Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 46 of 325
Found at i:11513383 original size:30 final size:30
Alignment explanation
Indices: 11513339--11513427 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
11513329 CAAAGATAAT
11513339 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
11513368 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
11513398 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11513428 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11513387 original size:15 final size:15
Alignment explanation
Indices: 11513339--11513418 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
11513329 CAAAGATAAT
*
11513339 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11513353 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11513368 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
11513383 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
11513398 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
11513413 AAGAAA
1 AAGAAA
11513419 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11513427 original size:15 final size:15
Alignment explanation
Indices: 11513350--11513427 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
11513340 AGAAAACCGA
11513350 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
11513365 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
11513379 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
11513394 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
11513410 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
11513425 ATA
1 ATA
11513428 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11516412 original size:45 final size:45
Alignment explanation
Indices: 11516348--11516521 Score: 217
Period size: 45 Copynumber: 3.8 Consensus size: 45
11516338 TGTAACCCGC
*
11516348 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
11516393 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
11516439 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
11516486 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
11516522 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 36 0.33
46 33 0.30
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:11516514 original size:93 final size:92
Alignment explanation
Indices: 11516356--11516526 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
11516346 GCCCATAAGT
*
11516356 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
11516421 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
11516448 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11516513 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
11516527 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:11516541 original size:46 final size:44
Alignment explanation
Indices: 11516353--11516541 Score: 129
Period size: 46 Copynumber: 4.1 Consensus size: 44
11516343 CCCGCCCATA
* * * *
11516353 AGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCCAAATCC-T
* *
11516397 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
11516447 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
11516490 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
11516537 AGTGA
1 AGTGA
11516542 CATGTCACTT
Statistics
Matches: 115, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 6 0.05
45 31 0.27
46 33 0.29
47 28 0.24
48 4 0.03
49 3 0.03
50 4 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:11524811 original size:26 final size:26
Alignment explanation
Indices: 11524780--11524887 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11524770 ATGAAATGCC
*
11524780 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11524806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11524832 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11524858 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11524884 ATCA
1 ATCA
11524888 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11531210 original size:26 final size:26
Alignment explanation
Indices: 11531181--11531288 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
11531171 TGAAATGCCC
* *
11531181 ATCATGTAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
11531207 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
11531233 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
11531259 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
11531285 ATCA
1 ATCA
11531289 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:11531259 original size:52 final size:52
Alignment explanation
Indices: 11531181--11531288 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
11531171 TGAAATGCCC
*
11531181 ATCATGTAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
*
11531233 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
11531285 ATCA
1 ATCA
11531289 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:11531923 original size:33 final size:33
Alignment explanation
Indices: 11531895--11531970 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
11531885 AAATCCCTCT
11531895 AACACACCAACGCTCATAAGAGCTAATCCAACC
1 AACACACCAACGCTCATAAGAGCTAATCCAACC
* *
11531928 AACACACCAATGCTCATAAGAGCTAATCTAACC
1 AACACACCAACGCTCATAAGAGCTAATCCAACC
11531961 AACACACCAA
1 AACACACCAA
11531971 ACAGAGGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.45, C:0.34, G:0.08, T:0.13
Consensus pattern (33 bp):
AACACACCAACGCTCATAAGAGCTAATCCAACC
Found at i:11537021 original size:55 final size:53
Alignment explanation
Indices: 11536900--11537153 Score: 263
Period size: 53 Copynumber: 4.8 Consensus size: 53
11536890 ATTAGTGTTT
* *
11536900 AAGGATACCATGTAAGACCATGCCAAG-CATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * *
11536954 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
11537009 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
11537062 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
11537111 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
11537154 GTACCCGCGT
Statistics
Matches: 173, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
49 40 0.23
51 1 0.01
52 8 0.05
53 44 0.25
54 32 0.18
55 44 0.25
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:11537105 original size:108 final size:109
Alignment explanation
Indices: 11536907--11537106 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 109
11536897 TTTAAGGATA
*
11536907 CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
11536972 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
11537016 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAA-GCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
11537078 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
11537107 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 26 0.31
110 6 0.07
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:11537367 original size:16 final size:16
Alignment explanation
Indices: 11537346--11537376 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11537336 ATAAATTTGA
11537346 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
11537362 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
11537377 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:11544315 original size:131 final size:128
Alignment explanation
Indices: 11544142--11544701 Score: 491
Period size: 131 Copynumber: 4.3 Consensus size: 128
11544132 TTACTCCCCG
* * ** * *
11544142 AATTGCCAAACACCGAACATTTCCTTTATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTTCG
1 AATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG-GTTTTTA-AAAACATGAGTGAAATTTCA
* * * *
11544207 AAGGAATCTTCGATTGTTTTGAACAAATGAAAAAGCGTAACCCAGCACGATAGGGCACGATTCTC
64 AAGGAATCTTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTC-C
11544272 A
128 A
* * * * * *
11544273 AATTGCCAAACATCGAATATTTCCTTCGTTTCAAAGAGTTTTTAGGAACCATTAGTGAAA-TTCT
1 AATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG-GTTTTTA-AAAACATGAGTGAAATTTC-
* * *
11544337 AAAGGGA-CGTTCGATTATTTTGAGA-AAACGAGAAATTGCAACCCAGCACGATAGGGCACGATT
63 AAAGGAATC-TTCGATTGTTTTGA-ACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATT
11544400 CCA
126 CCA
* * * * * ***
11544403 CGGATTGCCAAAGATTGAACATCGCCTTCGTTTTGAAAGGTTTTTAATAAACATGGGTGAAAACC
1 --AATTGCCAAACATCGAACATTGCCTTCGTTTT-AAAGGTTTTTAA-AAACATGAGTGAAATTT
* * * *
11544468 CAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTC
62 CAAAGGAATCTTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATT-
*
11544533 CCG
126 CCA
* ** *
11544536 AATTGTCAAACATCGAGTATTGCCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTGA
1 AATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGG-TTTTTAAAA-ACATGAGTGAAATTTCA
* * ** * * * *
11544601 AAGG-ACCTTTGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
64 AAGGAATCTTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCA
* * * *
11544665 CGAATTGTCAAATA-CAGAATATCGCCTTCGTTTTAAA
1 --AATTGCCAAACATC-GAACATTGCCTTCGTTTTAAA
11544702 TAATTGCGAA
Statistics
Matches: 349, Mismatches: 64, Indels: 32
0.78 0.14 0.07
Matches are distributed among these distances:
129 2 0.01
130 61 0.17
131 182 0.52
132 97 0.28
133 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (128 bp):
AATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGGTTTTTAAAAACATGAGTGAAATTTCAAA
GGAATCTTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCA
Found at i:11544476 original size:263 final size:262
Alignment explanation
Indices: 11544108--11544698 Score: 670
Period size: 263 Copynumber: 2.3 Consensus size: 262
11544098 CCAACGGGAG
* *** * * * * ** **
11544108 ATTGCAACCCAGCACGATAGGGCGTTACTCCCCGAATTGCCAAACACCGAACATTTCCTTTATTT
1 ATTGCAACCCAACACGATAGGGCACGATTCCACGAATTGCCAAAGACAGAACATCGCCTTCGTTT
* * *** * * *
11544173 T-AAAGAGTTTTTAGA-AAACGTGAGTGAAATTTCGAAGGAATCTTCGATTGTTTTGAACAAATG
66 TGAAAG-GTTTTTA-ATAAACATGGGTGAAAACCCAAAGGAATATTCGATTGTTTTGAACAAACG
** * *
11544236 AAAAAGCGTAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATCGAATATTTCCTTCG
129 AAAAAGCACAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAATATTGCCTTCG
* * * * *
11544301 TTTCAAA-GAGTTTTTAGGAA-CCATTAGTGAAATTCT-AAAGGGACGTTCGATTATTTTGAGAA
194 TTTCAAAGGA-TTTTTA-AAAGACATGAGTGAAATT-TGAAA-GGACCTTCGATTACTTTGAGAA
11544363 AACGAGAA
255 AACGAGAA
* * **
