Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 149 of 253
Found at i:47713460 original size:41 final size:40
Alignment explanation
Indices: 47713316--47713480 Score: 169
Period size: 41 Copynumber: 4.0 Consensus size: 40
47713306 TCGGGGTTTA
*
47713316 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG-CT
1 AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGTCT
* *
47713355 AATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGTGTCAT
1 AAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGTGTC-T
* *
47713400 AA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTAGTCT
1 AATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT-GTCT
*
47713440 AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCGGTG-CT
1 AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGTCT
47713479 AA
1 AA
47713481 GAGTCAGACT
Statistics
Matches: 105, Mismatches: 9, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
39 7 0.07
40 12 0.11
41 50 0.48
42 23 0.22
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGTCT
Found at i:47715932 original size:29 final size:29
Alignment explanation
Indices: 47715869--47715936 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
47715859 TAATCAACCA
47715869 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
47715898 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
47715927 CGCACACTTA
1 CGCACACTTA
47715937 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:47716077 original size:29 final size:30
Alignment explanation
Indices: 47716038--47716116 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
47716028 CTTAATAATC
47716038 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
47716068 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
47716097 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
47716117 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:47716108 original size:174 final size:171
Alignment explanation
Indices: 47715761--47716110 Score: 558
Period size: 174 Copynumber: 2.0 Consensus size: 171
47715751 AACTCAAGGT
* *
47715761 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTATAG
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTATAG
47715826 AAAATATATATTGGGTTCGCACACATAGTGTTATAATCAACCACGCACACTTAGTGCCATGCACT
66 AAAATATATATTGGGTTCGCACACATAGTGTTATAATCAACCACGCACACTTAGTGCCATGCACT
* ***
47715891 TTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 TTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
47715932 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAA-TTATA
* *
47715997 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
65 GAAAATATATATTGGGTTCGCACACATAGTG-TT-ATAATCAACCACGCACACTTAGTGCCATGC
* **
47716062 ACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
128 ACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
47716106 ACTTA
1 ACTTA
47716111 GTGCCAATCT
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
171 57 0.35
172 36 0.22
173 2 0.01
174 65 0.40
175 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (171 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTATAG
AAAATATATATTGGGTTCGCACACATAGTGTTATAATCAACCACGCACACTTAGTGCCATGCACT
TTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:47724082 original size:29 final size:29
Alignment explanation
Indices: 47724019--47724086 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
47724009 TAATCAACCG
47724019 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
47724048 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
47724077 CGCACACTTA
1 CGCACACTTA
47724087 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:47724227 original size:29 final size:30
Alignment explanation
Indices: 47724188--47724266 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
47724178 CTTAATAATC
47724188 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
47724218 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
47724247 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
47724267 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:47732685 original size:20 final size:21
Alignment explanation
Indices: 47732660--47732698 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47732650 CCGAATGTAC
47732660 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
47732680 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
47732699 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:47732926 original size:43 final size:42
Alignment explanation
Indices: 47732871--47733001 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 42
47732861 ATATCGTACA
47732871 ATGCCAAC-GTCCCGAACATGGTCTTACATGCTATCACATATCG
1 ATGCC-ACTGTCCCGAACATGGTCTTACATG-TATCACATATCG
* * *
47732914 ATGCCACTGTCCCAGAA-A-GGATCTTACATGAATAAAATAT-G
1 ATGCCACTGTCCC-GAACATGG-TCTTACATGTATCACATATCG
* * *
47732955 ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCACATATCG
1 ATGCCACTGTCCCGAACATGGTCTTACATGT-ATCACATATCG
47732998 ATGC
1 ATGC
47733002 TAACGTCCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
40 2 0.03
41 22 0.31
42 20 0.28
43 25 0.35
44 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCGAACATGGTCTTACATGTATCACATATCG
Found at i:47732980 original size:41 final size:43
Alignment explanation
Indices: 47732871--47733025 Score: 129
Period size: 43 Copynumber: 3.7 Consensus size: 43
47732861 ATATCGTACA
* * * * *
47732871 ATGCCAACGTCCCGAACATGGTCTTACATGCTATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGCAATAAAATATCG
*
47732914 ATGCCACTGTCCCAGAA-A-GGATCTTACATG-AATAAAATAT-G
1 ATGCCAATGTCCCA-AACATGG-TCTTACATGCAATAAAATATCG
* * * *
47732955 ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGCAATAAAATATCG
* * * * *
47732998 ATGCTAACGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
47733026 CGATAACACA
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.02
41 23 0.25
42 19 0.21
43 45 0.49
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGCAATAAAATATCG
Found at i:47736289 original size:46 final size:46
Alignment explanation
Indices: 47736217--47736344 Score: 247
Period size: 46 Copynumber: 2.8 Consensus size: 46
47736207 AACTAGGCAT
*
47736217 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
47736263 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
47736309 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47736345 GCAGGTTACA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:47740065 original size:37 final size:37
Alignment explanation
Indices: 47740006--47740114 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
47739996 AGCTCAGATG
* *
47740006 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47740043 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47740080 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47740115 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47740315 original size:48 final size:48
Alignment explanation
Indices: 47740261--47740845 Score: 812
Period size: 48 Copynumber: 12.0 Consensus size: 48
47740251 ACACATCGCC
* * *
47740261 TACATATTTCACACTAACCATTCGCCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
47740309 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
47740357 TATATATTTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATA-TTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
47740406 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
47740456 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
47740506 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
47740554 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
**
47740602 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGTATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
47740650 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCCCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT--C-T-CA
* * * * *
47740702 TATATATTTCACATTAACCATTCAGCTTTACTACATATAAATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** *
47740752 TATATATTTTGCATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
47740800 TACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
47740846 TATGCATCAA
Statistics
Matches: 488, Mismatches: 38, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
48 267 0.55
49 45 0.09
50 136 0.28
51 1 0.00
52 39 0.08
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:47740797 original size:246 final size:245
Alignment explanation
Indices: 47740264--47740845 Score: 979
Period size: 246 Copynumber: 2.4 Consensus size: 245
47740254 CATCGCCTAC
* * * * *
47740264 ATATTTCACACTAACCATTCGCCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
47740329 TTCGGCTTTACCACATATACATATCTCATATATATTTTCACATTGACCATTCGGCTTTACCACAT
66 TTCGGCTTTACCACATATACATATCTCATACATATTTTCACATTGACCATTCGGCTTTACCACAT
*
47740394 ATGCATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATAT
131 ATGCATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCCCATATAT
*
47740459 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
196 ATATTTCACATTAACCATTCAGCTTTACCACATATAAATATCTCATATAT
47740509 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
47740574 TTCGGCTTTACCACATATGCATATCTCATACATA-TTTCACATT-AGCCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTTCACATTGA-CCATTCGGCTTTACCACA
* * *
47740637 TATGTATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCCCATATA
130 TATGCATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCCC--ATA
*
47740702 TATATATTTCACATTAACCATTCAGCTTTACTACATATAAATATCTCATATAT
193 TATATATTTCACATTAACCATTCAGCTTTACCACATATAAATATCTCATATAT
* * *
47740755 ATATTTTGCATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAACCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
47740820 TTCGGCTTTACCACATATACATATCT
66 TTCGGCTTTACCACATATACATATCT
47740846 TATGCATCAA
Statistics
Matches: 317, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
243 1 0.00
244 83 0.26
245 92 0.29
246 141 0.44
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (245 bp):
ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTTCACATTGACCATTCGGCTTTACCACAT
ATGCATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCCCATATAT
ATATTTCACATTAACCATTCAGCTTTACCACATATAAATATCTCATATAT
Found at i:47749075 original size:15 final size:16
Alignment explanation
Indices: 47749042--47749076 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47749032 TTTTGGATTG
47749042 ATTTGAATGAATGTAA
1 ATTTGAATGAATGTAA
*
47749058 ATTTGAATGAGT-TAA
1 ATTTGAATGAATGTAA
47749073 ATTT
1 ATTT
47749077 AAATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (16 bp):
ATTTGAATGAATGTAA
Found at i:47757082 original size:44 final size:42
