Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 108 of 356
Found at i:34138530 original size:63 final size:63
Alignment explanation
Indices: 34138427--34138545 Score: 148
Period size: 63 Copynumber: 1.9 Consensus size: 63
34138417 ACTGATACAT
* ** *
34138427 TCATCACTAGTTTATTTTACACAAGCACCACAGTACGCACAATCATTCCCTACACCAACATAG
1 TCATCACCAGTTTATTTTACACAAGCACCACAACACGCACAACCATTCCCTACACCAACATAG
* * ** * *
34138490 TCATCACCATTTTATTTTCCACAAGCATTACAACATGCACAACCATTCCCTGCACC
1 TCATCACCAGTTTATTTTACACAAGCACCACAACACGCACAACCATTCCCTACACC
34138546 GACACATTCC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 46 1.00
ACGTcount: A:0.33, C:0.34, G:0.07, T:0.27
Consensus pattern (63 bp):
TCATCACCAGTTTATTTTACACAAGCACCACAACACGCACAACCATTCCCTACACCAACATAG
Found at i:34138754 original size:30 final size:30
Alignment explanation
Indices: 34138718--34138779 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
34138708 CAGGGAGATG
*
34138718 CACTATGGTTGATTACAACACGGTCACAGT
1 CACTATGGTCGATTACAACACGGTCACAGT
*
34138748 CACTATGGTCGATTACGACACGGTCACAGT
1 CACTATGGTCGATTACAACACGGTCACAGT
34138778 CA
1 CA
34138780 TCTACGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (30 bp):
CACTATGGTCGATTACAACACGGTCACAGT
Found at i:34146369 original size:42 final size:41
Alignment explanation
Indices: 34146321--34146412 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
34146311 GCACGTAGCC
*
34146321 TGCTAGGCTCAAGGCCTGAAACAAATACACTGGCACAAAACT
1 TGCTAGGCTCAAGGCCTGAAAC-AATACACCGGCACAAAACT
* * * * *
34146363 TGCTAGGCTCAAGGCTTGATACAATTCACCGGCACGAAGCT
1 TGCTAGGCTCAAGGCCTGAAACAATACACCGGCACAAAACT
34146404 TGCTAGGCT
1 TGCTAGGCT
34146413 TAAAGCCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 24 0.55
42 20 0.45
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
TGCTAGGCTCAAGGCCTGAAACAATACACCGGCACAAAACT
Found at i:34146409 original size:41 final size:42
Alignment explanation
Indices: 34146302--34146412 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
34146292 TTTACCTTAT
* * *
34146302 AATTCATCGGCACGTAGCCTGCTAGGCTCAAGGCCTGAAACA
1 AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
* * * * * *
34146344 AATACACTGGCACAAAACTTGCTAGGCTCAAGGCTTGATAC-
1 AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
34146385 AATTCACCGGCACGAAGCTTGCTAGGCT
1 AATTCACCGGCACGAAGCTTGCTAGGCT
34146413 TAAAGCCTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
41 24 0.43
42 32 0.57
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (42 bp):
AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
Found at i:34146430 original size:41 final size:41
Alignment explanation
Indices: 34146299--34146442 Score: 110
Period size: 41 Copynumber: 3.5 Consensus size: 41
34146289 AATTTTACCT
* ** * *
34146299 TATAATTCATCGGCACGTAGCCTGCTAGGCTCAAGGCCTGAA
1 TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCT-AA
* * * * * * *
34146341 -ACAAATACACTGGCACAAAACTTGCTAGGCTCAAGGCTTGA
1 TA-TAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
* * *
34146382 TACAATTCACCGGCACGAAGCTTGCTAGGCTTAAAGCCTAA
1 TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
**
34146423 TATAATTCATTGGCACAAAG
1 TATAATTCACCGGCACAAAG
34146443 TCTGCTGGAC
Statistics
Matches: 77, Mismatches: 23, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
41 48 0.62
42 29 0.38
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
Found at i:34151540 original size:15 final size:16
Alignment explanation
Indices: 34151522--34151561 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
34151512 ATACATTTTC
34151522 ATAAACATCATTTAA-
1 ATAAACATCATTTAAG
*
34151537 ATAAATATCATTTAAG
1 ATAAACATCATTTAAG
34151553 ACTAAACAT
1 A-TAAACAT
34151562 ACCTCTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 1 0.05
17 6 0.29
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAAACATCATTTAAG
Found at i:34151964 original size:13 final size:13
Alignment explanation
Indices: 34151946--34151972 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34151936 GAAGTAATCG
34151946 CACACGGGCGTGT
1 CACACGGGCGTGT
34151959 CACACGGGCGTGT
1 CACACGGGCGTGT
34151972 C
1 C
34151973 CCTGCGGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:34158880 original size:93 final size:93
Alignment explanation
Indices: 34158721--34158892 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
34158711 CGCCCATAAG
* * * *
34158721 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34158786 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
34158814 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
34158879 ACGAGTTCGGATGC
66 ACGAGCTCAGATGC
34158893 TCAACCATCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:34158889 original size:46 final size:46
Alignment explanation
Indices: 34158714--34158889 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
34158704 TGTAACCCGC
* * * *
34158714 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
34158760 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
34158806 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
34158853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
34158890 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.62
47 29 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:34158908 original size:46 final size:44
Alignment explanation
Indices: 34158765--34158908 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
34158755 CGCATCCATA
* *
34158765 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
34158812 -CTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
34158858 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCGT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATC-T
34158904 AGTGA
1 AGTGA
34158909 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
44 9 0.12
46 33 0.43
47 29 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:34161263 original size:15 final size:14
Alignment explanation
Indices: 34161215--34161297 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
34161205 CAAAGATAAC
*
34161215 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
34161229 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
34161244 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
34161259 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
34161274 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
34161289 AAGAAACCC
1 AAGAAACCC
34161298 AAGAATGATA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:34161290 original size:30 final size:30
Alignment explanation
Indices: 34161224--34161303 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
34161214 CAAGAAAACC
* *
34161224 GAATAAAGAAATCCA-AGATAGAGAAACCCG
1 GAATAAAGAAATCCAGA-ATAAAGAAACCAG
*
34161254 GAATAAAGAAATCCAGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAGAATAAAGA-AACCAG
*
34161285 G-ATAAAGAAACCCAAGAAT
1 GAATAAAGAAATCC-AGAAT
34161304 GATACTAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 32 0.74
31 11 0.26
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCAG
Found at i:34164356 original size:93 final size:93
Alignment explanation
Indices: 34164227--34164398 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
34164217 CGCCCATAAG
* * *
34164227 CGAATTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34164292 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
* *
34164320 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
34164385 ACGAGTTCGGATGC
66 ACGAGCTCAGATGC
34164399 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:34164395 original size:46 final size:46
Alignment explanation
Indices: 34164220--34164395 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
34164210 TGTAACCCGC
* * * * *
34164220 CCATAAGCGAATTCGGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
34164266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
34164312 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
34164359 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
34164396 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.62
47 30 0.29
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:34164414 original size:46 final size:45
Alignment explanation
Indices: 34164271--34164414 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
34164261 CGCATCCATA
* *
34164271 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
34164320 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
34164363 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
34164410 AGTGA
1 AGTGA
34164415 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 28 0.35
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:34171969 original size:43 final size:42
Alignment explanation
Indices: 34171908--34172080 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 42
34171898 AAGGCTTGTA
*
34171908 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCC-ATGTCCCAGACGTGGTCTTACATGTAATCACATAT
* *
34171951 CAATGCCACTATCCCAGACAG-GGTCTTACATG-AA-CTCATAT
1 CAATGCCA-TGTCCCAGAC-GTGGTCTTACATGTAATCACATAT
* * * * * *
34171992 ACAATGCCGATGTCTCGGACATGGTCTTACACGTAAATCAAAAAT
1 -CAATGCC-ATGTCCCAGACGTGGTCTTACATGT-AATCACATAT
** *
34172037 TGATGCCAATGTCCCAGACGTGGTCTTAC-TCGAAATCACATAT
1 CAATGCC-ATGTCCCAGACGTGGTCTTACAT-GTAATCACATAT
34172080 C
1 C
34172081 GAAATCCTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
41 6 0.06
42 27 0.27
43 35 0.35
44 27 0.27
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACGTGGTCTTACATGTAATCACATAT
Found at i:34176591 original size:48 final size:48
Alignment explanation
Indices: 34176520--34176828 Score: 235
Period size: 48 Copynumber: 6.5 Consensus size: 48
34176510 TGTGTGTGCT
**
34176520 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
* * * *
34176568 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--A-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGA-AGCC
* ** *
34176614 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
* * * * * * *