11544371 ATTGCAACCCAGCACGATAGGGCACGATTCCACGGATTGCCAAAGATTGAACATCGCCTTCGTTT
1 ATTGCAACCCAACACGATAGGGCACGATTCCACGAATTGCCAAAGACAGAACATCGCCTTCGTTT
* *
11544436 TGAAAGGTTTTTAATAAACATGGGTGAAAACCCAAAGGAATATTTGATTGTTTTGAACAAACGAG
66 TGAAAGGTTTTTAATAAACATGGGTGAAAACCCAAAGGAATATTCGATTGTTTTGAACAAACGAA
* * * * *
11544501 AAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACATCGAGTATTGCCTTCGTT
131 AAAGCACAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAATATTGCCTTCGTT
* * *
11544566 TTAAAGGATTTTTAAAAGACATGAGTGAAATTTGAAAGGACCTTTGATTACTTTGAGCAAACGAG
196 TCAAAGGATTTTTAAAAGACATGAGTGAAATTTGAAAGGACCTTCGATTACTTTGAGAAAACGAG
11544631 AA
261 AA
* * * *
11544633 ATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGTCAAATACAGAATATCGCCTTCGTTT
1 ATTGCAACCCAACACGATAGGGCACGATTCCACGAATTGCCAAAGACAGAACATCGCCTTCGTTT
11544698 T
66 T
11544699 AAATAATTGC
Statistics
Matches: 275, Mismatches: 48, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
262 88 0.32
263 181 0.66
264 6 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (262 bp):
ATTGCAACCCAACACGATAGGGCACGATTCCACGAATTGCCAAAGACAGAACATCGCCTTCGTTT
TGAAAGGTTTTTAATAAACATGGGTGAAAACCCAAAGGAATATTCGATTGTTTTGAACAAACGAA
AAAGCACAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAATATTGCCTTCGTT
TCAAAGGATTTTTAAAAGACATGAGTGAAATTTGAAAGGACCTTCGATTACTTTGAGAAAACGAG
AA
Found at i:11547145 original size:19 final size:19
Alignment explanation
Indices: 11547106--11547148 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11547096 CCTTGTAAAT
**
11547106 TTGGGTCTAGGTTTAGTTA
1 TTGGGTCTAGGTTTAACTA
11547125 TTGGGTCTAGGTTTAACTA
1 TTGGGTCTAGGTTTAACTA
11547144 TTGGG
1 TTGGG
11547149 CTTGGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (19 bp):
TTGGGTCTAGGTTTAACTA
Found at i:11547757 original size:132 final size:132
Alignment explanation
Indices: 11547495--11548037 Score: 755
Period size: 132 Copynumber: 4.1 Consensus size: 132
11547485 ACTGGAGATG
* * * *
11547495 AGATCTGCAATCTTCAGCCCACTCCACTCCAACTTTAGGGAGCTAGGGTGGTGGCTTAAATCTGC
1 AGATCTACAAT-TTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGC
* * * * *
11547560 TTCACTGCAACTTCAAGAAGACTAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCATGGAA
65 TTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAA
11547625 ACA
130 ACA
* * * *
11547628 AGATCTGCAATTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTACT
1 AGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCT
* * *
11547693 TCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT-TCGCTCCATTGCGACTTCAGGGAA
66 TCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCT-GCTCCACTGCAACTTCAGGGAA
11547757 ACA
130 ACA
** * *
11547760 AGATCTACAATTTCAAACTACTCCACTACAATTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGTT
1 AGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCT
* * * *
11547825 TCACTGCAACTTCAGGAAGCCAAGATTCACCATCTTCGATCTGTTCCACTGCAACTTCAGAGAAA
66 TCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAA
11547890 CA
131 CA
* *
11547892 TGATCTATAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCT
1 AGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCT
* * * ** * *
11547957 TCACTGCAACTTCAGGAAGCCAAAATTCGCCGTTTTCAATCCACTCCACTGCAGCTTCGGGGAAA
66 TCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAA
*
11548022 CG
131 CA
11548024 AGATCTACAATTTC
1 AGATCTACAATTTC
11548038 GGTTTCATCG
Statistics
Matches: 362, Mismatches: 46, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 349 0.96
133 12 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (132 bp):
AGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCT
TCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAA
CA
Found at i:11559577 original size:131 final size:130
Alignment explanation
Indices: 11559393--11559982 Score: 510
Period size: 131 Copynumber: 4.5 Consensus size: 130
11559383 CGGGAGATTC
* * * * * * * * *
11559393 CAACCCAGCACGATAGGGCGCTACTCCCCGAATTGCCAAACACCTAACATT-CCTTTGTTTTAAA
1 CAACCCAGCACGATAGGGCACGA-TTCTCAAATTGCCAAACATCGAATATTGCCTTCGTTTTAAA
** * * * * * *
11559457 GAGTTTTTAGAAAACGCGAGTGAAATTCTGAAGGAATCTTTGATTGTTTTGAACAAATGAAAAAG
65 G-GTTTTTAGAAAACATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGAACAAACGAGAAAT
11559522 CG
129 CG
* * * * *
11559524 TAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAATATTTCCTTCATTTCAAAG
1 CAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAG
* * *
11559589 AGTTTTTAGGAACCATGAGTGAAATTCTAAAAGG-A-CGTTCGATTATTTTGAGCAAACGAGAAA
66 -GTTTTTAGAAAACATGAGTGAAATTCT-AAAGGAATC-TTCGATTATTTTGAACAAACGAGAAA
*
11559652 TTG
128 TCG
* * ** * *
11559655 CAACCCAGCACGATAGGCCACGATTCCGCGGATTGCCAAACATCGAACATCGCCTTCGTTTTGAA
1 CAACCCAGCACGATAGGGCACGATT-CTCAAATTGCCAAACATCGAATATTGCCTTCGTTTT-AA
* ** * *
11559720 AGGTTTTTA-ATAAACATAAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAA
64 AGGTTTTTAGA-AAACATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGAACAAACGAGAAA
*
11559784 TCA
128 TCG
* * * *
11559787 CAACCCAGCACGATAGGGCATGATTCTCGAATTGTCAAACA-CTGAGTATTGCCTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATC-GAATATTGCCTTCGTTTTAAA
* * * * * * * *
11559851 GGATTTTTAGAAGACATGAGTGAAATTTTGAAGGGACCTTTGATTACTTTGAGCAAACGAGAAAT
65 GG-TTTTTAGAAAACATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGAACAAACGAGAAAT
*
11559916 TG
129 CG
* * * * *
11559918 CAACCCAACAC-ATTAGGGCACGATTC-CACGAATTGTCAAATACCGAATATTGCCTTTGTTTTA
1 CAACCCAGCACGA-TAGGGCACGATTCTCA--AATTGCCAAACATCGAATATTGCCTTCGTTTTA
11559981 AA
63 AA
11559983 TAATTGCGAA
Statistics
Matches: 369, Mismatches: 75, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
130 29 0.08
131 203 0.55
132 132 0.36
133 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (130 bp):
CAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAG
GTTTTTAGAAAACATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGAACAAACGAGAAATCG
Found at i:11559860 original size:263 final size:262
Alignment explanation
Indices: 11559393--11559982 Score: 670
Period size: 263 Copynumber: 2.2 Consensus size: 262
11559383 CGGGAGATTC
* * * * * *
11559393 CAACCCAGCACGATAGGGCGCTACTCCCCGAATTGCCAAACACCTAACATTCCTTTGTTTTAAAG
1 CAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACATGCCTTCGTTTTAAAG
* * ** * * * *
11559458 AGTTTTTAGAAAACGCGAGTGAAATTCTGAAGGAATCTTTGATTGTTTTGAACAAATGAAAAAGC
66 AGTTTTTAGAAAACACAAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAAAAAGC
** *
11559523 GTAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAATATTTCCTTCATTTCAAA
131 ACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAATATTGCCTTCATTTCAAA
* * *
11559588 GAGTTTTTAGGAA-CCATGAGTGAAATTCTAAAAGGACGTTCGATTATTTTGAGCAAACGAGAAA
196 GAGTTTTTA-GAAGACATGAGTGAAATTCTAAAAGGACCTTCGATTACTTTGAGCAAACGAGAAA
11559652 TTG
260 TTG
* * * *
11559655 CAACCCAGCACGATAGGCCACGATTCCGCGGATTGCCAAACATCGAACATCGCCTTCGTTTTGAA
1 CAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACAT-GCCTTCGTTTT-AA
* *
11559720 AG-GTTTTTA-ATAAACATAAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAA
64 AGAGTTTTTAGA-AAACACAAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAAAA
* * * * * * *
11559783 ATCACAACCCAGCACGATAGGGCATGATTCTCGAATTGTCAAACA-CTGAGTATTGCCTTCGTTT
128 AGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATC-GAATATTGCCTTCATTT
* * * * *
11559847 TAAAG-GATTTTTAGAAGACATGAGTGAAATTTTGAAGGGACCTTTGATTACTTTGAGCAAACGA
192 CAAAGAG-TTTTTAGAAGACATGAGTGAAATTCTAAAAGGACCTTCGATTACTTTGAGCAAACGA
11559911 GAAATTG
256 GAAATTG
* * * * * *
11559918 CAACCCAACAC-ATTAGGGCACGATTCCACGAATTGTCAAATACCGAATATTGCCTTTGTTTTAA
1 CAACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACACCGAACA-TGCCTTCGTTTTAA
11559982 A
64 A
11559983 TAATTGCGAA
Statistics
Matches: 273, Mismatches: 47, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
262 52 0.19
263 216 0.79
264 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (262 bp):
CAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACATGCCTTCGTTTTAAAG
AGTTTTTAGAAAACACAAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAAAAAGC
ACAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAATATTGCCTTCATTTCAAA
GAGTTTTTAGAAGACATGAGTGAAATTCTAAAAGGACCTTCGATTACTTTGAGCAAACGAGAAAT
TG
Found at i:11563561 original size:55 final size:53
Alignment explanation
Indices: 11563474--11563728 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 53
11563464 ATTAGGGTTT
*
11563474 AAGGATACCATGTAAGACCAT-TCCAAGGCATGGAAATTGGTAAGATATCTAAGGC
1 AAGGATACCATGTAAGACCATGT-CAAGACATGG-AATTGGTAAG-TATCTAAGGC
* * * * *
11563529 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAG-TA-TCTAAGGC
* * * * *
11563584 AGAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGT-TCATAAGGC
1 A-AGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTATC-TAAGGC
*
11563637 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTATCTAAGGC
* * *
11563686 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
11563729 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 6 0.04
53 39 0.23
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTATCTAAGGC
Found at i:11563680 original size:108 final size:110
Alignment explanation
Indices: 11563481--11563681 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
11563471 TTTAAGGATA
* *
11563481 CCATGTAAGACCATTCCAAGGCATGGAAATTGGTAAGATATCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGATATCTAAGGCAAGGAAACCATGTAAGA
*
11563546 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAGAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
* * *
11563591 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGAG-T-TCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGATATC-TAAGGCAAGGAAACCATGTAAG
*
11563653 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
11563682 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.58
109 8 0.10
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGATATCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
Found at i:11563941 original size:16 final size:16
Alignment explanation
Indices: 11563920--11563950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11563910 ATAAATTTGA
11563920 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
11563936 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
11563951 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:11565115 original size:2 final size:2