Alignment explanation
Indices: 47757014--47757107 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 42
47757004 TGTGTTATCA
* * * *
47757014 TGTAAGACCACATCTTGGATGTTGGCATTG-ACTTATGATTTACG
1 TGTAAGACAACATCTGGGACGTTGGCATCGTA-TT-TGATTTA-G
*
47757058 TGTAAGACAACGTCTGGGACGTTGGCATCGTATTTGATTTAG
1 TGTAAGACAACATCTGGGACGTTGGCATCGTATTTGATTTAG
47757100 TGTAAGAC
1 TGTAAGAC
47757108 CCTGTCTAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 9 0.20
43 7 0.16
44 27 0.61
45 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACAACATCTGGGACGTTGGCATCGTATTTGATTTAG
Found at i:47758424 original size:24 final size:24
Alignment explanation
Indices: 47758330--47758417 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
47758320 GATTCAACTC
* * * *
47758330 CGCACACATAGTGCCAAATAATTC
1 CGCACACATAGTGCCATACAAATA
* *
47758354 CACACACATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
*
47758378 CGCACACATACTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
47758402 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
47758418 CTCAAATCCG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:47758429 original size:24 final size:23
Alignment explanation
Indices: 47758323--47758429 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 23
47758313 AATCTACGAT
*
47758323 TCAACTCCGCACACATAGTGCCAAA
1 TCAAATCCGCACACATAGTGCC--A
* *
47758348 T-AATTCCACACACATAGTGCCA
1 TCAAATCCGCACACATAGTGCCA
* * *
47758370 TACATATACGCACACATACTGCCA
1 T-CAAATCCGCACACATAGTGCCA
*
47758394 TACAAATACGCACACATAGTGCCA
1 T-CAAATCCGCACACATAGTGCCA
47758418 CTCAAATCCGCA
1 -TCAAATCCGCA
47758430 TATCTAGTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.03
24 65 0.94
25 2 0.03
ACGTcount: A:0.37, C:0.34, G:0.10, T:0.19
Consensus pattern (23 bp):
TCAAATCCGCACACATAGTGCCA
Found at i:47759732 original size:18 final size:19
Alignment explanation
Indices: 47759695--47759732 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47759685 CTTTTATTCA
47759695 TCTTTTCATATTAATTATT
1 TCTTTTCATATTAATTATT
47759714 TCTTTT-AT-TTAATTTATT
1 TCTTTTCATATTAA-TTATT
47759732 T
1 T
47759733 TAACCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCATATTAATTATT
Found at i:47767699 original size:45 final size:43
Alignment explanation
Indices: 47767633--47767749 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 43
47767623 TGACATGTCA
* * *
47767633 ATGCCATATCCTAGA-TATGGTCTTACATG-TGATCACATATATCG
1 ATGCCATGTCCCAGACTATGGTCTTACATGATG-TC-C-CATATCG
47767677 ATGCCGATAG-CCCAG-CTATGGTCTTACATGATGTCCCATATCG
1 ATGCC-AT-GTCCCAGACTATGGTCTTACATGATGTCCCATATCG
47767720 ATGCCATGTCCCAGAC-ATGGTCTTACATGA
1 ATGCCATGTCCCAGACTATGGTCTTACATGA
47767750 AATCACGTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
41 1 0.02
42 21 0.33
43 12 0.19
44 6 0.09
45 22 0.34
46 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
ATGCCATGTCCCAGACTATGGTCTTACATGATGTCCCATATCG
Found at i:47767763 original size:42 final size:42
Alignment explanation
Indices: 47767633--47767798 Score: 154
Period size: 42 Copynumber: 3.9 Consensus size: 42
47767623 TGACATGTCA
* * **
47767633 ATGCCATATCCTAGATATGGTCTTACATGTGATCACATATATCG
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCACAT-T-TCG
* ** * *
47767677 ATGCCGATAGCCCAG-CTATGGTCTTACATGATGTCCCATATCG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACATGAAATCACATTTCG
* *
47767720 ATGCCATGTCCCAGACATGGTCTTACATGAAATCACGTTTCG
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCACATTTCG
* * * *
47767762 ATGCCATATCCCAAATATGGTCCTACACGAAATCACA
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCACA
47767799 CATAACCCTA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 59 0.60
43 9 0.09
44 5 0.05
45 25 0.26
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAATCACATTTCG
Found at i:47769942 original size:41 final size:41
Alignment explanation
Indices: 47769885--47769975 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
47769875 GGTAGCAAAG
* *
47769885 TTCCCATAAACGCCGCATAAGGTAAGGC-AGTAACGACGTTT
1 TTCCCATAAACACCGCAAAAGGTAAGGCTA-TAACGACGTTT
47769926 TTCCCATAAACACCGCAAAAGGTAAGGCTATAACGACGTTT
1 TTCCCATAAACACCGCAAAAGGTAAGGCTATAACGACGTTT
47769967 TT-CCATAAA
1 TTCCCATAAA
47769976 TGCCGCGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
40 7 0.15
41 39 0.83
42 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
TTCCCATAAACACCGCAAAAGGTAAGGCTATAACGACGTTT
Found at i:47775543 original size:27 final size:27
Alignment explanation
Indices: 47775513--47775690 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47775503 ATATTAAGTC
* * *
47775513 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
47775540 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
47775568 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
47775595 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
47775622 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
47775649 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
47775676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47775691 GTACACTTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:47775597 original size:55 final size:54
Alignment explanation
Indices: 47775513--47775690 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
47775503 ATATTAAGTC
* * *
47775513 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
47775568 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
47775622 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
47775676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47775691 GTACACTTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:47775679 original size:81 final size:82
Alignment explanation
Indices: 47775534--47775689 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
47775524 TGCTATATAA
* *
47775534 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
47775599 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
47775616 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
47775679 ACACTTAGTGC
65 ACACTTAGTGC
47775690 TGTACACTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:47778093 original size:30 final size:30
Alignment explanation
Indices: 47778059--47778119 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47778049 TCCTTAACTC
47778059 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47778089 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47778119 A
1 A
47778120 GGCTCGGGAA
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:47779716 original size:19 final size:18
Alignment explanation
Indices: 47779694--47779737 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
47779684 TTTATTATTT
47779694 ATTTTAGTTTTGATTTTAA
1 ATTTTA-TTTTGATTTTAA
*
47779713 ATTTTTATTTTTATTTTAA
1 A-TTTTATTTTGATTTTAA
*
47779732 AATTTA
1 ATTTTA
47779738 AGATAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTATTTTGATTTTAA
Found at i:47779736 original size:20 final size:20
Alignment explanation
Indices: 47779695--47779732 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47779685 TTATTATTTA
47779695 TTTTAGTTTTGATTTTAAAT
1 TTTTAGTTTTGATTTTAAAT
*
47779715 TTTTA-TTTTTATTTTAAA
1 TTTTAGTTTTGATTTTAAA
47779733 ATTTAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTGATTTTAAAT
Found at i:47780068 original size:25 final size:26
Alignment explanation
Indices: 47780040--47780093 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
47780030 TCATAAATAT
47780040 TATCAT-AAGAATAAATA-TATTTAAC
1 TATCATAAAG-ATAAATATTATTTAAC
*
47780065 TATCATAAAGATAAATATTATTTATC
1 TATCATAAAGATAAATATTATTTAAC
47780091 TAT
1 TAT
47780094 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (26 bp):
TATCATAAAGATAAATATTATTTAAC
Found at i:47788658 original size:49 final size:48
Alignment explanation
Indices: 47788534--47788677 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 48
47788524 TCTATTATGA
* * *
47788534 GGTCGCATCTGTAGTACTAAGTGTAGGCTACTATG-CGTACCTGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTC-TACC---AGACTGT
* * * *
47788585 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTCTACCAGACTG-T
*
47788634 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTCTACCAGA
47788678 TAGCTTCGGC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
48 5 0.06
49 40 0.51
51 33 0.42
52 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTCTACCAGACTGT
Found at i:47793357 original size:27 final size:27
Alignment explanation
Indices: 47793327--47793505 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
47793317 ATATTGAGTC
* * * *
47793327 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47793354 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47793381 CCGCACACTTAGTGCTACATAGTCAAACT
1 -CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47793410 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47793437 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47793464 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47793491 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47793506 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 82 0.63
28 47 0.36
29 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47801535 original size:27 final size:27
Alignment explanation
Indices: 47801505--47801682 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47801495 ATATTAAGTC
* * *
47801505 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
47801532 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
47801560 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
47801587 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
47801614 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
47801641 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
47801668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47801683 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:47801573 original size:55 final size:54
Alignment explanation
Indices: 47801505--47801682 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
47801495 ATATTAAGTC
* *
47801505 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * * *
47801560 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
47801614 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
47801668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47801683 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 59 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:47801671 original size:81 final size:82
Alignment explanation
Indices: 47801526--47801681 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
47801516 TGCTATATAA
* *
47801526 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
