACATAGCCCGG-TTATAGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGGAACTCGCA
* *
31945451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
* * *
31945491 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
* * * *
31945530 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGG-AAC-TCGCA
31945571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31945596 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
Found at i:31945528 original size:79 final size:82
Alignment explanation
Indices: 31945411--31945595 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
31945401 GCTACTCGTT
* *
31945411 CAAATGCCTTCGGGACATAGCCCGG-TTATAGGAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31945474 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
31945491 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31945554 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
31945571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31945596 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31953487 original size:79 final size:82
Alignment explanation
Indices: 31953376--31953560 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
31953366 GCTACTCGTT
* *
31953376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31953439 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
31953456 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31953519 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
31953536 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31953561 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31953560 original size:40 final size:40
Alignment explanation
Indices: 31953357--31953560 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
31953347 CGGAATTTAA
** *
31953357 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31953397 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31953437 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31953476 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31953516 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31953556 CCGGA
1 CCGGA
31953561 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31961397 original size:40 final size:40
Alignment explanation
Indices: 31961324--31961505 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
31961314 AAACCAAGTA
** * *
31961324 CCTTCGGGGTTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
31961363 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
31961403 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
31961443 CCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
31961483 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
31961506 CATCCAAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
39 13 0.10
40 114 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:31969257 original size:40 final size:40
Alignment explanation
Indices: 31969206--31969314 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
31969196 GCTACTCGCT
*
31969206 CAAATGTCTTCGGGACTTAGCCCGGTTATAGTAACTCAG-A
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT-AGCA
* * * *
31969246 CAATTGCCTTCGGGACTTAGCCTGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTAGCA
*
31969286 CAAATGCCTTCGGGACTTAGCTCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31969315 CATCCAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
39 3 0.05
40 53 0.93
41 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:31970175 original size:43 final size:43
Alignment explanation
Indices: 31970114--31970198 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
31970104 ACACCATACG
31970114 ATTTCAATTTTTGTTTTGGTCATGAGTTGAACAAAGAACTTAC
1 ATTTCAATTTTTGTTTTGGTCATGAGTTGAACAAAGAACTTAC
* *
31970157 ATTTCAATTTTTTTTTTGGTCATGGGTTGAACAAAGAACTTA
1 ATTTCAATTTTTGTTTTGGTCATGAGTTGAACAAAGAACTTA
31970199 ATGTCTAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (43 bp):
ATTTCAATTTTTGTTTTGGTCATGAGTTGAACAAAGAACTTAC
Found at i:31971258 original size:20 final size:21
Alignment explanation
Indices: 31971230--31971269 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
31971220 GTTCAATGAT
31971230 AAAACAAAAATT-AAAGTCCC
1 AAAACAAAAATTAAAAGTCCC
* *
31971250 AAAATAAAATTTAAAAGTCC
1 AAAACAAAAATTAAAAGTCC
31971270 ATGAAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAACAAAAATTAAAAGTCCC
Found at i:31971469 original size:12 final size:11
Alignment explanation
Indices: 31971452--31971493 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
31971442 ATTTGCATAC
31971452 ACATCAACACAT
1 ACATCAA-ACAT
31971464 ACATCAAACAT
1 ACATCAAACAT
*
31971475 GACAT-AATCAT
1 -ACATCAAACAT
31971486 ACATCAAA
1 ACATCAAA
31971494 ATTATGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
12 11 0.42
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (11 bp):
ACATCAAACAT
Found at i:31971730 original size:22 final size:21
Alignment explanation
Indices: 31971649--31971732 Score: 62
Period size: 22 Copynumber: 3.9 Consensus size: 21
31971639 GACATGCCAC
*
31971649 CACTGATTTGCAGATAAACTGC
1 CACTGATTTGCAGATAAACT-A
* *
31971671 CATTTATTTGCAGA-ATAACTA
1 CACTGATTTGCAGATA-AACTA
* * * *
31971692 CTACTAAATTACGGATAAACTA
1 C-ACTGATTTGCAGATAAACTA
31971714 TCACTGATTTGCAGATAAA
1 -CACTGATTTGCAGATAAA
31971733 TTGCACTAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.04
22 42 0.91
23 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (21 bp):
CACTGATTTGCAGATAAACTA
Found at i:31979262 original size:36 final size:37
Alignment explanation
Indices: 31979222--31979500 Score: 131
Period size: 36 Copynumber: 7.6 Consensus size: 37
31979212 TTAAAAATAT
*
31979222 TTTATTA-TATATATTATTTATTCTGTTATATTTATA
1 TTTATTATTATATATTATTTATTCTATTATATTTATA
* * *
31979258 TTTA-TATTATATATTATTTATTTTACTATATTTTTA
1 TTTATTATTATATATTATTTATTCTATTATATTTATA
* *
31979294 TATTATTATTATTATTTTATATATTCCTTATTATA-TTATA
1 T-TTATTATTA-TATATTATTTATT-C-TATTATATTTATA
* ** * *
31979334 TTTCATTA-TATTTTATCTACATATTTTATTACATATTATA
1 TTT-ATTATTA-TATAT-TATTTATTCTATTATAT-TTATA
* * * * * *
31979374 -TT-TTGTTATATATTATTCATTATAATATCTTTCT-
1 TTTATTATTATATATTATTTATTCTATTATATTTATA
* *
31979408 TTCTTTTA-TATATATTATATTATATAC-ATTTTATTATATA
1 TT-TATTATTATATATTAT-TTAT-T-CTATTATATT-TATA
*
31979448 TATATT-TT-TATATTATTTA-T-TA-TATGATTTATA
1 TTTATTATTATATATTATTTATTCTATTAT-ATTTATA
*
31979481 -TTATTA-TATATTTTATTTAT
1 TTTATTATTATATATTATTTAT
31979501 AAATTATGTT
Statistics
Matches: 182, Mismatches: 36, Indels: 52
0.67 0.13 0.19
Matches are distributed among these distances:
32 5 0.03
33 16 0.09
34 4 0.02
35 7 0.04
36 51 0.28
37 17 0.09
38 27 0.15
39 27 0.15
40 22 0.12
41 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (37 bp):