Alignment explanation
Indices: 11565108--11565132 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11565098 TGCATTTCTC
11565108 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11565133 CATAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11570574 original size:33 final size:33
Alignment explanation
Indices: 11570546--11570621 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
11570536 AAATCCCTTT
11570546 AACACACCAACGCTCATAAGAGCTAATCCAACC
1 AACACACCAACGCTCATAAGAGCTAATCCAACC
* *
11570579 AACACACCAATGCTCATAAGAGCTAATCTAACC
1 AACACACCAACGCTCATAAGAGCTAATCCAACC
11570612 AACACACCAA
1 AACACACCAA
11570622 ACAGAGGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.45, C:0.34, G:0.08, T:0.13
Consensus pattern (33 bp):
AACACACCAACGCTCATAAGAGCTAATCCAACC
Found at i:11571580 original size:10 final size:10
Alignment explanation
Indices: 11571567--11571591 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11571557 CTTTAATTTA
11571567 TTTTATTACC
1 TTTTATTACC
11571577 TTTTATTACC
1 TTTTATTACC
11571587 TTTTA
1 TTTTA
11571592 ATATGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATTACC
Found at i:11574963 original size:3 final size:3
Alignment explanation
Indices: 11574955--11575013 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
11574945 CATATTATCA
11574955 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11575003 TAT TAT TAT TA
1 TAT TAT TAT TA
11575014 AAGTTTTACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11576687 original size:20 final size:20
Alignment explanation
Indices: 11576664--11576704 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11576654 CTGTTTTCCT
11576664 TTTATTTCCTTTATTTTTAA
1 TTTATTTCCTTTATTTTTAA
*
11576684 TTTATTTCTTTTATTTTTAA
1 TTTATTTCCTTTATTTTTAA
11576704 T
1 T
11576705 GAAATAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTCCTTTATTTTTAA
Found at i:11581166 original size:14 final size:16
Alignment explanation
Indices: 11581147--11581178 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11581137 TTTAGTTTAA
11581147 ATAATATA-AA-ATTT
1 ATAATATATAACATTT
11581161 ATAATATATAACATTT
1 ATAATATATAACATTT
11581177 AT
1 AT
11581179 CAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATATAACATTT
Found at i:11584723 original size:15 final size:15
Alignment explanation
Indices: 11584703--11584735 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11584693 TGGCGAGCAC
*
11584703 ACAAGTTCCTCCTGT
1 ACAAGTTCCTCCCGT
11584718 ACAAGTTCCTCCCGT
1 ACAAGTTCCTCCCGT
11584733 ACA
1 ACA
11584736 TCCAGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.27
Consensus pattern (15 bp):
ACAAGTTCCTCCCGT
Found at i:11590829 original size:71 final size:71
Alignment explanation
Indices: 11590645--11590832 Score: 200
Period size: 71 Copynumber: 2.7 Consensus size: 71
11590635 CACGGCCTCT
* * * * * *
11590645 AAAATAGTTAGCACGAGCCTACGCTCCTAGCTAAATATCTTAA-GCTAGCAGATTTAATACCTTG
1 AAAATAGTTATCGCGAGCCTACGCTCCCAGCTAAATATCTTAAGGCTAGCAGATTCAATACCGTA
11590709 GCCTTC
66 GCCTTC
* * * * * * *
11590715 AAAATAGTTAGT-GCAAACCTACGCTTCCACCTAAATATTTTAAGGCTTGCAGGTTCAATACCGT
1 AAAATAGTTA-TCGCGAGCCTACGCTCCCAGCTAAATATCTTAAGGCTAGCAGATTCAATACCGT
*
11590779 AGCCTTG
65 AGCCTTC
* * *
11590786 AAAATAGTTATCGCGAGCCTACGCTCCCAGTTGAATAGCTTAAGGCT
1 AAAATAGTTATCGCGAGCCTACGCTCCCAGCTAAATATCTTAAGGCT
11590833 CATAGGTTTC
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
70 35 0.38
71 58 0.62
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (71 bp):
AAAATAGTTATCGCGAGCCTACGCTCCCAGCTAAATATCTTAAGGCTAGCAGATTCAATACCGTA
GCCTTC
Found at i:11590840 original size:71 final size:69
Alignment explanation
Indices: 11590611--11590840 Score: 189
Period size: 71 Copynumber: 3.3 Consensus size: 69
11590601 CTTGGGAATC
* * * *
11590611 TCTTAAGGCTCAAAGGTTCAATATCACG-GCCTCTAAAATAGTTAGCACGAGCCTACGCTCCTAG
1 TCTTAAGGCTCACAGGTTCAATA-C-CGTGCCT-TAAAATAGTTATCGCGAGCCTACGCTCCCAG
11590675 CTAAATA
63 CTAAATA
* * * * * *
11590682 TCTTAA-GCT-AGCAGATTTAATACCTTGGCCTTCAAAATAGTTAGT-GCAAACCTACGCTTCCA
1 TCTTAAGGCTCA-CAGGTTCAATACCGT-GCCTT-AAAATAGTTA-TCGCGAGCCTACGCTCCCA
*
11590744 CCTAAATA
62 GCTAAATA
* ** *
11590752 TTTTAAGGCTTGCAGGTTCAATACCGTAGCCTTGAAAATAGTTATCGCGAGCCTACGCTCCCAGT
1 TCTTAAGGCTCACAGGTTCAATACCGT-GCCTT-AAAATAGTTATCGCGAGCCTACGCTCCCAGC
*
11590817 TGAATA
64 TAAATA
* *
11590823 GCTTAAGGCTCATAGGTT
1 TCTTAAGGCTCACAGGTT
11590841 TCATACACAA
Statistics
Matches: 122, Mismatches: 29, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 3 0.02
70 50 0.41
71 68 0.56
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (69 bp):
TCTTAAGGCTCACAGGTTCAATACCGTGCCTTAAAATAGTTATCGCGAGCCTACGCTCCCAGCTA
AATA
Found at i:11597919 original size:16 final size:16
Alignment explanation
Indices: 11597877--11597920 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
11597867 CACTAGCCCT
* *
11597877 TTATATAGAAACTTAG
1 TTATACAGAAACTTAC
*
11597893 TCATGACAGAAACTTAC
1 TTAT-ACAGAAACTTAC
11597910 TTATACAGAAA
1 TTATACAGAAA
11597921 TAAAATCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (16 bp):
TTATACAGAAACTTAC
Found at i:11601237 original size:131 final size:131
Alignment explanation
Indices: 11601092--11601401 Score: 325
Period size: 131 Copynumber: 2.4 Consensus size: 131
11601082 TTGGAGAAGT
* * * *
11601092 GATCTTAAACCAACTAACTCAAATAAAATTGTTTATAATTTTGAATCAAATGAACTTAGGTTGCA
1 GATCTTAAATCAACTAACTCAAATAAAATTGTTTATGATCTTGAATCAAATGAACTTAGGTTACA
**** * ** * * *
11601157 ATCCTGAATGTTCGAACTTTAGTAATATCATCTATGATATTAAATCAGCAAGATATTCAAAGTAG
66 ATCCTGAACCAGCAAACCATAATAATATCAGCTACGATATTAAATCAGCAAGATATTCAAAGTAG
11601222 C
131 C
* * * *
11601223 GATCTTAAATCAACTAACTTAAATAAAATT-TTTCATGATCTTGAGTCGAATGAACTTGGGTTAC
1 GATCTTAAATCAACTAACTCAAATAAAATTGTTT-ATGATCTTGAATCAAATGAACTTAGGTTAC
* * * * * * *
11601287 GATCTTGAACCAGCAAACCATAATAATATTAGCTACGATCTTAAATCAGCAAGTTGTTCGAAGTA
65 AATCCTGAACCAGCAAACCATAATAATATCAGCTACGATATTAAATCAGCAAGATATTCAAAGTA
11601352 GC
130 GC
* * * * * *
11601354 AATGTTAAATTAGCTAACTCGAATAAAATTGTTCATGATCTTGAATCA
1 GATCTTAAATCAACTAACTCAAATAAAATTGTTTATGATCTTGAATCA
11601402 GCTGGGATTC
Statistics
Matches: 143, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
130 3 0.02
131 138 0.97
132 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (131 bp):
GATCTTAAATCAACTAACTCAAATAAAATTGTTTATGATCTTGAATCAAATGAACTTAGGTTACA
ATCCTGAACCAGCAAACCATAATAATATCAGCTACGATATTAAATCAGCAAGATATTCAAAGTAG
C
Found at i:11608240 original size:55 final size:55
Alignment explanation
Indices: 11608180--11608286 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 55
11608170 ATGCTCACAT
* *
11608180 ATCTCTACAAAAGCATCCATTTTGTTTCATTTTGCCTACA-TCCTCCTCTTGACAC
1 ATCTCTACAAAAACATCCATTTCGTTTCATTTTGCCTACATTCC-CCTCTTGACAC
* *
11608235 ATCTCTACAAAAACATCTATTTCGTTTCGTTTTGCCTACATTCCCCTCTTGA
1 ATCTCTACAAAAACATCCATTTCGTTTCATTTTGCCTACATTCCCCTCTTGA
11608287 GTAGGCATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
55 44 0.94
56 3 0.06
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.39
Consensus pattern (55 bp):
ATCTCTACAAAAACATCCATTTCGTTTCATTTTGCCTACATTCCCCTCTTGACAC
Found at i:11610428 original size:24 final size:24
Alignment explanation
Indices: 11610184--11610426 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
11610174 GCAAAGACCA
11610184 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11610208 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11610232 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11610256 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11610280 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
11610304 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11610328 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11610352 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11610376 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
11610400 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
11610424 TAT
1 TAT
11610427 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:11619671 original size:119 final size:119
Alignment explanation
Indices: 11619481--11619715 Score: 427
Period size: 119 Copynumber: 2.0 Consensus size: 119
11619471 TGCAAGACCA
11619481 TATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG
1 TATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG
*
11619546 ATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
66 ATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTCAC
*
11619600 TATGGCACTATGTGTGCGATTCACTATGGC-CTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATT-ACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
*
11619664 GATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
65 GATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
11619716 TGCTATAGTC
Statistics
Matches: 112, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
119 104 0.93
120 8 0.07
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (119 bp):
TATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG
ATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTCAC
Found at i:11619723 original size:24 final size:24
Alignment explanation
Indices: 11619481--11619721 Score: 414
Period size: 24 Copynumber: 10.1 Consensus size: 24
11619471 TGCAAGACCA
11619481 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11619504 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11619528 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11619552 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11619576 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
11619600 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11619624 TATGGC-CTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11619647 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11619671 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
11619695 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
11619719 TAT
1 TAT
11619722 AGTCACATTC
Statistics
Matches: 210, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
23 41 0.20
24 169 0.80
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:11627733 original size:24 final size:24
Alignment explanation
Indices: 11627489--11627731 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