47801591 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
47801608 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
47801671 ACACTTAGTGC
65 ACACTTAGTGC
47801682 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:47805013 original size:37 final size:37
Alignment explanation
Indices: 47804960--47805062 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
47804950 CGAATAGTCC
*
47804960 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
47804997 CCACACGTAGTCATCGGGTCATACCTGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
47805034 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
47805063 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:47805289 original size:48 final size:48
Alignment explanation
Indices: 47805235--47805687 Score: 771
Period size: 48 Copynumber: 9.4 Consensus size: 48
47805225 GCCGAATCAC
*
47805235 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
47805283 TAGCCATTCGGCTTTACTACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * * * *
47805331 TAGCCATTCGGCTTTACCACGTATGCATATCTCATACATAGTTGACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
47805379 TAGCCATTCGGGTTTACCACATATACATATCTCATACATATTTCACAG
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47805427 TAGCCATTCGGCTTTACCCCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47805475 TAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47805523 TAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47805571 TAGCCATTCGGCTTTACCACTTATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47805619 TATCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
47805667 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
47805688 CACATATATA
Statistics
Matches: 382, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 382 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:47815690 original size:58 final size:58
Alignment explanation
Indices: 47815600--47815715 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
47815590 TTTATGTACG
47815600 GAATTTTAAATTACAAATCATTGCATAATTATTATAGGTTTGAATAAACCAGTAACTA
1 GAATTTTAAATTACAAATCATTGCATAATTATTATAGGTTTGAATAAACCAGTAACTA
* *
47815658 GAATTTTGAATTACAAATCATTGCGTAATTATTATAGGTTTGAATAAACCAGTAACTA
1 GAATTTTAAATTACAAATCATTGCATAATTATTATAGGTTTGAATAAACCAGTAACTA
47815716 ACTTCAGCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (58 bp):
GAATTTTAAATTACAAATCATTGCATAATTATTATAGGTTTGAATAAACCAGTAACTA
Found at i:47820229 original size:43 final size:43
Alignment explanation
Indices: 47820181--47820268 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
47820171 TATCAGCATG
* * * *
47820181 ATCTTGCTCAGAGTGATAGATCCTTTTATTAACAATCAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCAACAATCAAATTT
* *
47820224 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCAACAATCAAATTT
47820267 AT
1 AT
47820269 TCTCCATGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (43 bp):
ATCTTGCTCAAAGTGATAAAACCTTTTATCAACAATCAAATTT
Found at i:47825863 original size:54 final size:54
Alignment explanation
Indices: 47825800--47826013 Score: 193
Period size: 54 Copynumber: 4.0 Consensus size: 54
47825790 TTACAGGGGC
* * *
47825800 ATTTTGATAAATTTACACTACAAAGGTATTTCGGTAATTTTACAAACTGAGGGT
1 ATTTCGATAATTTTACAATACAAAGGTATTTCGGTAATTTTACAAACTGAGGGT
*** * * *
47825854 ATTTCGATAATTTTACAAT-CTGGGGGTAGTTCGATAATTTTACAAACCGAGGGT
1 ATTTCGATAATTTTACAATAC-AAAGGTATTTCGGTAATTTTACAAACTGAGGGT
* * * **
47825908 AGTTCGTTAATTTTACAA-ATCAGAGGTATTTTAGTAATTTTACAAA-TCGAGGGT
1 ATTTCGATAATTTTACAATA-CAAAGGTATTTCGGTAATTTTACAAACT-GAGGGT
* * * * *
47825962 ATTTC-AGTAATTTTATAATCCAAGGGTATTTAGGTAATTTTATAAACTGAGG
1 ATTTCGA-TAATTTTACAATACAAAGGTATTTCGGTAATTTTACAAACTGAGG
47826014 TCTTAACAAC
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 123 0.98
55 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
ATTTCGATAATTTTACAATACAAAGGTATTTCGGTAATTTTACAAACTGAGGGT
Found at i:47825896 original size:81 final size:80
Alignment explanation
Indices: 47825805--47826013 Score: 201
Period size: 81 Copynumber: 2.6 Consensus size: 80
47825795 GGGGCATTTT
* *
47825805 GATAAATTTACACTACAAAGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGA-TAATTTTA
1 GATAATTTTACA-TACAAGGGTATTTCGGTAATTTTACAAACTGAGGGTATTT-GAGTAATTTTA
*
47825869 C-AATCTGGGGGTAGTTC
64 CAAATC-GAGGGTAGTTC
* * * * * *
47825886 GATAATTTTACAAACCGAGGGTAGTTCGTTAATTTTACAAA-TCAGAGGTATTTTAGTAATTTTA
1 GATAATTTTACATA-CAAGGGTATTTCGGTAATTTTACAAACTGAG-GGTATTTGAGTAATTTTA
*
47825950 CAAATCGAGGGTATTTC
64 CAAATCGAGGGTAGTTC
* * * *
47825967 -AGTAATTTTATAATCCAAGGGTATTTAGGTAATTTTATAAACTGAGG
1 GA-TAATTTTA-CATACAAGGGTATTTCGGTAATTTTACAAACTGAGG
47826014 TCTTAACAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
80 6 0.06
81 88 0.86
82 8 0.08
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (80 bp):
GATAATTTTACATACAAGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTGAGTAATTTTACA
AATCGAGGGTAGTTC
Found at i:47825954 original size:27 final size:27
Alignment explanation
Indices: 47825824--47826003 Score: 160
Period size: 27 Copynumber: 6.7 Consensus size: 27
47825814 ACACTACAAA
*
47825824 GGTATTTCGGTAATTTTACAAA-CTGAG
1 GGTATTTCAGTAATTTTACAAATC-GAG
*
47825851 GGTATTTC-GATAATTTTAC-AATCTGGG
1 GGTATTTCAG-TAATTTTACAAATC-GAG
* *
47825878 GGTAGTTC-GATAATTTTACAAACCGAG
1 GGTATTTCAG-TAATTTTACAAATCGAG
*
47825905 GGTAGTTC-GTTAATTTTACAAATC-AG
1 GGTATTTCAG-TAATTTTACAAATCGAG
*
47825931 AGGTATTTTAGTAATTTTACAAATCGAG
1 -GGTATTTCAGTAATTTTACAAATCGAG
* *
47825959 GGTATTTCAGTAATTTTA-TAATCCAAG
1 GGTATTTCAGTAATTTTACAAAT-CGAG
47825986 GGTATTT-AGGTAATTTTA
1 GGTATTTCA-GTAATTTTA
47826004 TAAACTGAGG
Statistics
Matches: 134, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.07
27 119 0.89
28 6 0.04
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:47830166 original size:29 final size:29
Alignment explanation
Indices: 47830131--47830204 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47830121 GTTGTGAGAT
* *
47830131 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
47830160 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
47830189 TGGCACTACGTGTGCG
1 TGGCACTAAGTGTGCG
47830205 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47857128 original size:21 final size:21
Alignment explanation
Indices: 47857104--47857164 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
47857094 GTTATAATGA
47857104 CCACAAGGGCGTGTTGCCCTT
1 CCACAAGGGCGTGTTGCCCTT
47857125 CCACAAGGGCGTGTTGCCCTT
1 CCACAAGGGCGTGTTGCCCTT
* *
47857146 CCACACGAGCGTG-TGCCCT
1 CCACAAGGGCGTGTTGCCCT
47857165 GTTTCATGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 6 0.16
21 32 0.84
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (21 bp):
CCACAAGGGCGTGTTGCCCTT
Found at i:47859639 original size:29 final size:29
Alignment explanation
Indices: 47859605--47859678 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47859595 TCATCAACCA
*
47859605 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
47859634 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
47859663 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
47859679 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:47864932 original size:120 final size:120
Alignment explanation
Indices: 47864713--47864971 Score: 280
Period size: 120 Copynumber: 2.2 Consensus size: 120
47864703 TTGAATGATG
* * *
47864713 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
47864778 GTACGAGTTACTAAATCCGGACTAAGATCAGAAGGCATTTGTACGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCAGAAGGCATTTGAACGAG-TAGCTAAA
* * ** *
47864833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
47864896 TTGT-CGCAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACG-AGTTACTA-AATCCGGACTAAGAT-CAGAAGGCATTTGAACGAGTAGCTAAA
* *
47864953 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
47864972 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
119 20 0.17
120 88 0.75
121 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCAGAAGGCATTTGAACGAGTAGCTAAA
Found at i:47864952 original size:40 final size:40
Alignment explanation
Indices: 47864713--47864945 Score: 260
Period size: 40 Copynumber: 5.8 Consensus size: 40
47864703 TTGAATGATG
* * * * *
47864713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAA
*
47864753 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
47864793 TCCGGACTAAGAT-CAGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
47864833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
47864873 TCCGGGTTATGTCCCGAAGGCATTTGT-CGCAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACG-AGTTACTA-AA
* *
47864914 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
47864946 AGCTATATCC
Statistics
Matches: 173, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 3 0.02
40 158 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:47872891 original size:40 final size:40
Alignment explanation
Indices: 47872669--47872884 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
47872659 TTGAATGATG
* * * *
47872669 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
47872709 TCCGGACTAAGAT-CCG-AGGCATTTGT-CGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47872746 TCCGGACTAAGAT-CCGAAGGCATTT-TGCGAG----TAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47872781 -CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47872819 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47872860 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47872885 AACGAGTAGC
Statistics
Matches: 153, Mismatches: 9, Indels: 28
0.81 0.05 0.15
Matches are distributed among these distances:
33 12 0.08
34 15 0.10
35 2 0.01
37 18 0.12
38 21 0.14
39 15 0.10
40 67 0.44
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47878901 original size:29 final size:29
Alignment explanation
Indices: 47878837--47878910 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
47878827 TCATCAACCA
*
47878837 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
47878866 CGTACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
*
47878895 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
47878911 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:47883679 original size:27 final size:27
Alignment explanation
Indices: 47883187--47883679 Score: 559
Period size: 27 Copynumber: 18.3 Consensus size: 27
47883177 CCAAAGTACT
* *
47883187 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
47883214 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
47883241 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
