Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 205 of 295
Found at i:65548230 original size:27 final size:27
Alignment explanation
Indices: 65548199--65548403 Score: 176
Period size: 27 Copynumber: 7.9 Consensus size: 27
65548189 TAGACCCTAG
*
65548199 TTTGTAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACTAAAATACCCTCGA
*
65548226 TTTGTAAAATTACTAAAATACCCTCAA
1 TTTGTAAAATTACTAAAATACCCTCGA
* *
65548253 TTTGTAAAATTACCAAAATACCCTCGG
1 TTTGTAAAATTACTAAAATACCCTCGA
* ** *
65548280 TTTATAAAATTAC----CGA-CC-GGA
1 TTTGTAAAATTACTAAAATACCCTCGA
65548301 -TTGTAAAATTA-TCAAAATACCCTCGA
1 TTTGTAAAATTACT-AAAATACCCTCGA
* * * * *
65548327 ATTATAAAATTTCTAAAATACCCCCAA
1 TTTGTAAAATTACTAAAATACCCTCGA
* * *
65548354 TTTGTAAAATTATTGAAATACCC-CCA
1 TTTGTAAAATTACTAAAATACCCTCGA
*
65548380 GTTTGTAAATTTACTAAAATACCC
1 -TTTGTAAAATTACTAAAATACCC
65548404 CTGTAGGGTA
Statistics
Matches: 141, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
20 10 0.07
21 1 0.01
22 2 0.01
23 1 0.01
24 1 0.01
25 2 0.01
26 4 0.03
27 119 0.84
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAATACCCTCGA
Found at i:65548362 original size:74 final size:74
Alignment explanation
Indices: 65548227--65548365 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
65548217 TACCCTCGAT
* * **
65548227 TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGGTTTATAAAATTA
1 TTGTAAAATTACTAAAATACCCTCAATTTATAAAATTACCAAAATACCCCCAATTTATAAAATTA
65548292 CCGACCGGA
66 CCGACCGGA
* * *
65548301 TTGTAAAATTA-TCAAAATACCCTCGAA-TTATAAAATTTCTAAAATACCCCCAATTTGTAAAAT
1 TTGTAAAATTACT-AAAATACCCTC-AATTTATAAAATTACCAAAATACCCCCAATTTATAAAAT
65548364 TA
64 TA
65548366 TTGAAATACC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
73 1 0.02
74 53 0.95
75 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (74 bp):
TTGTAAAATTACTAAAATACCCTCAATTTATAAAATTACCAAAATACCCCCAATTTATAAAATTA
CCGACCGGA
Found at i:65550558 original size:37 final size:37
Alignment explanation
Indices: 65550508--65550586 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65550498 TTATTACGAA
* * *
65550508 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
65550545 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65550582 GTCTT
1 GTCTT
65550587 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:65550815 original size:47 final size:47
Alignment explanation
Indices: 65550704--65550973 Score: 495
Period size: 47 Copynumber: 5.7 Consensus size: 47
65550694 GCCCTTCGGG
*
65550704 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
65550754 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65550801 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
65550848 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65550895 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65550942 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
65550974 ATACTATCAT
Statistics
Matches: 217, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
47 179 0.82
49 34 0.16
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:65565556 original size:50 final size:50
Alignment explanation
Indices: 65565440--65565615 Score: 243
Period size: 50 Copynumber: 3.6 Consensus size: 50
65565430 TGCAGGTGCT
* * * ** *
65565440 GATGCCATGTCCCAGACAT-GTCTTACACTAGCACT--CATCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTC
65565487 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTC
* *
65565537 GATGCCATGTCCC-GAACATGGTCTTACACAAGCTCTAGCATATTTGTGTT
1 GATGCCATGTCCCAG-ACATGGTCTTACACAAGCTCTAGCATATCTGTGTC
65565587 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
65565616 TGCCACCTCT
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
47 19 0.16
48 14 0.12
49 1 0.01
50 81 0.70
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTC
Found at i:65565689 original size:46 final size:45
Alignment explanation
Indices: 65565587--65565890 Score: 287
Period size: 46 Copynumber: 6.6 Consensus size: 45
65565577 TATTTGTGTT
* *
65565587 GATGCCATGTCCCAGACATGGTCTTACACTGCC-ACCTCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGCCTACGTCTC-AAGGCC
*
65565633 GATGCATGTCCCAAACATGTCTTACACTGCCTTACGTCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGCC-TACGTCTCAAGGCC
* * * *
65565679 GATGCATGTCCCAAACATTTCTTACACTAGCACT-CGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACT-GC-CTACGTCTCAAGGCC
* *
65565725 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTCGTAA--CC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGCCTACGTCTC--AAGGCC
* * * ** *
65565771 GATGCATGTCCCAGGCATGTCTTACACTGGCTTATGTCTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACT-GCCTACGTCTCAAGGCC
* * * *
65565817 GATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACT-GCCTACGTCTCAAGGCC