34176662 AGTGTAAAACCTGTTTGGGACATGGCATC-ACCT--TG-T-TGTG-TGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATG-GAAGCC
* * * *
34176706 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGAT-GAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATATGGA-AGCC
* * * **
34176755 AGTGTAAGACCTATCTGGGACATGGCATTGGCCTCGCTATATGGAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGGAAGCC
34176804 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
34176829 GCATTGGCAT
Statistics
Matches: 211, Mismatches: 34, Indels: 31
0.76 0.12 0.11
Matches are distributed among these distances:
44 29 0.14
45 4 0.02
46 41 0.19
47 1 0.00
48 65 0.31
49 57 0.27
50 14 0.07
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
Found at i:34176681 original size:94 final size:95
Alignment explanation
Indices: 34176517--34176690 Score: 278
Period size: 94 Copynumber: 1.8 Consensus size: 95
34176507 TGATGTGTGT
** *
34176517 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
34176582 CTGGGACAT-GCATCGGCATTGAGACGAGA
66 CTGGGACATGGCATCGGCATTGAGACGAGA
* * *
34176611 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAAGCTAGTGTAAAACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
*
34176676 TTGGGACATGGCATC
66 CTGGGACATGGCATC
34176691 ACCTTGTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 67 0.93
95 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
CTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:34181164 original size:27 final size:27
Alignment explanation
Indices: 34181125--34181235 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
34181115 GGAAGCGTCT
* *
34181125 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
34181152 TGGTGGCTCTGCCACATATT-TCTG-TCC
1 TGGTGGCTCTGCCACA-ATTATCTGAT-C
*
34181179 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
34181207 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
34181233 TGG
1 TGG
34181236 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:34181230 original size:54 final size:54
Alignment explanation
Indices: 34181125--34181235 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
34181115 GGAAGCGTCT
* * *
34181125 TGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTCC
* * * *
34181179 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTCC
34181233 TGG
1 TGG
34181236 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTCC
Found at i:34183062 original size:46 final size:46
Alignment explanation
Indices: 34183011--34183138 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 46
34183001 ACATCTTGTA
* * *
34183011 GCCGATGCATGTCCTAGACATGTCTTACACTGGC-TTACATTTCAAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CATCTCAAG
* * *
34183057 GCCGATACATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAG
*
34183103 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC
34183139 TCACAGTAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
46 44 0.62
47 14 0.20
48 13 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAG
Found at i:34187231 original size:47 final size:47
Alignment explanation
Indices: 34187172--34187700 Score: 643
Period size: 47 Copynumber: 11.1 Consensus size: 47
34187162 TTAGGATTTT
* * * *
34187172 ATGTGATAAATGTG-A-ATGTATATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGA--TAAGGCCGAATGGCCA
*
34187219 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34187266 ATGTGATGAAGGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34187313 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34187360 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34187407 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
34187454 ATGTGGCGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34187501 ATGTGATAAATGTGAACATGCCTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * **
34187548 ATGTGATGAACGTGGAA-GTGTATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34187595 ATGTGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGT-G---A--TG---AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
34187651 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
34187698 ATG
1 ATG
34187701 CGAAATGCGT
Statistics
Matches: 430, Mismatches: 38, Indels: 28
0.87 0.08 0.06
Matches are distributed among these distances:
47 368 0.86
48 8 0.02
49 11 0.03
50 2 0.00
51 1 0.00
52 1 0.00
53 2 0.00
55 4 0.01
56 33 0.08
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34187674 original size:103 final size:103
Alignment explanation
Indices: 34187495--34187700 Score: 349
Period size: 103 Copynumber: 2.0 Consensus size: 103
34187485 TAAGGTCGAA
* *
34187495 TGGCCAATGTGATAAATGTGAACATGCCTATATGTGATAAGGCCGAATGGCCAATGTGATGAACG
1 TGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
* *
34187560 TGGAAGTGTATATGCGTGATAAGGCCGAATGGCCAATG
66 TGGAAGTGTATATACGTGATAAAGCCGAATGGCCAATG
34187598 TGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
1 TGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
* * *
34187663 TGGAAGTGTATATATGTGGTAAAGCCGAATGGCTAATG
66 TGGAAGTGTATATACGTGATAAAGCCGAATGGCCAATG
34187701 CGAAATGCGT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.25
Consensus pattern (103 bp):
TGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACG
TGGAAGTGTATATACGTGATAAAGCCGAATGGCCAATG
Found at i:34187727 original size:46 final size:46
Alignment explanation
Indices: 34187674--34187764 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
34187664 GGAAGTGTAT
* *
34187674 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGCGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
* * *
34187720 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
34187765 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
Found at i:34189323 original size:40 final size:40
Alignment explanation
Indices: 34189261--34189417 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
34189251 TTGAGAGTTA
*
34189261 TATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
34189301 TACATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34189341 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTTCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34189381 TATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
34189418 AGCCGAAGAG
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:34189393 original size:80 final size:80
Alignment explanation
Indices: 34189260--34189415 Score: 267
Period size: 80 Copynumber: 1.9 Consensus size: 80
34189250 ATTGAGAGTT
* *
34189260 ATATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGGGCTAAGTCTCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGGGCTAAGTCTCAAAGA
34189325 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
* * *
34189340 ATATATCCGGGTTAAGTCCCGAAGAGCATTCGTTCTGGTGTTATATCCGGGCTAAGTCTCAAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGGGCTAAGTCTCAAAGA
34189405 GCATTCGTGCT
66 GCATTCGTGCT
34189416 GGAGCCGAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (80 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCGGGCTAAGTCTCAAAGA
GCATTCGTGCTAGTG
Found at i:34189455 original size:62 final size:62
Alignment explanation
Indices: 34189358--34189479 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
34189348 GGGTTAAGTC
* * * *
34189358 CCGAAGAGCATTCGTTCTGGTGTTATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGAG
1 CCGAAGAGCATTCGTACTAGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGAG
*
34189420 CCGAAGAGCATTCGTACTAGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGG
1 CCGAAGAGCATTCGTACTAGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGG
34189480 TGATGTGTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (62 bp):
CCGAAGAGCATTCGTACTAGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGAG
Found at i:34189695 original size:25 final size:25
Alignment explanation
Indices: 34189645--34189697 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
34189635 TGTGTAACAA
* *
34189645 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
34189670 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
34189695 CAA
1 CAA
34189698 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:34193251 original size:47 final size:47
Alignment explanation
Indices: 34193197--34194006 Score: 1054
Period size: 47 Copynumber: 17.1 Consensus size: 47
34193187 TTAGGATTTT
* * *
34193197 ATGTGATGAATGTG-A-ATGTATATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGA--TAAGGCCGAATGGCCA
* *
34193244 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193291 ATGTGATGAAGGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193338 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193385 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCCGATTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193432 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193479 ATGTGACGAATGTGAACATGCACATATGCACATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATG--C--AT----ATATGTGATAAGGCCGAATGGCCA
* * * *
34193534 ATGTGATAAATGTGGACATGCATATATATGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
34193581 ATGTGATGAACGTGGAA-GTGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34193628 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193675 ATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
34193722 ATGTGACGAATGTGAACATACACATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
34193769 ATGTGATAAATGTGAACATGCATATATGTGATATGGTAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
34193816 ATGTGATGAATGTGGAA-GTGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34193863 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34193910 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
34193957 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
34194004 ATG
1 ATG
34194007 CGAAATGCGT
Statistics
Matches: 679, Mismatches: 69, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
46 6 0.01
47 607 0.89
48 9 0.01
49 13 0.02
51 3 0.00
53 1 0.00
55 40 0.06