47883268 CTCGATTTCTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
47883295 CTC-AGTTTATAGAATTACCATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
47883322 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
**
47883349 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
47883376 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * * *
47883403 CACGATTTGTAAAATTACCGTGTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
47883430 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * **
47883457 CTC-AGGTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
* *
47883484 CTTGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
47883511 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
47883538 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
47883565 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * *
47883592 CTTGATTTACAGAATTACTAG-TTTACC
1 CTCGATTTATAGAATTAC-CGTTTTACC
* * *
47883619 CTC-AGTTTACAAAATTATCGTTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
* *
47883646 CTCGATTTATAGAATTATCATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
47883673 CTTGATT
1 CTCGATT
47883680 ATGAAATTAC
Statistics
Matches: 401, Mismatches: 51, Indels: 28
0.84 0.11 0.06
Matches are distributed among these distances:
26 7 0.02
27 387 0.97
28 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCGTTTTACC
Found at i:47883742 original size:27 final size:27
Alignment explanation
Indices: 47883684--47883744 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
47883674 TTGATTATGA
* *
47883684 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTTCTGAAATACCCCTATAGGGTAG
47883711 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTTCTGAAATACCCCTATAGGGTAG
47883738 AATTTCT
1 AATTTCT
47883745 CATATGTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (27 bp):
AATTTCTGAAATACCCCTATAGGGTAG
Found at i:47884650 original size:27 final size:27
Alignment explanation
Indices: 47884620--47884815 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
47884610 GGGGAAAAAT
* * *
47884620 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47884647 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47884674 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
47884701 GATAATTCTACTCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47884728 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47884755 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
47884782 AGAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47884809 AGTAATT
1 GGTAATT
47884816 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47884757 original size:81 final size:81
Alignment explanation
Indices: 47884623--47884815 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 81
47884613 GAAAAATGGT
* * * * * *
47884623 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
47884688 ACAAGGGTATTTC-GA
66 ACAAGGGTATTTCAGA
* * * *
47884703 TAATTCTACTCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 -AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
*
47884768 TATAAGGGTATTTCAGA
65 TACAAGGGTATTTCAGA
* *
47884785 AATTCTACCCTATAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAGGGGTATTTCGGTAATT
47884816 TCACAATCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 94 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAGA
Found at i:47884850 original size:27 final size:27
Alignment explanation
Indices: 47884820--47885311 Score: 557
Period size: 27 Copynumber: 18.3 Consensus size: 27
47884810 GTAATTTCAC
*
47884820 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47884847 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47884874 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
47884901 AATCAAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
47884927 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
47884954 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47884981 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
47885008 AATCGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
47885034 AACCTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
47885062 AATTGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47885089 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
47885116 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47885143 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
47885170 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
47885197 AA-CTGAGGGTAAAACGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
47885224 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47885251 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47885278 AA-CTAAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
47885305 AATCGAG
1 AATCGAG
47885312 AGTACTTTGG
Statistics
Matches: 397, Mismatches: 55, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
26 30 0.08
27 360 0.91
28 7 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:47885308 original size:81 final size:81
Alignment explanation
Indices: 47884820--47885311 Score: 625
Period size: 81 Copynumber: 6.1 Consensus size: 81
47884810 GTAATTTCAC
* * * *
47884820 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
47884885 AACCAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* * *
47884901 AATCAAGGGTAAAAC-GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGT
* *
47884964 AAAATAGTAATTTTGTA
65 AAAACAGTAATTCTGTA
* * ** *
47884981 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAACCTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
*
47885045 AAAACAGTAATTCTATA
65 AAAACAGTAATTCTGTA
* * * *
47885062 AATTGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGT
*
47885126 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
*
47885143 AA-CTGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
* * **
47885207 AAAACGGTAATTTTACA
65 AAAACAGTAATTCTGTA
* * * *
47885224 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACTAAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
**
47885289 AAATGGTAATTCTGTA
66 AAACAGTAATTCTGTA
47885305 AATCGAG
1 AATCGAG
47885312 AGTACTTTGG
Statistics
Matches: 353, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 67 0.19
81 281 0.80
82 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTGTA
Found at i:47887343 original size:17 final size:17
Alignment explanation
Indices: 47887312--47887344 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47887302 CTTAAAATGT
47887312 TTTAAAATATATGTTTG
1 TTTAAAATATATGTTTG
47887329 TTTATAAATAT-TGTTT
1 TTTA-AAATATATGTTT
47887345 TACAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTAAAATATATGTTTG
Found at i:47887882 original size:18 final size:19
Alignment explanation
Indices: 47887859--47887894 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
47887849 TTTAATCACA
47887859 AAAATATTTTAT-TTATTG
1 AAAATATTTTATATTATTG
47887877 AAAATATTTTATATTATT
1 AAAATATTTTATATTATT
47887895 TCAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AAAATATTTTATATTATTG
Found at i:47887900 original size:20 final size:18
Alignment explanation
Indices: 47887859--47887900 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
47887849 TTTAATCACA
*
47887859 AAAATATTTTATTTATTG
1 AAAATATTTTATTTATTC
47887877 AAAATATTTTATATTATTTC
1 AAAATATTTTAT-TTA-TTC
47887897 AAAA
1 AAAA
47887901 ATAATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
AAAATATTTTATTTATTC
Found at i:47888497 original size:18 final size:18
Alignment explanation
Indices: 47888474--47888509 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47888464 ATTTGAAGAC
47888474 TTAGCCTAGTTATATTGA
1 TTAGCCTAGTTATATTGA
47888492 TTAGCCTAGTTATATTGA
1 TTAGCCTAGTTATATTGA
47888510 AGACATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
TTAGCCTAGTTATATTGA
Found at i:47891467 original size:46 final size:45
Alignment explanation
Indices: 47891366--47891577 Score: 198
Period size: 46 Copynumber: 4.6 Consensus size: 45
47891356 TGTTTGTGCT
* * * *
47891366 GATGCCATGTCCCAGACATGGTTTTACACTAACAT-ATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTTCGTCTCG-AGGCC
*
47891412 GATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGACTT-CGTCTCGAGGCC
* * *
47891458 GATGCATGTCCCAGACATGTCTTACTCTAGCAC-TCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTTCGTCTCGAGGCC
* * * *
47891504 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-TCGT-CTCGAGGCC
47891552 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
47891578 GTAGCTCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 60 0.43
47 31 0.22
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTTCGTCTCGAGGCC
Found at i:47895548 original size:27 final size:27
Alignment explanation
Indices: 47895518--47895571 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
47895508 TTATTTTACC
*
47895518 CTACAGGGGTATTTTGGTAATTGTACA
1 CTACAAGGGTATTTTGGTAATTGTACA
*
47895545 CTACAAGGGTATTTTGGTAATTTTACA
1 CTACAAGGGTATTTTGGTAATTGTACA
47895572 AACCGAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (27 bp):
CTACAAGGGTATTTTGGTAATTGTACA
Found at i:47902772 original size:46 final size:45
Alignment explanation
Indices: 47902678--47902874 Score: 145
Period size: 46 Copynumber: 4.3 Consensus size: 45
47902668 GCTGATGCCG
* * * *
47902678 TGTCCCAGACAAGGTCTTACACTG-ACACATCTCATAG-TCGATGCA
1 TGTCCCAGAC-ATGTCTTACACTGCACTCGTCTCA-AGACCGATGCA
* * *
47902723 TGTCCCAGACATGCCTTACACTG-ACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGCAC-T-CGTCTCAAGACCGATGCA
* *
47902769 TGTCCTAGACATGTCTTA-ATCTAGCACTCGTCTCAATACCGATGCCA
1 TGTCCCAGACATGTCTTACA-CT-GCACTCGTCTCAAGACCGATG-CA
* * *
47902816 TGTCCCAGACATGGTCTTACACTG-GCTC-TCATAATATGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGCACTCGTC-TCA-A-GACCGATGCA
47902863 TGTCCCAGACAT
1 TGTCCCAGACAT
47902875 TTTGTAACAG
Statistics
Matches: 124, Mismatches: 16, Indels: 22
0.77 0.10 0.14
Matches are distributed among these distances:
44 13 0.10
45 15 0.12
46 48 0.39
47 31 0.25
48 16 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGCACTCGTCTCAAGACCGATGCA
Found at i:47908792 original size:39 final size:39
Alignment explanation
Indices: 47908745--47908888 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
47908735 TGTGTGAGAT
47908745 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
47908784 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
47908823 TTATAACCGGGCTAAATCCCTAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
47908862 TTATATCTAGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
47908889 ATTATGTTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:47912603 original size:28 final size:28
