Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 16 of 103
Found at i:5911960 original size:68 final size:68
Alignment explanation
Indices: 5911849--5912095 Score: 203
Period size: 68 Copynumber: 3.6 Consensus size: 68
5911839 ACCAACTTAC
* * * * *
5911849 TCATCTCATA-AGGTATATGAAAAATATATCATATACATAATCTCACGACATTCATCATGCTTTC
1 TCATCTCATATA-GTATATGGAATATACATCATATACATAATCTCACGACATTCATCATGCATAC
5911913 TCAA
65 TCAA
* * * * * *
5911917 TCATCTCATGTAGTATGTGGAATATACATCATATACATTATCTCATGGCATTTATCATGCATACT
1 TCATCTCATATAGTATATGGAATATACATCATATACATAATCTCACGACATTCATCATGCATACT
*
5911982 TAA
66 CAA
* * * * * * * * *
5911985 TCATTTCATATGGTATATGGAATTTACATCATATATACAATCTTATAGTAGA--CATTATGCATA
1 TCATCTCATATAGTATATGGAATATACATCATATACATAATCTCA-CG-ACATTCATCATGCATA
*
5912048 CTTAA
64 CTCAA
* ** * *
5912053 TCATCTTATACGGTATATGAAATTTACATCATATACATAATCT
1 TCATCTCATATAGTATATGGAATATACATCATATACATAATCT
5912096 TATAGCATTT
Statistics
Matches: 144, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
68 141 0.98
69 2 0.01
70 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (68 bp):
TCATCTCATATAGTATATGGAATATACATCATATACATAATCTCACGACATTCATCATGCATACT
CAA
Found at i:5912096 original size:68 final size:68
Alignment explanation
Indices: 5911973--5912100 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
5911963 GGCATTTATC
* * *
5911973 ATGCATACTTAATCATTTCATATGGTATATGGAATTTACATCATATATACAATCTTATAGTAGAC
1 ATGCATACTTAATCATTTCATACGGTATATGAAATTTACATCATATACACAATCTTATAGTAGAC
5912038 ATT
66 ATT
*
5912041 ATGCATACTTAATCATCTT-ATACGGTATATGAAATTTACATCATATACATAATCTTATAG
1 ATGCATACTTAATCAT-TTCATACGGTATATGAAATTTACATCATATACACAATCTTATAG
5912101 CATTTATCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 53 0.96
69 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (68 bp):
ATGCATACTTAATCATTTCATACGGTATATGAAATTTACATCATATACACAATCTTATAGTAGAC
ATT
Found at i:5916211 original size:69 final size:69
Alignment explanation
Indices: 5916100--5916233 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 69
5916090 GTTACACGCC
* * * *
5916100 ATGTACAAAAATCTGTGACAAGCCATGGTTAGCTTGTTACACGTTATGTATAAAAATATGTGACA
1 ATGTACAAAAATCTATGACAAGCCATGATTAGCATGTTACACGTTATGTACAAAAATATGTGACA
5916165 TGCT
66 TGCT
5916169 ATGTACAAAAA-CTTATGACAAGCCATGATTAGCATGTTACACGTTATGTACAAAAATATGTGAC
1 ATGTACAAAAATC-TATGACAAGCCATGATTAGCATGTTACACGTTATGTACAAAAATATGTGAC
5916233 A
65 A
5916234 AGCCATGGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (69 bp):
ATGTACAAAAATCTATGACAAGCCATGATTAGCATGTTACACGTTATGTACAAAAATATGTGACA
TGCT
Found at i:5916233 original size:45 final size:45
Alignment explanation
Indices: 5916157--5916285 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
5916147 GTATAAAAAT
* * * *
5916157 ATGTGACATGCTATGTACAAAAACT-TATGACAAGCCATGATTAGC
1 ATGTTACACGCTATGTACAAAAA-TATGTGACAAGCCATGATTAAC
* *
5916202 ATGTTACACGTTATGTACAAAAATATGTGACAAGCCATGGTTAAC
1 ATGTTACACGCTATGTACAAAAATATGTGACAAGCCATGATTAAC
* * * *
5916247 TTGTTACATGCCATGTACAAAAATATGTGACAAGTCATG
1 ATGTTACACGCTATGTACAAAAATATGTGACAAGCCATG
5916286 TACAAAAACC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 1 0.01
45 71 0.99
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGTTACACGCTATGTACAAAAATATGTGACAAGCCATGATTAAC
Found at i:5916287 original size:69 final size:69
Alignment explanation
Indices: 5916214--5916354 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 69
5916204 GTTACACGTT
* * *
5916214 ATGTACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACA
1 ATGTACAAAAACATGTGACAAGCCATGGTTAACTTGTTACACGCCATGTACAAAAACATGTGACA
*
5916279 AGTC
66 AGCC
* * * *
5916283 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAACCTGTGACA
1 ATGTACAAAAACATGTGACAAGCCATGGTTAACTTGTTACACGCCATGTACAAAAACATGTGACA
5916348 AGCC
66 AGCC
5916352 ATG
1 ATG
5916355 GTTAGCGTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (69 bp):
ATGTACAAAAACATGTGACAAGCCATGGTTAACTTGTTACACGCCATGTACAAAAACATGTGACA
AGCC
Found at i:5916288 original size:114 final size:113
Alignment explanation
Indices: 5916088--5916461 Score: 505
Period size: 114 Copynumber: 3.3 Consensus size: 113
5916078 ACACACTATG
* * *
5916088 ATGTTACACGCCATGTACAAAAATCTGTGACAAGCCATGGTTAGCTTGTTACACGTTATGTATAA
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAA
* * * *
5916153 AAATATGTGACATGCTATGTACAAAAACTTATGACAAGCCATGATTAGC
66 AAATATGTGACAAGC-ATGTACAAAAACCTGTGACAAGCCATGGTTAGC
** * * *
5916202 ATGTTACACGTTATGTACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAA
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAA
*
5916267 AAATATGTGACAAGTCATGTACAAAAACCTGTGACAAGCTATGGTTAGC
66 AAATATGTGACAAG-CATGTACAAAAACCTGTGACAAGCCATGGTTAGC
* ** * *
5916316 TTGTTACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATATACAA
1 ATGTTACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAA
* * *
5916381 AATTATGTGACACACCATGTATAAAAACCTGTGACAAGCCATGGTTAGC
66 AAATATGTGACA-AGCATGTACAAAAACCTGTGACAAGCCATGGTTAGC
* * *
5916430 GTGTTACACACTATGTACAAAAATATGTGACA
1 ATGTTACACGCCATGTACAAAAATATGTGACA
5916462 CTCCATGTAC
Statistics
Matches: 226, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
114 224 0.99
115 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (113 bp):
ATGTTACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAA
AAATATGTGACAAGCATGTACAAAAACCTGTGACAAGCCATGGTTAGC
Found at i:5916290 original size:24 final size:24
Alignment explanation
Indices: 5916258--5916304 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
5916248 TGTTACATGC
*
5916258 CATGTACAAAAATATGTGACAAGT
1 CATGTACAAAAACATGTGACAAGT
*
5916282 CATGTACAAAAACCTGTGACAAG
1 CATGTACAAAAACATGTGACAAG
5916305 CTATGGTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (24 bp):
CATGTACAAAAACATGTGACAAGT
Found at i:5916346 original size:45 final size:45
Alignment explanation
Indices: 5916282--5916382 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
5916272 TGTGACAAGT
* *
5916282 CATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGC
1 CATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGC
5916327 CATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGC
1 CATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGC
* *
5916372 TATATACAAAA
1 CATGTACAAAA
5916383 TTATGTGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (45 bp):
CATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGC
Found at i:5916399 original size:69 final size:69
Alignment explanation
Indices: 5916321--5916537 Score: 353
Period size: 69 Copynumber: 3.1 Consensus size: 69
5916311 TTAGCTTGTT
* * *
5916321 ACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATATACAAAATTA
1 ACACACCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATA
5916386 TGTG
66 TGTG
* *
5916390 ACACACCATGTATAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACACTATGTACAAAAATA
1 ACACACCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATA
5916455 TGTG
66 TGTG
* * *
5916459 ACACTCCATGTACAAAAACTTGTGACAAGCCATGGTTAGCGTGTTACACGTTATGTACAAAAATA
1 ACACACCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATA
5916524 TGTG
66 TGTG
*
5916528 ACAAACCATG
1 ACACACCATG
5916538 GTTAACTTGT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 136 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (69 bp):
ACACACCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATA
TGTG
Found at i:5916416 original size:183 final size:180
Alignment explanation
Indices: 5916214--5917017 Score: 821
Period size: 183 Copynumber: 4.4 Consensus size: 180
5916204 GTTACACGTT
** * * * *
5916214 ATGTACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACA
1 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
* * * *
5916279 AGTCATGTACAAAAACCTGTGACAAGCTATGGT-TAGCT-TGTTACACGCCATGTACAAAAACCT
66 AGTCATGT----AAACGTGTGACAAGCTAT-GTAAAACTATGTGACACGCCATGTACAAAAACCT
* * *
5916342 GTGACAAGCCATGGTTAGCGTGTTACACGCTATATACAAAATTATGTGACACA-CC
126 GTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACA-AGCC
* * * * * *
5916397 ATGTATAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACACTATGTACAAAAATATGTGAC-
1 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
* * * * * * * ** **
5916461 ACTCCATGTACAAAAACTTGTGACAAGCCATGGT-TAGC-GTGTTACACGTTATGTACAAAAATA
66 AGT-CATGT----AAACGTGTGACAAGCTAT-GTAAAACTATGTGACACGCCATGTACAAAAACC
* * * *
5916524 TGTGACAAACCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCC
125 TGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACAAGCC
* * * * * *
5916580 ATATACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACACGTCATGTACAAAAACCTATGACA
1 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
* ** * * * *
5916645 AGTCATGGTTAGTGTGTTACACGCTATGTACAAAACTATATGGCACGCCATGTACAAAAACCTGT
66 AGTCAT-GTAAACGTGTGACAAGCTATGT--AAAACTATGTGACACGCCATGTACAAAAACCTGT
* * * *
5916710 GACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATATGTGACAAGCC
128 GACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACAAGCC
* ** *
5916763 ATGTACAAAAACCTGTGACAAGCTATGATTAGCTTGTTTTACGCCATGTACAAAAACCTGTGACA
1 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
* * * * * *
5916828 AGTCATGGTTAGCGTGTTACACA-CTATGTACAAAAATATGTGACATGCCATGTACAAAAACTTG
66 AGTCAT-GTAAACGTGTGACA-AGCTATGT--AAAACTATGTGACACGCCATGTACAAAAACCTG
5916892 TGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACAAGCC
127 TGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACAAGCC
* *
5916946 AAGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGATA
1 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
5917011 AGTCATG
66 AGTCATG
5917018 GTTAGGTTGT
Statistics
Matches: 526, Mismatches: 85, Indels: 21
0.83 0.13 0.03
Matches are distributed among these distances:
179 2 0.00
180 11 0.02
182 6 0.01
183 503 0.96
184 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (180 bp):
ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTGACA
AGTCATGTAAACGTGTGACAAGCTATGTAAAACTATGTGACACGCCATGTACAAAAACCTGTGAC
AAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACAAGCC
Found at i:5916491 original size:24 final size:24
Alignment explanation
Indices: 5916442--5916492 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
5916432 GTTACACACT
**
5916442 ATGTACAAAAATATGTGACACTCC
1 ATGTACAAAAATATGTGACAAGCC
5916466 ATGTACAAAAACT-TGTGACAAGCC
1 ATGTACAAAAA-TATGTGACAAGCC
5916490 ATG
1 ATG
5916493 GTTAGCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (24 bp):
ATGTACAAAAATATGTGACAAGCC
Found at i:5916515 original size:114 final size:114
Alignment explanation
Indices: 5916397--5916879 Score: 479
Period size: 114 Copynumber: 4.2 Consensus size: 114
5916387 GTGACACACC
* * *
5916397 ATGTATAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACACTATGTACAAAAATATGTGACA
1 ATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATGTGACA
* * * *
5916462 CTCCATGTACAAAAACTTGTGACAAGCCATGGTTAGCGTGTTACACGTT
66 CGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGTT
* * * * * *
5916511 ATGTACAAAAATATGTGACAAACCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACA
1 ATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATGTGACA
* * * * * *
5916576 AGCCATATACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACACGTC
66 CGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGTT
* * * * * * *
5916625 ATGTACAAAAACCTATGACAAGTCATGGTTAGTGTGTTACACGCTATGTACAAAACTATATGGCA
1 ATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATGTGACA
* **
5916690 CGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACT
66 CGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGTT
* * * * * * ** **
5916739 ATGTACAAAAATATGTGACAAGCCAT-GTACAAAAACCTGTGACAAGCTATG-A-TTAGCT-TGT
1 ATGTACAAAAACATGTGACAAGCCATGGT----TAGCGTGTTACACGCTATGTACAAAAATATGT
*** * **
5916800 TTTACGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACACT
62 GACACGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGTT
* *
5916853 ATGTACAAAAATATGTGACATGCCATG
1 ATGTACAAAAACATGTGACAAGCCATG
5916880 TACAAAAACT
Statistics
Matches: 304, Mismatches: 60, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
113 2 0.01
114 285 0.94
115 3 0.01
116 1 0.00
117 13 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (114 bp):
ATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATGTGACA
CGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCATGTTACACGTT
Found at i:5916530 original size:45 final size:45
Alignment explanation
Indices: 5916459--5916581 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 45
5916449 AAAATATGTG
* *
5916459 ACACTCCATGTACAAAAACT-TGTGACAAGCCATGGTTAGCGTGTT
1 ACACGCCATGTACAAAAA-TATGTGACAAGCCATGGTTAACGTGTT
** * *
5916504 ACACGTTATGTACAAAAATATGTGACAAACCATGGTTAACTTGTT
1 ACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAACGTGTT
*
5916549 ACATGCCATGTACAAAAATATGTGACAAGCCAT
1 ACACGCCATGTACAAAAATATGTGACAAGCCAT
5916582 ATACAAAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (45 bp):
ACACGCCATGTACAAAAATATGTGACAAGCCATGGTTAACGTGTT
Found at i:5916598 original size:24 final size:24
Alignment explanation
Indices: 5916553--5916601 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5916543 CTTGTTACAT
* * *
5916553 GCCATGTACAAAAATATGTGACAA
1 GCCATATACAAAAACATATGACAA
*
5916577 GCCATATACAAAAACCTATGACAA
1 GCCATATACAAAAACATATGACAA
5916601 G
1 G
5916602 TTATGGTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.18
Consensus pattern (24 bp):
GCCATATACAAAAACATATGACAA
Found at i:5916632 original size:297 final size:295
Alignment explanation
Indices: 5916088--5916946 Score: 1232
Period size: 297 Copynumber: 2.9 Consensus size: 295
5916078 ACACACTATG
* * * ** *
5916088 ATGTTACACGCCATGTACAAAAATCTGTGACAAGCCATGGTTAGCTTGTTACACGTTATGTATAA
1 ATGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCATGTTACACACTATGTACAA
* *
5916153 AAATATGTGACATGCTATGTACAAAAACTTATGACAAGCCATGATTAGCATGTTACACGTTATGT
66 AAATATGTGACAT-CCATGTACAAAAACTTGTGACAAGCCATGATTAGCATGTTACACGTTATGT
*
5916218 ACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGTC
130 ACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCC
5916283 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAACCTGTGACA
195 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACG-CATGTACAAAAACCTGTGACA
*
5916348 AGCCATGGTTAGCGTGTTACACGCTATATACAAAATT
259 AGCCATGGTTAGCGTGTTACACGCTATATACAAAACT
* * *
5916385 ATGTGACACACCATGTATAAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACACTATGTACAA
1 ATGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCATGTTACACACTATGTACAA
* *
5916450 AAATATGTGACACTCCATGTACAAAAACTTGTGACAAGCCATGGTTAGCGTGTTACACGTTATGT
66 AAATATGTGACA-TCCATGTACAAAAACTTGTGACAAGCCATGATTAGCATGTTACACGTTATGT
*
5916515 ACAAAAATATGTGACAAACCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCC
130 ACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCC
* * * *
5916580 ATATACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACACGTCATGTACAAAAACCTATGACA
195 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACG-CATGTACAAAAACCTGTGACA
* * *
5916645 AGTCATGGTTAGTGTGTTACACGCTATGTACAAAACT
259 AGCCATGGTTAGCGTGTTACACGCTATATACAAAACT
* * * *
5916682 ATATGGCACGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAA
1 ATGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCATGTTACACACTATGTACAA
* * * * ** **
5916747 AAATATGTGACAAGCCATGTACAAAAACCTGTGACAAGCTATGATTAGCTTGTTTTACGCCATGT
66 AAATATGTGAC-ATCCATGTACAAAAACTTGTGACAAGCCATGATTAGCATGTTACACGTTATGT
** * * * ** * *
5916812 ACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACACTATGTACAAAAATATGTGACATGCC
130 ACAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCC
* * **
5916877 ATGTACAAAAACTTGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGACA
195 ATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGC-ATGTACAAAAACCTGTGACA
5916942 AGCCA
259 AGCCA
5916947 AGTACAAAAA
Statistics
Matches: 501, Mismatches: 58, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
296 1 0.00
297 498 0.99
298 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (295 bp):
ATGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCATGTTACACACTATGTACAA
AAATATGTGACATCCATGTACAAAAACTTGTGACAAGCCATGATTAGCATGTTACACGTTATGTA
CAAAAATATGTGACAAGCCATGGTTAACTTGTTACATGCCATGTACAAAAATATGTGACAAGCCA
TGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCATGTACAAAAACCTGTGACAAG
CCATGGTTAGCGTGTTACACGCTATATACAAAACT
Found at i:5916647 original size:45 final size:45
Alignment explanation
Indices: 5916583--5916679 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
5916573 ACAAGCCATA
*
5916583 TACAAAAACCTATGACAAGTTATGGTTAGCT-TGTTACACG-TCATG
1 TACAAAAACCTATGACAAGTCATGGTTAG-TGTGTTACACGCT-ATG
5916628 TACAAAAACCTATGACAAGTCATGGTTAGTGTGTTACACGCTATG
1 TACAAAAACCTATGACAAGTCATGGTTAGTGTGTTACACGCTATG
5916673 TACAAAA
1 TACAAAA
5916680 CTATATGGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
44 1 0.02
45 47 0.96
46 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (45 bp):
TACAAAAACCTATGACAAGTCATGGTTAGTGTGTTACACGCTATG
Found at i:5916720 original size:24 final size:24
Alignment explanation
Indices: 5916693--5916784 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 24
5916683 TATGGCACGC
*
5916693 CATGTACAAAAACCTGTGACAAGT
1 CATGTACAAAAACATGTGACAAGT
** * * *
5916717 CATG---ATTAGCATGTTACACACT
1 CATGTACAAAAACATGTGACA-AGT
* *
5916739 -ATGTACAAAAATATGTGACAAGC
1 CATGTACAAAAACATGTGACAAGT
*
5916762 CATGTACAAAAACCTGTGACAAG
1 CATGTACAAAAACATGTGACAAG
5916785 CTATGATTAG
Statistics
Matches: 48, Mismatches: 15, Indels: 10
0.66 0.21 0.14
Matches are distributed among these distances:
21 12 0.25
22 2 0.04
23 1 0.02
24 33 0.69
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (24 bp):
CATGTACAAAAACATGTGACAAGT
Found at i:5916825 original size:69 final size:69
Alignment explanation
Indices: 5916624--5916834 Score: 257
Period size: 69 Copynumber: 3.1 Consensus size: 69
5916614 TGTTACACGT
* * *
5916624 CATGTACAAAAACCTATGACAAGTCATGGTTAG-TGTGTTACACGCTATGTAC-AAAACTATATG
1 CATGTACAAAAACCTGTGACAAGTCATGATTAGCT-TGTTACACGCTATGTACAAAAAC-ATGTG
* *
5916687 GCACGC
64 ACAAGC
* * *
5916693 CATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATATGTGAC
1 CATGTACAAAAACCTGTGACAAGTCATGATTAGCTTGTTACACGCTATGTACAAAAACATGTGAC
5916758 AAGC
66 AAGC
** * *
5916762 CATGTACAAAAACCTGTGACAAG-CTATGATTAGCTTGTTTTACGCCATGTACAAAAACCTGTGA
1 CATGTACAAAAACCTGTGACAAGTC-ATGATTAGCTTGTTACACGCTATGTACAAAAACATGTGA
*
5916826 CAAGT
65 CAAGC
5916831 CATG
1 CATG
5916835 GTTAGCGTGT
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
68 1 0.01
69 118 0.96
70 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (69 bp):
CATGTACAAAAACCTGTGACAAGTCATGATTAGCTTGTTACACGCTATGTACAAAAACATGTGAC
AAGC
Found at i:5916878 original size:69 final size:68
Alignment explanation
Indices: 5916805--5917017 Score: 318
Period size: 69 Copynumber: 3.1 Consensus size: 68
5916795 CTTGTTTTAC
* *
5916805 GCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACACTATGTACAAAAATATGTG
1 GCCATGTACAAAAACCTGTGACAAG-CATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTG
*
5916870 ACAT
65 ACAA
*
5916874 GCCATGTACAAAAACTTGTGACAAGCCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTG
1 GCCATGTACAAAAACCTGTGACAAG-CATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTG
5916939 ACAA
65 ACAA
* * *
5916943 GCCAAGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACACGCCATGTACAAAAATCTGTG
1 GCCATGTACAAAAACCTGTGACAAGC-ATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTG
*
5917008 ATAA
65 ACAA
*
5917012 GTCATG
1 GCCATG
5917018 GTTAGGTTGT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
68 1 0.01
69 130 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (68 bp):
GCCATGTACAAAAACCTGTGACAAGCATGGTTAGCTTGTTACACGCTATGTACAAAAATATGTGA
CAA
Found at i:5916894 original size:114 final size:114
Alignment explanation
Indices: 5916688--5916943 Score: 413
Period size: 114 Copynumber: 2.2 Consensus size: 114
5916678 AACTATATGG
5916688 CACGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATAT
1 CACGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATAT
* *
5916753 GTGACAAGCCATGTACAAAAACCTGTGACAAGCTATGATTAGCTTGTTT
66 GTGACAAGCCATGTACAAAAACCTGTGACAAGCCATGATTAGCTTGTTA
* * *
5916802 TACGCCATGTACAAAAACCTGTGACAAGTCATGGTTAGCGTGTTACACACTATGTACAAAAATAT
1 CACGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATAT
* * *
5916867 GTGACATGCCATGTACAAAAACTTGTGACAAGCCATGGTTAGCTTGTTA
66 GTGACAAGCCATGTACAAAAACCTGTGACAAGCCATGATTAGCTTGTTA
* **
5916916 CACGCTATGTACAAAAATATGTGACAAG
1 CACGCCATGTACAAAAACCTGTGACAAG
5916944 CCAAGTACAA
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 130 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (114 bp):
CACGCCATGTACAAAAACCTGTGACAAGTCATGATTAGCATGTTACACACTATGTACAAAAATAT
GTGACAAGCCATGTACAAAAACCTGTGACAAGCCATGATTAGCTTGTTA
Found at i:5917046 original size:45 final size:45
Alignment explanation
Indices: 5916760--5917039 Score: 153
Period size: 45 Copynumber: 6.2 Consensus size: 45
5916750 TATGTGACAA
* **
5916760 GCCATGTACAAAAACCTGTGACAAGCTATGATTAGCTTGTTTTAC
1 GCCATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACAC
*
5916805 GCCATGTACAAAAACCTGTGACAAG-TCATGGTTAGCGTGTTACAC
1 GCCATGTACAAAAACCTGTGACAAGCT-ATGGTTAGCTTGTTACAC
* * ** * * * * * *
5916850 ACTATGTACAAAAATATGTGACATGCCAT-GTACAAAAACTTGTGACAA
1 GCCATGTACAAAAACCTGTGACAAGCTATGGT----TAGCTTGTTACAC
* * * * * * ** * *
5916898 GCCATGGT----TAGCTTGTTACACGCTAT-GTACAAAAATATGTGACAA
1 GCCAT-GTACAAAAACCTGTGACAAGCTATGGT---TAGCT-TGTTACAC
*
5916943 GCCAAGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACAC
1 GCCATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACAC
* * *
5916988 GCCATGTACAAAAATCTGTGATAAG-TCATGGTTAGGTTGTTACAC
1 GCCATGTACAAAAACCTGTGACAAGCT-ATGGTTAGCTTGTTACAC
5917033 GCCATGT
1 GCCATGT
5917040 TGAAAAAAAA
Statistics
Matches: 179, Mismatches: 42, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
44 11 0.06
45 138 0.77
46 2 0.01
48 24 0.13
49 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCATGTACAAAAACCTGTGACAAGCTATGGTTAGCTTGTTACAC
Found at i:5917084 original size:28 final size:31
Alignment explanation
Indices: 5917023--5917147 Score: 103
Period size: 25 Copynumber: 4.4 Consensus size: 31
5917013 TCATGGTTAG
5917023 GTTGTTACACGCCATGTTGAAAAAAAAAACT
1 GTTGTTACACGCCATGTTGAAAAAAAAAACT
*
5917054 GTTGTTACACGTCATG-T---AAAAAAAAC-
1 GTTGTTACACGCCATGTTGAAAAAAAAAACT
* * *
5917080 -ATGTTACATGCCATGGTT-----AAAAAA-G
1 GTTGTTACACGCCAT-GTTGAAAAAAAAAACT
*
5917105 GTTGTTACACGCCATGTTGAAAAAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAAAAA-ACT
5917137 GTTGTTACACG
1 GTTGTTACACG
5917148 ACATATTCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
25 20 0.26
26 13 0.17
27 10 0.13
30 6 0.08
31 16 0.21
32 11 0.14
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (31 bp):
GTTGTTACACGCCATGTTGAAAAAAAAAACT
Found at i:5917101 original size:26 final size:26
Alignment explanation
Indices: 5917025--5917130 Score: 81
Period size: 26 Copynumber: 3.9 Consensus size: 26
5917015 ATGGTTAGGT
*
5917025 TGTTACACGCCATGTTGAAAAAAAAAACTGT
1 TGTTACACGCCATGTTG---AAAAAAAC--A
* *
5917056 TGTTACACGTCATG-TAAAAAAAACA
1 TGTTACACGCCATGTTGAAAAAAACA
* ***
5917081 TGTTACATGCCATGGTT-AAAAAAGGT
1 TGTTACACGCCAT-GTTGAAAAAAACA
5917107 TGTTACACGCCATGTTGAAAAAAA
1 TGTTACACGCCATGTTGAAAAAAA
5917131 AATATTGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
25 14 0.23
26 25 0.40
27 9 0.15
30 1 0.02
31 13 0.21
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (26 bp):
TGTTACACGCCATGTTGAAAAAAACA
Found at i:5917849 original size:19 final size:20
Alignment explanation
Indices: 5917822--5917867 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
5917812 AGGAGACAAG
*