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34193297 original size:22 final size:22
Alignment explanation
Indices: 34193270--34193390 Score: 88
Period size: 23 Copynumber: 5.2 Consensus size: 22
34193260 CATGTATATG
34193270 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
*
34193292 TGTGATGAAGG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
34193317 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
34193339 TGTGACGAATG-TGAACAT-GCACATA
1 TGTGA-TAAGGCCG-A-ATGGC-CA-A
34193364 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
34193386 TGTGA
1 TGTGA
34193391 CGAATGTGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
22 20 0.26
23 21 0.27
24 21 0.27
25 15 0.19
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:34193963 original size:22 final size:22
Alignment explanation
Indices: 34193842--34193963 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
34193832 AGTGTATATG
*
34193842 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
34193864 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
34193889 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
34193911 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
34193936 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
34193958 TGTGAT
1 TGTGAT
34193964 GAACGTGGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 16 0.21
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:34194033 original size:46 final size:46
Alignment explanation
Indices: 34193980--34194070 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
34193970 GGAAGTGTAT
* *
34193980 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGCGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
* * *
34194026 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
34194071 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
Found at i:34196897 original size:37 final size:37
Alignment explanation
Indices: 34196844--34196942 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
34196834 CGAATAGGCC
*
34196844 CCACACGTAGTTATCGGGTCTTACCCGGACA-AAGTCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAA-TCT
34196881 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
34196918 CCACACGTGGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
34196943 TTGAATATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
37 57 0.97
38 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:34197150 original size:48 final size:48
Alignment explanation
Indices: 34197087--34197328 Score: 349
Period size: 48 Copynumber: 5.0 Consensus size: 48
34197077 ATATACACAC
* *
34197087 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
34197135 ATCTCACACAAATTTCACACTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
34197183 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
34197231 ATCTCATATATATTTCACATTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
34197279 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
34197327 AT
1 AT
34197329 ATTTGTCTTG
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 175 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:34204049 original size:50 final size:48
Alignment explanation
Indices: 34203890--34204212 Score: 195
Period size: 46 Copynumber: 6.8 Consensus size: 48
34203880 ATAGGGTAAA
* *
34203890 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCC--ATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCAAATC
* * * * * * *
34203937 AAGTCGATGCCATGTCCAAGAAATAGTCTTACACTAACTAT-CAAATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCAAATC
* *
34203984 GAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAAATC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-CAAATC
* * * * **
34204034 TATGCCGATGCCATGTCCCAGACATTGTCTTACA-TTG-AC-ACATCTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCAAATC
* * * * ** *
34204080 ATAGCCGATGCC-TATCCCAGACAT-GTCTTACACT-GGTTTACATCTAG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCAAAT-C
* ** * * **
34204127 AGGCTAATG-CAT-ACCCGAGACAT-GTCTTACACTAGCACT-CATCTC
1 ATGCCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCTCCAAATC
*
34204172 AATGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
34204213 ACAATAACCC
Statistics
Matches: 216, Mismatches: 43, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
44 9 0.04
45 19 0.09
46 53 0.25
47 46 0.21
48 51 0.24
49 2 0.01
50 36 0.17
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCAAATC
Found at i:34205760 original size:21 final size:20
Alignment explanation
Indices: 34205736--34205774 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34205726 GTCGTAATGA
*
34205736 CCACACGGGCGTGTTGCCCAT
1 CCACACGGACGTG-TGCCCAT
34205757 CCACACGGACGTGTGCCC
1 CCACACGGACGTGTGCCC
34205775 TATTACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.41, G:0.28, T:0.15
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCAT
Found at i:34211965 original size:46 final size:45
Alignment explanation
Indices: 34211898--34212018 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 45
34211888 TGTGTGTGCT
* * *
34211898 AGTGTAAAACATGTTTGGGACATGCATCAGCCA-CAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCATCAG-ACGAGAGCC
* * * * **
34211944 AGTGTAAGACATGTCTGGGACATACGTCGGCATTGAGACGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA-TCAGACGAGAGCC
34211990 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
34212019 GCCTTGTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 3 0.05
46 57 0.92
47 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATCAGACGAGAGCC
Found at i:34212140 original size:49 final size:48
Alignment explanation
Indices: 34211990--34212163 Score: 187
Period size: 44 Copynumber: 3.7 Consensus size: 48
34211980 GACGAGAGTT
* ** *
34211990 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGTGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGT-ATATGTAAGCC
* * * *
34212038 AGTGTAAGACCTATCTGGGACATGGCATCAG-CTTGT-TGTGT--GTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGTATATGTAAGCC
* *
34212082 AGTGTAAGACCTGTCTGAGACATGGCATCGGCCTCGCTATATGTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTG-TATATGTAAGCC
*
34212131 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGC
34212164 ATCTTAACCC
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 29 0.28
45 3 0.03
46 3 0.03
47 4 0.04
48 26 0.25
49 19 0.18
50 19 0.18
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGTATATGTAAGCC
Found at i:34214330 original size:13 final size:13
Alignment explanation
Indices: 34214312--34214338 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34214302 CACAAACGAT
34214312 AAAATTTTCACAC
1 AAAATTTTCACAC
34214325 AAAATTTTCACAC
1 AAAATTTTCACAC
34214338 A
1 A
34214339 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:34215800 original size:37 final size:37
Alignment explanation
Indices: 34215750--34215899 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
34215740 CTTTAGCTCA
* * *
34215750 GACAAAATCTCCACACGAAGTTATCAGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
34215787 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
34215824 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
34215861 GACATAATCTCCACACGTAGTCATCGGGTTTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
34215898 GA
1 GA
34215900 ATATATTTCT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:34216165 original size:47 final size:47
Alignment explanation
Indices: 34216104--34216288 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
34216094 TACATATATT
* * * * *
34216104 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
34216151 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
34216198 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
34216245 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
34216289 CACAATTATC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:34216224 original size:22 final size:22
Alignment explanation
Indices: 34216197--34216272 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
34216187 GCTCACATTC
34216197 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
34216219 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
34216243 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
34216266 ATCACAT
1 ATCACAT
34216273 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:34219709 original size:6 final size:6
Alignment explanation
Indices: 34219691--34219778 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
34219681 AAGAAACATT
* * * *
34219691 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
34219740 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
34219779 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:34219744 original size:31 final size:31
Alignment explanation
Indices: 34219702--34219778 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
34219692 TCAGAACTAG
* *
34219702 AATCAGAATCAGAATCAGAATTAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
* * *
34219733 AATTAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
34219764 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
34219779 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:34220240 original size:27 final size:27
Alignment explanation
Indices: 34220199--34220502 Score: 472
Period size: 27 Copynumber: 11.3 Consensus size: 27
34220189 ACCTCATATC
34220199 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
34220226 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
34220253 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
34220280 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
34220307 TCAGTAATTCTACCCTACA-GGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
34220332 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
* *
34220360 GCGATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
34220387 CCGGTAATTCTACCCAACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
34220413 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