Alignment explanation
Indices: 47912563--47912641 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
47912553 GCAATCAAAT
* **
47912563 ATGGCACTCAGTGTATGAAATATTAAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
*
47912591 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
*
47912619 ATGACACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
47912642 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTAAGA
Found at i:47921514 original size:28 final size:28
Alignment explanation
Indices: 47921474--47921527 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
47921464 CTATGTAAGT
*
47921474 CACTTAGTGTGTGAGATATTGAGTATGG
1 CACTTAGTGTGTGAGACATTGAGTATGG
47921502 CACTTAGTGTGTGAGACATTGAGTAT
1 CACTTAGTGTGTGAGACATTGAGTAT
47921528 TCAACGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (28 bp):
CACTTAGTGTGTGAGACATTGAGTATGG
Found at i:47924533 original size:46 final size:45
Alignment explanation
Indices: 47924466--47924734 Score: 239
Period size: 46 Copynumber: 5.8 Consensus size: 45
47924456 TGTAACCTGC
*
47924466 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATT-ACAT
*
47924512 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTACAT
* * * *
47924562 CTC-T---TGAAATCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATT-ACAT
47924605 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTACAT
* * * * *
47924655 CTC-T---CGAACTCGGACTCAACTCAACGAGTTTGAACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACA-TTACAT
*
47924698 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47924735 TGCCCAAATA
Statistics
Matches: 183, Mismatches: 19, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
42 4 0.02
43 14 0.08
44 3 0.02
46 89 0.49
47 51 0.28
49 3 0.02
50 13 0.07
51 6 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTACAT
Found at i:47924600 original size:93 final size:93
Alignment explanation
Indices: 47924473--47924738 Score: 442
Period size: 93 Copynumber: 2.9 Consensus size: 93
47924463 TGCCCATAAG
* * * *
47924473 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47924538 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
47924566 TGAAATCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47924631 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
47924659 CGAACTCGGACTCAACTCAACGAGTTTGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47924724 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
47924739 CAAATATCCT
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47927455 original size:40 final size:39
Alignment explanation
Indices: 47927371--47927555 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
47927361 TCGAATGATG
* * * * *
47927371 TCCGGGCTAAGTCCCGAACGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
47927411 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47927451 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
47927490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
47927531 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
47927556 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47927577 original size:79 final size:79
Alignment explanation
Indices: 47927424--47927578 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
47927414 GGACTAAGAT
* **
47927424 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
47927489 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
47927503 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
47927566 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
47927579 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:47933632 original size:90 final size:93
Alignment explanation
Indices: 47933466--47933727 Score: 440
Period size: 90 Copynumber: 2.8 Consensus size: 93
47933456 GCCCATAAGT
* * * *
47933466 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47933531 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
47933559 GAACTC-GACTCAACTCAACGAGTTC-GACATTCGCATCCA-AAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47933621 CGAGCTAGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
47933649 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47933714 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
47933728 CAAATATCCT
Statistics
Matches: 159, Mismatches: 7, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
90 56 0.35
91 31 0.19
92 31 0.19
93 41 0.26
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47933664 original size:47 final size:47
Alignment explanation
Indices: 47933512--47933677 Score: 191
Period size: 47 Copynumber: 3.6 Consensus size: 47
47933502 ATCCATAAGT
47933512 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * ***
47933559 GAACTC-GACTCAACTCAACGAGTTCGACATTCGC-A--TCCA-AAGT-
1 GAACTCGGACTCAACTCAACGAGCTCG-GATGC-CTAGTTACATCTCTC
*
47933602 GAACTCGGACTCAACTCAACGAGCTAGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
47933649 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
47933678 CATTCGCATC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 10 0.11
44 19 0.20
45 6 0.06
46 20 0.21
47 37 0.39
48 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47933723 original size:46 final size:46
Alignment explanation
Indices: 47933458--47933723 Score: 235
Period size: 46 Copynumber: 5.8 Consensus size: 46
47933448 TGTAACCCGC
* * * *
47933458 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47933504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47933550 ACATCTCTCGAACTC-GACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
47933595 CCA-AAGTGAACTCGGACTCAACTCAACGAGCTAGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47933640 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47933687 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47933724 TGCCCAAATA
Statistics
Matches: 175, Mismatches: 28, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 11 0.06
44 21 0.12
45 8 0.05
46 87 0.50
47 41 0.23
48 1 0.01
49 4 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47940369 original size:27 final size:28
Alignment explanation
Indices: 47940338--47940390 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
47940328 AGCACAATTT
*
47940338 GGGCCCAAGCTC-TTTCAGTAATAGTTA
1 GGGCCCAAGCCCATTTCAGTAATAGTTA
**
47940365 GGGCCTTAGCCCATTTCAGTAATAGT
1 GGGCCCAAGCCCATTTCAGTAATAGT
47940391 AGCAGTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (28 bp):
GGGCCCAAGCCCATTTCAGTAATAGTTA
Found at i:47940403 original size:34 final size:34
Alignment explanation
Indices: 47940365--47940447 Score: 139
Period size: 34 Copynumber: 2.4 Consensus size: 34
47940355 GTAATAGTTA
*
47940365 GGGCCTTAGCCCATTTCAGTAATAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAATAGTAGCAGTCT
* *
47940399 GGGCCTGAGCCCGTTTCAGTAATAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAATAGTAGCAGTCT
47940433 GGGCCTAAGCCCATT
1 GGGCCTAAGCCCATT
47940448 AACATATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.27
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAATAGTAGCAGTCT
Found at i:47941016 original size:17 final size:20
Alignment explanation
Indices: 47940984--47941022 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
47940974 GTACAATTTT
47940984 CCCATATGGAGCCCACA-GG
1 CCCATATGGAGCCCACACGG
47941003 CCCAT-TGG-GCCCACACGG
1 CCCATATGGAGCCCACACGG
47941021 CC
1 CC
47941023 TAGTTCGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.10
Consensus pattern (20 bp):
CCCATATGGAGCCCACACGG
Found at i:47945000 original size:28 final size:28
Alignment explanation
Indices: 47944959--47945018 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
47944949 CTTCGATGAT
* * *
47944959 GTATGGCACCTAGTGTGCGAGATATTGA
1 GTATAGCACCTAGTGTACGAGACATTGA
*
47944987 GTATAGCACTTAGTGTACGAGACATTGA
1 GTATAGCACCTAGTGTACGAGACATTGA
47945015 GTAT
1 GTAT
47945019 TCAATGGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
GTATAGCACCTAGTGTACGAGACATTGA
Found at i:47946441 original size:22 final size:23
Alignment explanation
Indices: 47946414--47946459 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
47946404 ATGATTTATG
*
47946414 AAAATGAATGCTTTATGTT-TGA
1 AAAATGAATGCTATATGTTGTGA
*
47946436 AAAATGTATGCTATATGTTGTGA
1 AAAATGAATGCTATATGTTGTGA
47946459 A
1 A
47946460 TTGATTGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (23 bp):
AAAATGAATGCTATATGTTGTGA
Found at i:47953684 original size:28 final size:29
Alignment explanation
Indices: 47953630--47953687 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
47953620 TACAAGGGTT
47953630 TTCACACGGCCTGGCACACACCCGTGTCC
1 TTCACACGGCCTGGCACACACCCGTGTCC
*
47953659 TTCACACGGCCAT-G-ACACGCCCGTGTCC
1 TTCACACGGCC-TGGCACACACCCGTGTCC
47953687 T
1 T
47953688 AGCCTGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 12 0.44
30 1 0.04
ACGTcount: A:0.17, C:0.43, G:0.21, T:0.19
Consensus pattern (29 bp):
TTCACACGGCCTGGCACACACCCGTGTCC
Found at i:47958439 original size:38 final size:38
Alignment explanation
Indices: 47958352--47958546 Score: 248
Period size: 38 Copynumber: 5.0 Consensus size: 38
47958342 AAACCCAAAC
* * * *
47958352 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
47958392 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
47958430 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
47958468 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
47958506 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
47958546 A
1 A
47958547 CACATCAAAT
Statistics
Matches: 139, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
37 1 0.01
38 100 0.72
39 8 0.06
40 30 0.22
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:47962742 original size:29 final size:27
Alignment explanation
Indices: 47962654--47962751 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 27
47962644 TCTCATTTCA
* *
47962654 CACACATAGTGCTCGGTTGAAGAACTCG
1 CACACATAGTGCTCGGTT-AAGAATTTG
** **
47962682 CACACATAGTGCCTCAATTACCAATTTCG
1 CACACATAGTG-CTCGGTTAAGAATTT-G
47962711 CACACATAGTGCTCGGTTAAAGGAATTTG
1 CACACATAGTGCTCGGTT-AA-GAATTTG
*
47962740 CACACACAGTGC
1 CACACATAGTGC
47962752 CTCTCATCAT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 20 0.36
29 30 0.55
30 5 0.09
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (27 bp):
CACACATAGTGCTCGGTTAAGAATTTG
Found at i:47962986 original size:43 final size:43
Alignment explanation
Indices: 47962919--47963128 Score: 339
Period size: 43 Copynumber: 4.9 Consensus size: 43
47962909 CACCAACATT
* **
47962919 AAGCCTGCTAGGCACGAAGACCCGAATACACATCATTGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * *
47962962 GAGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGACACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
47963005 AAGCCTGCTAGGCACGAAGGCCCGAATACTCATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
47963048 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
47963091 AAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCG
47963129 AGTTTCATGC
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 155 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:47964778 original size:38 final size:38
Alignment explanation
Indices: 47964690--47964884 Score: 239
Period size: 38 Copynumber: 5.0 Consensus size: 38
47964680 AAACCCAAAC
* * * *
47964690 ATAACACCAGCACGAAGCCTACGGGATTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
47964730 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
47964768 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
47964806 ATATTACCAACACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
47964844 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
47964884 A
1 A
47964885 CACATCAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 98 0.72
39 8 0.06
40 30 0.22
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:47972028 original size:37 final size:37
Alignment explanation
Indices: 47971964--47972037 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
47971954 TTACAAGCCA
47971964 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
47972001 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
47972038 GACATCGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 4 0.12
37 28 0.85
38 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:47975648 original size:27 final size:27
Alignment explanation
Indices: 47975622--47975956 Score: 427
Period size: 27 Copynumber: 12.4 Consensus size: 27
47975612 CCAAACTACT
* *
47975622 AAAAAACCCCTGGTTTGTAAAATTACT
1 AAAATACCCCTGGTTTGTAAAATTACC
* * *
47975649 AAAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCCTGGTTTGTAAAATTACC
* *
47975676 AAAATATCCCTGGTTTGTAAAATTAAC
1 AAAATACCCCTGGTTTGTAAAATTACC
* **
47975703 AAAATACCCTTGGTTTACAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
* *
47975730 AAAATACCCCTGGCTTGTAAAATTACT
1 AAAATACCCCTGGTTTGTAAAATTACC
** * *
47975757 AAAATACCTTTTGTTTATAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
47975784 AAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
*
47975811 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCCTGGTTTGTAAAATTACC
** * *
47975838 AAAATACCTTTTGTTTATAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
*
47975865 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
* * *
47975892 AAAATACCCTTAGTTTGTAAAATTATC
1 AAAATACCCCTGGTTTGTAAAATTACC
*
47975919 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATTACC
*
47975946 AAAATATCCCT
1 AAAATACCCCT
47975957 AATTTATGAA
Statistics
Matches: 263, Mismatches: 45, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 263 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATACCCCTGGTTTGTAAAATTACC
Found at i:47975957 original size:27 final size:26
Alignment explanation
Indices: 47975629--47976036 Score: 384
Period size: 27 Copynumber: 15.2 Consensus size: 26
47975619 ACTAAAAAAC
*
47975629 CCCTGGTTTGTAAAATTACTAAAATA
1 CCCTGGTTTGTAAAATTACCAAAATA
* *
47975655 CCCTTGGTTTATAAAATCACCAAAATA
1 CCC-TGGTTTGTAAAATTACCAAAATA
*
47975682 TCCCTGGTTTGTAAAATTAACAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
**
47975709 CCCTTGGTTTACAAAATTACCAAAATA
1 CCC-TGGTTTGTAAAATTACCAAAATA
* *
47975736 CCCCTGGCTTGTAAAATTACTAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
* * *
47975763 CCTTTTGTTTATAAAATTACCAAAATA
1 CC-CTGGTTTGTAAAATTACCAAAATA
47975790 CCCCTGGTTTGTAAAATTACCAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
*
47975817 CCCCTGGTTTGTAAAATTACTAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
* * *
47975844 CCTTTTGTTTATAAAATTACCAAAATA
1 CC-CTGGTTTGTAAAATTACCAAAATA
*
47975871 CCCCTAGTTTGTAAAATTACCAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
* *
47975898 CCCTTAGTTTGTAAAATTATCAAAATA
1 CCC-TGGTTTGTAAAATTACCAAAATA
*
47975925 CCCCTAGTTTGTAAAATTACCAAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
** * * **
47975952 TCCCTAATTTATGAAATTACTGAAATA
1 -CCCTGGTTTGTAAAATTACCAAAATA
*** ***
47975979 CCCTCGACCTGTAAAATTATTGAAATA
1 CCCT-GGTTTGTAAAATTACCAAAATA
** *
47976006 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCT-GGTTTGTAAAATTACCAAAATA
47976033 CCCT
1 CCCT
47976037 TGATTTACAG
Statistics
Matches: 323, Mismatches: 48, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
26 17 0.05
27 293 0.91
28 13 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (26 bp):
CCCTGGTTTGTAAAATTACCAAAATA
Found at i:47976050 original size:27 final size:26
Alignment explanation
Indices: 47975640--47976092 Score: 128
Period size: 27 Copynumber: 16.8 Consensus size: 26
47975630 CCTGGTTTGT
* * *
47975640 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTAC-CAAATACCCTTGATTTAC
* * **
47975667 AAAATCACCAAAATATCCC-TGGTTTGT
1 AAAATTACC-AAATA-CCCTTGATTTAC
* *
47975694 AAAATTAACAAAATACCCTTGGTTTAC
1 AAAATT-ACCAAATACCCTTGATTTAC
* ** **
47975721 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACC-AAATACCCTTGATTTAC
* * *
47975748 AAAATTACTAAAATACCTTTTG-TTTAT
1 AAAATTAC-CAAATACC-CTTGATTTAC
* * **
47975775 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTGATTTAC
* * **
47975802 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTGATTTAC
* * *
47975829 AAAATTACTAAAATACCTTTTG-TTTAT
1 AAAATTAC-CAAATACC-CTTGATTTAC
* **
47975856 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACC-AAATACCCTTGA-TTTAC
**
47975883 AAAATTACCAAAATACCCTT-AGTTTGT
1 AAAATTACC-AAATACCCTTGA-TTTAC
* * **
47975910 AAAATTATCAAAATACCCCT-AGTTTGT
1 AAAATTA-CCAAATACCCTTGA-TTTAC
* *
47975937 AAAATTACCAAAATATCCC-TAATTTAT
1 AAAATTACC-AAATA-CCCTTGATTTAC
* * * ** **
47975964 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTAC-CAAATACCCTTGATTTAC
** * * **
47975991 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTTGATTTAC
47976018 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
47976045 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
47976072 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
47976093 TAGGGTAGAA
Statistics
Matches: 343, Mismatches: 60, Indels: 46
0.76 0.13 0.10
Matches are distributed among these distances:
26 15 0.04
27 314 0.92
28 14 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:47976239 original size:26 final size:27
Alignment explanation
Indices: 47976074--47976241 Score: 159
Period size: 27 Copynumber: 6.3 Consensus size: 27
47976064 CGATTTACAA
47976074 AATTACCGAAATACC-CTTGTAGGGTAG
1 AATTACCGAAATACCTC-TGTAGGGTAG
* *
47976101 AAAT-CTCGAAATACC-CTTATAGGGTAG
1 AATTAC-CGAAATACCTC-TGTAGGGTAG
* *
47976128 AATTACTC-AAATACCCCTGTAAGGTAG
1 AATTAC-CGAAATACCTCTGTAGGGTAG
* *
47976155 AATTACC-AGAATACCCCTTTAGGGTAG
1 AATTACCGA-AATACCTCTGTAGGGTAG
*
47976182 AATTACCGAAATACCTCTGTAGGGTGG
1 AATTACCGAAATACCTCTGTAGGGTAG
* * *
47976209 AATTACCGAGATACCT-TGTGGGGTAA
1 AATTACCGAAATACCTCTGTAGGGTAG
47976235 AATTACC
1 AATTACC
47976242 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.14
27 100 0.82
28 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCTCTGTAGGGTAG
Found at i:47976705 original size:22 final size:22
Alignment explanation
Indices: 47976675--47976726 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47976665 ATTATAGCTT
*
47976675 TGTGTCAACCT-ACATATGGCTC
1 TGTGCCAACCTGA-ATATGGCTC
* *
47976697 TGTGCCAACCTGATTATGGCTG
1 TGTGCCAACCTGAATATGGCTC
47976719 TGTGCCAA
1 TGTGCCAA
47976727 ACGTATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
TGTGCCAACCTGAATATGGCTC
Found at i:47976915 original size:27 final size:27
Alignment explanation
Indices: 47976885--47976986 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
47976875 ATTCTGTTAA
* *
47976885 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
47976912 GTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
47976939 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
47976966 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
47976987 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:47977161 original size:6 final size:6
Alignment explanation
Indices: 47977146--47977242 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
47977136 ATTCGGTTAC
* * *
47977146 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
47977195 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47977243 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:47977218 original size:37 final size:31
Alignment explanation
Indices: 47977134--47977258 Score: 155
Period size: 31 Copynumber: 4.1 Consensus size: 31
47977124 TTCTAATTTT
* *
47977134 TGATTCGGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
47977165 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
47977196 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
47977227 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
47977257 TG
1 TG
47977259 TAATGGGTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
30 16 0.20
31 64 0.78
32 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:47979211 original size:27 final size:27
Alignment explanation
Indices: 47979181--47979680 Score: 583
Period size: 27 Copynumber: 18.6 Consensus size: 27
47979171 TTAGTTTACC
47979181 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
47979208 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
47979235 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
47979262 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979289 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
47979316 AAGTTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979343 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979370 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
47979397 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979424 AAATTACCAAAATA--CCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47979449 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** ** *
47979476 AAATTACTAAAATACCTTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979503 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
47979530 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47979557 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
47979584 AAATTACCAAAATATCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *** *
47979611 AAATTACTAAAATACCCTTGACCTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
47979638 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