11627479 GCAAAGACCA
11627489 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11627513 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11627537 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11627561 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11627585 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
11627609 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
11627633 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
11627657 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
11627681 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
11627705 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
11627729 TAT
1 TAT
11627732 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:11629806 original size:16 final size:15
Alignment explanation
Indices: 11629785--11629835 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
11629775 AAGCTCACCC
11629785 AATCTGAAACAATCTG
1 AATCTGAAA-AATCTG
*
11629801 AATCTGAGAAAATCCG
1 AATCTGA-AAAATCTG
*
11629817 AATATGAAAAATCTG
1 AATCTGAAAAATCTG
11629832 AATC
1 AATC
11629836 CAAAAGGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 10 0.33
16 18 0.60
17 2 0.07
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.24
Consensus pattern (15 bp):
AATCTGAAAAATCTG
Found at i:11630652 original size:71 final size:71
Alignment explanation
Indices: 11630529--11630685 Score: 185
Period size: 71 Copynumber: 2.2 Consensus size: 71
11630519 TTTTCCATTT
* * * *
11630529 AATTCTTATTAAAATTCTCATTAAATATTTGTTTCCTTTAAATATTTTTTAAAAA-TTATCACCA
1 AATTCTCATTTAAA-TCCCATTAAATATTTGTTTCATTTAAATATTTTTTAAAAATTTATCACCA
11630593 ACTTCAA
65 ACTTCAA
* *
11630600 AATTCTCATTTAAATCCCATTAAATATTT-TTTTATTTAAATATTTCTCTTAAAAATTTGTCACC
1 AATTCTCATTTAAATCCCATTAAATATTTGTTTCATTTAAATATTT-T-TTAAAAATTTATCACC
* *
11630664 AATTTTAA
64 AACTTCAA
*
11630672 AATACTCA-TTAAAT
1 AATTCTCATTTAAAT
11630686 ATTTCTTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
69 14 0.19
70 15 0.20
71 25 0.34
72 20 0.27
ACGTcount: A:0.38, C:0.14, G:0.01, T:0.46
Consensus pattern (71 bp):
AATTCTCATTTAAATCCCATTAAATATTTGTTTCATTTAAATATTTTTTAAAAATTTATCACCAA
CTTCAA
Found at i:11630739 original size:11 final size:11
Alignment explanation
Indices: 11630723--11630748 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11630713 CCAACTTTAA
11630723 AATTCTCATTC
1 AATTCTCATTC
11630734 AATTCTCATTC
1 AATTCTCATTC
11630745 AATT
1 AATT
11630749 TCTTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTCATTC
Found at i:11634997 original size:16 final size:18
Alignment explanation
Indices: 11634976--11635015 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11634966 CTTTCTCTGT
11634976 AGGTCA-TCGAAAG-TCA
1 AGGTCAGTCGAAAGTTCA
*
11634992 AGGTCAGTTGAAAGTTCA
1 AGGTCAGTCGAAAGTTCA
11635010 A-GTCAG
1 AGGTCAG
11635016 AGTGCACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (18 bp):
AGGTCAGTCGAAAGTTCA
Found at i:11644366 original size:5 final size:5
Alignment explanation
Indices: 11644356--11644394 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
11644346 CAAATTAAAC
* *
11644356 AAAGA AAAGA AAACA AAAGA AAAGA AAAAA AAAGA AAAG
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG
11644395 GAGAAGAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11644376 original size:15 final size:15
Alignment explanation
Indices: 11644352--11644394 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
11644342 CATGCAAATT
11644352 AAAC-AAAGAAAAGA
1 AAACAAAAGAAAAGA
11644366 AAACAAAAGAAAAGA
1 AAACAAAAGAAAAGA
*
11644381 AAAAAAAAGAAAAG
1 AAACAAAAGAAAAG
11644395 GAGAAGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (15 bp):
AAACAAAAGAAAAGA
Found at i:11645559 original size:43 final size:43
Alignment explanation
Indices: 11645495--11645580 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
11645485 TATAAGATTG
11645495 ATATTAAAATGGAAAAGATGAGAAACGAATATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAACGAATATGAGATGAGAAA
* * * * *
11645538 ATATTGAAATGGAAAATATGAGAAATGATTATGATATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAACGAATATGAGATGAGAAA
11645581 CGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGATGAGAAACGAATATGAGATGAGAAA
Found at i:11645564 original size:16 final size:16
Alignment explanation
Indices: 11645501--11645564 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 16
11645491 ATTGATATTA
*
11645501 AAATGGAAAAGATGAG
1 AAATGGAAAATATGAG
*
11645517 AAA-CG--AATATGAG
1 AAATGGAAAATATGAG
*
11645530 --ATGAGAAAATAT-TG
1 AAATG-GAAAATATGAG
11645544 AAATGGAAAATATGAG
1 AAATGGAAAATATGAG
11645560 AAATG
1 AAATG
11645565 ATTATGATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
11 1 0.03
13 8 0.22
14 1 0.03
15 14 0.39
16 12 0.33
ACGTcount: A:0.55, C:0.02, G:0.25, T:0.19
Consensus pattern (16 bp):
AAATGGAAAATATGAG
Found at i:11652334 original size:76 final size:78
Alignment explanation
Indices: 11652205--11652363 Score: 259
Period size: 76 Copynumber: 2.1 Consensus size: 78
11652195 TCATTCATTA
**
11652205 ATCATTAATCAAAAACTAATAAAAGAAGTAGTAAGCAAGTTAAAACATTTAGCTTTGTTTTCAAT
1 ATCATTAATCAAAAACTAAT-AAAGAAGTAGTAAGCAAGTTAAAACATTTAGCTTTGTTACCAAT
11652270 TCTTGTTGAAATTT
65 TCTTGTTGAAATTT
* *
11652284 ATCATTAATCAAAAACTAAT-AA-AAGTAGTAAGCAGGTTAAAACATTTAGCTTTGTTACCAGTT
1 ATCATTAATCAAAAACTAATAAAGAAGTAGTAAGCAAGTTAAAACATTTAGCTTTGTTACCAATT
11652347 CTTGTTGAAATTT
66 CTTGTTGAAATTT
11652360 ATCA
1 ATCA
11652364 AGAATGTTCC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
76 54 0.71
77 2 0.03
79 20 0.26
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (78 bp):
ATCATTAATCAAAAACTAATAAAGAAGTAGTAAGCAAGTTAAAACATTTAGCTTTGTTACCAATT
CTTGTTGAAATTT
Found at i:11661995 original size:9 final size:9
Alignment explanation
Indices: 11661973--11662055 Score: 60
Period size: 10 Copynumber: 8.7 Consensus size: 9
11661963 ATGATAAAAA
*
11661973 ATAAAAATCA
1 ATAAAAAT-T
*
11661983 ATAAAAGTT
1 ATAAAAATT
*
11661992 ATAAAAATC
1 ATAAAAATT
11662001 ATAAGAAATT
1 ATAA-AAATT
11662011 ATAAAATAATT
1 AT-AAA-AATT
*
11662022 -TAAAATTTT
1 ATAAAA-ATT
*
11662031 ATAAAAATC
1 ATAAAAATT
11662040 ATAAGAAATT
1 ATAA-AAATT
11662050 ATAAAA
1 ATAAAA
11662056 TATGTAGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.02
9 23 0.40
10 28 0.48
11 6 0.10
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:11661995 original size:19 final size:19
Alignment explanation
Indices: 11661973--11662055 Score: 82
Period size: 19 Copynumber: 4.3 Consensus size: 19
11661963 ATGATAAAAA
*
11661973 ATAAAAATCAATAA-AAGTT
1 ATAAAAATC-ATAAGAAATT
11661992 ATAAAAATCATAAGAAATT
1 ATAAAAATCATAAGAAATT
* *
11662011 ATAAAATAAT-TTAA-AATTTT
1 AT-AAA-AATCATAAGAA-ATT
11662031 ATAAAAATCATAAGAAATT
1 ATAAAAATCATAAGAAATT
11662050 ATAAAA
1 ATAAAA
11662056 TATGTAGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.13
19 31 0.58
20 12 0.23
21 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAAATCATAAGAAATT
Found at i:11662064 original size:18 final size:18
Alignment explanation
Indices: 11661990--11662066 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
11661980 TCAATAAAAG
* *
11661990 TTATAAAAATCATAAGAAA
1 TTAT-AAAATAATTAGAAA
11662009 TTATAAAATAATTTA-AAA
1 TTATAAAATAA-TTAGAAA
* *
11662027 TTTTATAAAAATCATAAGAAA
1 --TTAT-AAAATAATTAGAAA
11662048 TTATAAAAT-ATGTAGAAA
1 TTATAAAATAAT-TAGAAA
11662066 T
1 T
11662067 ATAGGAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
17 2 0.04
18 20 0.43
19 10 0.21
20 6 0.13
21 9 0.19
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
TTATAAAATAATTAGAAA
Found at i:11662076 original size:39 final size:40
Alignment explanation
Indices: 11661994--11662094 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 40
11661984 TAAAAGTTAT
* * *
11661994 AAAAATCATAAGAAATTATAAAATAATTTAAAATTTTA-T
1 AAAAATCATAAGAAATTATAAAATAATGTAAAATTATAGA
11662033 AAAAATCATAAGAAATTATAAAAT-ATGTAGAAA-TATAGGA
1 AAAAATCATAAGAAATTATAAAATAATGTA-AAATTATA-GA
*
11662073 AAAAATTATAA-AATATTATAAA
1 AAAAATCATAAGAA-ATTATAAA
11662095 TCGTAAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
38 7 0.13
39 29 0.54
40 18 0.33
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (40 bp):
AAAAATCATAAGAAATTATAAAATAATGTAAAATTATAGA
Found at i:11662095 original size:9 final size:10
Alignment explanation
Indices: 11661990--11662094 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 10
11661980 TCAATAAAAG
11661990 TTATAAAA-A
1 TTATAAAATA
*
11661999 TCATAAGAA-A
1 TTATAA-AATA
11662009 TTATAAAATAA
1 TTATAAAAT-A
*
11662020 TT-TAAAATT
1 TTATAAAATA
11662029 TTATAAAA-A
1 TTATAAAATA
*
11662038 TCATAAGAA-A
1 TTATAA-AATA
11662048 TTATAAAATA
1 TTATAAAATA
*
11662058 TGTA-GAAATA
1 T-TATAAAATA
* *
11662068 -TAGGAAAAAA
1 TTA-TAAAATA
11662078 TTATAAAATA
1 TTATAAAATA
11662088 TTATAAA
1 TTATAAA
11662095 TCGTAAGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
8 2 0.03
9 16 0.21
10 50 0.67
11 7 0.09
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (10 bp):
TTATAAAATA
Found at i:11662105 original size:20 final size:19
Alignment explanation
Indices: 11662082--11662152 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
11662072 AAAAAATTAT
11662082 AAAATATTATAAATCGTAA
1 AAAATATTATAAATCGTAA
* *
11662101 GAAAATTATAAAAAAT-GTAA
1 -AAAA-TATTATAAATCGTAA
11662121 AGAAATA-TA-AAATTCGTAA
1 A-AAATATTATAAA-TCGTAA
*
11662140 AAAAAATTATAAA
1 AAAATATTATAAA
11662153 GAATTATCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 3 0.07
18 6 0.15
19 10 0.24
20 14 0.34
21 8 0.20
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAATATTATAAATCGTAA
Found at i:11662105 original size:30 final size:28
Alignment explanation
Indices: 11662035--11662130 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 28
11662025 AATTTTATAA
11662035 AAATCATAAG-AAATTATAAAATATGTAG
1 AAAT-ATAAGAAAATTATAAAATATGTAG
* *
11662063 AAATATAGGAAAAAATTATAAAATAT-TAT
1 AAATATA--AGAAAATTATAAAATATGTAG
* *
11662092 AAATCGTAAGAAAATTATAAAAAATGTAAAG
1 AAAT-ATAAGAAAATTATAAAATATGT--AG
11662123 AAATATAA
1 AAATATAA
11662131 AATTCGTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
27 3 0.06
28 19 0.35
29 8 0.15
30 19 0.35
31 5 0.09
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (28 bp):
AAATATAAGAAAATTATAAAATATGTAG
Found at i:11662123 original size:21 final size:22