5917822 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
5917841 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
5917860 ATAATATT
1 ATAATATT
5917868 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:5918338 original size:20 final size:20
Alignment explanation
Indices: 5918273--5918330 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
5918263 TTTTGGCCCC
*
5918273 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTGGAGTATA
5918293 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
5918313 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
5918331 AGATTTGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:5918420 original size:28 final size:27
Alignment explanation
Indices: 5918383--5918435 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
5918373 TTTGGAGTAA
*
5918383 AAGGGTAAAATGGTAATTTTACCACCCC
1 AAGGGCAAAATGGTAATTTT-CCACCCC
*
5918411 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
5918436 ACCAGAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCCC
Found at i:5919037 original size:10 final size:10
Alignment explanation
Indices: 5919022--5919054 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5919012 GATGTTTATT
5919022 TGATGAATTA
1 TGATGAATTA
*
5919032 TGATGAATAA
1 TGATGAATTA
5919042 TGATGAATTA
1 TGATGAATTA
5919052 TGA
1 TGA
5919055 GCCTAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (10 bp):
TGATGAATTA
Found at i:5921291 original size:39 final size:39
Alignment explanation
Indices: 5921208--5921294 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
5921198 AAAAAGCTTA
* *
5921208 AAAAAAAG-TATAAAATTTACATAAAATTTCTAACCTAT
1 AAAAAATGATATAAAATTTACATAAAATTGCTAACCTAT
5921246 AAAAAATGATATAAAATTTACATAAAATTGCTAACCTAT
1 AAAAAATGATATAAAATTTACATAAAATTGCTAACCTAT
5921285 AAAAAATGAT
1 AAAAAATGAT
5921295 TAATCAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 7 0.15
39 39 0.85
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (39 bp):
AAAAAATGATATAAAATTTACATAAAATTGCTAACCTAT
Found at i:5933415 original size:29 final size:30
Alignment explanation
Indices: 5933349--5933421 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
5933339 TATTACGTTT
* * * * *
5933349 AATTAAGTTATTATATTTTTATTTTGAATT
1 AATTAAATTTTTATATATTTATTTTAAATC
*
5933379 AAATAAATTTTTATATATTT-TTTTAAATC
1 AATTAAATTTTTATATATTTATTTTAAATC
5933408 AATTAAATTTTTAT
1 AATTAAATTTTTAT
5933422 GATTAATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (30 bp):
AATTAAATTTTTATATATTTATTTTAAATC
Found at i:5934169 original size:33 final size:33
Alignment explanation
Indices: 5934104--5934176 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
5934094 GTTAACATAT
* * ** *
5934104 TATTAATATATTATAATTGATGATGATGTGACA
1 TATTAATATATCATAATTGATAACAATATGACA
*
5934137 TATTGATATATCATAATTGATAACAATATGACA
1 TATTAATATATCATAATTGATAACAATATGACA
*
5934170 TGTTAAT
1 TATTAAT
5934177 TTGACATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (33 bp):
TATTAATATATCATAATTGATAACAATATGACA
Found at i:5941471 original size:22 final size:20
Alignment explanation
Indices: 5941428--5941469 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5941418 AAGCTAATTC
5941428 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
5941448 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
5941468 TT
1 TT
5941470 TTTCTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (20 bp):
TTCATATATTATGAATCATT
Found at i:5947203 original size:60 final size:60
Alignment explanation
Indices: 5947130--5947319 Score: 380
Period size: 60 Copynumber: 3.2 Consensus size: 60
5947120 CCAAACAGCT
5947130 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
1 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
5947190 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
1 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
5947250 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
1 ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
5947310 ACTCACACCC
1 ACTCACACCC
5947320 CTAACCCAAC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 130 1.00
ACGTcount: A:0.33, C:0.36, G:0.13, T:0.18
Consensus pattern (60 bp):
ACTCACACCCAAATCCCAGCAATTCAATTCGCAGCAAACCAGCAGAACCCTATGTCGTTG
Found at i:5947611 original size:23 final size:24
Alignment explanation
Indices: 5947561--5947613 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5947551 AAGAGTGGCG
* **
5947561 GAGAGAAAGAGGGGAAGAACGGCT
1 GAGAGAAAGAGGGAAAGAACGGAA
*
5947585 GAGAGAAAGAGGGAAAGGA-GGAA
1 GAGAGAAAGAGGGAAAGAACGGAA
5947608 GAGAGA
1 GAGAGA
5947614 GAGAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.47, C:0.04, G:0.47, T:0.02
Consensus pattern (24 bp):
GAGAGAAAGAGGGAAAGAACGGAA
Found at i:5951025 original size:16 final size:16
Alignment explanation
Indices: 5951004--5951058 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
5950994 ACTATTAAAA
5951004 TTAATAAATATATTTT
1 TTAATAAATATATTTT
**
5951020 TTAATAAA-A-ATTAAAA
1 TTAATAAATATATT--TT
5951036 TTAATAAATATA-TTT
1 TTAATAAATATATTTT
5951051 TTAATAAA
1 TTAATAAA
5951059 AATTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 3 0.10
15 9 0.29
16 16 0.52
17 2 0.06
18 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATAAATATATTTT
Found at i:5951055 original size:31 final size:32
Alignment explanation
Indices: 5950997--5951068 Score: 137
Period size: 31 Copynumber: 2.3 Consensus size: 32
5950987 ATTCAATACT
5950997 ATTAAAATTAATAAATATATTTTTTAATAAAA
1 ATTAAAATTAATAAATATATTTTTTAATAAAA
5951029 ATTAAAATTAATAAATATA-TTTTTAATAAAA
1 ATTAAAATTAATAAATATATTTTTTAATAAAA
5951060 ATTAAAATT
1 ATTAAAATT
5951069 TTTATTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 21 0.52
32 19 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
ATTAAAATTAATAAATATATTTTTTAATAAAA
Found at i:5951220 original size:110 final size:105
Alignment explanation
Indices: 5951093--5951296 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 105
5951083 AGATAAATTT
*
5951093 TATTAATATTTATAATAAAAAATATTTACAAAAATTTAACAATGTAATAAAAAAATTTGTCCAGT
1 TATTAATATTTATAAT-AAAAATATTTACAAAAATTTAACAATGTAATAAAAAAATATGTCCAG-
5951158 TTTC-TCCGATTAAAAATCTTTTTACCAAAATTCCCAAAATTTTA
64 TTTCAT-CGATT-AAAATC-TTTTACCAAAATTCCCAAAATTTTA
*
5951202 NTATTAATATTTATAATAAAAATATTTACAAAAATTTAACAATGTAATAAATAAATATGTCCAGT
1 -TATTAATATTTATAATAAAAATATTTACAAAAATTTAACAATGTAATAAAAAAATATGTCCAGT
*
5951267 TTCATCGATTAAAATCTTTTACCAATATTC
65 TTCATCGATTAAAATCTTTTACCAAAATTC
5951297 ATATATTTAT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
106 13 0.14
107 6 0.07
108 9 0.10
109 46 0.51
110 16 0.18
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (105 bp):
TATTAATATTTATAATAAAAATATTTACAAAAATTTAACAATGTAATAAAAAAATATGTCCAGTT
TCATCGATTAAAATCTTTTACCAAAATTCCCAAAATTTTA
Found at i:5962597 original size:21 final size:21
Alignment explanation
Indices: 5962558--5962597 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5962548 AAAAAGTAAA
*
5962558 ATATCACATAATTAAATTATT
1 ATATCACATAAATAAATTATT
* *
5962579 ATATCATATAAATATATTA
1 ATATCACATAAATAAATTA
5962598 AATTAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATCACATAAATAAATTATT
Found at i:5962633 original size:10 final size:11
Alignment explanation
Indices: 5962602--5962657 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
5962592 ATATTAAATT
*
5962602 AATATTTATAA
1 AATATTTTTAA
5962613 AA-A-TTTT-A
1 AATATTTTTAA
5962621 AAT-TTTTTAA
1 AATATTTTTAA
* *
5962631 AATAATTTAAA
1 AATATTTTTAA
5962642 AATATTTTT-A
1 AATATTTTTAA
5962652 AATATT
1 AATATT
5962658 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
8 3 0.08
9 7 0.19
10 12 0.33
11 14 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATATTTTTAA
Found at i:5963674 original size:21 final size:21
Alignment explanation
Indices: 5963648--5963688 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
5963638 ACATGGAGTG
5963648 AAGTGAACGTTGCACCAAATA
1 AAGTGAACGTTGCACCAAATA
5963669 AAGTGAACGTTGCACCAAAT
1 AAGTGAACGTTGCACCAAAT
5963689 CAAGGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGTGAACGTTGCACCAAATA
Found at i:5966215 original size:28 final size:27
Alignment explanation
Indices: 5966159--5966215 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
5966149 TTGTATCAGC
* *
5966159 ATAAGTTAAAAGATCATTATCTACAAA
1 ATAAGTTAAAAGATCATTATCAAAAAA
5966186 ATAAGTATAAAAG-TCATTATCAAAAGAA
1 ATAAGT-TAAAAGATCATTATCAAAA-AA
5966214 AT
1 AT
5966216 TTCTTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (27 bp):
ATAAGTTAAAAGATCATTATCAAAAAA
Found at i:5969879 original size:23 final size:23
Alignment explanation
Indices: 5969848--5969892 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5969838 CAAGTAGTCA
*
5969848 GATAGACGTTGGAGCAAAACCAG
1 GATAAACGTTGGAGCAAAACCAG
*
5969871 GATAAACGTTGGGGCAAAACCA
1 GATAAACGTTGGAGCAAAACCA
5969893 AGAGAACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.13
Consensus pattern (23 bp):
GATAAACGTTGGAGCAAAACCAG
Found at i:5970195 original size:3 final size:3
Alignment explanation
Indices: 5970187--5970212 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5970177 CATTTTGCAA
5970187 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
5970213 ACCTGCCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5986601 original size:10 final size:10
Alignment explanation
Indices: 5986586--5986610 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5986576 GGCTCCTATT
5986586 TTTTTATTTA
1 TTTTTATTTA
5986596 TTTTTATTTA
1 TTTTTATTTA
5986606 TTTTT
1 TTTTT
5986611 TGACTTTTCA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:5987657 original size:23 final size:23
Alignment explanation
Indices: 5987631--5987676 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5987621 AGTCATAGCA
* *
5987631 TGACTGGTTAACAGGTCATTGTG
1 TGACTAGTTAACAGGTCACTGTG
* *
5987654 TGACTAGTTGATAGGTCACTGTG
1 TGACTAGTTAACAGGTCACTGTG
5987677 AGTGATACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (23 bp):
TGACTAGTTAACAGGTCACTGTG
Found at i:5988275 original size:23 final size:23
Alignment explanation
Indices: 5988251--5988324 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
5988241 TGACTTAATG
* *
5988251 ATAGGTCATAACGTGATTGGTTG
1 ATAGGTCATTACGTGATTGGTTC
* * * *
5988274 ATAGATCATTGCGTAAGTGGTTC
1 ATAGGTCATTACGTGATTGGTTC
*
5988297 ATAGGTCATTAGGTGATTGGTTC
1 ATAGGTCATTACGTGATTGGTTC
5988320 ATAGG
1 ATAGG
5988325 GTTAATATAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (23 bp):
ATAGGTCATTACGTGATTGGTTC
Found at i:5990818 original size:21 final size:21
Alignment explanation
Indices: 5990793--5990833 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5990783 ATGACAAATG
5990793 CAGCTGCAGATACAATCAATA
1 CAGCTGCAGATACAATCAATA
* *
5990814 CAGCTGTAGATGCAATCAAT
1 CAGCTGCAGATACAATCAAT
5990834 GCAATTGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
CAGCTGCAGATACAATCAATA
Found at i:5995085 original size:14 final size:15
Alignment explanation
Indices: 5995052--5995091 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
5995042 ATTAAGCATA
*
5995052 AAATTAACTAAGATT
1 AAATTAACTAACATT
*
5995067 AAATTAACTCACA-T
1 AAATTAACTAACATT
5995081 AAATTAACTAA
1 AAATTAACTAA
5995092 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATTAACTAACATT
Found at i:5996291 original size:767 final size:762
Alignment explanation
Indices: 5994808--5997108 Score: 3232
Period size: 767 Copynumber: 3.0 Consensus size: 762
5994798 GGTCGAACTG
* **
5994808 GATGAAGTGGTAAACATGAAAGTTGTATCTTTTTCTCTTATC-TTTCTAATGGTTTAAGAATCAT
1 GATGAAGTGGTAAACATGAAAGTTGTATCTTTTTTTCTTATCTTTTC-AATGGTTTAAGAATCGC
* * * *
5994872 TTTATTTGGAGCTCTGTAGAGAAAGTTATAATCGAAATACCAAAACATATGGAGTGTAAGTCTGC
65 TTCATTTGGAGCTCTGTAGAGAAAGTTATGATCGAAATACCGAAACATATGCAGTGTAAGTCTGC
*
5994937 ACCTTGAAATTGCTCTCCTTTTTTCATTAAAATTCTTCTTTCATCAAACACCTACAAAAGTACAA
130 ACCTTGAAATTGCTCTCCTTCTTTCATTAAAATTCTTCTTTCATCAAACACCTACAAAAGTACAA
* *