TTTATTATTATATATTATTTATTCTATTATATTTATA
Found at i:31979290 original size:30 final size:27
Alignment explanation
Indices: 31979219--31979496 Score: 94
Period size: 29 Copynumber: 10.3 Consensus size: 27
31979209 TTTTTAAAAA
* *
31979219 TATTTTAT-TATATATATTATTTATTCTGT
1 TATTTTATATATTTATATTA-TTA-T-TAT
*
31979248 TATATT-TATATTTATATTATATATTATT
1 TATTTTATATATTTATATTAT-TATTA-T
31979276 TATTTTACTATATTTTTATATTATTATTAT
1 TATTTTA-TATA--TTTATATTATTATTAT
31979306 TATTTTATATATTCCT-TATTA-TATTA-
1 TATTTTATATATT--TATATTATTATTAT
* *
31979332 TATTTCATTATATTT-TATCTA-CA-TAT
1 TATTTTA-TATATTTATAT-TATTATTAT
* *
31979358 T-TTATTACATA-TTATATT-TTGTTA-
1 TATT-TTATATATTTATATTATTATTAT
* * *
31979382 TATATTAT-TCA-TTATAATATCT-TTCTT
1 TATTTTATAT-ATTTATATTAT-TATT-AT
*
31979409 TCTTTTATATATATTATATTA-TA-TA-
1 TATTTTATATAT-TTATATTATTATTAT
* * *
31979434 CATTTTATTATATATATATTTTTA-TAT
1 TATTTTA-TATATTTATATTATTATTAT
31979461 TATTTATTATATGATTTATATTATTA-TA-
1 TA-TT-TTATAT-ATTTATATTATTATTAT
31979489 TATTTTAT
1 TATTTTAT
31979497 TTATAAATTA
Statistics
Matches: 192, Mismatches: 25, Indels: 67
0.68 0.09 0.24
Matches are distributed among these distances:
23 1 0.01
24 14 0.07
25 31 0.16
26 26 0.14
27 26 0.14
28 22 0.11
29 45 0.23
30 12 0.06
31 5 0.03
32 10 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (27 bp):
TATTTTATATATTTATATTATTATTAT
Found at i:31979294 original size:27 final size:28
Alignment explanation
Indices: 31979264--31979335 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
31979254 TATATTTATA
*
31979264 TTATATATTAT-TTATTTTACTATATT-T
1 TTATATATTATATTATTTTA-TATATTCC
31979291 TTATATTATTATTATTATTTTATATATTCC
1 TTATA-TATTA-TATTATTTTATATATTCC
31979321 TTATTATATTATATT
1 TTA-TATATTATATT
31979336 TCATTATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 5 0.13
28 5 0.13
29 11 0.28
30 16 0.41
31 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATATATTATATTATTTTATATATTCC
Found at i:31979325 original size:46 final size:46
Alignment explanation
Indices: 31979247--31979373 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 46
31979237 ATTTATTCTG
* *
31979247 TTATA-TTTA-TATTTATATTATATATTATTTATTTTACTATATTT-
1 TTATATTTTATTA-TTATATTATATATTACTTATTATACTATATTTA
* * *
31979291 TTATATTATTATTATTATTTTATATATTCCTTATTATATTATATTTCA
1 TTATATT-TTATTATTATATTATATATTACTTATTATACTATATTT-A
* *
31979339 TTATATTTTATCTA-CATATT-T-TATTACATATTATA
1 TTATATTTTAT-TATTATATTATATATTACTTATTATA
31979374 TTTTGTTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
44 5 0.07
45 13 0.19
46 31 0.46
47 10 0.15
48 9 0.13
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (46 bp):
TTATATTTTATTATTATATTATATATTACTTATTATACTATATTTA
Found at i:31979376 original size:17 final size:17
Alignment explanation
Indices: 31979354--31979389 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31979344 TTTTATCTAC
31979354 ATATTTTATTACATATT
1 ATATTTTATTACATATT
* *
31979371 ATATTTTGTTATATATT
1 ATATTTTATTACATATT
31979388 AT
1 AT
31979390 TCATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTATTACATATT
Found at i:31979480 original size:29 final size:25
Alignment explanation
Indices: 31979218--31979501 Score: 80
Period size: 26 Copynumber: 11.0 Consensus size: 25
31979208 TTTTTTAAAA
*
31979218 ATATTTTATTATATATATTATT-TAT
1 ATATATTATTATATAT-TTATTATAT
* * *
31979243 -TCTGTTATATTTATATTTA-TAT-T
1 ATATATTAT-TATATATTTATTATAT
*
31979266 ATATATTATT-TAT-TTTACTATATTT
1 ATATATTATTATATATTTA-T-TATAT
*
31979291 TTATATTATTAT-TA-TTATT-T-T
1 ATATATTATTATATATTTATTATAT
*
31979312 ATATATTCCTTATTATATTATATT-TCATT
1 ATATATT-ATTA-TATATT-TATTAT-A-T
* * *
31979341 ATATTTTATCTACATATTTTATTACAT
1 ATATATTAT-TATATA-TTTATTATAT
*
31979368 ATTATATT-TTGTTATATATTATTCAT-T
1 A-TATATTATT-ATATAT-TTATT-ATAT
* * *
31979395 ATAATATCT-TTCTTTCTTT-TATATAT
1 AT-ATAT-TATTATATATTTAT-TATAT
*
31979421 ATTATATTA-TATACATTTTATTATAT
1 A-TATATTATTATATA-TTTATTATAT
*
31979447 ATATATTTTTATATTATTTATTATAT
1 ATATATTATTATA-TATTTATTATAT
31979473 GATTTATATTATTATATATTTTATT-TAT
1 -A--TATATTATTATATA-TTTATTATAT
31979501 A
1 A
31979502 AATTATGTTA
Statistics
Matches: 195, Mismatches: 26, Indels: 74
0.66 0.09 0.25
Matches are distributed among these distances:
21 11 0.06
22 7 0.04
23 5 0.03
24 22 0.11
25 33 0.17
26 41 0.21
27 25 0.13
28 23 0.12
29 28 0.14
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (25 bp):
ATATATTATTATATATTTATTATAT
Found at i:31979497 original size:12 final size:12
Alignment explanation
Indices: 31979218--31979489 Score: 77
Period size: 14 Copynumber: 21.3 Consensus size: 12
31979208 TTTTTTAAAA
31979218 ATATTTTATTAT
1 ATATTTTATTAT
*
31979230 ATATATTATT-T
1 ATATTTTATTAT
*
31979241 AT-TCTGTTATATTT
1 ATAT-T-TTAT-TAT
31979255 ATATTTATATTAT
1 ATATTT-TATTAT
*
31979268 ATATTATTTATTTT
1 ATA-T-TTTATTAT
31979282 ACTATATTT-TTAT
1 A-TAT-TTTATTAT
*
31979295 AT-TATTATTAT
1 ATATTTTATTAT
31979306 -TATTTTA-TAT
1 ATATTTTATTAT
*
31979316 AT-TCCTTATTAT
1 ATAT-TTTATTAT
31979328 ATTATATTTCA-T-T
1 A-TAT-TTT-ATTAT
*
31979341 ATATTTTATCTAC
1 ATATTTTAT-TAT
31979354 ATATTTTATTACATATT
1 ATATTTTA-T---TA-T
*
31979371 ATATTTTGTTAT
1 ATATTTTATTAT
31979383 ATATTATTCATTAT
1 ATATT-TT-ATTAT
*
31979397 AATATCTTT-CT-T
1 -ATAT-TTTATTAT
*
31979409 -TCTTTTA-TAT
1 ATATTTTATTAT
*
31979419 ATATTATATTAT
1 ATATTTTATTAT
31979431 ATACATTTTATTAT
1 AT--ATTTTATTAT
*
31979445 ATATATATTTTTAT
1 ATAT-T-TTATTAT
31979459 AT-TATTTATTAT
1 ATAT-TTTATTAT
31979471 ATGATTTATATTATT
1 AT-ATTT-TATTA-T
31979486 ATAT
1 ATAT
31979490 ATTTTATTTA
Statistics
Matches: 198, Mismatches: 22, Indels: 78
0.66 0.07 0.26
Matches are distributed among these distances:
9 4 0.02
10 12 0.06
11 24 0.12
12 44 0.22
13 33 0.17
14 55 0.28
15 15 0.08
16 4 0.02
17 7 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:31993723 original size:37 final size:37
Alignment explanation
Indices: 31993680--31993787 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
31993670 GCTCGGACGT
* *
31993680 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
31993717 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
31993754 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31993788 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:31994004 original size:47 final size:47
Alignment explanation
Indices: 31993950--31994207 Score: 372
Period size: 47 Copynumber: 5.5 Consensus size: 47
31993940 TTTCACACTA
* * * * * *
31993950 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCAGCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
31993997 GTCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
31994044 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
31994091 GCCATTCGGCCTAATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