Alignment explanation
Indices: 11662092--11662152 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
11662082 AAAATATTAT
11662092 AAATCGT-AAGAAAATTATAAA
1 AAATCGTAAAGAAAATTATAAA
11662113 AAAT-GTAAAG-AAA-TAT-AA
1 AAATCGTAAAGAAAATTATAAA
* *
11662131 AATTCGTAAAAAAAATTATAAA
1 AAATCGTAAAGAAAATTATAAA
11662153 GAATTATCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 8 0.24
21 10 0.30
22 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (22 bp):
AAATCGTAAAGAAAATTATAAA
Found at i:11662192 original size:11 final size:11
Alignment explanation
Indices: 11662176--11662220 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
11662166 AAAAGAAACA
11662176 TTTTATAATTT
1 TTTTATAATTT
11662187 TTTTATAATTT
1 TTTTATAATTT
* *
11662198 TTAT-TGATTT
1 TTTTATAATTT
*
11662208 TTTTATCATTT
1 TTTTATAATTT
11662219 TT
1 TT
11662221 CGCCACATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:11662343 original size:9 final size:9
Alignment explanation
Indices: 11662329--11662406 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
11662319 TTTTGATGCA
11662329 TTTTATATT
1 TTTTATATT
**
11662338 TTTTATAAAA
1 TTTTAT-ATT
*
11662348 TTTTACAATT
1 TTTTA-TATT
11662358 TTTTATGATT
1 TTTTAT-ATT
*
11662368 TTTT-TA-A
1 TTTTATATT
11662375 TTTTATATCAT
1 TTTTATAT--T
*
11662386 TTTAATATT
1 TTTTATATT
11662395 TTTTATATT
1 TTTTATATT
11662404 TTT
1 TTT
11662407 ATTAAAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
7 4 0.08
8 3 0.06
9 19 0.37
10 19 0.37
11 7 0.13
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Found at i:11662359 original size:27 final size:27
Alignment explanation
Indices: 11662327--11662401 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 27
11662317 CTTTTTGATG
11662327 CATTTTATATTTTTTATAAAATTTTACA
1 CATTTTATATTTTTTAT-AAATTTTACA
*
11662355 -ATTTTTTATGATTTTTT-T-AATTTTATA
1 CA--TTTTAT-ATTTTTTATAAATTTTACA
11662382 TCATTTTAATATTTTTTATA
1 -CATTTT-ATATTTTTTATA
11662402 TTTTTATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
27 20 0.53
28 3 0.08
29 8 0.21
30 7 0.18
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (27 bp):
CATTTTATATTTTTTATAAATTTTACA
Found at i:11662369 original size:37 final size:37
Alignment explanation
Indices: 11662318--11662410 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
11662308 TTAAAGGGTC
*
11662318 TTTTTGATGCATTTTATATT-TTTTATAAAATTTTACA-A
1 TTTTTTATG-ATTTT-TATTATTTTATAAAATTTTA-ATA
**
11662356 TTTTTTATGATTTTT-TTAATTTTATATCATTTTAATA
1 TTTTTTATGATTTTTATT-ATTTTATAAAATTTTAATA
11662393 TTTTTTAT-ATTTTTATTA
1 TTTTTTATGATTTTTATTA
11662411 AAATTTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
35 2 0.04
36 9 0.19
37 29 0.60
38 8 0.17
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTTTTATGATTTTTATTATTTTATAAAATTTTAATA
Found at i:11662425 original size:37 final size:37
Alignment explanation
Indices: 11662339--11662448 Score: 102
Period size: 37 Copynumber: 2.9 Consensus size: 37
11662329 TTTTATATTT
* *
11662339 TTTATAAAATTTTACA-ATTTTTTATGATTTTT-TTAAT
1 TTTATATAATTTTA-ATATTTTTTAT-ATTTTTATTAAA
*
11662376 TTTATATCATTTTAATATTTTTTATATTTTTATTAAAA
1 TTTATATAATTTTAATATTTTTTATATTTTTATT-AAA
*
11662414 TTTA-ATAATTTTTATAACTTTTATT-TATTTTTATT
1 TTTATATAATTTTAAT-A-TTTT-TTATATTTTTATT
11662449 TTTATAATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
36 7 0.11
37 32 0.52
38 7 0.11
39 14 0.23
40 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (37 bp):
TTTATATAATTTTAATATTTTTTATATTTTTATTAAA
Found at i:11663328 original size:55 final size:55
Alignment explanation
Indices: 11663235--11663343 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
11663225 GTTACATAAC
* * * *
11663235 AATCGATTCAAAAGAAGCAATATTCTAACATAATAATCGGTTTAAACGTATAAAT
1 AATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATAAAT
* * *
11663290 AATCGATTCAAAAGAATCAATATTCCGATATAACAATCGATTTAAACATATAAA
1 AATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATAAA
11663344 CACTCTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (55 bp):
AATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATATAAAT
Found at i:11665031 original size:12 final size:13
Alignment explanation
Indices: 11665008--11665036 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11664998 TATATTAAAT
11665008 ATAATAATATCAA
1 ATAATAATATCAA
11665021 ATAAT-ATATCAA
1 ATAATAATATCAA
11665033 ATAA
1 ATAA
11665037 CTTAAAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAATATCAA
Found at i:11665700 original size:61 final size:60
Alignment explanation
Indices: 11665550--11665706 Score: 145
Period size: 61 Copynumber: 2.6 Consensus size: 60
11665540 ATTTATATAT
* * * * *
11665550 TCTATCAATTTAATCCTAAATGTAAAAAATTTAAAAAATTTAACCTTAAATATTTACAAAA
1 TCTATCAATTTAGTCCTAAATCT-AAAAATTCAAAAAATTTAACCTTAAACATTTAAAAAA
* * * * ** * * * *
11665611 TTTGTCATTTTGGTTTTAATTCTAAAAATTCAATAAATTTAGCCTTCAACATTTATAAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAAATTCAAAAAATTTAACCTTAAACATTTA-AAAAA
*
11665672 TCTATCAATTTAGTCCTAACTCTAAAAATT-AAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAAATTCAAAAA
11665707 TATATTCAAT
Statistics
Matches: 72, Mismatches: 23, Indels: 3
0.73 0.23 0.03
Matches are distributed among these distances:
60 31 0.43
61 41 0.57
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.39
Consensus pattern (60 bp):
TCTATCAATTTAGTCCTAAATCTAAAAATTCAAAAAATTTAACCTTAAACATTTAAAAAA
Found at i:11669307 original size:26 final size:26
Alignment explanation
Indices: 11669276--11669357 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
11669266 TGAAATGCCC
*
11669276 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11669302 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11669328 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11669354 ATCA
1 ATCA
11669358 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11676614 original size:26 final size:26
Alignment explanation
Indices: 11676579--11676660 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
11676569 TGAAATGCCC
*
11676579 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11676605 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11676631 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11676657 ATCA
1 ATCA
11676661 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11678789 original size:17 final size:17
Alignment explanation
Indices: 11678745--11678777 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11678735 TCGGACATGT
11678745 TAATTCTAATTCTTTAA
1 TAATTCTAATTCTTTAA
11678762 TAATTCTAATTCTTTA
1 TAATTCTAATTCTTTA
11678778 CATAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTCTAATTCTTTAA
Found at i:11683495 original size:22 final size:22
Alignment explanation
Indices: 11683463--11683534 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
11683453 TTAATTGTTT
11683463 AATTAGGGTTTAGTGTTTATTA
1 AATTAGGGTTTAGTGTTTATTA
* *
11683485 AATTAGAGTTTAGTGTTAATTA
1 AATTAGGGTTTAGTGTTTATTA
*
11683507 AATTAGGGTTTTAGTGTTTTATTT
1 AATTAGGG-TTTAGTG-TTTATTA
11683531 AATT
1 AATT
11683535 TTTAAGTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 27 0.63
23 7 0.16
24 9 0.21
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.51
Consensus pattern (22 bp):
AATTAGGGTTTAGTGTTTATTA
Found at i:11683728 original size:29 final size:28
Alignment explanation
Indices: 11683683--11683737 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
11683673 AGGTTTAGGG
11683683 GTTCTGAAAAATAATTTTGACCAGATGA
1 GTTCTGAAAAATAATTTTGACCAGATGA
*
11683711 GTTCTGAAAAAATAATTTTGACTAGAT
1 GTTCTG-AAAAATAATTTTGACCAGAT
11683738 AGAATCGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (28 bp):
GTTCTGAAAAATAATTTTGACCAGATGA
Found at i:11683748 original size:29 final size:29
Alignment explanation
Indices: 11683689--11683753 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
11683679 AGGGGTTCTG
* *
11683689 AAAAATAATTTTGACCAGATGAGTTCTGA
1 AAAAATAATTTTGACCAGATGAGATCGGA
*
11683718 AAAAATAATTTTGACTAGAT-AGAATCGGA
1 AAAAATAATTTTGACCAGATGAG-ATCGGA
11683747 AAAAATA
1 AAAAATA
11683754 TTCGAGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAAATAATTTTGACCAGATGAGATCGGA
Found at i:11691738 original size:26 final size:26
Alignment explanation
Indices: 11691702--11691759 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
11691692 ATACTTACTA
*
11691702 GGGAATGGCAGCAACTTCTAGTGGTT
1 GGGAATAGCAGCAACTTCTAGTGGTT
*
11691728 GGGAATAGCAGTAACTTCTAGTGGTT
1 GGGAATAGCAGCAACTTCTAGTGGTT
11691754 GGGAAT
1 GGGAAT
11691760 CGATACGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (26 bp):
GGGAATAGCAGCAACTTCTAGTGGTT
Found at i:11693970 original size:17 final size:17
Alignment explanation
Indices: 11693943--11693985 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
11693933 TTAATCAATA
11693943 ATAATAAATAGAATTTAG
1 ATAA-AAATAGAATTTAG
11693961 ATAAAAATAGAATTTAG
1 ATAAAAATAGAATTTAG
*
11693978 AAAAAAAT
1 ATAAAAAT
11693986 TAAGAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
ATAAAAATAGAATTTAG
Found at i:11694055 original size:31 final size:30
Alignment explanation
Indices: 11693989--11694063 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
11693979 AAAAAATTAA
**
11693989 GAGAGAATTTGAGAGATTTTTGAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAAGAGAGTTGA-T
11694021 GAGAAATTTGAGAGATTTAAGAGAGAATTG-T
1 GAGAAATTTGAGAGATTTAAGAGAG--TTGAT
*
11694052 GAGAAATGTGAG
1 GAGAAATTTGAG
11694064 TGAGAAGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 31 0.82
32 4 0.11
33 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
GAGAAATTTGAGAGATTTAAGAGAGTTGAT
Found at i:11694309 original size:28 final size:28
Alignment explanation
Indices: 11694275--11694339 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
11694265 ATTTTCGGCT
*
11694275 CATTTTTGTAATTTTCAACAAAAGTGGCC
1 CATTTTTGTAATTTTCAA-AAAAATGGCC
*
11694304 CATTTTTGTAATTTTTAAAAAAATGGCC
1 CATTTTTGTAATTTTCAAAAAAATGGCC
*
11694332 CTTTTTTG
1 CATTTTTG
11694340 GTATATTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (28 bp):
CATTTTTGTAATTTTCAAAAAAATGGCC
Found at i:11694461 original size:34 final size:34
Alignment explanation
Indices: 11694418--11694487 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
11694408 TTTTCATATG
11694418 AAGAGACATGTAGTTAACAAAAAACAAACATGTT
1 AAGAGACATGTAGTTAACAAAAAACAAACATGTT