5995002 ATAAATTAATAACAACCTATCTTAACTACA-TATACACAAAATTAAGCATAAAATTAACTAAGAT
195 ATAAATCAATAACAACCTATCTTAACCACATTA-ACACAAAATTAAGCATAAAATTAACTAAGAT
* *
5995066 TAAATTAACTCACATAAATTAACTAATTTAAAATAATTTAAATAAAACCTACTAATTTCTATGCA
259 TAGATTGACTCAC-TAAATTAACTAATTTAAAATAATTTAAATAAAACCTACTAATTTCTATGCA
* * *
5995131 TTACTACACGAACTAAGTTAAATCACTATCAAAATTAAACCCAAATAACTCTATATCATAGAGTT
323 TTACTACAAGAACTAAGCTAAAT-ACTATCAAAATT-AAGCCAAATAACTCTATATCATAGAGTT
* * *
5995196 ATCATGTACTCTACCTTATTATCGTTAATACCATCTGCCTTCACTGATCCAACTACTCTATAGTC
386 ATCATGTACTCCACCTTATTATCG-TAATACCATCTGCCTTCACCGATCCAACTACTCTATGGTC
* * *
5995261 ACCAAAAAAGATCCTTGGTTTATCCTCAACATCAAATTCAATCATC-AGATTAATCTCGTGAAAT
450 ACCAAGAAAGATCTTTGGTTCATCCTCAACATCAAATTCAATCATCGA-ATTAATCTCGTGAAAT
5995325 TCATAATAGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCTCCTTTATGGTATGTTG
514 TCATAATAGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCTCCTTTATGGTATGTTG
* **
5995390 GTCAGTGAGATAATTGACTTCTCTTTCGTCGACACTCGGTGTGATCCACCTAAATCCCATGCTTT
579 GTTAGTGAGATAATTGACTTCTCTTT-GTCGACACTCGGTGTGATCCACCTAAATCCCATGCCCT
* * * *
5995455 TTTCAACCCTATTAATGAAATGACCATTATGAATTTGGGATTTCAGTTGAAGAACGCCCAATAGG
643 TTTCAACCCTATTAATGAGATCACCATTATGAATTTGGGATTTGAGTTGAAGAACGACCAATAGG
** * *
5995520 TCAAGAAGGCAGTTGATGAGCTTCAAGTTCATGATGAGGGCAATGAGGGGGAATA
708 TCAAGAAGGCAGTTGATGAGCTTCGGGTTCATGATGAGGGCAATGAGGGAGAACA
* * * *
5995575 GATGAAGTGGTAAAAATTAAAGTTATATCTTTTTTTCTTATCTTTTCAATGGCTTAAGAATCGCT
1 GATGAAGTGGTAAACATGAAAGTTGTATCTTTTTTTCTTATCTTTTCAATGGTTTAAGAATCGCT
* * *
5995640 TCATTTGGAGCTCTGTAGAGAAAGTTATGCTGGAAATACCGAAACATATGCAGTGTTAGTCTGCA
66 TCATTTGGAGCTCTGTAGAGAAAGTTATGATCGAAATACCGAAACATATGCAGTGTAAGTCTGCA
* * * * *
5995705 CCTTAAAATTGCTCTCATTCTTTCACTAAAATTCTTCTTTCATCAAACACTTACAAAAGCACAAA
131 CCTTGAAATTGCTCTCCTTCTTTCATTAAAATTCTTCTTTCATCAAACACCTACAAAAGTACAAA
** *
5995770 TAAATCAATAACAAATTATCTTAACCACATTAACACTAAATTAAGCATAAAATTAACTAAGATTA
196 TAAATCAATAACAACCTATCTTAACCACATTAACACAAAATTAAGCATAAAATTAACTAAGATTA
* *
5995835 GATTGACTCATCTAAATTAATTAATTTAAAATAATTTAAATAAAACTTACTAA-TTCTAT-CAAT
261 GATTGACTCA-CTAAATTAACTAATTTAAAATAATTTAAATAAAACCTACTAATTTCTATGC-AT
* *
5995898 TACTACAAGAACTAAGCAAAAGTACTATCAAAATTAAGCCTACATAACTCTATATCATAGAGTTA
324 TACTACAAGAACTAAGCTAAA-TACTATCAAAATTAAGCC-AAATAACTCTATATCATAGAGTTA
*
5995963 TCATGTACTCCACCTTATTATCAGTAGTACCATCTGCCTTCACCGATCCAACTACTCTATGGTCA
387 TCATGTACTCCACCTTATTATC-GTAATACCATCTGCCTTCACCGATCCAACTACTCTATGGTCA
* **
5996028 CCAAGAAAGAATCTTTGGTTCATCCTTAACATCAAATTCAATTGTCGAATTAATCTCGTGAAATT
451 CCAAGAAAG-ATCTTTGGTTCATCCTCAACATCAAATTCAATCATCGAATTAATCTCGTGAAATT
* * * * * * *
5996093 CATAATAGATTACATGCTGCACATCTTTCGTAGGGGTGTAAAAAACCTCTTTTATGGTATGTTGG
515 CATAATAGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCTCCTTTATGGTATGTTGG
* *
5996158 TTAGTGAGATAATTGACTTCTCTTCTGTCGACACTCAGTGTGATCCACCTAAATCCCATGCCCTC
580 TTAGTGAGATAATTGACTTCTCTT-TGTCGACACTCGGTGTGATCCACCTAAATCCCATGCCCTT
* * * * * **
5996223 TTCAACCCTATTAATTAGATCAGCATTATCAATTTGGGATTTGAGTTGAAGAATGGCCAACGGGT
644 TTCAACCCTATTAATGAGATCACCATTATGAATTTGGGATTTGAGTTGAAGAACGACCAATAGGT
* * *
5996288 CAAGAAGGTAGTTGATGAGCTTTGGGTTCATGATGAGGGCAATGAGGGAGAACG
709 CAAGAAGGCAGTTGATGAGCTTCGGGTTCATGATGAGGGCAATGAGGGAGAACA
* *
5996342 GATGAAGTGGTAAACATGAAAGTTGTATCTTTTTCTT-TTAT-TTTTCCAATGGTTTAAAAATTG
1 GATGAAGTGGTAAACATGAAAGTTGTATCTTTTT-TTCTTATCTTTT-CAATGGTTTAAGAATCG
* * * *
5996405 CTTCATTTAGAGCTCTTTAGAGAGAGTTATGATCGAAATACCGAAACATATGCAGTGCAAGTCTG
64 CTTCATTTGGAGCTCTGTAGAGAAAGTTATGATCGAAATACCGAAACATATGCAGTGTAAGTCTG
* * * * *
5996470 CACTTTGAAATTGTTTTCCTTCTTTCATTAATATTCTTCTTTCATCAAACACCTACAAAAGTATA
129 CACCTTGAAATTGCTCTCCTTCTTTCATTAAAATTCTTCTTTCATCAAACACCTACAAAAGTACA
* * *
5996535 AATAAATCAATAACAACCTATCTTAACCACATTAACACCAATTTAAGCACAAAATTAACTAAGAT
194 AATAAATCAATAACAACCTATCTTAACCACATTAACACAAAATTAAGCATAAAATTAACTAAGAT
*
5996600 TAGATTGACTCACCTAAATTAACTAATTTAAAATAATTTAAATAAAACCTATTAATTTCTATGCA
259 TAGATTGACTCA-CTAAATTAACTAATTTAAAATAATTTAAATAAAACCTACTAATTTCTATGCA
* * * *
5996665 TTATTATAAGAACTAAGCTAAATTACTATCAAAATTAAGTCCAAATAAGTTTATATCATAGAGTT
323 TTACTACAAGAACTAAGCTAAA-TACTATCAAAATTAAG-CCAAATAACTCTATATCATAGAGTT
* * * * * * * * *
5996730 ATCATGTACTCCACCTTATCATTGGTATTACCATTTGCCTTCATCAATCCAACTATTCCAAGGTC
386 ATCATGTACTCCACCTTATTA-TCGTAATACCATCTGCCTTCACCGATCCAACTACTCTATGGTC
** * * * *
5996795 ATTAAGAAAGATCTTTGGTTCATCCTCAAGATTAAATTCAATCATCGGATTAATCTTGTGAAATT
450 ACCAAGAAAGATCTTTGGTTCATCCTCAACATCAAATTCAATCATCGAATTAATCTCGTGAAATT
*
5996860 CATAATAGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCACCTTTATGGTATGTTGG
515 CATAATAGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCTCCTTTATGGTATGTTGG
* * * ** * *
5996925 TTAGTGAGATGATTGACTTCTCTTTTATCGACACTTGGTGTGATCTTCCTAAGTCTCATGCCCTT
580 TTAGTGAGATAATTGACTTCTC-TTTGTCGACACTCGGTGTGATCCACCTAAATCCCATGCCCTT
* * *
5996990 TTTAACCCTATTAATGAGATCACCATTATGAATTTAGGATTTGAGTTGAAGAACGACCAATAAGT
644 TTCAACCCTATTAATGAGATCACCATTATGAATTTGGGATTTGAGTTGAAGAACGACCAATAGGT
*** *
5997055 CAAGAAGGCAGCCAATGAGCTTCGGGTCCATGATGAGGGCAATGAAGGGA-AACA
709 CAAGAAGGCAGTTGATGAGCTTCGGGTTCATGATGAGGGCAATG-AGGGAGAACA
5997109 TAGTGCTTAT
Statistics
Matches: 1352, Mismatches: 164, Indels: 36
0.87 0.11 0.02
Matches are distributed among these distances:
765 5 0.00
766 132 0.10
767 1069 0.79
768 142 0.11
769 4 0.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (762 bp):
GATGAAGTGGTAAACATGAAAGTTGTATCTTTTTTTCTTATCTTTTCAATGGTTTAAGAATCGCT
TCATTTGGAGCTCTGTAGAGAAAGTTATGATCGAAATACCGAAACATATGCAGTGTAAGTCTGCA
CCTTGAAATTGCTCTCCTTCTTTCATTAAAATTCTTCTTTCATCAAACACCTACAAAAGTACAAA
TAAATCAATAACAACCTATCTTAACCACATTAACACAAAATTAAGCATAAAATTAACTAAGATTA
GATTGACTCACTAAATTAACTAATTTAAAATAATTTAAATAAAACCTACTAATTTCTATGCATTA
CTACAAGAACTAAGCTAAATACTATCAAAATTAAGCCAAATAACTCTATATCATAGAGTTATCAT
GTACTCCACCTTATTATCGTAATACCATCTGCCTTCACCGATCCAACTACTCTATGGTCACCAAG
AAAGATCTTTGGTTCATCCTCAACATCAAATTCAATCATCGAATTAATCTCGTGAAATTCATAAT
AGATGACATGTTGCACATCATCCATGGGGGTGTAAAAAACCTCCTTTATGGTATGTTGGTTAGTG
AGATAATTGACTTCTCTTTGTCGACACTCGGTGTGATCCACCTAAATCCCATGCCCTTTTCAACC
CTATTAATGAGATCACCATTATGAATTTGGGATTTGAGTTGAAGAACGACCAATAGGTCAAGAAG
GCAGTTGATGAGCTTCGGGTTCATGATGAGGGCAATGAGGGAGAACA
Found at i:5998739 original size:43 final size:43
Alignment explanation
Indices: 5998620--5998746 Score: 184
Period size: 43 Copynumber: 3.0 Consensus size: 43
5998610 CCCGCCACAC
* **
5998620 TCAGCTCATGTGCACTCCCTAC-TCGCACATAGCCAGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACACCGCACATAGCTGGGTCATCA
* *
5998663 TCAGTTCATGTGCACTCCCACACTGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
*
5998706 TCAGCTCATGTGTACTCCCACACCGCACATAGCTGGGTCAT
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCAT
5998747 TATTATCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
42 2 0.03
43 73 0.97
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
Found at i:6003184 original size:22 final size:21
Alignment explanation
Indices: 6003139--6003184 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
6003129 TTTTCATTCG
*
6003139 TTGTGTGACCCAATGTTAGCA
1 TTGTGTGACCCAATGTAAGCA
6003160 TTGTGTGACCTCATAT-TAAGCA
1 TTGTGTGACC-CA-ATGTAAGCA
6003182 TTG
1 TTG
6003185 CATAACCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 10 0.45
23 2 0.09
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (21 bp):
TTGTGTGACCCAATGTAAGCA
Found at i:6007552 original size:22 final size:20
Alignment explanation
Indices: 6007505--6007553 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
6007495 CAGTTATGCA
*
6007505 AAGCTTAATATCCAAT-CGC
1 AAGCTTAATATCCAGTACGC
6007524 ACAGCTTAATATCCAGTGACGC
1 A-AGCTTAATATCCAGT-ACGC
6007546 AATGCTTA
1 AA-GCTTA
6007554 TAAAATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 14 0.56
21 1 0.04
22 9 0.36
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (20 bp):
AAGCTTAATATCCAGTACGC
Found at i:6017342 original size:28 final size:30
Alignment explanation
Indices: 6017310--6017385 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 30
6017300 TTCATAAAAT
*
6017310 TTCAAATAAGTTTTTAT-TTTTTATTATA-
1 TTCAAATAAGTTTTTATATTTTCATTATAG
* * *
6017338 TTC-AATCAAATTCTTATATTTTCATTTTAG
1 TTCAAAT-AAGTTTTTATATTTTCATTATAG
*
6017368 ATCAAATAAGTTTTTATA
1 TTCAAATAAGTTTTTATA
6017386 ACTAATGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.08
28 11 0.30
29 9 0.24
30 11 0.30
31 3 0.08
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (30 bp):
TTCAAATAAGTTTTTATATTTTCATTATAG
Found at i:6017385 original size:30 final size:29
Alignment explanation
Indices: 6017311--6017385 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
6017301 TCATAAAATT
* *
6017311 TCAAATAAGTTTTTAT-TTTTTATTATAT
1 TCAAATAAGTTTTTATATTTTCATTATAA
* * *
6017339 TC-AATCAAATTCTTATATTTTCATTTTAGA
1 TCAAAT-AAGTTTTTATATTTTCATTATA-A
6017369 TCAAATAAGTTTTTATA
1 TCAAATAAGTTTTTATA
6017386 ACTAATGATT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
27 3 0.08
28 10 0.28
29 9 0.25
30 11 0.31
31 3 0.08
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (29 bp):
TCAAATAAGTTTTTATATTTTCATTATAA
Found at i:6017907 original size:15 final size:15
Alignment explanation
Indices: 6017874--6017928 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
6017864 ATTATAAAAA
*
6017874 TAAATATTTAGTAATTT
1 TAAATATTTAAT-A-TT
*
6017891 TATATATTTAATATT
1 TAAATATTTAATATT
* *
6017906 TAAATAATTAGTATT
1 TAAATATTTAATATT
6017921 TAAATATT
1 TAAATATT
6017929 ATATTATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 21 0.66
16 1 0.03
17 10 0.31
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
TAAATATTTAATATT
Found at i:6022182 original size:2 final size:2
Alignment explanation
Indices: 6022175--6022201 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6022165 TGGGAAGAAG
6022175 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
6022202 ATATTTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6025047 original size:55 final size:55
Alignment explanation
Indices: 6024964--6025112 Score: 167
Period size: 55 Copynumber: 2.7 Consensus size: 55
6024954 GAATATTTTA
* *
6024964 GAAGACAAAG-TTTCAAGATCAAATCGTGTTCAAGATCAAGTTGTCAAGACCCTT
1 GAAGACGAAGTTTTCAAGATCAAATCGTGTTCAAGATCAAGTTGCCAAGACCCTT
* ** * *
6025018 GAAGACGAAGTTTTCAAGATTAGGTCGTGTTTAAGATCAAGTTGCCTAGACCCTT
1 GAAGACGAAGTTTTCAAGATCAAATCGTGTTCAAGATCAAGTTGCCAAGACCCTT
* * * * *
6025073 GAAGATGAAGTTCTCAAG-TCCATATCGTATCCAAGATCAA
1 GAAGACGAAGTTTTCAAGAT-CAAATCGTGTTCAAGATCAA
6025113 TTTCGAGTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
54 10 0.13
55 68 0.87
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (55 bp):
GAAGACGAAGTTTTCAAGATCAAATCGTGTTCAAGATCAAGTTGCCAAGACCCTT
Found at i:6026470 original size:31 final size:31
Alignment explanation
Indices: 6026435--6026494 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6026425 TTTTGTTAAA
* *
6026435 TTTTATTATATTTGATGTTATTATTATTTTG
1 TTTTATTATAATTGATGTTATAATTATTTTG
* *
6026466 TTTTATTATAATTGTTTTTATAATTATTT
1 TTTTATTATAATTGATGTTATAATTATTT
6026495 ATTTTAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (31 bp):
TTTTATTATAATTGATGTTATAATTATTTTG
Found at i:6028151 original size:21 final size:21
Alignment explanation
Indices: 6028127--6028175 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
6028117 AAGACAATGA
6028127 TTGTCTTAATCTA-GACAAC-AC
1 TTGTCTTAA-CTATGAC-ACTAC
6028148 TTGTCTTAACTATGACACTAC
1 TTGTCTTAACTATGACACTAC
6028169 TTGTCTT
1 TTGTCTT
6028176 TGGACTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (21 bp):
TTGTCTTAACTATGACACTAC
Found at i:6028681 original size:17 final size:16
Alignment explanation
Indices: 6028641--6028683 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 16
6028631 CATTGGAGAA
6028641 TTTATTTATTTAATTT
1 TTTATTTATTTAATTT
6028657 TTTA---ATTTAATTT
1 TTTATTTATTTAATTT
6028670 TTTATTTTATTTAA
1 TTTA-TTTATTTAA