34220441 TCGGTAATTCTACCCTACA-GGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
34220467 GCGATAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
34220494 TCGGTAATT
1 TCGGTAATT
34220503 TTACAAGTTA
Statistics
Matches: 253, Mismatches: 18, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
25 3 0.01
26 46 0.18
27 199 0.79
28 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:34220520 original size:134 final size:134
Alignment explanation
Indices: 34220203--34220502 Score: 487
Period size: 134 Copynumber: 2.2 Consensus size: 134
34220193 CATATCTCGG
* *
34220203 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
*
34220268 TACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATT
66 AACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATT
*
34220333 CTGG
131 CTGA
* *
34220337 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
* *
34220402 AACAGGGGTA-TTCTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTAT
66 AACAAGGGTATTTC-GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTAT
34220466 TGC-GA
130 T-CTGA
*
34220471 TAATTCTACCCTATAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
34220503 TTACAAGTTA
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
133 3 0.02
134 149 0.97
135 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (134 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
AACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATT
CTGA
Found at i:34220597 original size:27 final size:27
Alignment explanation
Indices: 34220485--34220628 Score: 139
Period size: 27 Copynumber: 5.4 Consensus size: 27
34220475 TCTACCCTAT
* * ***
34220485 AGGGGTATTTCGGTAATTTTACAAGTT
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
34220512 AGGGGTATTTTAGTAA-TTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
34220538 AGGGGTATTTTAGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* * *
34220565 AGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTA-TAAACC
* *
34220593 A-GGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
*
34220619 AAGGGTATTT
1 AGGGGTATTT
34220629 CAATAATTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.27
27 69 0.69
28 4 0.04
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:34220610 original size:54 final size:53
Alignment explanation
Indices: 34220485--34220637 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 53
34220475 TCTACCCTAT
* * **
34220485 AGGGGTATTTCGGTAATTTTACAAGTTAGGGGTATTTTAGTAATTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
* * * ** *
34220538 AGGGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAA-TTTACAAACC
* * * *
34220592 -GAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTT
1 AG-GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTT
34220638 TGTAAATCGA
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
53 40 0.49
54 41 0.51
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
Found at i:34220662 original size:27 final size:27
Alignment explanation
Indices: 34220640--34220945 Score: 434
Period size: 27 Copynumber: 11.4 Consensus size: 27
34220630 AATAATTTTG
* * *
34220640 TAAATCGAGGATAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
34220667 TAAATCGAGGGT-AAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
34220693 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
34220720 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
34220747 TAAATTGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
34220774 TAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
34220801 TAAACCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
34220828 TAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
34220855 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
34220882 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
34220909 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
34220936 TAAATCGAGG
1 TAAATCGAGG
34220946 ATATTTGGGT
Statistics
Matches: 248, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
26 23 0.09
27 225 0.91
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:34220987 original size:27 final size:27
Alignment explanation
Indices: 34220632--34220989 Score: 387
Period size: 27 Copynumber: 13.3 Consensus size: 27
34220622 GGTATTTCAA
* * *
34220632 TAATTTTGTAAATCGAGGATAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
34220659 TAATTCTGTAAATCGAGGGT-AAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
*
34220685 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
34220712 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * * *
34220739 TAATTCTGTAAATTGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
34220766 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
34220793 TAATTCTATAAACCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
34220820 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
*
34220847 TAATTTTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
34220874 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
34220901 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * **
34220928 TAATTCTATAAATCGAGGAT-ATTTGGG
1 TAATTTTATAAATCGAGGGTAAAAT-GG
* ***
34220955 TAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTAAAATGG
34220982 TAATTTTA
1 TAATTTTA
34220990 CAAGTCGAAG
Statistics
Matches: 289, Mismatches: 39, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
26 25 0.09
27 261 0.90
28 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTAAAATGG
Found at i:34220988 original size:81 final size:81
Alignment explanation
Indices: 34220640--34220945 Score: 506
Period size: 81 Copynumber: 3.8 Consensus size: 81
34220630 AATAATTTTG
* ** **
34220640 TAAATCGAGGATAAAATAGTAATTCTGTAAATCGAGGGT-AAACGGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
34220704 TAAAATGGTAATTCTA
66 TAAAATGGTAATTCTA
* *
34220720 TAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTATAAATTGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
34220785 TAAAATGGTAATTCTA
66 TAAAATGGTAATTCTA
* *
34220801 TAAACCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
*
34220866 TAAAACGGTAATTCTA
66 TAAAATGGTAATTCTA
*
34220882 TAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGG
34220946 ATATTTGGGT
Statistics
Matches: 210, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
80 35 0.17
81 175 0.83
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
TAAAATGGTAATTCTA
Found at i:34223243 original size:39 final size:40
Alignment explanation
Indices: 34223198--34223369 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
34223188 GCTCCTCGTT
* *
34223198 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* *
34223238 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* * *
34223277 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* * * * *
34223317 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTTTAGTAACTCGCA
34223357 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34223370 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
Found at i:34223298 original size:40 final size:39
Alignment explanation
Indices: 34223200--34223422 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
34223190 TCCTCGTTCA
* * * *
34223200 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34223239 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34223278 GAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
34223318 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
34223358 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
34223399 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34223423 CAACATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 104 0.67
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:34223431 original size:41 final size:41
Alignment explanation
Indices: 34223354--34223431 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34223344 TTTGTATCTC
* * *
34223354 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
34223395 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AACATTCA
34223432 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:34247654 original size:42 final size:43
Alignment explanation
Indices: 34247535--34247656 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
34247525 CCTAGGATTC
* ** * *
34247535 CGATGTGTGATTTCGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATTTGTGATTTCGTGTAAGACCATGTCTGGGACATCGACAT
* * * *
34247578 CGGTTTGAGATTTACGTGTAAGACCATCTTTGGGACATCGACAT
1 CGATTTGTGATTT-CGTGTAAGACCATGTCTGGGACATCGACAT
*
34247622 C-ATATT-TGATTTCGTGTAAGACCCTGTCTGGGACA
1 CGAT-TTGTGATTTCGTGTAAGACCATGTCTGGGACA
34247657 GTGGCATTGA
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 20 0.32
43 16 0.25
44 27 0.43
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATTTGTGATTTCGTGTAAGACCATGTCTGGGACATCGACAT
Found at i:34247708 original size:43 final size:43
Alignment explanation
Indices: 34247595--34247708 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 43
34247585 AGATTTACGT
* * * * **
34247595 GTAAGACCATC-TTTGGGACATCGACA-TCATATTTGATTTCGT
1 GTAAGACCA-CGTTTGGGACGTTGACATTGATATTTGATTACAA
* *
34247637 GTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTACAA
1 GTAAGACCAC-GTTTGGGAC-GTTGACATTGATATTTGATTACAA
34247680 GTAAGACCACGTTTGGGACGTTGACATTG
1 GTAAGACCACGTTTGGGACGTTGACATTG
34247709 TATGAGCTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.02
42 19 0.34
43 35 0.62
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTAAGACCACGTTTGGGACGTTGACATTGATATTTGATTACAA
Found at i:34253684 original size:50 final size:49
Alignment explanation
Indices: 34253609--34254045 Score: 510
Period size: 50 Copynumber: 8.9 Consensus size: 49
34253599 CATGATGCTG
*
34253609 GAGATATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
*
34253659 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* ** *
34253709 GAGATATGAGAACTAGTGTAAGACCATGTCTATGACATGGCATCAGGCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