31994138 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
31994185 GCCATTCGGCCTTACCACATATA
1 GCCATTCGGCCTTATCACATATA
31994208 CATATCTCAT
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:31994065 original size:94 final size:94
Alignment explanation
Indices: 31993950--31994255 Score: 375
Period size: 94 Copynumber: 3.2 Consensus size: 94
31993940 TTTCACACTA
* * * * *
31993950 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCAGCACATTGGTCATTCGGCCTTATCAC
1 GCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
31994015 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * * * * *
31994044 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGCCTAATCAC
1 GCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* * *
31994109 ATATATGCATGTTCACATTCATCACATAG
66 ACATATGCATGCTCACATTCATCACATTG
*
31994138 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTA-C-C
1 GCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* * * *
31994201 ACATATACATATCTCATATAT-ATTTCACATTA
66 ACATATGCAT-GCTCACAT-TCA--TCACATTG
*
31994233 GCCATTCGGCTTTACCACATATA
1 GCCATTCGGCCTTACCACATATA
31994256 CATATCCACA
Statistics
Matches: 181, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
92 9 0.05
93 7 0.04
94 138 0.76
95 27 0.15
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (94 bp):
GCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:31994248 original size:48 final size:48
Alignment explanation
Indices: 31994178--31994866 Score: 793
Period size: 48 Copynumber: 13.7 Consensus size: 48
31994168 TCATATTCAC
* *
31994178 CACATTGGCCATTCGGCCTTACCACATATACATATCTCATATATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
* *
31994226 CACATTAGCCATTCGGCTTTACCACATATACATATCCACATATACATATCT
1 CACATTAGCCATTCGGCTTTACCACATATACATAT-CTCATAT--ATATTT
** * * *
31994277 CATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCACACATATATTT
1 C--ACAT-TAGC-CATT---C----GGCTTTACCACATATACATATCTCATATATATTT
* *
31994336 CACATTAGCCATTCGGCTTTACCACATATACATATCCACATATACATATCT
1 CACATTAGCCATTCGGCTTTACCACATATACATAT-CTCATAT--ATATTT
** * * *
31994387 CATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCACACATATATTT
1 C--ACAT-TAGC-CATT---C----GGCTTTACCACATATACATATCTCATATATATTT
*
31994446 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
* ** ** *
31994494 TACATTCCCCATTCGGCTTTACCACATATACATATAACACATATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
* *
31994542 CACATTACCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
* ** ** *
31994590 TACATTCCCCATTCGGCTTTACCACATATACATATAACACATATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
* *
31994638 CACATTACCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
31994686 CACATTAGCCATTCGGCTTTACACACATATACATATCTCATATATATTT
1 CACATTAGCCATTCGGCTTTAC-CACATATACATATCTCATATATATTT
*
31994735 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
31994783 CACATTAGCCATTCGGCTTTACACACATATACATATCTCATATATATTT
1 CACATTAGCCATTCGGCTTTAC-CACATATACATATCTCATATATATTT
*
31994832 CACATTAGCCATTCGGCTTTACCACATATATATAT
1 CACATTAGCCATTCGGCTTTACCACATATACATAT
31994867 TTATCTTGGA
Statistics
Matches: 556, Mismatches: 55, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
48 330 0.59
49 106 0.19
51 12 0.02
52 2 0.00
53 8 0.01
54 4 0.01
55 16 0.03
56 4 0.01
57 8 0.01
58 2 0.00
59 12 0.02
61 12 0.02
62 40 0.07
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
Found at i:31994266 original size:14 final size:14
Alignment explanation
Indices: 31994247--31994275 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31994237 TTCGGCTTTA
31994247 CCACATATACATAT
1 CCACATATACATAT
31994261 CCACATATACATAT
1 CCACATATACATAT
31994275 C
1 C
31994276 TCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (14 bp):
CCACATATACATAT
Found at i:31994267 original size:62 final size:62
Alignment explanation
Indices: 31994199--31994332 Score: 223
Period size: 62 Copynumber: 2.1 Consensus size: 62
31994189 TTCGGCCTTA
* *
31994199 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
* *
31994261 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATAT
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
31994323 CACACATATA
1 C-CACATATA
31994333 TTTCACATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 59 0.88
63 8 0.12
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (62 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
Found at i:31994312 original size:110 final size:110
Alignment explanation
Indices: 31994178--31994866 Score: 779
Period size: 110 Copynumber: 6.8 Consensus size: 110
31994168 TCATATTCAC
* * * *
31994178 CACATTGGCCATTCGGCCTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGC
1 CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
31994243 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
66 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
* *
31994288 CACATTCGCCATTTGGCTTCACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
1 CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
31994353 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
66 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
* *
31994398 CACATTCGCCATTTGGCTTCACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
1 CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
31994463 TTTACCACATATACATAT---C---T-CATA---CAT--AT-TTT
66 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
* * *
31994495 -ACATTCCCCATTCGGCTTTACCACATATACATATAACACATATATTTCACATTACCCATTCGGC
1 CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
31994559 TTTACCACATATACATAT---C---T-CATA---CAT--AT-TTT
66 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
* * *
31994591 -ACATTCCCCATTCGGCTTTACCACATATACATATAACACATATATTTCACATTACCCATTCGG-
1 CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
31994654 -------C-T-T---TA-CCACATATACATATCTCATACATATTT
66 TTTACCACATATACATATCCACATATACATATCTCATACATATTT
* * *
31994686 CACATTAGCCATTCGGCTTTACACACATATACATATCTCATATATATTTCACATTAGCCATTCGG
1 CACATTCGCCATTCGGCTTTAC-CACATATACATATCACACATATATTTCACATTAGCCATTCGG
31994751 --------C-T-T---TA-CCACATATACATATCTCATACATATTT
65 CTTTACCACATATACATATCCACATATACATATCTCATACATATTT
* * *
31994783 CACATTAGCCATTCGGCTTTACACACATATACATATCTCATATATATTTCACATTAGCCATTCGG
1 CACATTCGCCATTCGGCTTTAC-CACATATACATATCACACATATATTTCACATTAGCCATTCGG
*
31994848 CTTTACCACATATATATAT
65 CTTTACCACATATACATAT
31994867 TTATCTTGGA
Statistics
Matches: 533, Mismatches: 17, Indels: 57
0.88 0.03 0.09
Matches are distributed among these distances:
83 2 0.00
85 1 0.00
86 1 0.00
87 1 0.00
88 2 0.00
89 4 0.01
92 3 0.01
94 2 0.00
95 3 0.01
96 173 0.32
97 138 0.26
98 2 0.00
100 3 0.01
103 4 0.01
104 1 0.00
105 1 0.00
106 1 0.00
107 2 0.00