47979665 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
47979681 ATTGATTTAT
Statistics
Matches: 398, Mismatches: 71, Indels: 7
0.84 0.15 0.01
Matches are distributed among these distances:
25 21 0.05
26 3 0.01
27 373 0.94
28 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:47979640 original size:54 final size:53
Alignment explanation
Indices: 47979181--47979738 Score: 503
Period size: 54 Copynumber: 10.4 Consensus size: 53
47979171 TTAGTTTACC
* * * * *
47979181 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCC-TGATTTGTA
* * * * * **
47979235 AAATCACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACC-CTGATTTGTA
* * * * *
47979289 AAATTACCAAAATACCCCTGGTTTGTAAAGTTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCC--TGATTTGTA
* * *
47979343 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA-CCCTGATTTGTA
* * * *
47979397 AAATTACTAAAATACCTTTTG-TTTATAAAATTACCAAAATA-CCTGGTTTGTA
1 AAATTACCAAAATACC-CTTGATTTGTAAAATTACCAAAATACCCTGATTTGTA
* * * * *
47979449 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCTTTTATTTATA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACC-CTGATTTGTA
* * *
47979503 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATA-CCCTGATTTGTA
* * *
47979557 AAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATATCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTAAAATTACCAAAATA-CCCTGATTTGTA
* ** * ** *
47979611 AAATTACTAAAATACCCTTGACCTATAAAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCT-GATTTGTA
* * * * **** **
47979665 AAATTACCAAAGTACCATTGATTTATAGAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCT-GATTTGTA
*
47979719 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
47979739 TAGAGTAGAA
Statistics
Matches: 424, Mismatches: 67, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
51 3 0.01
52 44 0.10
53 7 0.02
54 360 0.85
55 10 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (53 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCTGATTTGTA
Found at i:47979856 original size:26 final size:27
Alignment explanation
Indices: 47979720--47979886 Score: 164
Period size: 27 Copynumber: 6.3 Consensus size: 27
47979710 CGATTTACAA
* *
47979720 AATTACCGAAATACCCTTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47979747 AAAT-CTCGAAATACCCCTGTAGGGTAG
1 AATTAC-CGAAATACCCCTGTAGGGTAG
* *
47979774 AATTACTC-AAATACCCATGTAAGGTAG
1 AATTAC-CGAAATACCCCTGTAGGGTAG
* *
47979801 AATTACC-AGAATACTCCTTTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
47979828 AATTACCGAAA-ACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
47979854 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
47979880 AATTACC
1 AATTACC
47979887 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
26 41 0.35
27 72 0.62
28 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47980365 original size:22 final size:21
Alignment explanation
Indices: 47980316--47980377 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
47980306 AAGCCTTCTA
* *
47980316 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
47980337 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
47980359 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
47980378 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:47980567 original size:27 final size:27
Alignment explanation
Indices: 47980536--47980637 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
47980526 ATTCTGTTAA
* *
47980536 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* *
47980563 TTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
47980590 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
47980617 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
47980638 ATAACTGAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:47980812 original size:6 final size:6
Alignment explanation
Indices: 47980797--47980893 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
47980787 ATTCGGTTAC
* * *
47980797 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
47980846 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47980894 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:47980869 original size:37 final size:31
Alignment explanation
Indices: 47980785--47980909 Score: 155
Period size: 31 Copynumber: 4.1 Consensus size: 31
47980775 TTCTAATTTT
* *
47980785 TGATTCGGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
47980816 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
47980847 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
47980878 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
47980908 TG
1 TG
47980910 TAATGGGTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
30 16 0.20
31 64 0.78
32 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:47982535 original size:48 final size:48
Alignment explanation
Indices: 47982482--47982787 Score: 284
Period size: 48 Copynumber: 6.4 Consensus size: 48
47982472 CATGTTTGGA
* * * * * *
47982482 ACATGGTCTTATACTGGCTCACTTGTCAAGGTCGATGCCATGTCTCAG
1 ACATGGTCTTACACTAGCTCTCATGTCAATGCCGATGCCATGTCTCAG
* * *
47982530 ACATGGTTTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTC-CTAG
1 ACATGGTCTTACACTAGCTCTCATGTCAATGCCGATGCCATGTCTC-AG
* * * *
47982578 ACATGGTCTTACACTGGCTCTCA--T-AATGTGGCCAATGTCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATGTCAA--T-GCCGATGCCATGTCTCAG
* * *
47982626 ACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTC-CTAG
1 ACATGGTCTTACACTAGCTCTCATGTCAATGCCGATGCCATGTCTC-AG
* * * * *
47982674 ACATGGTCTTACACTAACTCTCATGACATTGCTGATGCCATGT-TCCAA
1 ACATGGTCTTACACTAGCTCTCATGTCAATGCCGATGCCATGTCT-CAG
* * *
47982722 ACATAGTCTTACACTGGCTCTCATGTC-ATAGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATGTCAAT-GCCGATGCCATGTCTCAG
47982770 ACATGGTCTTACACTAGC
1 ACATGGTCTTACACTAGC
47982788 ACACATATCA
Statistics
Matches: 209, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
47 4 0.02
48 196 0.94
49 3 0.01
50 1 0.00
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATGTCAATGCCGATGCCATGTCTCAG
Found at i:47982630 original size:96 final size:96
Alignment explanation
Indices: 47982516--47982785 Score: 339
Period size: 96 Copynumber: 2.8 Consensus size: 96
47982506 GTCAAGGTCG
* * * *
47982516 ATGCCATGTCTCAGACATGGTTTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCTAGACA
**
47982581 TGGTCTTACACTGGCTCTCAT-A-ATGTGGCCA
66 TGGTCTTACACTAACTCTCATGACAT-T-GCCA
* * *
47982612 ATGTCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCTAGACA
**
47982677 TGGTCTTACACTAACTCTCATGACATTGCTG
66 TGGTCTTACACTAACTCTCATGACATTGCCA
* * * * * *
47982708 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATGTC-ATAGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GCCGATGCCATGTCCTAGAC
47982772 ATGGTCTTACACTA
65 ATGGTCTTACACTA
47982786 GCACACATAT
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
95 2 0.01
96 145 0.96
97 2 0.01
98 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCTAGACA
TGGTCTTACACTAACTCTCATGACATTGCCA
Found at i:47982732 original size:144 final size:144
Alignment explanation
Indices: 47982482--47982797 Score: 386
Period size: 144 Copynumber: 2.2 Consensus size: 144
47982472 CATGTTTGGA
* * * * * * * *
47982482 ACATGGTCTTATACTGGCTCACTTGTCAAGGTCGATGCCATGTCTCAGACATGGTTTTACACTAG
1 ACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCTCAGACATGGTCTTACACTAA
* * * * * *
47982547 CTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
66 CTCTCATCACAATGCCGATGCCATGTCCTAAACATAGTCTTACACTGGCTCTCAT-ATCATAGCC
*
47982611 AATGTCATGTCCCAG
130 AATGCCATGTCCCAG
* *
47982626 ACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTC-CTAGACATGGTCTTACACTA
1 ACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCTC-AGACATGGTCTTACACTA
* * * *
47982690 ACTCTCATGACATTGCTGATGCCATGTTCC-AAACATAGTCTTACACTGGCTCTCATGTCATAGC
65 ACTCTCATCACAATGCCGATGCCATG-TCCTAAACATAGTCTTACACTGGCTCTCATATCATAGC
*
47982754 CGATGCCATGTCCCAG
129 CAATGCCATGTCCCAG
47982770 ACATGGTCTTACACTAGCACACATATCA
1 ACATGGTCTTACACTAGCACACATATCA
47982798 CCCAAATGTC
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 2 0.01
144 142 0.97
145 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (144 bp):
ACATGGTCTTACACTAGCACACATATCAAGGCCGATGCCATGTCTCAGACATGGTCTTACACTAA
CTCTCATCACAATGCCGATGCCATGTCCTAAACATAGTCTTACACTGGCTCTCATATCATAGCCA
ATGCCATGTCCCAG
Found at i:47992560 original size:60 final size:58
Alignment explanation
Indices: 47992436--47992562 Score: 130
Period size: 60 Copynumber: 2.2 Consensus size: 58
47992426 CGTGAACAAT
* * * * * *
47992436 TGCCAAGCTCAGTGATTAACTTGGACAAAAAAAGTTCAAGCCCCAATGTGGGAACAAT
1 TGCCAAGTTCAGGGATTAACATGGACAAAAAAAGTTCAAGCCCCAAAGTGGGAAAAAC
* * * *
47992494 TACCAAGTTCAGGGCTTAACATGGACCAAAAAAAAGTTCAGGCCCTAAAGT-GGAAAAAGC
1 TGCCAAGTTCAGGGATTAACATGGA-C-AAAAAAAGTTCAAGCCCCAAAGTGGGAAAAA-C
47992554 TGCCAAGTT
1 TGCCAAGTT
47992563 GGGGGGGGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
58 20 0.36
59 7 0.13
60 28 0.51
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (58 bp):
TGCCAAGTTCAGGGATTAACATGGACAAAAAAAGTTCAAGCCCCAAAGTGGGAAAAAC
Found at i:47996058 original size:17 final size:17
Alignment explanation
Indices: 47996032--47996076 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
47996022 ACTGCTGTGT
47996032 GTGACCACACGACATAG
1 GTGACCACACGACATAG
* *
47996049 GTGGCCACACGACATGG
1 GTGACCACACGACATAG
47996066 GTGACCACACG
1 GTGACCACACG
47996077 CCCGTGTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.29, T:0.11
Consensus pattern (17 bp):
GTGACCACACGACATAG
Found at i:47999640 original size:42 final size:43
Alignment explanation
Indices: 47999552--47999640 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
47999542 TGAGACATCG
* * * * *
47999552 TGTAAGACCATAGCTGGGATATCGACATTGATATGTAATTCCA
1 TGTAAGACCATACCTGGGATATCGACATTGACATCTAACTACA
* * *
47999595 TGTAAGACCATACCTGGGATAT-GACATTGGCATCTTACTATA
1 TGTAAGACCATACCTGGGATATCGACATTGACATCTAACTACA
47999637 TGTA
1 TGTA
47999641 TGAGGTTTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 17 0.45
43 21 0.55
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATACCTGGGATATCGACATTGACATCTAACTACA
Found at i:47999795 original size:16 final size:17
Alignment explanation
Indices: 47999774--47999805 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47999764 AATCATTAGC
47999774 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
47999790 TTCATGATCATTATGA
1 TTCATGATCATTATGA
47999806 AAGTGACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:48002669 original size:15 final size:15
Alignment explanation
Indices: 48002649--48002680 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48002639 CACTTGTTTA