*
34253759 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* *
34253809 GAGATATGAGAGCTAGAGTAAGACCATGTCTAGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* * **
34253859 GAGATATGAGAGCTAGTGTAAGACCTTGTCTGGGACATGACATCGGCT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCACCTC
* * * * *
34253907 -TGATATGTG-TC-AGTGTAAGACCATGTTTGGGACATGACATCAACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
* *
34253954 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
** * * * * *
34254002 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGAGACATGCCATC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
34254046 GACACCTTAC
Statistics
Matches: 338, Mismatches: 41, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
45 28 0.08
46 3 0.01
47 7 0.02
48 39 0.12
49 5 0.01
50 256 0.76
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCACCTC
Found at i:34255067 original size:27 final size:26
Alignment explanation
Indices: 34255032--34255143 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
34255022 AGCATGGCTG
* *
34255032 CCAGAACAGATGATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
34255058 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
34255086 CCAGAACAGATATATGTGCCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * *
34255113 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
34255140 CCAG
1 CCAG
34255144 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:34255096 original size:54 final size:54
Alignment explanation
Indices: 34255032--34255143 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
34255022 AGCATGGCTG
*
34255032 CCAGAACAGAT-GATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAGATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
34255086 CCAGAACAGATATATGTGCCAGAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAGATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
34255140 CCAG
1 CCAG
34255144 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAGATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:34261398 original size:42 final size:43
Alignment explanation
Indices: 34261344--34261453 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
34261334 GATTTGAGAT
34261344 TTACATGTAAGACCATGTCTGGGACA-TCAGCATCG-TATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-AGCATCGATATTTGA
* * * * * *
34261386 TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGA
*
34261429 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
34261454 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGA
Found at i:34261427 original size:43 final size:42
Alignment explanation
Indices: 34261289--34261442 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 42
34261279 CATAGGATTT
* ** * *
34261289 TCGATATGTGATTTTGTGTAAG-CCCACGTCTAGGACATTGGAA
1 TCGATATTTGATTTCATGTAAGACCC-TGTCTAGGACA-TGGCA
* * * *
34261332 TCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCAGCA
1 TCGATATT-TGATTT-CATGTAAGACCCTGTCTAGGACAT-GGCA
* *
34261376 TCG-TATTTGATTTCGTGTAAGACCCTGTCTAGGATAGTGGCA
1 TCGATATTTGATTTCATGTAAGACCCTGTCTAGGACA-TGGCA
*
34261418 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTTCATGTAAGACC
34261443 ACGTCTGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 26 0.30
43 37 0.43
44 22 0.25
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TCGATATTTGATTTCATGTAAGACCCTGTCTAGGACATGGCA
Found at i:34261460 original size:43 final size:43
Alignment explanation
Indices: 34261305--34261461 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
34261295 TGTGATTTTG
* * *
34261305 TGTAAGCCCACGTCTAGGACATTGGAATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATT-TGA-TTACA
* * ** * *
34261349 TGTAAGACCATGTCTGGGACATCAGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACA
* *
34261391 TGTAAGACC-CTGTCTAGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGATATTTGATTACA
* *
34261434 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
34261462 TGTATGAGAT
Statistics
Matches: 88, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
42 26 0.30
43 35 0.40
44 27 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACA
Found at i:34265789 original size:87 final size:87
Alignment explanation
Indices: 34265641--34265816 Score: 307
Period size: 87 Copynumber: 2.0 Consensus size: 87
34265631 ATGGATGTTA
*
34265641 GAGGGTGACCAAAGGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
1 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
*
34265706 TTTAGGCCGTGTGTGACACACG
66 TCTAGGCCGTGTGTGACACACG
* *
34265728 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACATGGTCCACATGGGTAGACACACGGGCTTGTG
1 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
*
34265793 TCTAGGCTGTGTGTGACACACG
66 TCTAGGCCGTGTGTGACACACG
34265815 GA
1 GA
34265817 TCACGCCATG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (87 bp):
GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
TCTAGGCCGTGTGTGACACACG
Found at i:34272449 original size:13 final size:13
Alignment explanation
Indices: 34272431--34272457 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34272421 GAAGCAATTG
34272431 CACACGGGCGTGT
1 CACACGGGCGTGT
34272444 CACACGGGCGTGT
1 CACACGGGCGTGT
34272457 C
1 C
34272458 CCTGTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:34272831 original size:12 final size:13
Alignment explanation
Indices: 34272815--34272852 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
34272805 AAATATTAAA
34272815 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
34272828 TTGTGTTCTTAATT
1 CT-TGTTCTTAATT
34272842 CTTGTT-TTAAT
1 CTTGTTCTTAAT
34272853 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 5 0.23
14 12 0.55
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:34272836 original size:14 final size:15
Alignment explanation
Indices: 34272817--34272846 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34272807 ATATTAAACT
34272817 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
34272831 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
34272846 T
1 T
34272847 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:34286592 original size:42 final size:42
Alignment explanation
Indices: 34286488--34286592 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
34286478 AGACACACGT
*
34286488 GCGTGTGTCTAGCCCTTGTGTGACACACAGTCTACCCCATGG
1 GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
* *
34286530 GCGTGTGTCTAGGCCGTGTGTGACACACGGTCTACCCCATGG
1 GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
*
34286572 GCGTGTAGT-TCGGCCTTGTGT
1 GCGTGT-GTCTAGGCCTTGTGT
34286593 CCCTTGCATG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.13, C:0.28, G:0.31, T:0.28
Consensus pattern (42 bp):
GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
Found at i:34293435 original size:46 final size:48
Alignment explanation
Indices: 34293220--34293488 Score: 183
Period size: 46 Copynumber: 5.7 Consensus size: 48
34293210 TTATTATATG
* * *
34293220 CTAGTGTAAGA-CATGTCTGGGACAT-ACATCGACCACATTATGA-G-AG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCAC-TGA-GATGTAGT
* ** * *
34293266 CTAGTGTAAGACCATGTCTGGGACATGGCAACAACATTGAGGTG-AGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTAGT
** * *
34293313 GCTAGTGTAAGA-TGTGTCTGGGACAT-GCATC-G-ATTTGGTGATGATAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CT-GAGATG-TAGT
* **
34293360 CCAGTGTAAGA-TGTGTCTGGGACAT-GCATCGGCTA-TGAGATGT-GT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGAGATGTAGT
* *
34293405 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGT-AG-T
34293454 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
34293489 CTCGGTGATG
Statistics
Matches: 184, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 72 0.39
47 30 0.16
48 17 0.09
49 3 0.02
50 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTAGT
Found at i:34296529 original size:24 final size:23
Alignment explanation
Indices: 34296457--34296530 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
34296447 AAGCTCTATT
* * *
34296457 GAGCTGAA-CGGTAAACTCTGAC
1 GAGCTGAATCAGTAAGCTCTTAC
* * *
34296479 GAGCTGAATCAGTAAGTTCATAT
1 GAGCTGAATCAGTAAGCTCTTAC
34296502 GAGCTGAGAAT-AGTAAGCTCTTAC
1 GAGCT--GAATCAGTAAGCTCTTAC
34296526 GAGCT
1 GAGCT
34296531 AATATATCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 8 0.20
23 13 0.32
24 15 0.38
25 4 0.10
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:34301839 original size:56 final size:56
Alignment explanation
Indices: 34301772--34301933 Score: 252
Period size: 56 Copynumber: 2.9 Consensus size: 56
34301762 TACATGTAAC
* * * *
34301772 CACATATCGATGCCAACGTACTAGACGTGGTCTTACTTGCACACATTTATCGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
* **
34301828 CACATATCGATGCCAACGTATTAAATTTGGTCTTACTCCCACACATATATCGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
*
34301884 CACATATCGATGCCAATGTATTAAATGTGGTCTTACTTGCACACATATAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATAT
34301934 GGATGCCATG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
Found at i:34306842 original size:26 final size:27
Alignment explanation
Indices: 34306792--34306842 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
34306782 AACCACATTA
* **
34306792 AAAACATTTAATTCAATTTGTAATTTC
1 AAAACATTTAATACAATTTCAAATTTC
34306819 AAAAC-TTTAATACAATTTCAAATT
1 AAAACATTTAATACAATTTCAAATT
34306843 CTACCATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (27 bp):
AAAACATTTAATACAATTTCAAATTTC
Found at i:34309686 original size:27 final size:22
Alignment explanation
Indices: 34309636--34309680 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
34309626 ATTCAATGAC
34309636 ATAATCAACTCAATTTAAAATA
1 ATAATCAACTCAATTTAAAATA
34309658 ATAATCAACTCAATTTAAAATA
1 ATAATCAACTCAATTTAAAATA
34309680 A
1 A
34309681 CATAATCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATCAACTCAATTTAAAATA
Found at i:34315163 original size:16 final size:16
Alignment explanation