65565863 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
65565891 ATCTCACAAT
Statistics
Matches: 223, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
44 24 0.11
45 28 0.13
46 142 0.64
47 17 0.08
48 12 0.05
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGCCTACGTCTCAAGGCC
Found at i:65565740 original size:138 final size:137
Alignment explanation
Indices: 65565586--65565890 Score: 436
Period size: 138 Copynumber: 2.2 Consensus size: 137
65565576 ATATTTGTGT
* *
65565586 TGATGCCATGTCCCAGACATGGTCTTACACTGCCACCTCTCGTAGCCGATGCATGTCCCAAACAT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCGTAACCGATGCATGTCCCAAACAT
*
65565651 GTCTTACACTGCCTTACGTCTCAAGGCCGATGCATGTCCCAAACATTTCTTACACTAGC-ACTCG
66 GTCTTACACTGCCTTACGTCTCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTA-T-G
*
65565715 TCTCAATGC
129 TCTCAAGGC
**
65565724 TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCGTAACCGATGCATGTCCCAGGCAT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCGTAACCGATGCATGTCCCAAACAT
* * ** * * *
65565789 GTCTTACACTGGCTTATGTCTTGAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTATGT
66 GTCTTACACTGCCTTACGTCTCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGC-TATGT
*
65565854 CTCGAGGC
130 CTCAAGGC
65565862 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 TGATGCCATGTCCCAGACATGGTCTTACACT
65565891 ATCTCACAAT
Statistics
Matches: 151, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
136 10 0.07
137 14 0.09
138 125 0.83
139 1 0.01
140 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (137 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTCGTAACCGATGCATGTCCCAAACAT
GTCTTACACTGCCTTACGTCTCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTATGTC
TCAAGGC
Found at i:65566288 original size:30 final size:30
Alignment explanation
Indices: 65566232--65566289 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
65566222 AATTTATAAC
* **
65566232 TTTGATAAAATGACCATTTTGTCCCTAGGG
1 TTTGACAAAATGACCATTTTACCCCTAGGG
*
65566262 TTTGACAAAATGACTATTTTACCCCTAG
1 TTTGACAAAATGACCATTTTACCCCTAG
65566290 ACCCGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (30 bp):
TTTGACAAAATGACCATTTTACCCCTAGGG
Found at i:65569708 original size:11 final size:11
Alignment explanation
Indices: 65569692--65569716 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65569682 ACCAAGAGTC
65569692 AAAATGAGCCA
1 AAAATGAGCCA
65569703 AAAATGAGCCA
1 AAAATGAGCCA
65569714 AAA
1 AAA
65569717 GGGGACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAATGAGCCA
Found at i:65570280 original size:14 final size:13
Alignment explanation
Indices: 65570260--65570291 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
65570250 AATATTTAAC
65570260 TTGTTCTTAATTA
1 TTGTTCTTAATTA
65570273 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
65570287 TTGTT
1 TTGTT
65570292 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:65579915 original size:40 final size:40
Alignment explanation
Indices: 65579713--65579896 Score: 325
Period size: 40 Copynumber: 4.6 Consensus size: 40
65579703 CGGATGATAA
65579713 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65579752 TCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65579792 CCGAGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65579832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65579872 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65579897 AGCGGGTAGC
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 36 0.26
40 100 0.74
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65579925 original size:119 final size:119
Alignment explanation
Indices: 65579713--65579929 Score: 348
Period size: 119 Copynumber: 1.8 Consensus size: 119
65579703 CGGATGATAA
* *
65579713 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCGGGCTAAGTCCCAAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCAAAGGCATTTGA
*
65579778 GCGAGTTACTATATCCGAGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
66 GCGAGGTACTATATCCGAGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
*
65579832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCCGGGCTAAGTCCCAAAGGCATTTG
* *
65579897 AGCG-GGTAGCTATGTCCG-GCTAATTCCTGAAGG
65 AGCGAGGTA-CTATATCCGAGCTAAGTCCTGAAGG
65579930 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
119 55 0.61
120 35 0.39
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCAAAGGCATTTGA
GCGAGGTACTATATCCGAGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65581440 original size:19 final size:20
Alignment explanation
Indices: 65581404--65581446 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
65581394 TTTGTACGAA
65581404 TTTATTTTAAAAAATATT-T
1 TTTATTTTAAAAAATATTAT
*
65581423 TTTA-TTTATAAAAGTATTAT