* *
11694452 AAGAGACATGTAGTTAACGAAAAACAAACATTTT
1 AAGAGACATGTAGTTAACAAAAAACAAACATGTT
11694486 AA
1 AA
11694488 ATTGATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.21
Consensus pattern (34 bp):
AAGAGACATGTAGTTAACAAAAAACAAACATGTT
Found at i:11695526 original size:18 final size:18
Alignment explanation
Indices: 11695505--11695543 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11695495 TTTTTTTTAA
11695505 TTTTTT-TATAAATATAT
1 TTTTTTGTATAAATATAT
* *
11695522 TTTTTTGTATAATTTTAT
1 TTTTTTGTATAAATATAT
11695540 TTTT
1 TTTT
11695544 CACTCACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTGTATAAATATAT
Found at i:11697190 original size:24 final size:24
Alignment explanation
Indices: 11697149--11697196 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11697139 TTACTTTTAT
*
11697149 TAAGATTAAAAATAATTATAGTGA
1 TAAGATTAAAAATAATTACAGTGA
** *
11697173 TAAGATTAACTATTATTACAGTGA
1 TAAGATTAAAAATAATTACAGTGA
11697197 GGTAAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (24 bp):
TAAGATTAAAAATAATTACAGTGA
Found at i:11697740 original size:2 final size:2
Alignment explanation
Indices: 11697733--11697775 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11697723 GCCTTCCTTT
11697733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11697775 T
1 T
11697776 TAATATGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11699060 original size:149 final size:152
Alignment explanation
Indices: 11698718--11699114 Score: 534
Period size: 149 Copynumber: 2.6 Consensus size: 152
11698708 TTTTTCTTTT
* * * *
11698718 TTTCATTCTTTTCTGTTTCCCCCTCTGTTTTCCTA-ACTTCTCGATTTCTTTTAACATATCAGGA
1 TTTCATTCTCTTCTGCTTCTCCCTCTGTTTTCCTACA-TTCTCCATTTCTTTTAACATATCAGGA
* * *
11698782 AGTCGAATTGGCAGTGAAGAAAGAAGTAGGAAGCCAAAAGCCAAAAGCTATCATTGCCTATAACC
65 AGTCGAATTGGTAGTAAAGAAAGAAGCAGGAAGCCAAAAGCC---A-CTATCATTGCCTATAACC
* *
11698847 AAAACCCATAAACCCGTATCATGCTTC
126 AAAACCCATAAACCCATACCATGCTTC
* * *
11698874 TTTCATTCTCTTTTTCTTCTTCCTCTGTTTTCCTACATTCTCCATTTCTTTTAACATATCAGGAA
1 TTTCATTCTCTTCTGCTTCTCCCTCTGTTTTCCTACATTCTCCATTTCTTTTAACATATCAGGAA
*
11698939 GTCGAATTGGTAGTAAAGAAAGAAGCAGGAAGCCAAAAG-C-C-ATCATTGGCTATAACCAAAAC
66 GTCGAATTGGTAGTAAAGAAAGAAGCAGGAAGCCAAAAGCCACTATCATTGCCTATAACCAAAAC
*
11699001 TCATAAACCCATACCATGCTTC
131 CCATAAACCCATACCATGCTTC
* ** *
11699023 TTTCATTCTCTTCTGCTTCTCCCTCTATTTTTTTACATTCTCTATTTCTTTTAACATATCAGGAA
1 TTTCATTCTCTTCTGCTTCTCCCTCTGTTTTCCTACATTCTCCATTTCTTTTAACATATCAGGAA
*
11699088 GTTGAATTGGTAGTGAAA-AAAGAAGCA
66 GTCGAATTGGTAGT-AAAGAAAGAAGCA
11699115 TGGTATGGGT
Statistics
Matches: 217, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
149 119 0.55
150 4 0.02
155 1 0.00
156 92 0.42
157 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (152 bp):
TTTCATTCTCTTCTGCTTCTCCCTCTGTTTTCCTACATTCTCCATTTCTTTTAACATATCAGGAA
GTCGAATTGGTAGTAAAGAAAGAAGCAGGAAGCCAAAAGCCACTATCATTGCCTATAACCAAAAC
CCATAAACCCATACCATGCTTC
Found at i:11701736 original size:22 final size:21
Alignment explanation
Indices: 11701711--11701770 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
11701701 AAATTGAATA
*
11701711 AAATGTCTTAAA-ATTATCATTT
1 AAAT-TCTTAAATATTAT-AATT
*
11701733 AAATTTTTAAATATTATAATT
1 AAATTCTTAAATATTATAATT
11701754 AAA-TCTTTAAAGTATTA
1 AAATTC-TTAAA-TATTA
11701771 ATATCATATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 14 0.44
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
AAATTCTTAAATATTATAATT
Found at i:11701742 original size:21 final size:21
Alignment explanation
Indices: 11701718--11701770 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
11701708 ATAAAATGTC
* *
11701718 TTAAA-ATTATCATTTAAATTT
1 TTAAATATTAT-AATTAAATCT
11701739 TTAAATATTATAATTAAATCT
1 TTAAATATTATAATTAAATCT
11701760 TTAAAGTATTA
1 TTAAA-TATTA
11701771 ATATCATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAATATTATAATTAAATCT
Found at i:11702680 original size:21 final size:23
Alignment explanation
Indices: 11702638--11702685 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
11702628 ATTAATGAAA
*
11702638 AAAATATTAAATACATAATTTT-
1 AAAATATTAAAAACATAATTTTC
* *
11702660 AAAATA-TAAAAATATATTTTTC
1 AAAATATTAAAAACATAATTTTC
11702682 AAAA
1 AAAA
11702686 ACTAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTAAAAACATAATTTTC
Found at i:11707851 original size:12 final size:12
Alignment explanation
Indices: 11707834--11707858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11707824 CGATGACCAA
11707834 TTAATTTAATTT
1 TTAATTTAATTT
11707846 TTAATTTAATTT
1 TTAATTTAATTT
11707858 T
1 T
11707859 CACTTTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTAATTT
Found at i:11711568 original size:22 final size:23
Alignment explanation
Indices: 11711493--11711596 Score: 97
Period size: 23 Copynumber: 4.6 Consensus size: 23
11711483 TTGAGCCGAT
*
11711493 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
* *
11711516 AAATGGTAAG-TCCTTAAG-GACTG
1 AAACGGTAAGCTCC-GAAGAG-CTG
11711539 AAACGGTAAGCTCCGAAGAGCTG
1 AAACGGTAAGCTCCGAAGAGCTG
** * *
11711562 -AACGGTAAGCTCATAAGGGCTA
1 AAACGGTAAGCTCCGAAGAGCTG
*
11711584 AAATGGTAAGCTC
1 AAACGGTAAGCTC
11711597 ATACGAGTTG
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
22 22 0.33
23 40 0.61
24 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (23 bp):
AAACGGTAAGCTCCGAAGAGCTG
Found at i:11714721 original size:19 final size:19
Alignment explanation
Indices: 11714697--11714747 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
11714687 AGAATATGGA
*
11714697 CATTTGGGTTGTTTTAG-T
1 CATTTGGGTTGATTTAGCT
*
11714715 CCATTTGGGCTTCATTTAGCT
1 -CATTTGGG-TTGATTTAGCT
11714736 CATTTGGGTTGA
1 CATTTGGGTTGA
11714748 AATAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.41
20 15 0.56
21 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.47
Consensus pattern (19 bp):
CATTTGGGTTGATTTAGCT
Found at i:11740147 original size:41 final size:41
Alignment explanation
Indices: 11740100--11740181 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
11740090 ATAGCTCGAC
* * *
11740100 CATTTGCCTTGTGGTACTTATTTGAGGGAGTTTATAAAGAG
1 CATTTGCCTTCTGGTACTTATCTGAGGGAGGTTATAAAGAG
*
11740141 CATTTGCCTTCTGGTACTTATCTGTGGGAGGTTATAAAGAG
1 CATTTGCCTTCTGGTACTTATCTGAGGGAGGTTATAAAGAG
11740182 GTTGGAGCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (41 bp):
CATTTGCCTTCTGGTACTTATCTGAGGGAGGTTATAAAGAG
Found at i:11755913 original size:19 final size:19
Alignment explanation
Indices: 11755886--11755922 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11755876 TTTATTGCAA
11755886 TTTACTTTTTCATTTTAAG
1 TTTACTTTTTCATTTTAAG
* *
11755905 TTTATTTTTTCTTTTTAA
1 TTTACTTTTTCATTTTAA
11755923 TTGCTTCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTACTTTTTCATTTTAAG
Found at i:11758970 original size:20 final size:20
Alignment explanation
Indices: 11758947--11758986 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11758937 TGTGTTCAGA
*
11758947 CACACGGGCATGTGAGAAAC
1 CACACGGGCATGGGAGAAAC
* *
11758967 CACATGGGCGTGGGAGAAAC
1 CACACGGGCATGGGAGAAAC
11758987 GAACAACAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.35, T:0.10
Consensus pattern (20 bp):
CACACGGGCATGGGAGAAAC
Found at i:11759628 original size:31 final size:31
Alignment explanation
Indices: 11759567--11759629 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
11759557 GTTTATCTTA
** *
11759567 TTTATTTTTAATTTTCCTTTTTTATTTTCAT
1 TTTATTTTTAATCATCCTTTTTTATATTCAT
*
11759598 TTTATTTTT-ATCATCCTTTATTTGTATTCAT
1 TTTATTTTTAATCATCCTTT-TTTATATTCAT
11759629 T
1 T
11759630 ATTTTGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (31 bp):
TTTATTTTTAATCATCCTTTTTTATATTCAT
Found at i:11761119 original size:5 final size:6
Alignment explanation
Indices: 11761105--11761156 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
11761095 AGTCCACTTG
* ** * *
11761105 TTTTAT TTTTAT TTTTAT TTTTAT GTTCCT TTTTCT TTTTAT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
11761153 TTTT
1 TTTT
11761157 CTCTTATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:11761157 original size:18 final size:18
Alignment explanation
Indices: 11761105--11761158 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
11761095 AGTCCACTTG
* *
11761105 TTTTATTTTTATTTTTAT
1 TTTTATGTTTATTTTTCT
**
11761123 TTTTATGTTCCTTTTTCT
1 TTTTATGTTTATTTTTCT
11761141 TTTTATGTTTATTTTTCT
1 TTTTATGTTTATTTTTCT
11761159 CTTATATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTATGTTTATTTTTCT
Found at i:11772834 original size:16 final size:15
Alignment explanation
Indices: 11772804--11772833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11772794 AAATAACACT
11772804 TCAACTGAATAAAAA
1 TCAACTGAATAAAAA
11772819 TCAACTGAATAAAAA
1 TCAACTGAATAAAAA
11772834 AAAAGGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
TCAACTGAATAAAAA
Found at i:11773194 original size:2 final size:2
Alignment explanation
Indices: 11773187--11773221 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11773177 CTGATTTCTT
11773187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11773222 TGTTTTTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11776214 original size:22 final size:22
Alignment explanation
Indices: 11776164--11776207 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11776154 AATAATAGTT
*
11776164 ATAATATAATAGTTAGATATAAA
1 ATAA-ATAATAGTTAGATACAAA
11776187 ATAAATAATAGTTA-ATACAAA
1 ATAAATAATAGTTAGATACAAA
11776208 TTTAAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
ATAAATAATAGTTAGATACAAA
Found at i:11776272 original size:17 final size:17
Alignment explanation
Indices: 11776240--11776272 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11776230 TGATTAATAA
*
11776240 CTTGTAAAAAATAAAAT
1 CTTGTAAAAAAAAAAAT
11776257 CTTGTAAAAAAAAAAA
1 CTTGTAAAAAAAAAAA
11776273 CGAAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
CTTGTAAAAAAAAAAAT
Found at i:11783511 original size:16 final size:16
Alignment explanation
Indices: 11783480--11783509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11783470 GTAAAAATAG
11783480 TAAATAAGCATAAAAT
1 TAAATAAGCATAAAAT
11783496 TAAATAAGC-TAAAA
1 TAAATAAGCATAAAA
11783510 ATCATCATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
TAAATAAGCATAAAAT
Found at i:11783716 original size:30 final size:30