110 189 0.35
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (110 bp):
CACATTCGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGC
TTTACCACATATACATATCCACATATACATATCTCATACATATTT
Found at i:31994367 original size:96 final size:96
Alignment explanation
Indices: 31994261--31994866 Score: 897
Period size: 96 Copynumber: 6.1 Consensus size: 96
31994251 ATATACATAT
* *
31994261 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCAC
1 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCAC
31994326 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
66 ACATATATTTCACATTAGCCATTCGG--------C-T-T---TA
* *
31994370 TCCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCA
1 -CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCA
31994435 CACATATATTTCACATTAGCCATTCGGCTTTA
65 CACATATATTTCACATTAGCCATTCGGCTTTA
* * *
31994467 CCACATATACATATCTCATACATATTTTACATTCCCCATTCGGCTTTACCACATATACATATAAC
1 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCAC
*
31994532 ACATATATTTCACATTACCCATTCGGCTTTA
66 ACATATATTTCACATTAGCCATTCGGCTTTA
* * *
31994563 CCACATATACATATCTCATACATATTTTACATTCCCCATTCGGCTTTACCACATATACATATAAC
1 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCAC
*
31994628 ACATATATTTCACATTACCCATTCGGCTTTA
66 ACATATATTTCACATTAGCCATTCGGCTTTA
* *
31994659 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACACACATATACATATCT
1 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTAC-CACATATACATATCA
*
31994724 CATATATATTTCACATTAGCCATTCGGCTTTA
65 CACATATATTTCACATTAGCCATTCGGCTTTA
* *
31994756 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACACACATATACATATCT
1 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTAC-CACATATACATATCA
*
31994821 CATATATATTTCACATTAGCCATTCGGCTTTA
65 CACATATATTTCACATTAGCCATTCGGCTTTA
*
31994853 CCACATATATATAT
1 CCACATATACATAT
31994867 TTATCTTGGA
Statistics
Matches: 481, Mismatches: 14, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
96 232 0.48
97 155 0.32
100 1 0.00
101 1 0.00
102 1 0.00
110 91 0.19
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (96 bp):
CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCAC
ACATATATTTCACATTAGCCATTCGGCTTTA
Found at i:31994375 original size:62 final size:62
Alignment explanation
Indices: 31994309--31994442 Score: 205
Period size: 62 Copynumber: 2.1 Consensus size: 62
31994299 TTTGGCTTCA
* *
31994309 CCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CCACATATACATATCACACACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
* * * *
31994371 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATAT
1 CCACATATACATATCACACACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
31994433 CACACATATA
1 C-CACATATA
31994443 TTTCACATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
62 57 0.88
63 8 0.12
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (62 bp):
CCACATATACATATCACACACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
Found at i:31994376 original size:14 final size:14
Alignment explanation
Indices: 31994357--31994385 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31994347 TTCGGCTTTA
31994357 CCACATATACATAT
1 CCACATATACATAT
31994371 CCACATATACATAT
1 CCACATATACATAT
31994385 C
1 C
31994386 TCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (14 bp):
CCACATATACATAT
Found at i:32000057 original size:30 final size:30
Alignment explanation
Indices: 32000023--32000083 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32000013 TCCTTAAATC
32000023 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32000053 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32000083 A
1 A
32000084 CGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:32001195 original size:44 final size:44
Alignment explanation
Indices: 32001138--32001222 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
32001128 AATATAAGAT
* * *
32001138 GATTTGGCGTCTCTATATTGTCATAGAGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
*
32001182 GATTTGGCATCTCTATATTGTCAGAGAGTAGATCGAAGATA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATA
32001223 TCAACATGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (44 bp):
GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:32002947 original size:36 final size:37
Alignment explanation
Indices: 32002907--32003027 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 37
32002897 TTAAAAATAT
*
32002907 TTTATTA-TATATATTATTTATTCTGTTATATTTATA
1 TTTATTATTATATATTATTTATTCTATTATATTTATA
* * *
32002943 TTTA-TATTATATATTATTTATTTTACTATATTTTTA
1 TTTATTATTATATATTATTTATTCTATTATATTTATA
* *
32002979 TATTATTATTATTATTTTATATATTCCTTATTATA-TTATA
1 T-TTATTATTA-TATATTATTTATT-C-TATTATATTTATA
32003019 TTTCATTAT
1 TTT-ATTAT
32003028 ATTTTATCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
35 2 0.03
36 30 0.43
37 3 0.04
38 5 0.07
39 13 0.19
40 10 0.14
41 6 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (37 bp):
TTTATTATTATATATTATTTATTCTATTATATTTATA
Found at i:32002975 original size:30 final size:27
Alignment explanation
Indices: 32002904--32003003 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 27
32002894 TTTTTAAAAA
* *
32002904 TATTTTAT-TATATATATTATTTATTCTGT
1 TATTTTATATATTTATATTA-TTA-T-TAT
*
32002933 TATATT-TATATTTATATTATATATTATT
1 TATTTTATATATTTATATTAT-TATTA-T
32002961 TATTTTACTATATTTTTATATTATTATTAT
1 TATTTTA-TATA--TTTATATTATTATTAT
32002991 TATTTTATATATT
1 TATTTTATATATT
32003004 CCTTATTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
27 3 0.05
28 9 0.15
29 21 0.35
30 12 0.20
31 5 0.08
32 10 0.17
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (27 bp):
TATTTTATATATTTATATTATTATTAT
Found at i:32003009 original size:19 final size:19
Alignment explanation
Indices: 32002974--32003034 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
32002964 TTTACTATAT
32002974 TTTTATATTATT-ATTATTA
1 TTTTATA-TATTCATTATTA
*
32002993 TTTTATATATTCCTTATTA
1 TTTTATATATTCATTATTA
*
32003012 TATTATAT-TTCATTA-TA
1 TTTTATATATTCATTATTA
32003029 TTTTAT
1 TTTTAT
32003035 CTACATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.19
18 10 0.27
19 20 0.54
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATATTCATTATTA
Found at i:32003010 original size:46 final size:46
Alignment explanation
Indices: 32002932--32003058 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 46
32002922 ATTTATTCTG
* *
32002932 TTATA-TTTA-TATTTATATTATATATTATTTATTTTACTATATTT-
1 TTATATTTTATTA-TTATATTATATATTACTTATTATACTATATTTA
* * *
32002976 TTATATTATTATTATTATTTTATATATTCCTTATTATATTATATTTCA
1 TTATATT-TTATTATTATATTATATATTACTTATTATACTATATTT-A
* *
32003024 TTATATTTTATCTA-CATATT-T-TATTACATATTATA
1 TTATATTTTAT-TATTATATTATATATTACTTATTATA