Indices: 34315137--34315170 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
34315127 GATTGAAGGC
34315137 TTTAAGTTT-AATTAA
1 TTTAAGTTTAAATTAA
34315152 TTTAATGTTTAAATTAA
1 TTTAA-GTTTAAATTAA
34315169 TT
1 TT
34315171 AAACTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGTTTAAATTAA
Found at i:34318204 original size:79 final size:80
Alignment explanation
Indices: 34318055--34318279 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 80
34318045 TTGAATGATG
* * * * * *
34318055 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAAAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCT-AAGTCCCGAAGGCA
34318117 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
* *
34318135 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
34318197 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * **
34318214 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTCTGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
34318279 G
66 G
34318280 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 69 0.56
80 42 0.34
81 10 0.08
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:34318286 original size:40 final size:40
Alignment explanation
Indices: 34318055--34318279 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
34318045 TTGAATGATG
* * * *
34318055 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34318095 TCCGGACTAAAAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
34318135 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
34318175 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34318214 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
34318255 -CCGGGCTCTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34318280 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
39 37 0.23
40 112 0.70
41 12 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34318298 original size:119 final size:120
Alignment explanation
Indices: 34318055--34318285 Score: 265
Period size: 119 Copynumber: 1.9 Consensus size: 120
34318045 TTGAATGATG
*
34318055 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAAATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAAATCCGAAGGCATTT
* **
34318120 GTGCGAGATACTAAATTCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * * * *
34318175 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAAAT-CCGAAGGCAT
* * **
34318237 TTGTGCGAGTTACTATAA-CCGGGCTCTG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAG
34318286 TAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
118 5 0.05
119 68 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAAATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:34318301 original size:79 final size:79
Alignment explanation
Indices: 34318108--34318312 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
34318098 GGACTAAAAT
** * * **
34318108 CCGAAGGCATTTGTGCGAGATACTAAATTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACT
*
34318172 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
34318187 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
**
34318251 ATAACCGGGCTCTGTC
66 AT-ACCGGGCTAAG-C
* *
34318267 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
34318313 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 80 0.74
80 25 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:34337978 original size:27 final size:27
Alignment explanation
Indices: 34337948--34338000 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
34337938 CCCAAAATAC
*
34337948 GTAAAATGACCATAATACCCTTATATG
1 GTAAAATAACCATAATACCCTTATATG
* * *
34337975 GTAAAATAACGATTATGCCCTTATAT
1 GTAAAATAACCATAATACCCTTATAT
34338001 TTCATATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
GTAAAATAACCATAATACCCTTATATG
Found at i:34338184 original size:27 final size:27
Alignment explanation
Indices: 34338125--34338184 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
34338115 GGAAGCATTG
* *
34338125 TACTGGTGGCTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTCACTAT
* *
34338152 TACTGGTGGCTTTGCCACATTTACTAT
1 TACTGGTGGCTATGCCACATTCACTAT
*
34338179 TTCTGG
1 TACTGG
34338185 CAACTATGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTCACTAT
Found at i:34343243 original size:18 final size:18
Alignment explanation
Indices: 34343220--34343282 Score: 54
Period size: 23 Copynumber: 3.2 Consensus size: 18
34343210 ATTCTTTTTC
34343220 TTTATTTTTCTTTATTTA
1 TTTATTTTTCTTTATTTA
*
34343238 TTTATTTTACTTTTATTCTTA
1 TTTATTTTTC-TTTA-T-TTA
*
34343259 CTTTTATTTTTATTTTATTTA
1 --TTTATTTTT-CTTTATTTA
34343280 TTT
1 TTT
34343283 GAGTATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 1 0.03
21 6 0.17
22 1 0.03
23 12 0.33
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTCTTTATTTA
Found at i:34343261 original size:12 final size:11
Alignment explanation
Indices: 34343238--34343278 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
34343228 TCTTTATTTA
34343238 TTTATTTTACT
1 TTTATTTTACT
34343249 TTTATTCTTACT
1 TTTATT-TTACT
34343261 TTTATTTTTA-T
1 TTTA-TTTTACT
34343272 TTTATTT
1 TTTATTT
34343279 ATTTGAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 12 0.43
13 2 0.07
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTACT
Found at i:34343448 original size:3 final size:3
Alignment explanation
Indices: 34343384--34343429 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
34343374 TTTTTTATGT
* *
34343384 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34343430 CCTTCTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34343519 original size:27 final size:28
Alignment explanation
Indices: 34343385--34343519 Score: 78
Period size: 27 Copynumber: 4.8 Consensus size: 28
34343375 TTTTTATGTT
* **
34343385 TATTATTATTATTATTATTATTATTAT-
1 TATTATTATTTTTATTATTATTCCTATA
* * ** * *
34343412 TATTGTTATTGTTATTATCCTTCTTTGTA
1 TATTATTATTTTTATTATTATTC-CTATA
* *
34343441 CTATTATTACTGTTATTGATTATTCCTATA
1 -TATTATTATTTTTATT-ATTATTCCTATA
* *
34343471 TATTATTATTTTTAGTACTATTCCT-TA
1 TATTATTATTTTTATTATTATTCCTATA
* *
34343498 T-TTCGTTCTTTTTATTATTATT
1 TATT-ATTATTTTTATTATTATT
34343520 TAGTTTTGTT
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.02
27 35 0.42
28 11 0.13
29 13 0.16
30 17 0.20
31 5 0.06
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTATTATTTTTATTATTATTCCTATA
Found at i:34345043 original size:42 final size:43
Alignment explanation
Indices: 34344986--34345091 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 43
34344976 TATGATTTAC
*
34344986 GTGTAAGACCATGTCTGGGACA-TCGGCATC-GTATTTGATTTT
1 GTGTAAGACCATGTCTGGGACAGT-GGCATCAATATTTGATTTT
* **
34345028 GTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTT
* * *
34345071 ATGTAAGCCCATGTCTTGGAC
1 GTGTAAGACCATGTCTGGGAC
34345092 GTTGGTATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTT
Found at i:34353903 original size:45 final size:46
Alignment explanation
Indices: 34353849--34353957 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
34353839 TGCACACTTT
* * *
34353849 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCGTATCACATATAACACTTACACAT-TCA
*
34353895 TCACATTGGCCATTCGGCCGTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCGTATCACATATA-ACACTTACACATTCA
34353942 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
34353958 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 24 0.43
46 5 0.09
47 27 0.48
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCGTATCACATATAACACTTACACATTCA
Found at i:34356546 original size:22 final size:20
Alignment explanation
Indices: 34356506--34356546 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
34356496 AGTCCTATTA
*
34356506 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
34356526 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
34356547 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:34357816 original size:40 final size:40
Alignment explanation
Indices: 34357772--34358047 Score: 408
Period size: 40 Copynumber: 6.9 Consensus size: 40
34357762 GAATACACAT
* *
34357772 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
34357812 CACCAGCACAAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
34357852 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
34357892 CACCAGCACGAATGCTCTTCGGGAATTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
34357932 CACCAGCACGAATGCTCTTCGGGAATTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
34357972 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
34358012 CACCGGCACGAATACCCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
34358048 CATCGTCGAG
Statistics
Matches: 216, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:34358174 original size:38 final size:38
Alignment explanation
Indices: 34358088--34358179 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
34358078 CTCTATATGA
* * * **
34358088 AGCCAGTGGGTCTTAATCCGGACATAATCTCTGTACAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
* *
34358126 AGCCATCGGGTCTTTACCCGGACATAATCTCTACATAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
*
34358164 AGTCAGCGGGTCTTTA
1 AGCCAGCGGGTCTTTA
34358180 AACTCGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (38 bp):
AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
Found at i:34359958 original size:47 final size:48
Alignment explanation
Indices: 34359887--34359990 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 48
34359877 GGCTCTTTGT
* * *
34359887 GAGCTTCCCGATAGTGCTCGCTTGAACAT-CTTA-ATATCGGCTATCCG
1 GAGCTTCCCGATAGTGCTCACTTGAACATCCTGATATAT-GACTATCCG
*
34359934 GAGCTTCCCGATA-TGGCTCACTTGAACTTCCTGATATATGACTATCCG
1 GAGCTTCCCGATAGT-GCTCACTTGAACATCCTGATATATGACTATCCG
34359982 GAGCTTCCC
1 GAGCTTCCC
34359991 AATTAATAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.02
47 25 0.50
48 20 0.40
49 4 0.08
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (48 bp):
GAGCTTCCCGATAGTGCTCACTTGAACATCCTGATATATGACTATCCG
Found at i:34366708 original size:3 final size:3
Alignment explanation