Alignment explanation
Indices: 11783680--11783739 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11783670 AGGGGTTAAT
11783680 TTGCAAAAAATTTAAAGATTGAGGGACTTA
1 TTGCAAAAAATTTAAAGATTGAGGGACTTA
11783710 TTGCAAAAAATTTAAAGATTGAGGGACTTA
1 TTGCAAAAAATTTAAAGATTGAGGGACTTA
11783740 CCATGGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (30 bp):
TTGCAAAAAATTTAAAGATTGAGGGACTTA
Found at i:11784323 original size:22 final size:22
Alignment explanation
Indices: 11784295--11784382 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
11784285 TTTCAAATGC
11784295 GATGTTATTCAGGCTTAGTGTT
1 GATGTTATTCAGGCTTAGTGTT
* * *
11784317 GATGTTATTCAAGTTTAGTGTA
1 GATGTTATTCAGGCTTAGTGTT
* * * **
11784339 GGTGTTATTCAGGCTCAATGCC
1 GATGTTATTCAGGCTTAGTGTT
*
11784361 GGTGTTATTCAGGCTTAGTGTT
1 GATGTTATTCAGGCTTAGTGTT
11784383 TAGTAGGTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.42
Consensus pattern (22 bp):
GATGTTATTCAGGCTTAGTGTT
Found at i:11784437 original size:38 final size:37
Alignment explanation
Indices: 11784395--11784526 Score: 138
Period size: 38 Copynumber: 3.5 Consensus size: 37
11784385 GTAGGTTTAG
*
11784395 ATTCAAGCTTAGTGCCTAGCAAACTTAGTGCCTATTTT
1 ATTCAAGCTTAGTGCCTAGCAAGCTTAGTGCC-ATTTT
* * * ** *
11784433 ATTCAGGCTTAGTGCCTAGTAAGCTTAATGCGGTGTT
1 ATTCAAGCTTAGTGCCTAGCAAGCTTAGTGCCATTTT
* * *
11784470 AATCAGGTTTAGTGCCTAGCAAGCTTAGTGCCATTGTT
1 ATTCAAGCTTAGTGCCTAGCAAGCTTAGTGCCATT-TT
* *
11784508 ATTTAAGCTTAATGCCTAG
1 ATTCAAGCTTAGTGCCTAG
11784527 AAGGCTTGAT
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
37 31 0.42
38 43 0.58
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (37 bp):
ATTCAAGCTTAGTGCCTAGCAAGCTTAGTGCCATTTT
Found at i:11785108 original size:13 final size:13
Alignment explanation
Indices: 11785090--11785120 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11785080 TCCCTTGAAT
11785090 GTATGTCCAAATG
1 GTATGTCCAAATG
11785103 GTATGTCCAAATG
1 GTATGTCCAAATG
11785116 GTATG
1 GTATG
11785121 GTTGGATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (13 bp):
GTATGTCCAAATG
Found at i:11788280 original size:40 final size:41
Alignment explanation
Indices: 11788228--11788324 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
11788218 TAAGTTGGTA
* *
11788228 TCGCACACTTAGTGCC-TTATATATCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAGCTATATCAAAC
* * *
11788268 TCGCACACTTAGTGCCATTTGTAGCCGAAGTTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATATCAAAC
11788309 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
11788325 AGCATAGTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAGCTATATCAAAC
Found at i:11803918 original size:23 final size:24
Alignment explanation
Indices: 11803892--11803937 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11803882 TTATATTAAA
11803892 ATTAAAAAT-AAAATATAAATATG
1 ATTAAAAATAAAAATATAAATATG
*
11803915 ATTAAAAATAAAAATATATATAT
1 ATTAAAAATAAAAATATAAATAT
11803938 ATTTAGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAAATAAAAATATAAATATG
Found at i:11811753 original size:630 final size:630
Alignment explanation
Indices: 11810544--11812409 Score: 3581
Period size: 630 Copynumber: 3.0 Consensus size: 630
11810534 AAACAAATGG
* *
11810544 AGGTCCCTGACTTCGACGACGCAGTAGAGTTGGAAAAAGAAAAGACAGAACTGCCCAAACAAATG
1 AGGTCCATGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAGACAGAACTGCCCAAACAAATG
* *
11810609 GAGGCCCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCAG
66 GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
11810674 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
131 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
*
11810739 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCATGATGTTTTGTCGGAGAATG
196 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTGTCGGAGAATG
11810804 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
261 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
11810869 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
326 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
*
11810934 TCATGAAGCAGTACGGCCATATAACAGATATAGTACCGGACCGGATCACACTCCAGAATATGGAG
391 TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCGGATCACACTCCAGAATATGGAG
*
11810999 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCTA
456 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
11811064 ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
521 ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
11811129 CTCATATGTTAGGTAACGCAACTAAGGATAATCTAGCAAACCCCC
586 CTCATATGTTAGGTAACGCAACTAAGGATAATCTAGCAAACCCCC
*
11811174 AGGTCCATGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAGACAGAACTGCCTAAACAAATG
1 AGGTCCATGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAGACAGAACTGCCCAAACAAATG
11811239 GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
66 GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
11811304 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
131 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
*
11811369 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTATCGGAGAATG
196 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTGTCGGAGAATG
11811434 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
261 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
11811499 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
326 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
*
11811564 TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCAGATCACACTCCAGAATATGGAG
391 TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCGGATCACACTCCAGAATATGGAG
11811629 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
456 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
* *
11811694 ACTACCATTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
521 ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
*
11811759 CTCATATGTTAGGTAACGCAACTAAGGATAATCTAGCAAACCCCT
586 CTCATATGTTAGGTAACGCAACTAAGGATAATCTAGCAAACCCCC
* *
11811804 AGGTCCTTGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAAACAGAACTGCCCAAACAAATG
1 AGGTCCATGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAGACAGAACTGCCCAAACAAATG
11811869 GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
66 GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
*
11811934 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAATTCAAAATGCCAG
131 AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
11811999 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTGTCGGAGAATG
196 AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTGTCGGAGAATG
11812064 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
261 ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
11812129 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
326 GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
11812194 TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCGGATCACACTCCAGAATAT-GAG
391 TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCGGATCACACTCCAGAATATGGAG
11812258 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
456 AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
11812323 ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
521 ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
11812388 CTCATATGTTAGGTAACGCAAC
586 CTCATATGTTAGGTAACGCAAC
11812410 CAAGAGCTTT
Statistics
Matches: 1215, Mismatches: 21, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
629 153 0.13
630 1062 0.87
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (630 bp):
AGGTCCATGACTTCGACGACGCAGCAGAGTTGGAAAAAGAAAAGACAGAACTGCCCAAACAAATG
GAGGACCAATATAAATGGTTGGTGGAGAAGTTCAGGGCGTTGGAAAGTGTTGATAATTACTGCGG
AATGGATGCCAGAGAGTTGAGTCTAGTCCCAGATTTGGTATTACCTCCCAAGTTCAAAATGCCAG
AATTCGAAAGATACAACGGAACTAGTTGCCCTGAGGCTCACATCACGATGTTTTGTCGGAGAATG
ACGGGTCATGTCAATAATGATCAGTTGTTGATTCACTGTTTTCAGGACAGTTTGGCTGGGGCTGC
GGCCAAATGGTACAATCAGTTGAGTCGTACCCAAGTTAAGTCATGGAAGGACCTAGCTCAGGCCT
TCATGAAGCAGTACGGCCATATAACAGATATAGCACCGGACCGGATCACACTCCAGAATATGGAG
AAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCGCTACACAGGTCCA
ACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAGGCGCCTTTCATTA
CTCATATGTTAGGTAACGCAACTAAGGATAATCTAGCAAACCCCC
Found at i:11819421 original size:43 final size:43
Alignment explanation
Indices: 11819372--11819701 Score: 185
Period size: 43 Copynumber: 7.5 Consensus size: 43
11819362 AATCATTAGC
*
11819372 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATCAGAT
* * * *
11819415 CTTATCTTCACTGAGCAGGAGT-GAAGCAGGTCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAA-CAGG-CTAAATATCA-G-AT
* * * ** * *
11819461 CTTATCTCCAC-GTA-CCGCGA-TGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAG-GAGTGGAACAGGCT-AAAT-ATCAGAT
* *
11819504 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATCAGAT
* * * * *
11819547 CTTATCTTCACTGAGCAGGAGT-GAAGCAGATCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAA-CAG-GCTAAATATCA-G-AT
* * * * ** * *
11819593 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAACAGGCT-AAAT-ATCAGAT
*
11819637 CTTATCTTCACTGAGCA-GAGTGGAACAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATCAGAT
*
11819679 TTTATCTTCACTGAGCAGGAGTG
1 CTTATCTTCACTGAGCAGGAGTG
11819702 AAGCAGGTCG
Statistics
Matches: 209, Mismatches: 52, Indels: 52
0.67 0.17 0.17
Matches are distributed among these distances:
41 4 0.02
42 28 0.13
43 80 0.38
44 35 0.17
45 19 0.09
46 39 0.19
47 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATCAGAT
Found at i:11819538 original size:132 final size:133
Alignment explanation
Indices: 11819282--11819802 Score: 933
Period size: 132 Copynumber: 3.9 Consensus size: 133
11819272 TATCATCAGC
*
11819282 CTTATCTTCACTGAGCAGGAGTGAAGCAGATTGAATTTTGATGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
*
11819347 GATGGAGCAGATTCCAATCATTAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
11819412 GAT
131 GAT
*
11819415 CTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC-GC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
*
11819479 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
11819544 GAT
131 GAT
11819547 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
11819612 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCA-GAGTGGAACAGGCTAAATACCA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