32003059 TTTTGTTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
44 5 0.07
45 13 0.19
46 31 0.46
47 10 0.15
48 9 0.13
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (46 bp):
TTATATTTTATTATTATATTATATATTACTTATTATACTATATTTA
Found at i:32003016 original size:30 final size:31
Alignment explanation
Indices: 32002939--32003021 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
32002929 CTGTTATATT
32002939 TATATT-TATATTATA-TATTATTTATTTTAC
1 TATATTCT-TATTATATTATTATTTATTTTAC
*
32002969 TATATTTTTA-TATTATTATTA-TTATTTTA-
1 TATATTCTTATTA-TATTATTATTTATTTTAC
32002998 TATATTCCTTATTATATTA-TATTT
1 TATATT-CTTATTATATTATTATTT
32003022 CATTATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
29 10 0.22
30 28 0.61
31 8 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (31 bp):
TATATTCTTATTATATTATTATTTATTTTAC
Found at i:32003061 original size:17 final size:17
Alignment explanation
Indices: 32003039--32003074 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32003029 TTTTATCTAC
32003039 ATATTTTATTACATATT
1 ATATTTTATTACATATT
* *
32003056 ATATTTTGTTATATATT
1 ATATTTTATTACATATT
32003073 AT
1 AT
32003075 TCATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTATTACATATT
Found at i:32003125 original size:14 final size:14
Alignment explanation
Indices: 32002873--32003180 Score: 121
Period size: 14 Copynumber: 22.0 Consensus size: 14
32002863 AAAATAGTAC
32002873 ATAT-TATTTTATT
1 ATATATATTTTATT
*
32002886 AT-TACACTTTT-TT
1 ATATATA-TTTTATT
* *
32002899 AAAAATATTTTATT
1 ATATATATTTTATT
32002913 ATATATA--TTATT
1 ATATATATTTTATT
* *
32002925 -TAT-TCTGTTA-T
1 ATATATATTTTATT
*
32002936 ATTTATATTTATATT
1 ATATATATTT-TATT
32002951 ATATAT-TATTTATT
1 ATATATAT-TTTATT
*
32002965 TTACTATA-TTT-TT
1 ATA-TATATTTTATT
32002978 ATATTATTATTATTATT
1 ATA-TA-TATT-TTATT
*
32002995 TTATATATTCCTTATT
1 ATATATATT--TTATT
* *
32003011 ATAT-TATATT-TC
1 ATATATATTTTATT
32003023 AT-TATATTTTA-T
1 ATATATATTTTATT
* *
32003035 CTACATATTTTATT
1 ATATATATTTTATT
*
32003049 ACATATTATATTTTGTT
1 --ATA-TATATTTTATT
*
32003066 ATATATTATTCATTATA
1 ATATA-TATT--TTATT
* * *
32003083 ATATCTTTCTTTCTT
1 ATATATAT-TTTATT
* *
32003098 TTATATATTATATT
1 ATATATATTTTATT
*
32003112 ATATACATTTTATT
1 ATATATATTTTATT
*
32003126 ATATATATTTTTTT
1 ATATATATTTTATT
32003140 ATAT-TA-TTTATT
1 ATATATATTTTATT
* *
32003152 ATATGA-GTTATATT
1 ATAT-ATATTTTATT
32003166 ATTATATATTTTATT
1 A-TATATATTTTATT
32003181 TANATTTCTA
Statistics
Matches: 214, Mismatches: 47, Indels: 66
0.65 0.14 0.20
Matches are distributed among these distances:
10 1 0.00
11 5 0.02
12 29 0.14
13 31 0.14
14 68 0.32
15 43 0.20
16 16 0.07
17 21 0.10
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (14 bp):
ATATATATTTTATT
Found at i:32003129 original size:26 final size:25
Alignment explanation
Indices: 32003098--32003180 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 25
32003088 TTTCTTTCTT
32003098 TTATATATTATATTATATACATTTTA
1 TTATATATTATATTATATA-ATTTTA
* * *
32003124 TTATATA-TATTTTTTTATATTATTTA
1 TTATATATTA-TATTATATAAT-TTTA
32003150 TTATATGAGTTATATTATTATATATTTTA
1 TTATAT-A-TTATATTA-TATA-ATTTTA
32003179 TT
1 TT
32003181 TANATTTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
25 3 0.07
26 24 0.55
27 1 0.02
28 3 0.07
29 12 0.27
30 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATATATTATATTATATAATTTTA
Found at i:32003180 original size:12 final size:12
Alignment explanation
Indices: 32002903--32003060 Score: 64
Period size: 12 Copynumber: 12.8 Consensus size: 12
32002893 TTTTTTAAAA
32002903 ATATTTTATTAT
1 ATATTTTATTAT
*
32002915 ATATATTATT-T
1 ATATTTTATTAT
*
32002926 AT-TCTGTTATATTT
1 ATAT-T-TTAT-TAT
32002940 ATATTTATATTAT
1 ATATTT-TATTAT
*
32002953 ATATTATTTATTTT
1 ATA-T-TTTATTAT
32002967 ACTATATTT-TTAT
1 A-TAT-TTTATTAT
*
32002980 AT-TATTATTAT
1 ATATTTTATTAT
32002991 -TATTTTA-TAT
1 ATATTTTATTAT
*
32003001 AT-TCCTTATTAT
1 ATAT-TTTATTAT
32003013 ATTATATTTCA-T-T
1 A-TAT-TTT-ATTAT
*
32003026 ATATTTTATCTAC
1 ATATTTTAT-TAT
*
32003039 ATATTTTATTAC
1 ATATTTTATTAT
*
32003051 ATATTATATT
1 ATATTTTATT
32003061 TTGTTATATA
Statistics
Matches: 114, Mismatches: 12, Indels: 40
0.69 0.07 0.24
Matches are distributed among these distances:
10 9 0.08
11 19 0.17
12 34 0.30
13 23 0.20
14 23 0.20
15 6 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:32014285 original size:13 final size:13
Alignment explanation
Indices: 32014267--32014292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32014257 ATATTATAAT
32014267 TATTTTATGTTAA
1 TATTTTATGTTAA
32014280 TATTTTATGTTAA
1 TATTTTATGTTAA
32014293 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:32015718 original size:40 final size:40
Alignment explanation
Indices: 32015670--32016035 Score: 612
Period size: 40 Copynumber: 9.2 Consensus size: 40
32015660 GGACTAAGAT
32015670 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015710 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015750 CCGAAGGCATCTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
32015790 CCGAAGGCATTTGTGCTAGTTACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015830 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015870 CCGAAGGCATCTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015910 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015950 CCGAAGGCATCTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
32015990 CCGAAGGCATTTGTG-TGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAAGTC
32016029 CCGAAGG
1 CCGAAGG
32016036 TACTTGGGTT
Statistics
Matches: 309, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
39 16 0.05
40 291 0.94
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:32023843 original size:34 final size:33
Alignment explanation
Indices: 32023755--32023845 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 33
32023745 TTATGCATTT
*
32023755 CTGATATGGTACTGAAT-TGGGCTAAGGCCCACA
1 CTGATATGCTACT-AATATGGGCTAAGGCCCACA
* *
32023788 CTGTTACTGCTAC-AGTAATGGGCTAAGGCCCACA
1 CTGATA-TGCTACTAAT-ATGGGCTAAGGCCCACA
*
32023822 TTGATATTGCTACTAATATGGGCT
1 CTGATA-TGCTACTAATATGGGCT
32023846 TATGCCCAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 2 0.04
33 5 0.11
34 38 0.81
35 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (33 bp):
CTGATATGCTACTAATATGGGCTAAGGCCCACA
Found at i:32031576 original size:34 final size:33
Alignment explanation
Indices: 32031498--32031588 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 33
32031488 TTATGCATTT
* *
32031498 CTGATATGGTACTGAATTGGGCTAAGGCCCACA
1 CTGATATGCTACTGAATTGGGCTAAAGCCCACA
32031531 CT-ATTACTGCTACTGTAA-TGGGCTAAAGCCCACA
1 CTGA-TA-TGCTACTG-AATTGGGCTAAAGCCCACA
*
32031565 TTGATATTGCTACT-AATATGGGCT
1 CTGATA-TGCTACTGAAT-TGGGCT