6028684 ATATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTATTTAATTT
Found at i:6029643 original size:44 final size:44
Alignment explanation
Indices: 6029535--6029647 Score: 165
Period size: 44 Copynumber: 2.5 Consensus size: 44
6029525 AAAGAAAATA
*
6029535 AGAATGAGCGCTACGTAACTTTAAATAAGAATAAACTCCTCATCT
1 AGAATGAG-GCTACGAAACTTTAAATAAGAATAAACTCCTCATCT
* *
6029580 AGAATGAGACTGC-ATAACTTTAAATAAGAATAAACTCCTCATCT
1 AGAATGAGGCTACGA-AACTTTAAATAAGAATAAACTCCTCATCT
*
6029624 AGAATGAGGTTACGAAACTTTAAA
1 AGAATGAGGCTACGAAACTTTAAA
6029648 AGGAAATGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 51 0.85
45 9 0.15
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (44 bp):
AGAATGAGGCTACGAAACTTTAAATAAGAATAAACTCCTCATCT
Found at i:6029684 original size:75 final size:75
Alignment explanation
Indices: 6029594--6029734 Score: 237
Period size: 75 Copynumber: 1.9 Consensus size: 75
6029584 TGAGACTGCA
* *
6029594 TAACTTTAAATAAGAATAAACTCCTCATCTAGAATGAGGTTACGAAACTTTAAAAGGAAATGAGC
1 TAACTTTAAATAAGAATAAACTCCTCATCTAGAATGAGGCTACGAAACTTTAAAAGGAAATAAGC
6029659 TAAGGCTATG
66 TAAGGCTATG
* * *
6029669 TAACTTTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACGTAACTTTAAAAGGAAATAAGC
1 TAACTTTAAATAAGAATAAACTCCTCATCTAGAATGAGGCTACGAAACTTTAAAAGGAAATAAGC
6029734 T
66 T
6029735 CCTCATCTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (75 bp):
TAACTTTAAATAAGAATAAACTCCTCATCTAGAATGAGGCTACGAAACTTTAAAAGGAAATAAGC
TAAGGCTATG
Found at i:6029704 original size:119 final size:121
Alignment explanation
Indices: 6029490--6029779 Score: 372
Period size: 119 Copynumber: 2.4 Consensus size: 121
6029480 TTCAAAGATA
* * * *
6029490 AAACTCTTCAT-TGAGAATGAGGCCACGTAACTTTAAAAGAAAATAAGAATGAGCGCTACGTAAC
1 AAACTCCTCATCT-AGAATGAGGCTACGTAACTTTAAAAGGAAATAAGAATAAGCGCTACGTAAC
*
6029554 TTTAAATAAGAATAAACTCCTCATCTAGAATGAGACTGCATAACTTTAAATAAG-AAT
65 TTTAAATAAGAATAAACTCCTCATCTAGAATGAGACTACATAACTTTAAA-AAGAAAT
* * * * *
6029611 AAACTCCTCATCTAGAATGAGGTTACGAAACTTTAAAAGGAAATGAG-CTAAG-GCTATGTAACT
1 AAACTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATAAGAATAAGCGCTACGTAACT
* * * * *
6029674 TTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACGTAACTTTAAAAGGAAAT
66 TTAAATAAGAATAAACTCCTCATCTAGAATGAGACTACATAACTTTAAAAAGAAAT
* * *
6029730 AAGCTCCTCATCTTGAATGAGGCTACGTAATTTTAAAAGGAAATAAGAAT
1 AAACTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATAAGAAT
6029780 GAGCTTCTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
118 2 0.01
119 98 0.68
120 4 0.03
121 39 0.27
122 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (121 bp):
AAACTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATAAGAATAAGCGCTACGTAACT
TTAAATAAGAATAAACTCCTCATCTAGAATGAGACTACATAACTTTAAAAAGAAAT
Found at i:6029731 original size:44 final size:44
Alignment explanation
Indices: 6029661--6029957 Score: 346
Period size: 44 Copynumber: 6.6 Consensus size: 44
6029651 AAATGAGCTA
* *
6029661 AGGCTATGTAACTTTAAATAAG-AATAAGCTCCTCATCTTGAATG
1 AGGCTACGTAACTTTAAA-AGGAAATAAGCTCCTCATCTTGAATG
6029705 AGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCATCTTGAATG
1 AGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCATCTTGAATG
* * *
6029749 AGGCTACGTAATTTTAAAAGGAAATAAGAATGAGCTTCTCATCTAGAATG
1 AGGCTACGTAACTTTAAAAGGAAAT----A--AGCTCCTCATCTTGAATG
* * *
6029799 AGGCTACGTAACTTTAAAAGGAAATGAGCTCCGCATCTTAAATG
1 AGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCATCTTGAATG
* * * **
6029843 AGGTTACGTAACTGTAAATAAG-AATAAGCTTTTCATCTTGAATG
1 AGGCTACGTAACTTTAAA-AGGAAATAAGCTCCTCATCTTGAATG
* * * *
6029887 AGGTTACATAACTTTAAAAGGAAATGAGCCCCTCATCTTGAATG
1 AGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCATCTTGAATG
*
6029931 AGACTACGTAACTTTAAAAGGAAATAA
1 AGGCTACGTAACTTTAAAAGGAAATAA
6029958 AAATGAGCAC
Statistics
Matches: 214, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
43 4 0.02
44 167 0.78
45 2 0.01
48 1 0.00
50 40 0.19
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (44 bp):
AGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCATCTTGAATG
Found at i:6029816 original size:94 final size:93
Alignment explanation
Indices: 6029676--6029998 Score: 404
Period size: 94 Copynumber: 3.5 Consensus size: 93
6029666 ATGTAACTTT
* *
6029676 AAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACGTAACTTTAAAAGGAAATAAGCTCCTCAT
1 AAATAAGAATAAGCTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATGAGCTCCTCAT
6029741 CTTGAATGAGGCTACGTAATTTTAAAAGG
66 CTTGAATGAGGCTACGTAA-TTTAAAAGG
* * *
6029770 AAATAAGAATGAGCTTCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATGAGCTCCGCAT
1 AAATAAGAATAAGCTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATGAGCTCCTCAT
* * * *
6029835 CTTAAATGAGGTTACGTAA-CT----GT
66 CTTGAATGAGGCTACGTAATTTAAAAGG
** * * * *
6029858 AAATAAGAATAAGCTTTTCATCTTGAATGAGGTTACATAACTTTAAAAGGAAATGAGCCCCTCAT
1 AAATAAGAATAAGCTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATGAGCTCCTCAT
*
6029923 CTTGAATGAGACTACGTAACTTTAAAAGG
66 CTTGAATGAGGCTACGTAA-TTTAAAAGG
* * * * *
6029952 AAATAAAAATGAGCACCTCATCTACAATAAGGCTACGTAACTTTAAA
1 AAATAAGAATAAGCTCCTCATCTAGAATGAGGCTACGTAACTTTAAA
6029999 TACTTAAATA
Statistics
Matches: 192, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
88 75 0.39
90 1 0.01
92 1 0.01
94 115 0.60
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (93 bp):
AAATAAGAATAAGCTCCTCATCTAGAATGAGGCTACGTAACTTTAAAAGGAAATGAGCTCCTCAT
CTTGAATGAGGCTACGTAATTTAAAAGG
Found at i:6029957 original size:88 final size:88
Alignment explanation
Indices: 6029661--6029948 Score: 387
Period size: 88 Copynumber: 3.2 Consensus size: 88
6029651 AAATGAGCTA
* *
6029661 AGGCTATGTAACTTTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACGTAACTTTAAAAGG
1 AGGCTACGTAACTTTAAATAAGAATAAGCTTCTCATCTTGAATGAGGCTACGTAACTTTAAAAGG
*
6029726 AAATAAGCTCCTCATCTTGAATG
66 AAATGAGCTCCTCATCTTGAATG
* * *
6029749 AGGCTACGTAATTTTAAAAGGAAATAAGAATGAGCTTCTCATCTAGAATGAGGCTACGTAACTTT
1 AGGCTACGTAACTTT------AAATAAGAATAAGCTTCTCATCTTGAATGAGGCTACGTAACTTT
* *
6029814 AAAAGGAAATGAGCTCCGCATCTTAAATG
60 AAAAGGAAATGAGCTCCTCATCTTGAATG
* * * * *
6029843 AGGTTACGTAACTGTAAATAAGAATAAGCTTTTCATCTTGAATGAGGTTACATAACTTTAAAAGG
1 AGGCTACGTAACTTTAAATAAGAATAAGCTTCTCATCTTGAATGAGGCTACGTAACTTTAAAAGG
*
6029908 AAATGAGCCCCTCATCTTGAATG
66 AAATGAGCTCCTCATCTTGAATG
*
6029931 AGACTACGTAACTTTAAA
1 AGGCTACGTAACTTTAAA
6029949 AGGAAATAAA
Statistics
Matches: 172, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
88 93 0.54
94 79 0.46
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (88 bp):
AGGCTACGTAACTTTAAATAAGAATAAGCTTCTCATCTTGAATGAGGCTACGTAACTTTAAAAGG
AAATGAGCTCCTCATCTTGAATG
Found at i:6029987 original size:182 final size:182
Alignment explanation
Indices: 6029668--6029998 Score: 536
Period size: 182 Copynumber: 1.8 Consensus size: 182
6029658 CTAAGGCTAT
* *
6029668 GTAACTTTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACGTAACTTTAAAAGGAAATAAG
1 GTAACTGTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACATAACTTTAAAAGGAAATAAG
* * * * ** *
6029733 CTCCTCATCTTGAATGAGGCTACGTAATTTTAAAAGGAAATAAGAATGAGCTTCTCATCTAGAAT
66 CCCCTCATCTTGAATGAGACTACGTAACTTTAAAAGGAAATAAAAATGAGCACCTCATCTACAAT
*
6029798 GAGGCTACGTAACTTTAAAAGGAAATGAGCTCCGCATCTTAAATGAGGTTAC
131 AAGGCTACGTAACTTTAAAAGGAAATGAGCTCCGCATCTTAAATGAGGTTAC
** * *
6029850 GTAACTGTAAATAAGAATAAGCTTTTCATCTTGAATGAGGTTACATAACTTTAAAAGGAAATGAG
1 GTAACTGTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACATAACTTTAAAAGGAAATAAG
6029915 CCCCTCATCTTGAATGAGACTACGTAACTTTAAAAGGAAATAAAAATGAGCACCTCATCTACAAT
66 CCCCTCATCTTGAATGAGACTACGTAACTTTAAAAGGAAATAAAAATGAGCACCTCATCTACAAT
6029980 AAGGCTACGTAACTTTAAA
131 AAGGCTACGTAACTTTAAA
6029999 TACTTAAATA
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
182 135 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (182 bp):
GTAACTGTAAATAAGAATAAGCTCCTCATCTTGAATGAGGCTACATAACTTTAAAAGGAAATAAG
CCCCTCATCTTGAATGAGACTACGTAACTTTAAAAGGAAATAAAAATGAGCACCTCATCTACAAT
AAGGCTACGTAACTTTAAAAGGAAATGAGCTCCGCATCTTAAATGAGGTTAC
Found at i:6032176 original size:9 final size:9
Alignment explanation
Indices: 6032162--6032191 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6032152 ATGTTTGGCA
6032162 TTTAATGGT
1 TTTAATGGT
*
6032171 TTTAATGCT
1 TTTAATGGT
6032180 TTTAATGGT
1 TTTAATGGT
6032189 TTT
1 TTT
6032192 CTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.60
Consensus pattern (9 bp):
TTTAATGGT
Found at i:6033760 original size:17 final size:17
Alignment explanation
Indices: 6033728--6033760 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6033718 TTTTAAAGTT
6033728 TGTTTTGTTATATTTGA
1 TGTTTTGTTATATTTGA
6033745 TGTTCTTGTTAT-TTTG
1 TGTT-TTGTTATATTTG
6033761 TTTTGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.03, G:0.18, T:0.67
Consensus pattern (17 bp):
TGTTTTGTTATATTTGA
Found at i:6033788 original size:31 final size:31
Alignment explanation
Indices: 6033726--6033788 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
6033716 AATTTTAAAG
* * **
6033726 TTTGTTTTGTTATATTTGATGTTCTTGTTAT
1 TTTGTTTTGTTATAATTGATGTTATAATTAT
* *
6033757 TTTGTTTTGTTATAATTGTTTTTATAATTAT
1 TTTGTTTTGTTATAATTGATGTTATAATTAT
6033788 T
1 T
6033789 GATTTTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.68
Consensus pattern (31 bp):
TTTGTTTTGTTATAATTGATGTTATAATTAT
Found at i:6036155 original size:81 final size:79
Alignment explanation
Indices: 6036009--6036161 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 79
6035999 TTATCTGTTG
* ** *
6036009 AGATAATTTAAAGATAATATTTAAATTAGACTAATTAAAATTTAATTATTGATAATTCAATTTAT
1 AGATAATTTAAAGATAATATTCAAATTAGACTAATTAAAATTTAACAATTGATAATTCAAGTTAT
6036074 CTCTAAATAAATCA
66 CTCTAAATAAATCA
* ** * *
6036088 AGATAATTTAGAGATAATATTCAAATTTTTTACTAATTAAAATTTACCAATTGATCA-TCTAAGT
1 AGATAATTTAAAGATAATATTCAAA--TTAGACTAATTAAAATTTAACAATTGATAATTC-AAGT
6036152 TATCTCTAAA
63 TATCTCTAAA
6036162 AATTTTTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 23 0.37
80 2 0.03
81 37 0.60
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (79 bp):
AGATAATTTAAAGATAATATTCAAATTAGACTAATTAAAATTTAACAATTGATAATTCAAGTTAT
CTCTAAATAAATCA
Found at i:6037054 original size:27 final size:29
Alignment explanation
Indices: 6037024--6037169 Score: 98
Period size: 26 Copynumber: 5.3 Consensus size: 29
6037014 ACGCATTAAA
* * *
6037024 GTGTAACAA-AATA-TTTTTGAATATGTC
1 GTGTAACAATAATATTTTTTCAACATGGC
6037051 GTGTAACAATAATATTTTTTCAACATGGC
1 GTGTAACAATAATATTTTTTCAACATGGC
*
6037080 GTGTAAC-A-ACT-TTTTTT-AACCATGGC
1 GTGTAACAATAATATTTTTTCAA-CATGGC
*
6037106 GTGTAAC-AT-AT-TTTTTT--ACATGAC
1 GTGTAACAATAATATTTTTTCAACATGGC
* * * * *
6037130 GTTTAACAACAGTATTTTTTTTCAAAATGAC
1 GTGTAACAATA--ATATTTTTTCAACATGGC
6037161 GTGTAACAA
1 GTGTAACAA
6037170 CCTAACCATG
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
24 11 0.11
25 4 0.04
26 27 0.28
27 11 0.11
28 7 0.07
29 24 0.24
31 14 0.14
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (29 bp):
GTGTAACAATAATATTTTTTCAACATGGC
Found at i:6037211 original size:45 final size:45
Alignment explanation
Indices: 6037160--6037250 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
6037150 TTCAAAATGA
*
6037160 CGTGTAACAACCTAACCATGGCTTGTCACAGGTTTTTGTAATTGG
1 CGTGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTAATTGG
* *
6037205 CGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACTTGG
1 CGTGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTAATTGG
6037250 C
1 C
6037251 TTGTCACATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (45 bp):
CGTGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTAATTGG
Found at i:6037265 original size:69 final size:69
Alignment explanation
Indices: 6037176--6037388 Score: 288
Period size: 69 Copynumber: 3.1 Consensus size: 69
6037166 ACAACCTAAC
** * *
6037176 CATGGCTTGTCACAGGTTTTTGTA-ATTGGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTT
1 CATGGCTTGTCACATATTTTTGTACA-TAGCGTGTAACAAGCTAACCATGGCTTGTCACAGGTTT
6037240 TTGTA
65 TTGTA
* * *
6037245 CTTGGCTTGTCACATATTTTTGTACATAGCGTGTAACACA-CTAACCATGGCTTGTCATAAGTTT
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACA-AGCTAACCATGGCTTGTCACAGGTTT
6037309 TTGTA
65 TTGTA
* * *
6037314 CATGG-TGTATCACATATTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAGGTTT
1 CATGGCT-TGTCACATATTTTTGTACATAGCGTGTAACAAGCTAACCATGGCTTGTCACAGGTTT
6037378 TTGTA
65 TTGTA
6037383 CATGGC
1 CATGGC
6037389 ATGTAACAAG
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
68 1 0.01
69 123 0.98
70 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (69 bp):
CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAAGCTAACCATGGCTTGTCACAGGTTTT
TGTA
Found at i:6037370 original size:183 final size:183
Alignment explanation
Indices: 6037160--6037682 Score: 811
Period size: 183 Copynumber: 2.9 Consensus size: 183
6037150 TTCAAAATGA
6037160 CGTGTAACAAC-CTAACCATGGCTTGTCACAGGTTTTTGTA-ATTGGCGTGTAACAAGCTAACCA
1 CGTGTAAC-ACGCTAACCATGGCTTGTCACAGGTTTTTGTACA-TGGCGTGTAACAAGCTAACCA
* *
6037223 TAGCTTGTCACAGGTTTTTGTACTTGGCTTGTCACATATTTTTGTACATAGCGTGTAACACACTA
64 TAGCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATAGCGTGTAACACACTA
* *
6037288 ACCATGGCTTGTCATAAGTTTTTGTACATGGTGTATCACATATTTTTGTACATAG
129 ACCATGGCTTGTCACAAGTTTTTGTACATGGCGTATCACATATTTTTGTACATAG
* * *
6037343 TGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCATGTAACAAGCTAATCATA
1 CGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATA
* * * *
6037408 ACTTGTCACAGGTTTTTGTACATGACGTGTCATATATTTTTGTACATAGCGTGTAACACGCTAAC
66 GCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATAGCGTGTAACACACTAAC
* * * * *
6037473 CATGGCTTGTCACAGGGTTTTGTATATGGCGTGTCACATATTTTTGTATATAG
131 CATGGCTTGTCACAAGTTTTTGTACATGGCGTATCACATATTTTTGTACATAG
6037526 CGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATA
1 CGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATA
* * *
6037591 GCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATGGCATGTAACA-AGTTAA
66 GCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATAGCGTGTAACACA-CTAA
6037655 CCATGGCTTGTCACATA-TTTTTGTACAT
130 CCATGGCTTGTCACA-AGTTTTTGTACAT
6037683 AACGTGTAAC
Statistics
Matches: 307, Mismatches: 29, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
182 2 0.01
183 304 0.99
184 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (183 bp):
CGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATA
GCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTACATAGCGTGTAACACACTAAC
CATGGCTTGTCACAAGTTTTTGTACATGGCGTATCACATATTTTTGTACATAG
Found at i:6037431 original size:45 final size:45
Alignment explanation
Indices: 6037330--6037431 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
6037320 GTATCACATA
* ** * **
6037330 TTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAGG
1 TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
*
6037375 TTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGG
1 TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
6037420 TTTTTGTACATG
1 TTTTTGTACATG
6037432 ACGTGTCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
Found at i:6037448 original size:69 final size:69
Alignment explanation
Indices: 6037359--6037575 Score: 308
Period size: 69 Copynumber: 3.1 Consensus size: 69
6037349 ACACGCTAAC
* ** * * * * **
6037359 CATGGCTTGTCACAGGTTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGGTTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037424 TGTA
66 TGTA
* * *
6037428 CATGACGTGTCATATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGGTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037493 TGTA
66 TGTA
* *
6037497 TATGGCGTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037562 TGTA
66 TGTA
6037566 CATGGCGTGT
1 CATGGCGTGT
6037576 AACAAGCTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 130 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (69 bp):
CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
TGTA
Found at i:6037502 original size:114 final size:114
Alignment explanation
Indices: 6037247--6037502 Score: 343
Period size: 114 Copynumber: 2.2 Consensus size: 114
6037237 TTTTTGTACT
*** * * * ** *
6037247 TGGCTTGTCACATATTTTTGTACATAGCGTGTAACACA-CTAACCATGGCTTGTCATAAGTTTTT
1 TGGCTTGTCACAGGGTTTTGTACATGGCATGTAACA-AGCTAATCATAACTTGTCACAAGTTTTT
** *
6037311 GTACATGGTGTATCACATATTTTTGTACATAGTGTGTAACACGCTAACCA
65 GTACATGACGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCA
* *
6037361 TGGCTTGTCACAGGTTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGGTTTTTG
1 TGGCTTGTCACAGGGTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAAGTTTTTG
* *
6037426 TACATGACGTGTCATATATTTTTGTACATAGCGTGTAACACGCTAACCA
66 TACATGACGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCA
*
6037475 TGGCTTGTCACAGGGTTTTGTATATGGC
1 TGGCTTGTCACAGGGTTTTGTACATGGC
6037503 GTGTCACATA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
113 1 0.01
114 124 0.99
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (114 bp):
TGGCTTGTCACAGGGTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAAGTTTTTG
TACATGACGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCA
Found at i:6037507 original size:24 final size:24
Alignment explanation
Indices: 6037474--6037530 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
6037464 CACGCTAACC
* *
6037474 ATGGCTTGTCACAGGGTTTTGTAT
1 ATGGCGTGTCACAGAGTTTTGTAT
* *
6037498 ATGGCGTGTCACATATTTTTGTAT
1 ATGGCGTGTCACAGAGTTTTGTAT
*
6037522 ATAGCGTGT
1 ATGGCGTGT
6037531 AACACGCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.42
Consensus pattern (24 bp):
ATGGCGTGTCACAGAGTTTTGTAT
Found at i:6037553 original size:114 final size:114
Alignment explanation
Indices: 6037443--6037917 Score: 644
Period size: 114 Copynumber: 4.2 Consensus size: 114
6037433 CGTGTCATAT
* * * * *
6037443 ATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGGTTTTGTATATGGCGTGTC
1 ATTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACGTGTC
*
6037508 ACATATTTTTGTATATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
66 ACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
* * *
6037557 GTTTTTGTACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACTTGTC
1 ATTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACGTGTC
* * * * *
6037622 ACATATTTTTGTACATGGCATGTAACAAGTTAACCATGGCTTGTCACAT
66 ACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
* * * * * * ** *
6037671 ATTTTTGTACATAACGTGTAACATGCTAATCATGGCTTGTCATAAGTTTTTGTACATGGTGTATC
1 ATTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACGTGTC
*
6037736 ACATATTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAG
66 ACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
* * * * *
6037785 GTTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGGTTTTTGTACATGACGTGTC
1 ATTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACGTGTC
*
6037850 ATATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
66 ACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
** * *
6037899 GGTTTTGTATATGGCGTGT
1 ATTTTTGTACATAGCGTGT
6037918 CACATATTTT
Statistics
Matches: 312, Mismatches: 49, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 312 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (114 bp):
ATTTTTGTACATAGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACGTGTC
ACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAG
Found at i:6037562 original size:45 final size:45
Alignment explanation
Indices: 6037498--6037613 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
6037488 GGTTTTGTAT
* ** * *
6037498 ATGGCGTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACC
1 ATGGCTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACC
*
6037543 ATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACC
1 ATGGCTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACC
*
6037588 ATAGCTTGTCACAGGTTTTTGTACAT
1 ATGGCTTGTCACAGGTTTTTGTACAT
6037614 GACTTGTCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (45 bp):
ATGGCTTGTCACAGGTTTTTGTACATAGCGTGTAACAAGCTAACC
Found at i:6037620 original size:69 final size:69
Alignment explanation
Indices: 6037542--6037682 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 69
6037532 ACACGCTAAC
* * * *
6037542 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTT
1 CATGACTTGTCACAGATTTTTGTACATGGCATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
6037607 TGTA
66 TGTA
* * * *
6037611 CATGACTTGTCACATATTTTTGTACATGGCATGTAACAAGTTAACCATGGCTTGTCACATATTTT
1 CATGACTTGTCACAGATTTTTGTACATGGCATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
6037676 TGTA
66 TGTA
6037680 CAT
1 CAT
6037683 AACGTGTAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (69 bp):
CATGACTTGTCACAGATTTTTGTACATGGCATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
TGTA
Found at i:6037624 original size:24 final size:24
Alignment explanation
Indices: 6037592--6037638 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6037582 CTAACCATAG
*
6037592 CTTGTCACAGGTTTTTGTACATGA
1 CTTGTCACAGATTTTTGTACATGA
*
6037616 CTTGTCACATATTTTTGTACATG
1 CTTGTCACAGATTTTTGTACATG
6037639 GCATGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (24 bp):
CTTGTCACAGATTTTTGTACATGA
Found at i:6037680 original size:45 final size:45
Alignment explanation
Indices: 6037611--6037729 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 45
6037601 GGTTTTTGTA
* *
6037611 CATGACTTGTCACATATTTTTGTACATGGCATGTAACAAGTTAAC
1 CATGGCTTGTCACATATTTTTGTACATGGCATGTAACAAGCTAAC
** * * *
6037656 CATGGCTTGTCACATATTTTTGTACATAACGTGTAACATGCTAAT
1 CATGGCTTGTCACATATTTTTGTACATGGCATGTAACAAGCTAAC
*
6037701 CATGGCTTGTCATA-AGTTTTTGTACATGG
1 CATGGCTTGTCACATA-TTTTTGTACATGG
6037730 TGTATCACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 62 0.98
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (45 bp):
CATGGCTTGTCACATATTTTTGTACATGGCATGTAACAAGCTAAC
Found at i:6037729 original size:69 final size:70
Alignment explanation
Indices: 6037656--6037804 Score: 212
Period size: 69 Copynumber: 2.1 Consensus size: 70
6037646 ACAAGTTAAC
* * * *
6037656 CATGGCT-TGTCACATATTTTTGTACATAACGTGTAACATGCTAATCATGGCTTGTCATAAGTTT
1 CATGGCTGTATCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGTTT
6037720 TTGTA
66 TTGTA
** *
6037725 CATGG-TGTATCACATATTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAGGTTT
1 CATGGCTGTATCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGTTT
6037789 TTGTA
66 TTGTA
6037794 CATGGCATGTA
1 CATGGC-TGTA
6037805 ACAAGCTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
68 1 0.01
69 65 0.93
71 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (70 bp):
CATGGCTGTATCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGTTT
TTGTA
Found at i:6037747 original size:183 final size:182
Alignment explanation
Indices: 6037204--6037980 Score: 564
Period size: 183 Copynumber: 4.2 Consensus size: 182
6037194 TTTGTAATTG
* * *
6037204 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACTTGGCTTGTCACATATTTTTGTA
1 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACATGTCACATATTTTTGTA
* * *
6037269 CATAGCGTGTAACACA-CTAACCATGGCTTGTCATA-AGTTTTTGTACAT-G-GTGTATCACATA
66 CATAGCATGTAACA-AGTTAACCATGGCTTGTCACATA-TTTTTGTACATAGCGTGTA--AC--A
** ** * * * * * ** *
6037330 TTTTTGTACATAG-TGTGTAACACG--CT-AACCATGGCT-TGTCACAGGTTTTTGTACATG
125 TGCTAAT-CATGGCT-TGTCACAAGTTTTGTA-CATGG-TGTGTCACATATTTTTGTACATA
* * * * *
6037387 GCATGTAACAAGCTAATCATAACTTGTCACAGGTTTTTGTACATGACGTGTCATATATTTTTGTA
1 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACATGTCACATATTTTTGTA
* * * *** * * * **
6037452 CATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGGTTTTGTATATGGCGTGTCACATATTTT
66 CATAGCATGTAACAAGTTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGT-A-ACA-TGC
* * * * * * * ** *