48002649 CATATACTCATTAAT
1 CATATACTCATTAAT
48002664 CATATACTCATTAAT
1 CATATACTCATTAAT
48002679 CA
1 CA
48002681 AACCTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (15 bp):
CATATACTCATTAAT
Found at i:48004018 original size:26 final size:26
Alignment explanation
Indices: 48003983--48004033 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48003973 AATGTGAAAG
*
48003983 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
48004009 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
48004034 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:48004071 original size:103 final size:103
Alignment explanation
Indices: 48003906--48004169 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 103
48003896 TGTATATAAA
** * *
48003906 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
48003970 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
48004008 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCTT
48004073 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
48004112 AGGGGTTGCTAAGTGCTGATT-CCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCA
48004170 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
102 27 0.18
103 97 0.64
104 27 0.18
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48011498 original size:27 final size:27
Alignment explanation
Indices: 48011456--48011507 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
48011446 GAAATGTGAA
*
48011456 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
48011483 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
48011508 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:48011545 original size:102 final size:103
Alignment explanation
Indices: 48011392--48011643 Score: 411
Period size: 102 Copynumber: 2.5 Consensus size: 103
48011382 GGGTAGCTGT
* * *
48011392 GTGCTGATTCCCCGATTCATTGGTGGTACTATGTGCG-TGATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATG-AAA
48011456 A-GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
64 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
48011495 GTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAG
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
48011559 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
48011597 GTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
48011644 ATAACGGTTA
Statistics
Matches: 139, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
101 3 0.02
102 92 0.66
103 44 0.32
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:48013210 original size:56 final size:56
Alignment explanation
Indices: 48013119--48013285 Score: 246
Period size: 56 Copynumber: 3.0 Consensus size: 56
48013109 TCTTACATGT
*** * *
48013119 AATCACATATCGATGCC-ACTGTCCCAGACAGGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAAC-GTATTAAACATGGTCTTACTCGCACACATATATCGG
* *
48013175 AATCACATATTGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATTGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
*
48013231 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCG
48013286 ATGCCATGGT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 98 0.98
57 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
Found at i:48017133 original size:25 final size:25
Alignment explanation
Indices: 48017099--48017175 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
48017089 TCTTAGTCGG
48017099 CTTAACTTGCAACTTGGCTAGCAGA
1 CTTAACTTGCAACTTGGCTAGCAGA
48017124 CTTAACTTGCAACTTGGCTAGCAGA
1 CTTAACTTGCAACTTGGCTAGCAGA
*
48017149 CTTAGCTTGCAACTTGGCTAGCAGA
1 CTTAACTTGCAACTTGGCTAGCAGA
48017174 CT
1 CT
48017176 CCCATAATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (25 bp):
CTTAACTTGCAACTTGGCTAGCAGA
Found at i:48022201 original size:40 final size:40
Alignment explanation
Indices: 48022107--48022337 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
48022097 TGGATGAAAA
* ** * *
48022107 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
48022146 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
48022186 CCGGGATAAGTCCCGAAGGCATTTGTGCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
48022226 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
48022266 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
48022306 CCAGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48022338 AGTTATATCC
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 32 0.18
40 139 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:48027041 original size:37 final size:37
Alignment explanation
Indices: 48026993--48027072 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
48026983 AAAGAATGGG
* *
48026993 TTTTGATAACGAAATTCATACAAAAAATCATTTTAGT
1 TTTTTATAACGAAATTCATACAAAAAACCATTTTAGT
48027030 TTTTTATAACGAAATTCATACAAAAAACCATTTTAGT
1 TTTTTATAACGAAATTCATACAAAAAACCATTTTAGT
48027067 TTTTTA
1 TTTTTA
48027073 ACTCTTTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (37 bp):
TTTTTATAACGAAATTCATACAAAAAACCATTTTAGT
Found at i:48037706 original size:16 final size:15
Alignment explanation
Indices: 48037679--48037726 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
48037669 ATTTTATAAT
*
48037679 TATTTATAATATTTA
1 TATTTGTAATATTTA
48037694 TATTATGTAATA-TTA
1 TATT-TGTAATATTTA
* *
48037709 TAATTGTAATATATA
1 TATTTGTAATATTTA
48037724 TAT
1 TAT
48037727 ATGAGATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 7 0.26
15 14 0.52
16 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
TATTTGTAATATTTA
Found at i:48042859 original size:49 final size:47
Alignment explanation
Indices: 48042747--48042920 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 47
48042737 TAATGCCGAT
* * * * *
48042747 GCCATGTCCCACACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAAGTCAAC
*
48042794 GCCATGTCCCAAACATGGTCTTACACTGACT-ATCAAAATCGAGGTCAAC
1 GCCATGTCCCAAACATGGTCTTACACTGACTCATC--AATC-AAGTCAAC
* * * *
48042843 GCCATGTCCCAGACATGGT-TTACACTAGCTCTCA-CATATC-CGT-ACC
1 GCCATGTCCCAAACATGGTCTTACACT-G-ACTCATCA-ATCAAGTCAAC
48042889 GATCCCATGTCCCAAACATGGTCTTACACTGA
1 G---CCATGTCCCAAACATGGTCTTACACTGA
48042921 TACATCTCGT
Statistics
Matches: 104, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
46 6 0.06
47 31 0.30
48 11 0.11
49 45 0.43
50 10 0.10
51 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAAGTCAAC
Found at i:48043102 original size:140 final size:142
Alignment explanation
Indices: 48042738--48043103 Score: 374
Period size: 140 Copynumber: 2.6 Consensus size: 142
48042728 CATAGGGTAT
*
48042738 AATGCCGATGCCATGTCCCACACATGGTCTTACACTGGCTCATCCATCAA-GT-C-GATGCCATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-T-CAT-AATGTGCTGATG-CATG
*
48042800 TCCCA-AACATGGTCTTACACTGACTATCAAAATCGAGGTCAACGCCATGTCCCAGACATGGTTT
62 TCCCAGAA-AT-GTCTTACACTGACTATCAAAATCGAGGCCAACGCCATGTCCCAGACATGGTTT
48042864 ACACTAGCTCTCACATATC
125 ACACTAGCTCT-ACATATC
** * * * * *
48042883 CGTACCGATCCCATGTCCCAAACATGGTCTTACACT-GAT-ACAT-CTCGTAGCTGATGCATGTC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GT-GCTGATGCATGTC
* * * * ** * * * *
48042945 CCAGACATATCTCACACTGACT-TCCATCTCGAGGCCAATG-CATGTCCCAGACATGTTTTATAT
64 CCAGAAATGTCTTACACTGACTATCAAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACAC
*
48043008 TAGCTCT-CATCTC
129 TAGCTCTACATATC
* *
48043021 AATGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGT-GCTGATGCATGTCC
48043086 CAGAAATGTCTTACACTG
65 CAGAAATGTCTTACACTG
48043104 GCACACAAAT
Statistics
Matches: 179, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
138 35 0.20
139 2 0.01
140 61 0.34
141 19 0.11
142 12 0.07
143 12 0.07
144 7 0.04
145 31 0.17
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (142 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGCTGATGCATGTCCC
AGAAATGTCTTACACTGACTATCAAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTA
GCTCTACATATC
Found at i:48043983 original size:10 final size:9
Alignment explanation
Indices: 48043959--48043984 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48043949 TTCAAGGATC
48043959 TCAAAAACA
1 TCAAAAACA
48043968 TCAAAAACA
1 TCAAAAACA
48043977 TCAAAAAC
1 TCAAAAAC
48043985 CAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:48052483 original size:26 final size:26
Alignment explanation
Indices: 48052448--48052497 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
48052438 TAGGGTTATG
48052448 GTCCCCAAATTATATACAAGTTAATA
1 GTCCCCAAATTATATACAAGTTAATA
*
48052474 GTCCTCAAATTATATACAAGTTAA
1 GTCCCCAAATTATATACAAGTTAA
48052498 CTTTTCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (26 bp):
GTCCCCAAATTATATACAAGTTAATA
Found at i:48063808 original size:24 final size:24
Alignment explanation
Indices: 48063754--48063808 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
48063744 TATGTTAGCG
48063754 AATAAATATATATAAATATAAATA
1 AATAAATATATATAAATATAAATA
* * **
48063778 AACAAATATTTATATCTA-AAATAA
1 AATAAATATATATAAATATAAAT-A
48063802 AATAAAT
1 AATAAAT
48063809 TGAATAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AATAAATATATATAAATATAAATA
Found at i:48065582 original size:40 final size:40
Alignment explanation
Indices: 48065495--48065791 Score: 359
Period size: 40 Copynumber: 7.5 Consensus size: 40
48065485 AAGCCAAGTA
* * *
48065495 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
48065533 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48065573 CCTTTGGGACTTATCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48065613 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48065653 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
48065693 CCTTCGAGACTTAGCCCGGATGTAATAACTCAAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48065733 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48065773 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48065792 TTATCATCCG
Statistics
Matches: 227, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 12 0.05
39 16 0.07
40 199 0.88
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48071273 original size:79 final size:81
Alignment explanation
Indices: 48071137--48071319 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
48071127 TCGAATGATG
* *
48071137 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCACATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
48071201 TGTGTGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
48071216 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
48071278 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
48071296 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48071320 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Done.