32031589 TATGCCAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
32 3 0.06
33 4 0.08
34 38 0.79
35 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (33 bp):
CTGATATGCTACTGAATTGGGCTAAAGCCCACA
Found at i:32033909 original size:30 final size:30
Alignment explanation
Indices: 32033875--32033935 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32033865 ATACTAGGAG
32033875 AAGGATTTTTATTACTTAAAAATGATCCAT
1 AAGGATTTTTATTACTTAAAAATGATCCAT
32033905 AAGGATTTTTATTACTTAAAAATGATCCAT
1 AAGGATTTTTATTACTTAAAAATGATCCAT
32033935 A
1 A
32033936 CTTACACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (30 bp):
AAGGATTTTTATTACTTAAAAATGATCCAT
Found at i:32036277 original size:30 final size:31
Alignment explanation
Indices: 32036220--32036277 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
32036210 TTACGAGCCT
* *
32036220 AGGGAATAATTTGTAAATATGTGAAAGTTTA
1 AGGGAATAAATTGTAAATATGTCAAAGTTTA
* *
32036251 AGGGAA-AAATTGTAATTTTGTCAAAGT
1 AGGGAATAAATTGTAAATATGTCAAAGT
32036278 ATGATTTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (31 bp):
AGGGAATAAATTGTAAATATGTCAAAGTTTA
Found at i:32038554 original size:40 final size:40
Alignment explanation
Indices: 32038499--32038722 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
32038489 TATTCGGATG
*
32038499 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
32038539 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
32038582 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
32038622 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
32038662 ATATCCGGGATAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32038702 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
32038723 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 11 0.07
40 110 0.70
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32038623 original size:83 final size:80
Alignment explanation
Indices: 32038505--32038722 Score: 271
Period size: 83 Copynumber: 2.7 Consensus size: 80
32038495 GATGATATCT
* * **
32038505 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGTATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
32038570 CGAGTAGTTG-CTATACCC
66 C---TAG-TGACTATACCC
*
32038588 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
*
32038653 CTAGTGACTATATCC
66 CTAGTGACTATACCC
* * * * *
32038668 GGGATAAGACCCAAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
32038723 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.35
81 2 0.02
83 61 0.50
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
CTAGTGACTATACCC
Found at i:32046587 original size:40 final size:40
Alignment explanation
Indices: 32046532--32046672 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
32046522 TATTTGGATG
32046532 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
32046572 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
32046612 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32046652 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
32046673 ATACTTGGGT
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.14
40 80 0.86
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32063845 original size:40 final size:40
Alignment explanation
Indices: 32063790--32064012 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
32063780 TATTCGAATG
32063790 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
32063830 ATATCTGGGCTAAGTCTCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
32063873 ATACCCGGGCTAAGT-TCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
32063912 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
32063952 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32063992 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
32064013 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 91 0.57
41 1 0.01
42 16 0.10
43 19 0.12
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32063933 original size:82 final size:79
Alignment explanation
Indices: 32063794--32064012 Score: 255
Period size: 82 Copynumber: 2.7 Consensus size: 79
32063784 CGAATGATAT
* * * **
32063794 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
32063859 TGCGAGTAGTTG-CTATAC
65 TGC---TAG-TGACTATAC
* *
32063877 CCGGGCTAAGTTCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
*
32063942 GCTAGTGACTATAT
66 GCTAGTGACTATAC
* * *
32063956 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
32064013 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 32 0.26
80 25 0.21
81 2 0.02
82 49 0.40
83 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTATAC
Found at i:32068501 original size:20 final size:20
Alignment explanation
Indices: 32068476--32068519 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
32068466 AGCTGTTACA
32068476 GTTTATATGGATGAAATATT
1 GTTTATATGGATGAAATATT
**
32068496 GTTTATATGGATGAGCTATT
1 GTTTATATGGATGAAATATT
32068516 GTTT
1 GTTT
32068520 GCAAATGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (20 bp):
GTTTATATGGATGAAATATT
Found at i:32071255 original size:40 final size:40
Alignment explanation
Indices: 32071211--32071292 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
32071201 AAGATCACTG
*
32071211 AAACTCAGCTGCGGTGCAACCTTTAATAATTCATCCCACA
1 AAACTCAGCTGCGATGCAACCTTTAATAATTCATCCCACA
32071251 AAACTCAGCTGCGATGCAACCTTTAATAATTCATCCCACA
1 AAACTCAGCTGCGATGCAACCTTTAATAATTCATCCCACA
32071291 AA
1 AA
32071293 GCAAGCATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.24
Consensus pattern (40 bp):
AAACTCAGCTGCGATGCAACCTTTAATAATTCATCCCACA
Found at i:32075396 original size:23 final size:24
Alignment explanation
Indices: 32075347--32075395 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
32075337 TACTTATCAA
*
32075347 TTTGTTTGGATTTAATTCATTACT
1 TTTGTTTGGATTGAATTCATTACT
*
32075371 TTTGTTT-GATTGAA-TCTTTACT
1 TTTGTTTGGATTGAATTCATTACT
32075393 TTT
1 TTT
32075396 TAAATGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTGTTTGGATTGAATTCATTACT
Found at i:32077372 original size:154 final size:154
Alignment explanation
Indices: 32077092--32077387 Score: 466
Period size: 154 Copynumber: 1.9 Consensus size: 154
32077082 CAGGCCTGCC
* * * *
32077092 ACTTGACTGGCCACATGAGCAGGCCATCGCTCGTGCTGTTGATGACGTAACATTACAAGCAAGGA
1 ACTTGACTGACCACACGAGCAGGCCACCACTCGTGCTGTTGATGACGTAACATTACAAGCAAGGA
* ** * *
32077157 GACCTTCTCCCTATGTATACCCAACATACAATACAAAATTGATTTTCTTCCCACTTTTACTCCCT
66 GACCTTCTCCCTATATATACCCAACATACAATACAAAAGGGATCTTATTCCCACTTTTACTCCCT
*
32077222 TTAGCAATATACCCTAGACTTGCT
131 TAAGCAATATACCCTAGACTTGCT
* *
32077246 ACTTGACTGACCACACGAGCAGGCCACCACTCGTGTTGTTGATGACGTGACATTACAAGCAAGGA
1 ACTTGACTGACCACACGAGCAGGCCACCACTCGTGCTGTTGATGACGTAACATTACAAGCAAGGA
* *
32077311 GACTTTCTCCCTATATATACCTAACATACAATACAAAAGGGATCTTATTCCCACTTTTACTCCCT