6037517 TGTAT-ATAGCGTGTAACACG--CT-AACCATGGCT-TGTCACAGGTTTTTGTACATG
128 T-AATCATGGCTTGTCACAAGTTTTGTA-CATGG-TGTGTCACATATTTTTGTACATA
*
6037570 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTTTTGTA
1 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACATGTCACATATTTTTGTA
* *
6037635 CATGGCATGTAACAAGTTAACCATGGCTTGTCACATATTTTTGTACATAACGTGTAACATGCTAA
66 CATAGCATGTAACAAGTTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACATGCTAA
* *
6037700 TCATGGCTTGTCATAAGTTTTTGTACATGGTGTATCACATATTTTTGTACATA
131 TCATGGCTTGTCACAAG-TTTTGTACATGGTGTGTCACATATTTTTGTACATA
* * * * * ** **
6037753 GTGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCATGTAACA-A-GCTAAT-
1 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACATGTCACATATTTTTGTA
* * * * * * * * *
6037815 CATAACTTGTCACAGGTTTTTGTA-CATGACGTGTCATATATTTTTGTACATAGCGTGTAACACG
66 CATAGCATGTAACAAG---TT-AACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACATG
* * * * *
6037879 CTAACCATGGCTTGTCACAGGGTTTTGTATATGGCGTGTCACATATTTTTGTATATA
127 CTAATCATGGCTTGTCACA-AGTTTTGTACATGGTGTGTCACATATTTTTGTACATA
* *
6037936 GCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATG
1 GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATG
6037981 GCGTGTAACA
Statistics
Matches: 501, Mismatches: 74, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
179 2 0.00
180 23 0.05
181 4 0.01
182 3 0.01
183 452 0.90
184 8 0.02
185 8 0.02
186 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (182 bp):
GCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACATGTCACATATTTTTGTA
CATAGCATGTAACAAGTTAACCATGGCTTGTCACATATTTTTGTACATAGCGTGTAACATGCTAA
TCATGGCTTGTCACAAGTTTTGTACATGGTGTGTCACATATTTTTGTACATA
Found at i:6037842 original size:45 final size:45
Alignment explanation
Indices: 6037741--6037842 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
6037731 GTATCACATA
* ** * **
6037741 TTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAGG
1 TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
*
6037786 TTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGG
1 TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
6037831 TTTTTGTACATG
1 TTTTTGTACATG
6037843 ACGTGTCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTTTGTACATGGCATGTAACAAGCTAACCATAACTTGTCACAGG
Found at i:6037843 original size:228 final size:228
Alignment explanation
Indices: 6037435--6037897 Score: 737
Period size: 228 Copynumber: 2.0 Consensus size: 228
6037425 GTACATGACG
* * * *
6037435 TGTCATATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGGTTTTGTATAT
1 TGTCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGGTTTTGTACAT
* *
6037500 GGCGTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGT
66 GGCGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGT
* * *
6037565 ACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACATGACTTGTCACATATTT
131 ACATGGCATGTAACAAGCTAACCATAACTTGTCACAGGTTTTTGTACATGACGTGTCACATATTT
* *
6037630 TTGTACATGGCATGTAACAAGTTAACCATGGCT
196 TTGTACATAGCATGTAACAAGCTAACCATGGCT
* * * *
6037663 TGTCACATATTTTTGTACATAACGTGTAACATGCTAATCATGGCTTGTCATAAGTTTTTGTACAT
1 TGTCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGGTTTTGTACAT
* *
6037728 GGTGTATCACATATTTTTGTACATAGTGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGT
66 GGCGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGT
* *
6037793 ACATGGCATGTAACAAGCTAATCATAACTTGTCACAGGTTTTTGTACATGACGTGTCATATATTT
131 ACATGGCATGTAACAAGCTAACCATAACTTGTCACAGGTTTTTGTACATGACGTGTCACATATTT
* *
6037858 TTGTACATAGCGTGTAACACGCTAACCATGGCT
196 TTGTACATAGCATGTAACAAGCTAACCATGGCT
6037891 TGTCACA
1 TGTCACA
6037898 GGGTTTTGTA
Statistics
Matches: 214, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
228 214 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (228 bp):
TGTCACATATTTTTGTACATAACGTGTAACACGCTAACCATGGCTTGTCACAAGGTTTTGTACAT
GGCGTATCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGT
ACATGGCATGTAACAAGCTAACCATAACTTGTCACAGGTTTTTGTACATGACGTGTCACATATTT
TTGTACATAGCATGTAACAAGCTAACCATGGCT
Found at i:6037859 original size:69 final size:69
Alignment explanation
Indices: 6037770--6037991 Score: 309
Period size: 69 Copynumber: 3.2 Consensus size: 69
6037760 ACACGCTAAC
* ** * * * * **
6037770 CATGGCTTGTCACAGGTTTTTGTACATGGCATGTAACAAGCTAATCATAACTTGTCACAGGTTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037835 TGTA
66 TGTA
* * *
6037839 CATGACGTGTCATATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGGTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037904 TGTA
66 TGTA
* *
6037908 TATGGCGTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
1 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6037973 TGTA
66 TGTA
*
6037977 CATGGCGTGTAACAT
1 CATGGCGTGTCACAT
6037992 CATAGCGTGT
Statistics
Matches: 134, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 134 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (69 bp):
CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
TGTA
Found at i:6037918 original size:24 final size:24
Alignment explanation
Indices: 6037885--6037941 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
6037875 CACGCTAACC
* *
6037885 ATGGCTTGTCACAGGGTTTTGTAT
1 ATGGCGTGTCACAGAGTTTTGTAT
* *
6037909 ATGGCGTGTCACATATTTTTGTAT
1 ATGGCGTGTCACAGAGTTTTGTAT
*
6037933 ATAGCGTGT
1 ATGGCGTGT
6037942 AACACGCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.42
Consensus pattern (24 bp):
ATGGCGTGTCACAGAGTTTTGTAT
Found at i:6049509 original size:15 final size:15
Alignment explanation
Indices: 6049465--6049503 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6049455 ATTAATTTAA
* *
6049465 TTAAATTTTTAAATT
1 TTAAATATTAAAATT
6049480 TTAAATATTAAAATT
1 TTAAATATTAAAATT
6049495 TTATAATAT
1 TTA-AATAT
6049504 ATAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAATATTAAAATT
Found at i:6049923 original size:17 final size:17
Alignment explanation
Indices: 6049901--6049937 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6049891 CATATCTTCG
6049901 TCTATACGGAAATGATC
1 TCTATACGGAAATGATC
6049918 TCTATACGGAAATGATC
1 TCTATACGGAAATGATC
6049935 TCT
1 TCT
6049938 CTCTTAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (17 bp):
TCTATACGGAAATGATC
Found at i:6051126 original size:22 final size:23
Alignment explanation
Indices: 6051084--6051147 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
6051074 TTATTCTGAC
6051084 ATAATAATATATAAAATTTATTA
1 ATAATAATATATAAAATTTATTA
**
6051107 ATAATAATAT-TTTAATTTA-T-
1 ATAATAATATATAAAATTTATTA
6051127 -TAATAATATATAAAATTTATT
1 ATAATAATATATAAAATTTATT
6051148 CTGACAGTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.26
20 7 0.20
21 2 0.06
22 7 0.20
23 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATAATATATAAAATTTATTA
Found at i:6053334 original size:13 final size:14
Alignment explanation
Indices: 6053313--6053355 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
6053303 TTCAAAGAGC
6053313 TTAATGTTTGGATA
1 TTAATGTTTGGATA
*
6053327 TT-ATGTTTGGAAA
1 TTAATGTTTGGATA
*
6053340 TTAATGTTTGGGTA
1 TTAATGTTTGGATA
6053354 TT
1 TT
6053356 CAATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (14 bp):
TTAATGTTTGGATA
Found at i:6053348 original size:14 final size:14
Alignment explanation
Indices: 6053313--6053350 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
6053303 TTCAAAGAGC
*
6053313 TTAATGTTTGGATA
1 TTAATGTTTGGAAA
6053327 TT-ATGTTTGGAAA
1 TTAATGTTTGGAAA
6053340 TTAATGTTTGG
1 TTAATGTTTGG
6053351 GTATTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
TTAATGTTTGGAAA
Found at i:6058845 original size:31 final size:25
Alignment explanation
Indices: 6058777--6058830 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
6058767 CTTTTGAAAC
6058777 TAATATTTATTTATTGTATAAAAAT
1 TAATATTTATTTATTGTATAAAAAT
6058802 TAATATTTATTTATTGTATAAAAAT
1 TAATATTTATTTATTGTATAAAAAT
6058827 TAAT
1 TAAT
6058831 CTTATTAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TAATATTTATTTATTGTATAAAAAT
Found at i:6060190 original size:18 final size:18
Alignment explanation
Indices: 6060167--6060205 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6060157 ACCTTAACTC
*
6060167 CCTCTCTCTCTCTCTCTT
1 CCTCTCTCTCTCTCCCTT
6060185 CCTCTCTCTCTCTCCCTT
1 CCTCTCTCTCTCTCCCTT
6060203 CCT
1 CCT
6060206 TTCAAAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTCTCTCTCTCTCCCTT
Found at i:6071592 original size:20 final size:21
Alignment explanation
Indices: 6071547--6071624 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 21
6071537 TTCAATAATC
* * *
6071547 TTTGAACTTATTTGAGTGATC
1 TTTGAACTTATTTAAATGATT
*
6071568 CTTGAACTTATTT-AATGATT
1 TTTGAACTTATTTAAATGATT
* *
6071588 TTTGAAGTTGTTTAAAT-ATGTT
1 TTTGAACTTATTTAAATGA--TT
6071610 TTTGAACTTAATTTA
1 TTTGAACTT-ATTTA
6071625 TGAATGTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 16 0.36
21 15 0.33
22 10 0.22
23 4 0.09
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.51
Consensus pattern (21 bp):
TTTGAACTTATTTAAATGATT
Found at i:6071720 original size:21 final size:21
Alignment explanation
Indices: 6071696--6071778 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
6071686 TCAAAATTAC
*
6071696 TTGAATGATCTTTGAACTTGT
1 TTGAATGATTTTTGAACTTGT
* * *
6071717 TTGAATAATTTTTGAAGTTGC
1 TTGAATGATTTTTGAACTTGT
*
6071738 TTGAATGAGTTTTTCAACTTGT
1 TTGAATGA-TTTTTGAACTTGT
* *
6071760 TTGAATAATTTTTAAACTT
1 TTGAATGATTTTTGAACTT
6071779 TTTTAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.67
22 17 0.33
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (21 bp):
TTGAATGATTTTTGAACTTGT
Found at i:6071787 original size:21 final size:21
Alignment explanation
Indices: 6071710--6071788 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
6071700 ATGATCTTTG
* *
6071710 AACTTGTTTGAATAATTTTTG
1 AACTTGTTTAAATAATTTTTA
* * * * *
6071731 AAGTTGCTTGAATGAGTTTTTC
1 AACTTGTTTAAAT-AATTTTTA
*
6071753 AACTTGTTTGAATAATTTTTA
1 AACTTGTTTAAATAATTTTTA
*
6071774 AACTTTTTTAAATAA
1 AACTTGTTTAAATAA
6071789 GTTCTGAACT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 30 0.64
22 17 0.36
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (21 bp):
AACTTGTTTAAATAATTTTTA
Found at i:6071845 original size:21 final size:21
Alignment explanation
Indices: 6071821--6071863 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6071811 CCATGTGAAA
6071821 AGTTTCAAAATT-ATTTGAATG
1 AGTTTCAAAATTGATTT-AATG
**
6071842 AGTTTTGAAATTGATTTAATG
1 AGTTTCAAAATTGATTTAATG
6071863 A
1 A
6071864 TTTTTAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (21 bp):
AGTTTCAAAATTGATTTAATG
Found at i:6071868 original size:21 final size:21
Alignment explanation
Indices: 6071828--6071868 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6071818 AAAAGTTTCA
6071828 AAATTATTTGAATGAGTTTTG
1 AAATTATTTGAATGAGTTTTG
*
6071849 AAATTGATTT-AATGATTTTT
1 AAATT-ATTTGAATGAGTTTT
6071869 AAACTTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
AAATTATTTGAATGAGTTTTG
Found at i:6071908 original size:23 final size:22
Alignment explanation
Indices: 6071864--6071909 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6071854 GATTTAATGA
*
6071864 TTTTTAAACTTGTTCGAATAGT
1 TTTTTAAACTTGTTCAAATAGT
*
6071886 TTTTTAAACTTGTTTAAATTAGT
1 TTTTTAAACTTGTTCAAA-TAGT
6071909 T
1 T
6071910 CTAAACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (22 bp):
TTTTTAAACTTGTTCAAATAGT
Found at i:6071915 original size:139 final size:140
Alignment explanation
Indices: 6071653--6071915 Score: 338
Period size: 139 Copynumber: 1.9 Consensus size: 140
6071643 CATTTGCTTT
* *
6071653 TGAAGTGCATAAGTGTTTCCATGTGAAAAGTAATCAAAATTACTTGAATGATCTTTGAACTTGTT
1 TGAACTGCATAAGTGTTTCCATGTGAAAAGTAATCAAAATTACTTGAATGATCTTTGAAATTGTT
* * * * * *
6071718 TGAATAATTTTTGAAGTTGCTTGAATGAGTTTTTCAACTTGTTTGAATAATTTTTAAACTTTTTT
66 TGAATAATTTTTAAACTTGCTTGAATGAGTTTTTAAACTTGTTTAAATAAGTTCTAAACTTTTTT