11819676 GAT
131 GAT
* *
11819679 TTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
* *
11819744 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGTAG-GGTAACA-GCTAAA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGG-AACAGGCTAAA
11819803 GTCTACAGAT
Statistics
Matches: 375, Mismatches: 10, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
132 265 0.71
133 110 0.29
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (133 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
GAT
Found at i:11819755 original size:265 final size:265
Alignment explanation
Indices: 11819282--11819786 Score: 958
Period size: 265 Copynumber: 1.9 Consensus size: 265
11819272 TATCATCAGC
*
11819282 CTTATCTTCACTGAGCAGGAGTGAAGCAGATTGAATTTTGATGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
*
11819347 GATGGAGCAGATTCCAATCATTAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
11819412 GATCTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC
131 GATCTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC
*
11819477 GCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATAC
196 GCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAATAC
11819542 CAGAT
261 CAGAT
11819547 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
11819612 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCA-GAGTGGAACAGGCTAAATACCA
66 GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
*
11819676 GATTTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC
131 GATCTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC
11819741 GGCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAG
196 -GCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAG
11819787 TAGGGTAACA
Statistics
Matches: 235, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
264 86 0.37
265 149 0.63
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (265 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGC
GATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCA
GATCTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACC
GCGATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAATAC
CAGAT
Found at i:11823757 original size:110 final size:109
Alignment explanation
Indices: 11823585--11823827 Score: 341
Period size: 110 Copynumber: 2.2 Consensus size: 109
11823575 TGGTATACAA
* * *
11823585 AAAATACGAGTTTT--AAAAAAAATTTGGTGCTGGCTTGTCAATGGCCATCACCAGTGTTAAAAA
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCAGCACCAGTATTAAAAA
* * * *
11823648 AAATTTGAAATTTTTTTAGTGCTGGCCTA-CTACTGGCCGGTACC
66 AAAGTTGAAAATTTTTTAGTGCTGGCCTATC-AATGGCCGGCACC
* *
11823692 AAAATACGAGTTTTCAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCC-GGACTAGTATTAAAA
1 AAAATACGAGTTTT-AAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCAGCACCAGTATT-AAA
*
11823756 AAAAAGTTGAAAATTTTTTGGTGCTGGCCTATCAATGGCCGGCACC
64 AAAAAGTTGAAAATTTTTTAGTGCTGGCCTATCAATGGCCGGCACC
11823802 AAAATACGAGTTTTAAAAAAAAAATT
1 AAAATACGAGTTTTAAAAAAAAAATT
11823828 GAAAACTCGT
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
107 14 0.12
109 19 0.16
110 87 0.72
111 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (109 bp):
AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCAGCACCAGTATTAAAAA
AAAGTTGAAAATTTTTTAGTGCTGGCCTATCAATGGCCGGCACC
Found at i:11824009 original size:111 final size:110
Alignment explanation
Indices: 11823850--11824061 Score: 327
Period size: 111 Copynumber: 1.9 Consensus size: 110
11823840 TTTGGTACCA
* * *
11823850 GCCATTGACAGGCTAGCACAAAATTTTTTTTTGTGAAAACTCATATTTTGGTGCCGGCCAATAGC
1 GCCATTAACAAGCCAGCACAAAATTTTTTTTTGTGAAAACTCATATTTTGGTGCCGGCCAATAGC
* * *
11823915 AGGCCAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTGATGCCG
66 AAGCCAGCACAAAAAAAAATTC-AA-TTTTTTTTAATACTGATGCCG
* *
11823962 GCCATTAACAAGCCAGCACAAAATTTTTTTTT-TGAAAACTCGTATTTTGGTGCCGGCCAGTAGC
1 GCCATTAACAAGCCAGCACAAAATTTTTTTTTGTGAAAACTCATATTTTGGTGCCGGCCAATAGC
11824026 AAGCCAGCACAAAAAAAAATTCAATTTTTTTTAATA
66 AAGCCAGCACAAAAAAAAATTCAATTTTTTTTAATA
11824062 AATTTTTTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 12 0.13
110 2 0.02
111 49 0.53
112 29 0.32
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (110 bp):
GCCATTAACAAGCCAGCACAAAATTTTTTTTTGTGAAAACTCATATTTTGGTGCCGGCCAATAGC
AAGCCAGCACAAAAAAAAATTCAATTTTTTTTAATACTGATGCCG
Found at i:11825192 original size:32 final size:32
Alignment explanation
Indices: 11825133--11825193 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
11825123 CAACAAGCTT
* * **
11825133 AAGATATAATAAATTTAATATGTAACAAATTC
1 AAGACATAATAAATTTAAAATACAACAAATTC
*
11825165 AAGACATAATAATTTTAAAATACAACAAA
1 AAGACATAATAAATTTAAAATACAACAAA
11825194 CTAAAATTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (32 bp):
AAGACATAATAAATTTAAAATACAACAAATTC
Found at i:11826635 original size:15 final size:15
Alignment explanation
Indices: 11826612--11826650 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11826602 GATCACATGT
*
11826612 ATGACTAAAGTTATC
1 ATGACTAAAGTTACC
*
11826627 ATTACTAAAGTTACC
1 ATGACTAAAGTTACC
11826642 ATGACTAAA
1 ATGACTAAA
11826651 ATGAATGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:11830267 original size:20 final size:20
Alignment explanation
Indices: 11830244--11830295 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
11830234 AAACCAAAAT
11830244 ATTAAAATAATATTTAAGTA
1 ATTAAAATAATATTTAAGTA
*
11830264 ATTAAAATGATATTTAAGTA
1 ATTAAAATAATATTTAAGTA
11830284 ATTAAAATAATA
1 ATTAAAATAATA
11830296 ATAATGCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATTAAAATAATATTTAAGTA
Found at i:11830651 original size:22 final size:22
Alignment explanation
Indices: 11830626--11830670 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11830616 TTTAATAAAA
11830626 AAAATATCTACA-ACATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
11830648 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
11830670 A
1 A
11830671 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:11837229 original size:22 final size:22
Alignment explanation
Indices: 11837201--11837245 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11837191 AGGGGGAGTG
11837201 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11837223 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11837245 T
1 T
11837246 TTTTTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11837692 original size:20 final size:20
Alignment explanation
Indices: 11837667--11837709 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11837657 TTTAGAGAAC
11837667 ACATGAAATGCCAATAATCA
1 ACATGAAATGCCAATAATCA
11837687 ACATGAAATGCCAATAATCA
1 ACATGAAATGCCAATAATCA
11837707 ACA
1 ACA
11837710 AGATCAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.21, G:0.09, T:0.19
Consensus pattern (20 bp):
ACATGAAATGCCAATAATCA
Found at i:11839632 original size:6 final size:6
Alignment explanation
Indices: 11839621--11839648 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11839611 TTTATGTAAG
11839621 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
11839649 ATTTCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:11840237 original size:39 final size:41
Alignment explanation
Indices: 11840189--11840280 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 41
11840179 GACACTACCA
11840189 GACCTTTTTGCGAC-TTTTTATCATAAACACCACTACTG-TT
1 GACC-TTTTGCGACATTTTTATCATAAACACCACTACTGCTT
* *
11840229 GACCTTTTGCGACATTTTTATCATAAACGCCGCTACTGCTT
1 GACCTTTTGCGACATTTTTATCATAAACACCACTACTGCTT
11840270 GACCTTTTGCG
1 GACCTTTTGCG
11840281 GTGTTTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
39 9 0.19
40 26 0.54
41 13 0.27
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (41 bp):
GACCTTTTGCGACATTTTTATCATAAACACCACTACTGCTT
Found at i:11850960 original size:43 final size:43
Alignment explanation
Indices: 11850883--11851053 Score: 254
Period size: 43 Copynumber: 4.0 Consensus size: 43
11850873 TCTGAATTCA
* **
11850883 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
11850925 TTCACCGGCATTATAGCCTGCTAGGCCCGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
11850968 CTCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
11851011 TTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
11851054 CATTTCGATA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 12 0.10
43 97 0.84
44 6 0.05
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:11855274 original size:26 final size:26
Alignment explanation
Indices: 11855240--11855295 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
11855230 ATCTTAAGTT
* *
11855240 TTTCTCCTTTTTCTTTCTCTTTTTC-
1 TTTCTCCTTTTTCCTTCTCTGTTTCA
11855265 TTTCTCCCTTTTTCCTTCTCTGTTTCA
1 TTTCT-CCTTTTTCCTTCTCTGTTTCA
11855292 TTTC
1 TTTC
11855296 GAATGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTCTCCTTTTTCCTTCTCTGTTTCA
Found at i:11855277 original size:14 final size:13
Alignment explanation
Indices: 11855240--11855284 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
11855230 ATCTTAAGTT
11855240 TTTCTCCTTTTTC
1 TTTCTCCTTTTTC
11855253 TTTCT-CTTTTTC
1 TTTCTCCTTTTTC
11855265 TTTCTCCCTTTTTC
1 TTTCT-CCTTTTTC
*
11855279 CTTCTC
1 TTTCTC
11855285 TGTTTCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 11 0.38
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCTCCTTTTTC
Found at i:11855428 original size:26 final size:28
Alignment explanation
Indices: 11855350--11855428 Score: 65
Period size: 29 Copynumber: 2.8 Consensus size: 28
11855340 TATTTAATTA
*
11855350 TACTAATATAATATAATAATATAATAATATT
1 TACTAA-ATAATA-AGT-ATATAATAATATT
*
11855381 TACTTAAATAATAAGTAAATAATAAT-TAT
1 TAC-TAAATAATAAGTATATAATAATAT-T
*
11855410 TAC-AAAT-ATATGTATATAA
1 TACTAAATAATAAGTATATAA
11855429 ATGTTACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
26 10 0.24
27 4 0.10
28 1 0.02
29 13 0.31
30 2 0.05
31 9 0.21
32 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (28 bp):
TACTAAATAATAAGTATATAATAATATT
Found at i:11856405 original size:4 final size:4
Alignment explanation
Indices: 11856396--11856425 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
11856386 GAGCAAACGT
11856396 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
11856426 TAGAAAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Done.