66 GACCTTCTCCCTATATATACCCAACATACAATACAAAAGGGATCTTATTCCCACTTTTACTCCCT
32077376 TAAGCAATATAC
131 TAAGCAATATAC
32077388 TTTAGTCTCC
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
154 128 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (154 bp):
ACTTGACTGACCACACGAGCAGGCCACCACTCGTGCTGTTGATGACGTAACATTACAAGCAAGGA
GACCTTCTCCCTATATATACCCAACATACAATACAAAAGGGATCTTATTCCCACTTTTACTCCCT
TAAGCAATATACCCTAGACTTGCT
Found at i:32078475 original size:18 final size:19
Alignment explanation
Indices: 32078452--32078487 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32078442 ATGCTCTTAT
*
32078452 TTTTAAA-TATTTTTTAAA
1 TTTTAAATTATTTATTAAA
32078470 TTTTAAATTATTTATTAA
1 TTTTAAATTATTTATTAA
32078488 CATCACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAAATTATTTATTAAA
Found at i:32083154 original size:13 final size:13
Alignment explanation
Indices: 32083136--32083160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32083126 AAAAACACAC
32083136 ATGCCCGTGTGGA
1 ATGCCCGTGTGGA
32083149 ATGCCCGTGTGG
1 ATGCCCGTGTGG
32083161 GCCCAAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (13 bp):
ATGCCCGTGTGGA
Found at i:32111710 original size:93 final size:93
Alignment explanation
Indices: 32111551--32111721 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
32111541 GGATGGTTGA
* * * * * * * ***
32111551 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTTTGAACTCGTTGAGT
1 GCATCCGAACTCATTAAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
32111616 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* *
32111644 GCATCCGAACTCATTAAGTTGAGTCCAAGCTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTAAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
32111709 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32111722 ACTTAGGGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTAAGTTGAGTCCAAGCTCACTTACAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:32117685 original size:34 final size:34
Alignment explanation
Indices: 32117612--32117712 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 34
32117602 TTGTTTGCAT
* **
32117612 ACTG-TACTGAAAAGGGGTTAGGCCCAGACTGTT
1 ACTGTTACTGAAAAGGGCTTAGGCCCAGACTGCG
* *
32117645 ATTGTTACTGAAATGGGCTTAGGCCCAGACTGCG
1 ACTGTTACTGAAAAGGGCTTAGGCCCAGACTGCG
* * *
32117679 ACTGTTACTAAAAAAGGGGCTCAGGCCCAAACTG
1 ACTGTTACT-GAAAA-GGGCTTAGGCCCAGACTG
32117713 AAACTGAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 3 0.05
34 33 0.60
35 3 0.05
36 16 0.29
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (34 bp):
ACTGTTACTGAAAAGGGCTTAGGCCCAGACTGCG
Found at i:32119903 original size:30 final size:30
Alignment explanation
Indices: 32119869--32119928 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
32119859 ATTTAATACG
32119869 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
32119899 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
32119929 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:32150440 original size:43 final size:43
Alignment explanation
Indices: 32150393--32150487 Score: 115
Period size: 42 Copynumber: 2.2 Consensus size: 43
32150383 TCCCAAACGT
* *
32150393 GGTCTTACATGTAATCAAACATCGATGCC-ATTGTCCCAGACA-A
1 GGTCTTACACGAAATCAAACA-CGATGCCGA-TGTCCCAGACATA
* *
32150436 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATA
1 GGTCTTACACGAAATCAAACACGATGCCGATGTCCCAGACATA
32150479 -GTCTTACAC
1 GGTCTTACAC
32150488 ATAAAACTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAACACGATGCCGATGTCCCAGACATA
Found at i:32156167 original size:27 final size:26
Alignment explanation
Indices: 32156114--32156167 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32156104 TCAATCCAAA
** * *
32156114 TTTACCCCGGTAAAATTTATGACAAT
1 TTTACCCCCATAAAATTTAAGAAAAT
32156140 TTTACCCCCATAAAATTTTAAGAAAAT
1 TTTACCCCCATAAAA-TTTAAGAAAAT
32156167 T
1 T
32156168 CGTTCAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (26 bp):
TTTACCCCCATAAAATTTAAGAAAAT
Found at i:32171715 original size:93 final size:93
Alignment explanation
Indices: 32171603--32171773 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
32171593 GCCCATAAGT
* *
32171603 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32171668 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
32171696 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32171761 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32171774 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:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32171770 original size:46 final size:46
Alignment explanation
Indices: 32171595--32171770 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
32171585 TGTAACCCGC
* * *
32171595 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
32171641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
32171691 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32171734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32171771 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 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:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32176860 original size:27 final size:27
Alignment explanation
Indices: 32176829--32176918 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
32176819 CCAAAATAGT
*
32176829 TAAAATGACCATAATACCCCTGCAGGG
1 TAAAATGACCATAATACCCCTGTAGGG
* * *
32176856 TAAAATGACCGTAATGCCCCTATAGGG
1 TAAAATGACCATAATACCCCTGTAGGG
* *
32176883 TAAAATGACCATAATATCCCTGTATGG
1 TAAAATGACCATAATACCCCTGTAGGG
32176910 TAAAATGAC
1 TAAAATGAC
32176919 GATTATGCCC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAAATGACCATAATACCCCTGTAGGG
Found at i:32189563 original size:29 final size:29
Alignment explanation
Indices: 32189530--32189603 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
32189520 GTTGTGAGAT
* *
32189530 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
32189559 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
32189588 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
32189604 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:32197175 original size:2 final size:2
Alignment explanation
Indices: 32197168--32197197 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32197158 CATTCCGAAG
32197168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32197198 CACAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32197732 original size:27 final size:28
Alignment explanation
Indices: 32197648--32197745 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
32197638 CATGAGATTG
* * * *
32197648 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
32197677 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