6071783 AAATAAGTTC
131 AAATAAGTTC
* * *
6071793 TGAACTGCCTAAGTGTTTCCATGTGAAAAGT-TTCAAAATTATTTGAATGAGT-TTTGAAATTGA
1 TGAACTGCATAAGTGTTTCCATGTGAAAAGTAATCAAAATTACTTGAATGA-TCTTTGAAATTG-
* *
6071856 TTT-AATGATTTTTAAACTTG-TTCGAAT-AGTTTTTTAAACTTGTTTAAATTAGTTCTAAAC
64 TTTGAATAATTTTTAAACTTGCTT-GAATGAG-TTTTTAAACTTGTTTAAATAAGTTCTAAAC
6071916 CTCCATTGCA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 4 0.04
139 69 0.65
140 33 0.31
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (140 bp):
TGAACTGCATAAGTGTTTCCATGTGAAAAGTAATCAAAATTACTTGAATGATCTTTGAAATTGTT
TGAATAATTTTTAAACTTGCTTGAATGAGTTTTTAAACTTGTTTAAATAAGTTCTAAACTTTTTT
AAATAAGTTC
Found at i:6072110 original size:14 final size:14
Alignment explanation
Indices: 6072091--6072118 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6072081 ACATTTTGGA
6072091 ATGTATCGATACAT
1 ATGTATCGATACAT
6072105 ATGTATCGATACAT
1 ATGTATCGATACAT
6072119 TCCAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:6075623 original size:12 final size:12
Alignment explanation
Indices: 6075606--6075667 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
6075596 ATTATTTTCA
6075606 TTTTATTATATT
1 TTTTATTATATT
6075618 TTTTATTATCATAT
1 TTTTATTAT-AT-T
*
6075632 TTTCTATTTTATT
1 TTT-TATTATATT
* *
6075645 TCTAATTATTATT
1 TTTTATTA-TATT
6075658 TTTT-TTATAT
1 TTTTATTATAT
6075668 CTTACATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 11 0.28
14 6 0.15
15 5 0.12
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:6075793 original size:11 final size:11
Alignment explanation
Indices: 6075773--6075815 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
6075763 TTGTCTTAGA
6075773 TTTTTA-TTAT
1 TTTTTATTTAT
6075783 TTTTTATTTAT
1 TTTTTATTTAT
*
6075794 TTTTTATTTTT
1 TTTTTATTTAT
6075805 TTATTTATTTA
1 TT-TTTATTTA
6075816 ATGTCATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 6 0.21
11 16 0.55
12 7 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:6078623 original size:59 final size:60
Alignment explanation
Indices: 6078555--6078675 Score: 181
Period size: 59 Copynumber: 2.0 Consensus size: 60
6078545 GCTCAATTCG
* * *
6078555 ATTTAATAAATCAAGGGATAAAATATGATACATACTACATGATAG-AAATTCACATTCCA
1 ATTTAATAAATCAAAGGACAAAATATGATACATACTACATAATAGTAAATTCACATTCCA
* **
6078614 ATTTAATAAATCAAAGGACAAAATATGATACATACTATATAATAGTAAATTCATTTTCCA
1 ATTTAATAAATCAAAGGACAAAATATGATACATACTACATAATAGTAAATTCACATTCCA
6078674 AT
1 AT
6078676 CAAGAGACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 41 0.75
60 14 0.25
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (60 bp):
ATTTAATAAATCAAAGGACAAAATATGATACATACTACATAATAGTAAATTCACATTCCA
Found at i:6078685 original size:51 final size:51
Alignment explanation
Indices: 6078622--6078718 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
6078612 CAATTTAATA
* * *
6078622 AATCAAAGGACAAAATATGATACATACTATATAATAGTAAATTCATTTTCC
1 AATCAAAGGACAAAACATAATACATACTATATAATAGCAAATTCATTTTCC
* *
6078673 AATC-AAGAGACAAAACATAATATATACTATATGATAGCAAATTCAT
1 AATCAAAG-GACAAAACATAATACATACTATATAATAGCAAATTCAT
6078719 ATTAAGGCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.29
Consensus pattern (51 bp):
AATCAAAGGACAAAACATAATACATACTATATAATAGCAAATTCATTTTCC
Found at i:6083038 original size:107 final size:102
Alignment explanation
Indices: 6082878--6083185 Score: 356
Period size: 107 Copynumber: 3.0 Consensus size: 102
6082868 TCCAGATATA
* *
6082878 ATCCAATGCCACTTAAACTCATTAATCCTGGGCTTGCAATGAGCCAAAAAAAAAAAAAAGAATTG
1 ATCCAATGCAACTTAAACTCATTAATCCTAGGCTTGCAATGAG-C-AAAAAAAAAAAAA-AATT-
* **
6082943 ATGACTCTAAAATTGCCCACAAGAGATCTGTCTAGTGGCA-GC
62 ATGACTCTAAAATTGCCCAAAAGAGA-CTGTCTA-TAACAGGC
* * ** *
6082985 ATCCAACGCAACTCAAACTCATTAATAATAGGCTTGCAATGAGC----AAAAAAAAAAATTTTGA
1 ATCCAATGCAACTTAAACTCATTAATCCTAGGCTTGCAATGAGCAAAAAAAAAAAAAAATTATGA
6083046 CTCTAAAATTGCCCAAAAGAGAACTGTCTATAACAGGC
66 CTCTAAAATTGCCCAAAAGAG-ACTGTCTATAACAGGC
* *
6083084 ATCCAATGCAACTTAAACTCATTAATCCTAGGCTTGCAGTGAGCAAAAAGTTTAAAAAAAAATAT
1 ATCCAATGCAACTTAAACTCATTAATCCTAGGCTTGCAATGAGCAAAAA---AAAAAAAAAAT-T
*
6083149 ATGAGTCTAAAATTGCCCAAAAGAGCACTGTCTATAA
62 ATGACTCTAAAATTGCCCAAAAGAG-ACTGTCTATAA
6083186 GCAACATTCA
Statistics
Matches: 172, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
98 3 0.02
99 71 0.41
100 5 0.03
101 9 0.05
103 1 0.01
106 11 0.06
107 72 0.42
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (102 bp):
ATCCAATGCAACTTAAACTCATTAATCCTAGGCTTGCAATGAGCAAAAAAAAAAAAAAATTATGA
CTCTAAAATTGCCCAAAAGAGACTGTCTATAACAGGC
Found at i:6083052 original size:99 final size:101
Alignment explanation
Indices: 6082928--6083185 Score: 299
Period size: 99 Copynumber: 2.5 Consensus size: 101
6082918 GAGCCAAAAA
* * **
6082928 AAAAAAAAAGAATTGATGACTCTAAAATTGCCCACAAGAGATCTGTCTAGTGGCA-GCATCCAAC
1 AAAAAAAAAGAATTGATGACTCTAAAATTGCCCAAAAGAGAACTGTCTA-TAACAGGCATCCAAC
6082992 GCAACTCAAACTCATTAATAATAGGCTTGCAATGAGC
65 GCAACTCAAACTCATTAATAATAGGCTTGCAATGAGC
* *
6083029 AAAAAAAAA-AATT-TTGACTCTAAAATTGCCCAAAAGAGAACTGTCTATAACAGGCATCCAATG
1 AAAAAAAAAGAATTGATGACTCTAAAATTGCCCAAAAGAGAACTGTCTATAACAGGCATCCAACG
* ** *
6083092 CAACTTAAACTCATTAATCCTAGGCTTGCAGTGAGC
66 CAACTCAAACTCATTAATAATAGGCTTGCAATGAGC
* * *
6083128 AAAAAGTTTAAAAAAAAATAT-ATGAGTCTAAAATTGCCCAAAAGAGCACTGTCTATAA
1 --AAA----AAAAAAGAAT-TGATGACTCTAAAATTGCCCAAAAGAGAACTGTCTATAA
6083186 GCAACATTCA
Statistics
Matches: 135, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
98 3 0.02
99 72 0.53
100 4 0.03
101 12 0.09
105 6 0.04
106 3 0.02
107 35 0.26
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (101 bp):
AAAAAAAAAGAATTGATGACTCTAAAATTGCCCAAAAGAGAACTGTCTATAACAGGCATCCAACG
CAACTCAAACTCATTAATAATAGGCTTGCAATGAGC
Found at i:6084902 original size:15 final size:15
Alignment explanation
Indices: 6084882--6084940 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
6084872 TCAGCATTCT
6084882 CCTCCTCTTCTTCCA
1 CCTCCTCTTCTTCCA
* *
6084897 CCTCCTCTTCTACCT
1 CCTCCTCTTCTTCCA
* **
6084912 CTTCCTCAACTTCCA
1 CCTCCTCTTCTTCCA
* *
6084927 CTTCCTCCTCTTCC
1 CCTCCTCTTCTTCC
6084941 TCTACTTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.08, C:0.53, G:0.00, T:0.39
Consensus pattern (15 bp):
CCTCCTCTTCTTCCA
Found at i:6084930 original size:24 final size:24
Alignment explanation
Indices: 6084881--6084948 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
6084871 CTCAGCATTC
* * * *
6084881 TCCTCCTCTTCTTCCACCTCCTCT
1 TCCTCCTCTTCCTCAACTTCCACT
6084905 T-CTACCTCTTCCTCAACTTCCACT
1 TCCT-CCTCTTCCTCAACTTCCACT
*
6084929 TCCTCCTCTTCCTCTACTTC
1 TCCTCCTCTTCCTCAACTTC
6084949 TTCATATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.05
24 33 0.89
25 2 0.05
ACGTcount: A:0.09, C:0.50, G:0.00, T:0.41
Consensus pattern (24 bp):
TCCTCCTCTTCCTCAACTTCCACT
Found at i:6124641 original size:21 final size:20
Alignment explanation
Indices: 6124611--6124651 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6124601 ACATTCAAAC
*
6124611 CTAATTTTATATGAATATTTT
1 CTAATCTTATATGAA-ATTTT
*
6124632 CTAATCTTATATTAAATTTT
1 CTAATCTTATATGAAATTTT
6124652 TGATGCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
CTAATCTTATATGAAATTTT
Found at i:6128429 original size:2 final size:2
Alignment explanation
Indices: 6128422--6128470 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6128412 GTGTATAATG
6128422 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
6128464 TA TA TA T
1 TA TA TA T
6128471 TATGTCATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6128677 original size:54 final size:54
Alignment explanation
Indices: 6128618--6128819 Score: 280
Period size: 54 Copynumber: 3.7 Consensus size: 54
6128608 TGGCATTAAC
* * * * *
6128618 TGTGCACGATGTAGAGGGATGCACACGAGCTGGGTGAGATAGGGTGTTCGGTTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
* *
6128672 TGTGCACGATGCGGGGGGATGCACATGAGCTGGGTGACAT-GGGATGTCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGG-TGTCCGGCTA
*
6128726 TATGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
* * * *
6128780 TGTCCACTATGTGGGGGGATGCACATGAACTGGATGAGAT
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGAT
6128820 GTGGTGGTAT
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.02
54 125 0.95
55 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.23
Consensus pattern (54 bp):
TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
Found at i:6136209 original size:18 final size:19
Alignment explanation
Indices: 6136177--6136223 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
6136167 AGTGTATGAA
6136177 TTTTAATATATTTA-TATATT
1 TTTTAAT-TATTTATTAT-TT
6136197 TTTTAATTA-TTATTATTT
1 TTTTAATTATTTATTATTT
6136215 TTTTAATTA
1 TTTTAATTA
6136224 CGACACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.54
19 5 0.19
20 7 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTAATTATTTATTATTT
Found at i:6137786 original size:18 final size:17
Alignment explanation
Indices: 6137727--6137792 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
6137717 ATATATGAGC
6137727 AAATAGAATATAATTAAAA
1 AAATA-AATATAATT-AAA
6137746 AAATATAA-ATAA-T-AA
1 AAATA-AATATAATTAAA
*
6137761 TAAT-AATATAATTAAA
1 AAATAAATATAATTAAA
*
6137777 AAATTAAATAAAATTA
1 AAA-TAAATATAATTA
6137793 TCTTTTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
13 2 0.05
14 4 0.11
15 6 0.16
16 4 0.11
17 2 0.05
18 13 0.34
19 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATAAATATAATTAAA
Found at i:6141465 original size:34 final size:33
Alignment explanation
Indices: 6141407--6141623 Score: 141
Period size: 34 Copynumber: 6.4 Consensus size: 33
6141397 ACTTCAGCAG
* *
6141407 CAGATGTTATGCACG-AAGGTCAAAGCTTTAACAT
1 CAGATGTTA--CACGCAAGGCCAAAGCTTTAACAC
* * *
6141441 CAGATGTTACACGTCAAGGCCAAAGGTTCAGCAC
1 CAGATGTTACACG-CAAGGCCAAAGCTTTAACAC
* *
6141475 CAGAAGTTACACGCCAAGGCCAAAGCTTTAGCAC
1 CAGATGTTACACG-CAAGGCCAAAGCTTTAACAC
* * * * **
6141509 CAGATATTACACGTAAAAGCCAAAGGTTTTGCAC
1 CAGATGTTACACG-CAAGGCCAAAGCTTTAACAC
* * * * * *
6141543 CAGATGTTGCATGCTAA-TCCAAAGGTTCAACAT
1 CAGATGTTACACGC-AAGGCCAAAGCTTTAACAC
* * *
6141576 TAGAAGTTACACGCTAAGGTCAAAGCTTTAACAC
1 CAGATGTTACACGC-AAGGCCAAAGCTTTAACAC
* *
6141610 CAAATATTACACGC
1 CAGATGTTACACGC
6141624 CAAAGCTTCT
Statistics
Matches: 141, Mismatches: 38, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
32 4 0.03
33 24 0.17
34 113 0.80
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (33 bp):
CAGATGTTACACGCAAGGCCAAAGCTTTAACAC
Found at i:6142740 original size:134 final size:134
Alignment explanation
Indices: 6142499--6142748 Score: 308
Period size: 134 Copynumber: 1.9 Consensus size: 134
6142489 AGAAGTGAGT
*
6142499 TTGTCACCCCTCAAAATCGAGACATAACACAACCATATTATCTTCAAATTAAGCCCCAAAGTAAT
1 TTGTCACCCCTCAAAATCGAGACATAACACAACCATATTACCTTCAAATTAAGCCCCAAAGTAAT
* * **
6142564 ACGAAACCTTCCTATCTTTCATTTTTATAAAAGTCTTAAAATGAAGTCATATTAATAATTCCATA
66 ACGAAACATTCCTATCTTACATTCATATAAAAGTCTTAAAATGAAGTCATATTAATAATTCCATA
6142629 CTTA
131 CTTA
* * * * * * *
6142633 TTGTCACGCCC-CAAAATCGAGACATGATA-AGACCATATTACCTTGAGATTAAGCTCTAGAGTA
1 TTGTCAC-CCCTCAAAATCGAGACATAACACA-ACCATATTACCTTCAAATTAAGCCCCAAAGTA
* * * *
6142696 ATACGAAGCATTTCTATCTTACATTCATATATAAATTC-TCAAATGAAGTCATA
64 ATACGAAACATTCCTATCTTACATTCATATA-AAAGTCTTAAAATGAAGTCATA
6142749 CTGGCATATC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
133 1 0.01
134 88 0.91
135 8 0.08
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (134 bp):
TTGTCACCCCTCAAAATCGAGACATAACACAACCATATTACCTTCAAATTAAGCCCCAAAGTAAT
ACGAAACATTCCTATCTTACATTCATATAAAAGTCTTAAAATGAAGTCATATTAATAATTCCATA
CTTA
Found at i:6142877 original size:2 final size:2
Alignment explanation
Indices: 6142870--6142897 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6142860 GCATTGTCTT
6142870 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
6142898 ATAAAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.