Indices: 34366700--34366729 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34366690 TTGATAAAAT
34366700 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34366730 CTAAGTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34375800 original size:49 final size:49
Alignment explanation
Indices: 34375731--34375968 Score: 228
Period size: 49 Copynumber: 4.8 Consensus size: 49
34375721 GTAGTCGGAG
* *
34375731 CTATCTGG-ACTCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * * *
34375779 CAATCTGGTACACGTAGTAGCCTGTACTTA-TACTACAAATGTGACGAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAC-CAA
* * * * *
34375828 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* * * * * * * *
34375878 GTTGTCGGGTACGCATAGTAGCCTACACTTAGTACTACTCATACGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
* *
34375929 CTATCTGGTACACGTAGTAGCCCGCACTTAGTACAACACA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
34375969 CGTGACCTAA
Statistics
Matches: 149, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
48 20 0.13
49 47 0.32
50 46 0.31
51 36 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:34384825 original size:27 final size:27
Alignment explanation
Indices: 34384795--34384972 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34384785 ATATCGAGTC
* * * *
34384795 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34384822 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34384849 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34384877 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34384904 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34384931 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34384958 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34384973 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34384934 original size:82 final size:81
Alignment explanation
Indices: 34384816--34384971 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
34384806 TGCTATATAA
*
34384816 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34384881 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34384898 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34384962 CACTTAGTGC
65 CACTTAGTGC
34384972 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34392640 original size:27 final size:27
Alignment explanation
Indices: 34392610--34392787 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34392600 ATATCGAGTC
* *
34392610 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
34392637 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34392664 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34392692 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
34392719 TGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
34392746 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
34392773 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34392788 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34400234 original size:22 final size:22
Alignment explanation
Indices: 34400204--34400248 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
34400194 ATTGTATGAT
34400204 TTATGAAT-GCATGATAATTGCA
1 TTATGAATGGCATGATAA-TGCA
*
34400226 TTATTAATGGCATGATAATGCA
1 TTATGAATGGCATGATAATGCA
34400248 T
1 T
34400249 GAAATGCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
TTATGAATGGCATGATAATGCA
Found at i:34400256 original size:9 final size:10
Alignment explanation
Indices: 34400209--34400257 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
34400199 ATGATTTATG
34400209 AATGCATGAT
1 AATGCATGAT
*
34400219 AATTGCATTATT
1 AA-TGCATGA-T
34400231 AATGGCATGAT
1 AAT-GCATGAT
34400242 AATGCATGA-
1 AATGCATGAT
34400251 AATGCAT
1 AATGCAT
34400258 CTTTGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.21
10 8 0.24
11 11 0.32
12 8 0.24
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (10 bp):
AATGCATGAT
Found at i:34402849 original size:31 final size:31
Alignment explanation
Indices: 34402808--34402871 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34402798 CCTTTTCATA
*
34402808 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
34402839 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
34402870 TT
1 TT
34402872 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:34403137 original size:23 final size:23
Alignment explanation
Indices: 34403084--34403205 Score: 172
Period size: 23 Copynumber: 5.2 Consensus size: 23
34403074 GGCCTAGCCT
*
34403084 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
34403108 CTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
34403131 CTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
* * * *
34403154 CCTTTAATAACTGAGGTACAAGC
1 CTTTTAATAACTGGGGCATAAGC
*
34403177 CCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
34403201 CTTTT
1 CTTTT
34403206 CCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
23 62 0.70
24 26 0.30
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (23 bp):
CTTTTAATAACTGGGGCATAAGC
Found at i:34403154 original size:47 final size:47
Alignment explanation
Indices: 34403084--34403205 Score: 192
Period size: 46 Copynumber: 2.6 Consensus size: 47
34403074 GGCCTAGCCT
* * *
34403084 CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
*
34403131 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGAGGTACAAGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
*
34403177 CCTTTAATAACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
34403206 CCACTTCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 42 0.61
47 27 0.39
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
Found at i:34403283 original size:20 final size:20
Alignment explanation
Indices: 34403255--34403321 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
34403245 TTATGATTAC
*
34403255 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34403275 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34403295 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34403315 ACCATGT
1 ATCATGT
34403322 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34419886 original size:80 final size:79
Alignment explanation
Indices: 34419745--34419894 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 79
34419735 ATGTGCATGA
*
34419745 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCC-
34419810 GGCTAAGACCCGAAG
65 GGCTAAGACCCGAAG
* ** *
34419825 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTTATATCCG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCG
34419890 GCTAA
66 GCTAA
34419895 ATTCTGAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 6 0.09
80 59 0.91
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (79 bp):
GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGATATATCCG
GCTAAGACCCGAAG
Found at i:34419890 original size:40 final size:40
Alignment explanation
Indices: 34419745--34419874 Score: 251
Period size: 40 Copynumber: 3.2 Consensus size: 40
34419735 ATGTGCATGA
34419745 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
34419785 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
*
34419825 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
34419865 GCATTTGTGC
1 GCATTTGTGC
34419875 TTGTGGTTAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
Found at i:34424694 original size:20 final size:20
Alignment explanation
Indices: 34424669--34424708 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34424659 TAAATGTAGT
34424669 AACATAATTGTCATTTTGAG
1 AACATAATTGTCATTTTGAG
34424689 AACATAATTGTCATTTTGAG
1 AACATAATTGTCATTTTGAG
34424709 CAATTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AACATAATTGTCATTTTGAG
Found at i:34426885 original size:46 final size:47
Alignment explanation
Indices: 34426779--34426900 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
34426769 TGTCTTTGAC
** * *
34426779 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
34426829 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTTAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
34426875 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
34426901 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:34435303 original size:27 final size:26
Alignment explanation
Indices: 34435251--34435310 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
34435241 ACATATATAT
*
34435251 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
34435277 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
34435304 ATATCTG
1 ATATCTG
34435311 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:34445083 original size:25 final size:25
Alignment explanation
Indices: 34445047--34445095 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
34445037 AAGGAGTAGC
*
34445047 TGACTCCGTTTCATCTAAATCATAG
1 TGACTCCATTTCATCTAAATCATAG
34445072 TGACTCCATTTCATCTAAATCATA
1 TGACTCCATTTCATCTAAATCATA
34445096 CGACTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (25 bp):
TGACTCCATTTCATCTAAATCATAG
Found at i:34445563 original size:20 final size:20
Alignment explanation
Indices: 34445538--34445575 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34445528 AAATAGGGGC
34445538 ACATGCCCATGTGGCCTGGG
1 ACATGCCCATGTGGCCTGGG
* *
34445558 ACATGCCCGTGTTGCCTG
1 ACATGCCCATGTGGCCTG
34445576 CCCGTGGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (20 bp):
ACATGCCCATGTGGCCTGGG
Found at i:34445996 original size:180 final size:181
Alignment explanation
Indices: 34445694--34446064 Score: 717
Period size: 180 Copynumber: 2.1 Consensus size: 181
34445684 TGGCCGTGTA
34445694 AAAACCTAATTTTTCATCATTTTAAAGCTATTTTCACATATCAAACACACCTAGTTCATGCCCAA
1 AAAACCTAATTTTTCATCATTTTAAAGCTATTTTCACATATCAAACACACCTAGTTCATGCCCAA
*
34445759 AATATTGACTTATAAATCTTGATCAAATAGCATTCATTTATTCATTTGAAATACTTCTTAAAAGT
66 AACATTGACTTATAAATCTTGATCAAATAGCATTCATTTATTCATTTGAAATACTTCTTAAAAGT
34445824 TACAAGTTCACTTTACACCCAAAACAT-AAATATATTTAAGTGACTAAAAC
131 TACAAGTTCACTTTACACCCAAAACATAAAATATATTTAAGTGACTAAAAC
*