32197705 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32197732 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
32197746 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32197756 original size:27 final size:27
Alignment explanation
Indices: 32197676--32197758 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
32197666 TAAATTGTAC
* *
32197676 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
32197704 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
32197731 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
32197758 A
1 A
32197759 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:32200446 original size:16 final size:16
Alignment explanation
Indices: 32200425--32200457 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32200415 ATCGCGAGGC
32200425 CGGTGCATGTCCCAGA
1 CGGTGCATGTCCCAGA
32200441 CGGTGCATGTCCCAGA
1 CGGTGCATGTCCCAGA
32200457 C
1 C
32200458 ATGTCTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.18
Consensus pattern (16 bp):
CGGTGCATGTCCCAGA
Found at i:32200511 original size:46 final size:46
Alignment explanation
Indices: 32200444--32200564 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 46
32200434 TCCCAGACGG
* *
32200444 TGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GCTGA
1 TGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--ATGGCTAA
* *
32200490 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATGCTGTGGCTAA
1 TGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGCTAA
*
32200536 TGCATGTCCCAAACATGTCTTACACTAGC
1 TGCATGTCCCAGACATGTCTTACACTAGC
32200565 ACACATATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 64 0.96
47 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (46 bp):
TGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGCTAA
Found at i:32206376 original size:292 final size:292
Alignment explanation
Indices: 32205852--32206438 Score: 1111
Period size: 292 Copynumber: 2.0 Consensus size: 292
32205842 ATTTATGTGT
*
32205852 TTTTGGACTAAATTGAATGAAAATATGTTTGAATGAGCTTAATTTGGATATGTTTAGATCAAGAA
1 TTTTGGACTAAATGGAATGAAAATATGTTTGAATGAGCTTAATTTGGATATGTTTAGATCAAGAA
32205917 CCAAAGAAATCAAATTTGGATCAGGGAAAGACGAAAGTTGTCGACTAGCTGCCCTGTTCCGTTTT
66 CCAAAGAAATCAAATTTGGATCAGGGAAAGACGAAAGTTGTCGACTAGCTGCCCTGTTCCGTTTT
* *
32205982 ATAACATCCGTGGTAAGTCTTTAAGCAATTAAACATCATTAATTTTGAATGTAAATTGGTTTAAT
131 ATAACATCCGAGGTAAGTCTTTAAGCAATTAAACATCATTAATTTTAAATGTAAATTGGTTTAAT
32206047 ATGCTAAATTGAAATTTATGGATTTATAGTAGAGTTAGCCAAACATGATTAAGCATGGAAATAAC
196 ATGCTAAATTGAAATTTATGGATTTATAGTAGAGTTAGCCAAACATGATTAAGCATGGAAATAAC
32206112 TTGATTGAGTTTAATTTGATTGAGTTATAACA
261 TTGATTGAGTTTAATTTGATTGAGTTATAACA
32206144 TTTTGGACTAAATGGAATGAAAATATGTTTGAATGAGCTTAATTTGGATATGTTTAGATCAAGAA
1 TTTTGGACTAAATGGAATGAAAATATGTTTGAATGAGCTTAATTTGGATATGTTTAGATCAAGAA
* *
32206209 CCAAAGAAATCGAATTTGGATCAGGGAAAGATGAAAGTTGTCGACTAGCTGCCCTGTTCCGTTTT
66 CCAAAGAAATCAAATTTGGATCAGGGAAAGACGAAAGTTGTCGACTAGCTGCCCTGTTCCGTTTT
*
32206274 ATAACGTCCGAGGTAAGTCTTTAAGCAATTAAACATCATTAATTTTAAATGTAAATTGGTTTAAT
131 ATAACATCCGAGGTAAGTCTTTAAGCAATTAAACATCATTAATTTTAAATGTAAATTGGTTTAAT
*
32206339 ATGCTGAATTGAAATTTATGGATTTATAGTAGAGTTAGCCAAACATGATTAAGCATGGAAATAAC
196 ATGCTAAATTGAAATTTATGGATTTATAGTAGAGTTAGCCAAACATGATTAAGCATGGAAATAAC
32206404 TTGATTGAGTTTAATTTGATTGAGTTATAACA
261 TTGATTGAGTTTAATTTGATTGAGTTATAACA
32206436 TTT
1 TTT
32206439 GTAAGCTCGT
Statistics
Matches: 288, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
292 288 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (292 bp):
TTTTGGACTAAATGGAATGAAAATATGTTTGAATGAGCTTAATTTGGATATGTTTAGATCAAGAA
CCAAAGAAATCAAATTTGGATCAGGGAAAGACGAAAGTTGTCGACTAGCTGCCCTGTTCCGTTTT
ATAACATCCGAGGTAAGTCTTTAAGCAATTAAACATCATTAATTTTAAATGTAAATTGGTTTAAT
ATGCTAAATTGAAATTTATGGATTTATAGTAGAGTTAGCCAAACATGATTAAGCATGGAAATAAC
TTGATTGAGTTTAATTTGATTGAGTTATAACA
Found at i:32210068 original size:19 final size:20
Alignment explanation
Indices: 32210046--32210083 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32210036 AAATTGATGA
32210046 AAAAT-TCTGAAATTTATAG
1 AAAATATCTGAAATTTATAG
* *
32210065 AAAATATGTGAATTTTATA
1 AAAATATCTGAAATTTATA
32210084 TTGAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAATATCTGAAATTTATAG
Found at i:32213950 original size:49 final size:49
Alignment explanation
Indices: 32213892--32214063 Score: 227
Period size: 49 Copynumber: 3.5 Consensus size: 49
32213882 GGTCACGTGT
32213892 GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGC
1 GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGC
* * * * * * * * * *
32213941 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACGTGT
1 GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTA--TTGGTCGCATGC
32213992 GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGC
1 GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGC
*
32214041 GTAGTACTAAGTGCAGGCTACTA
1 GTAGTACTAAGTGCAAGCTACTA
32214064 TGCGTACCAG
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 61 0.61
51 39 0.39
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGC
Found at i:32214004 original size:51 final size:49
Alignment explanation
Indices: 32213882--32214076 Score: 201
Period size: 49 Copynumber: 3.9 Consensus size: 49
32213872 TCTATTGTGA
* * * * *
32213882 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATT
1 GGTCACATGCGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATT
* * * *
32213931 GGTCGCATGCGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACATGCGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAA--TT
* * * * * *
32213982 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATT
1 GGTCACATGCGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATT
* * * *
32214031 GGTCGCATGCGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGCGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATA
32214077 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 29, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
49 76 0.66
51 39 0.34
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGCGTAGTACTAAGTGCAAGCTACTACGCGTACCGGATAATT
Found at i:32214057 original size:100 final size:100
Alignment explanation
Indices: 32213884--32214082 Score: 380
Period size: 100 Copynumber: 2.0 Consensus size: 100
32213874 TATTGTGAGG
32213884 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACT
*
32213949 AAGTGCAGGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTTGA
32213984 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACT
*
32214049 AAGTGCAGGCTACTATGCGTACCAGATAGCTTTG
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTTG
32214083 GCTACAAGTG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTTGA
Done.