34445874 AAAACCTAATTTTTCATCATTTTTAAGCTATTTTCACATATCAAACACACCTAGTTCATGCCCAA
1 AAAACCTAATTTTTCATCATTTTAAAGCTATTTTCACATATCAAACACACCTAGTTCATGCCCAA
34445939 AACATTGACTTATAAATCTTGATCAAATAGCATTCATTTATTCATTTGAAATACTTCTTAAAAGT
66 AACATTGACTTATAAATCTTGATCAAATAGCATTCATTTATTCATTTGAAATACTTCTTAAAAGT
34446004 TACAAGTTCACTTTACACCCAAAACATAAAATATATTTAAGTGACTAAAAC
131 TACAAGTTCACTTTACACCCAAAACATAAAATATATTTAAGTGACTAAAAC
34446055 AAAACCTAAT
1 AAAACCTAAT
34446065 ACATGCCGCA
Statistics
Matches: 188, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
180 155 0.82
181 33 0.18
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (181 bp):
AAAACCTAATTTTTCATCATTTTAAAGCTATTTTCACATATCAAACACACCTAGTTCATGCCCAA
AACATTGACTTATAAATCTTGATCAAATAGCATTCATTTATTCATTTGAAATACTTCTTAAAAGT
TACAAGTTCACTTTACACCCAAAACATAAAATATATTTAAGTGACTAAAAC
Found at i:34455943 original size:30 final size:29
Alignment explanation
Indices: 34455904--34455961 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
34455894 AGTAGCTGAA
*
34455904 CTAGTTAAATCGCACACTTAGTGCCAAAG
1 CTAGTTAAATCGCACACTTAATGCCAAAG
34455933 CTAGTTTAAATCGCACACTTAATGCCAAA
1 CTAG-TTAAATCGCACACTTAATGCCAAA
34455962 ACTTCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (29 bp):
CTAGTTAAATCGCACACTTAATGCCAAAG
Found at i:34457638 original size:3 final size:3
Alignment explanation
Indices: 34457630--34457670 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
34457620 TTAATTGATA
34457630 AAT AAT AAT AAT AAT CAA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
34457671 GTAAATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:34460516 original size:50 final size:50
Alignment explanation
Indices: 34460402--34460688 Score: 208
Period size: 49 Copynumber: 5.8 Consensus size: 50
34460392 AGAACACATG
* * *** * *
34460402 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGAT-GATTAGGTCAC-TG
1 TGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAG-TTAGGTCGCATA
* *
34460451 TGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGGTTGCATA
1 TGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAGTTAGGTCGCATA
** * * * * * * * * *
34460501 TGTAGTGTTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGATCACGTA
1 TGTAGTACTAAGTGCAGACTACTATGTGTACCAGA-TAGTTAGGTCGCATA
* * * *** *
34460552 TGTAGTACTAAGTGCA-AGCTACTACGTGTATCAGATGGTTAGGTCATGTG
1 TGTAGTACTAAGTGCAGA-CTACTATGTGTACCAGATAGTTAGGTCGCATA
* *
34460602 TGTAGTACTAAGTGCA-AGCTACTATGTGTACC-GAATTGTT-GGTCGCATG
1 TGTAGTACTAAGTGCAGA-CTACTATGTGTACCAG-ATAGTTAGGTCGCATA
* *
34460651 TGTAGTACTAAGTGCAGACTACTATGCGTACCAAATAG
1 TGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAG
34460689 CTTCGGTTAC
Statistics
Matches: 186, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
49 76 0.41
50 75 0.40
51 35 0.19
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAGTTAGGTCGCATA
Found at i:34460575 original size:101 final size:100
Alignment explanation
Indices: 34460451--34460633 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 100
34460441 TAGGTCACTG
34460451 TGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGGTTGCATATGTAGT-GT-TAAGT
1 TGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGG-T-CATATGT-GTAGTATAAGT
*
34460514 GCAGGCTACTATGCGTACCCGACAACTTCGATCACGTA
63 GCAAGCTACTATGCGTACCCGACAACTTCGATCACGTA
* * *
34460552 TGTAGTACTAAGTGCA-AGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGA-CTACTACGTGTACCAGATAGTTAGGTCATATGTGTAGTA-TAAGTG
*
34460616 CAAGCTACTATGTGTACC
64 CAAGCTACTATGCGTACC
34460634 GAATTGTTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
98 2 0.03
99 8 0.11
100 2 0.03
101 61 0.84
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGGTCATATGTGTAGTATAAGTGCA
AGCTACTATGCGTACCCGACAACTTCGATCACGTA
Found at i:34460673 original size:150 final size:150
Alignment explanation
Indices: 34460402--34460682 Score: 388
Period size: 150 Copynumber: 1.9 Consensus size: 150
34460392 AGAACACATG
* * * *
34460402 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGATTAGGTCACTGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAAGCTACTACGTGTATAAGATGATTAGGTCACTGTGTAGTACTAAGTGCA
* ** *
34460467 GACTACTACGTGTACCAGATAGTTAGGTTGCATATGTAGTGTTAAGTGCAGGCTACTATGCGTAC
66 GACTACTACGTGTACCAGATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCGTAC
34460532 CCGACAACTTCGATCACGTA
131 CCGACAACTTCGATCACGTA
* * *
34460552 TGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAAGCTACTACGTGTATAAGATGATTAGGTCA-CTGTGTAGTACTAAGTGC
* * *
34460617 A-AGCTACTATGTGTACC-GAATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCG
65 AGA-CTACTACGTGTACCAG-ATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCG
34460679 TACC
128 TACC
34460683 AAATAGCTTC
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
150 78 0.68
151 36 0.32
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (150 bp):
TGTAGTACTAAGTGCAAGCTACTACGTGTATAAGATGATTAGGTCACTGTGTAGTACTAAGTGCA
GACTACTACGTGTACCAGATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCGTAC
CCGACAACTTCGATCACGTA
Found at i:34460717 original size:150 final size:150
Alignment explanation
Indices: 34460403--34460717 Score: 341
Period size: 150 Copynumber: 2.1 Consensus size: 150
34460393 GAACACATGT
* * * *
34460403 GTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGATTAGGTCACTGTGTAGTACTAAGTGCAG
1 GTAGTAATATGTGCAAGCTACTACGTGTATAAGATGATTAGGTCACTGTGTAGTACTAAGTGCAG
* ** *
34460468 ACTACTACGTGTACCAGATAGTTAGGTTGCATATGTAGTGTTAAGTGCAGGCTACTATGCGTACC
66 ACTACTACGTGTACCAGATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCGTACC
** * *
34460533 CGACAACTTCGATCACGTAT
131 AAACAACTTCGATCACGAAG
* * * * *
34460553 GTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGCA
1 GTAGTAATATGTGCAAGCTACTACGTGTATAAGATGATTAGGTCA-CTGTGTAGTACTAAGTGCA
* * *
34460618 -AGCTACTATGTGTACC-GAATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGT
65 GA-CTACTACGTGTACCAG-ATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCGT
* * * *
34460680 ACCAAATAGCTTCGGTTAC-AAGG
128 ACCAAACAACTTCGATCACGAA-G
*
34460703 GTGGTAATATGTGCA
1 GTAGTAATATGTGCA
34460718 GGCAATCGTG
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
149 1 0.01
150 99 0.73
151 36 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (150 bp):
GTAGTAATATGTGCAAGCTACTACGTGTATAAGATGATTAGGTCACTGTGTAGTACTAAGTGCAG
ACTACTACGTGTACCAGATAGTTAGGTCGCATATGTAGTACTAAGTGCAGACTACTATGCGTACC
AAACAACTTCGATCACGAAG
Found at i:34468581 original size:46 final size:45
Alignment explanation
Indices: 34468528--34468700 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
34468518 TGGTTGAGCA
*
34468528 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGC-AACG
* * * * * * *
34468574 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGT-GC-A-ACG
34468621 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGG-TGC-AACG
* *
34468667 -CTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34468701 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 6 0.06
46 62 0.60
47 32 0.31
48 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGCAACG
Found at i:34468684 original size:93 final size:93
Alignment explanation
Indices: 34468525--34468695 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
34468515 TGATGGTTGA
* * *
34468525 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGCAAACGTCCGAACTCATTGAGT
34468590 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34468618 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GGATGCAAACG-CTCGAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGG-TGCAAACGTC-CGAACTCATTGA
34468681 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
34468696 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGGTGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34486151 original size:31 final size:31
Alignment explanation
Indices: 34486113--34486191 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
34486103 TTTAACGGTT
34486113 ACTGGGCCGAAGCCTTTTCATAAATCATATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
*
34486144 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
34486175 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34486192 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATA
Found at i:34486292 original size:47 final size:42
Alignment explanation
Indices: 34486215--34486311 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 42
34486205 TGGCCCATAG
* **
34486215 GCCCATTTCAATATCACATGTAATGTCAATGGTGTAGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAA---TG-A-ATGTATGCAA
*
34486262 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34486304 GCCCATTT
1 GCCCATTT
34486312 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 18 0.39
43 1 0.02
44 2 0.04
47 25 0.54
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:34486528 original size:26 final size:26
Alignment explanation
Indices: 34486444--34486579 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
34486434 CTGGAGGCCT
34486444 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
34486468 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
34486493 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
34486519 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
34486545 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
34486571 AGCTCTTTT
1 AGCCCTTTT
34486580 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 57 0.57
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:34486568 original size:52 final size:51
Alignment explanation
Indices: 34486444--34486579 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
34486434 CTGGAGGCCT
34486444 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
34486493 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
34486545 AGCCCTTTTCAATAAACTGGGGCATAAGCTCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
34486580 GCACTTCCTC
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 25 0.30
52 35 0.43
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Done.