1 TTTATTTTA-AAAAATATTAT
65581443 TTTA
1 TTTA
65581447 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 12 0.57
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTATTTTAAAAAATATTAT
Found at i:65581559 original size:24 final size:23
Alignment explanation
Indices: 65581527--65581572 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
65581517 ATTTTTTAAA
65581527 TAATTTTTAGTTTTAAAGTTTTTT
1 TAATTTTTAGTTTTAAA-TTTTTT
* *
65581551 TAATTTTTATTTTTGAATTTTT
1 TAATTTTTAGTTTTAAATTTTT
65581573 AAGAAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (23 bp):
TAATTTTTAGTTTTAAATTTTTT
Found at i:65581975 original size:122 final size:123
Alignment explanation
Indices: 65581844--65582086 Score: 400
Period size: 122 Copynumber: 2.0 Consensus size: 123
65581834 ATAATTTATC
* ** *
65581844 TTTTTTTAAAATAGATTTAATTGTTTGACTAACGGAGGTAAC-AACTAGGGCAAAAAAGGTATTA
1 TTTTTTTAAAATAGATTCAATTGTTTGACTAACGGAGGT-ACTAACTAAAGCAAAAAAGGTATCA
*
65581908 CTTGTGAC-AAAAAACAATTAAGTACCAAGATGAGAAAAATGGTATAGTTAATACATAT
65 CTTGTGACAAAAAAACAATTAAGTACCAAGATAAGAAAAATGGTATAGTTAATACATAT
*
65581966 TTTTTTTAAAATAGATTCAATTGTTTGACTAACGGAGGTACTAACTAAAGCAAAAAGGGTATCAC
1 TTTTTTTAAAATAGATTCAATTGTTTGACTAACGGAGGTACTAACTAAAGCAAAAAAGGTATCAC
65582031 TTGTGACAAAAAAAACAATTAAGTACCAAGATAAGAAAAATGGTATAGTTAATACA
66 TTGTGAC-AAAAAAACAATTAAGTACCAAGATAAGAAAAATGGTATAGTTAATACA
65582087 AGTAGTACGG
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
121 2 0.02
122 64 0.57
124 46 0.41
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.29
Consensus pattern (123 bp):
TTTTTTTAAAATAGATTCAATTGTTTGACTAACGGAGGTACTAACTAAAGCAAAAAAGGTATCAC
TTGTGACAAAAAAACAATTAAGTACCAAGATAAGAAAAATGGTATAGTTAATACATAT
Found at i:65604817 original size:3 final size:3
Alignment explanation
Indices: 65604809--65604847 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
65604799 GCCCCAAATT
65604809 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
65604848 GAAACCCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:65605895 original size:28 final size:29
Alignment explanation
Indices: 65605863--65605932 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
65605853 TAACATTTTC
* *
65605863 TTTTCAAAATATTGTGACTTTTA-AAA-TA
1 TTTTCAAAATATAGTG-CCTTTAGAAATTA
65605891 TTTTCTAAAATA-AGTGCCTTTAGAAATTA
1 TTTTC-AAAATATAGTGCCTTTAGAAATTA
65605920 TTTCTCAAAATAT
1 TTT-TCAAAATAT
65605933 GAATTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 17 0.49
30 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTCAAAATATAGTGCCTTTAGAAATTA
Found at i:65607716 original size:16 final size:18
Alignment explanation
Indices: 65607689--65607721 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65607679 TAGAATTGAC
65607689 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
65607706 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
65607722 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:65616178 original size:19 final size:18
Alignment explanation
Indices: 65616141--65616184 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
65616131 ATACATATAG
65616141 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
65616158 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
65616177 TACTAATT
1 TAATAATT
65616185 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:65618128 original size:20 final size:20
Alignment explanation
Indices: 65618103--65618143 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65618093 CCTTCATGGG
65618103 ATGTATTGTATGCAATGGTC
1 ATGTATTGTATGCAATGGTC
65618123 ATGTATTGTATGCAATGGTC
1 ATGTATTGTATGCAATGGTC
65618143 A
1 A
65618144 CGTGCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (20 bp):
ATGTATTGTATGCAATGGTC
Found at i:65619723 original size:29 final size:28
Alignment explanation
Indices: 65619690--65619823 Score: 121
Period size: 29 Copynumber: 4.8 Consensus size: 28
65619680 GGCGTATCTG
*
65619690 AAAGGAAAGGCTTTATGGAAAACCTCTAT
1 AAAGGAAAGCCTTTATGG-AAACCTCTAT
*
65619719 AAAGGAGAGCCTTTATGGCAAACCTCTAT
1 AAAGGAAAGCCTTTATGG-AAACCTCTAT
* * * *
65619748 AAAGAAAAGCCTTTATGGTGAGCCTCT-G
1 AAAGGAAAGCCTTTATGG-AAACCTCTAT
* * *
65619776 AAAGGAAAGTCTTTGTGGCAACCTCTGAT
1 AAAGGAAAGCCTTTATGGAAACCTCT-AT
*
65619805 AAAGG-AAGCC-TCATGGAAA
1 AAAGGAAAGCCTTTATGGAAA
65619824 TTTTTAGATT
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
27 12 0.14
28 19 0.23
29 53 0.63
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (28 bp):
AAAGGAAAGCCTTTATGGAAACCTCTAT
Found at i:65619865 original size:27 final size:26
Alignment explanation
Indices: 65619835--65620065 Score: 130
Period size: 27 Copynumber: 8.5 Consensus size: 26
65619825 TTTTAGATTT
65619835 AAAAGCCTTTGTGGCAATTCATGAAAG
1 AAAAGCCTTTGTGGCAATTC-TGAAAG
*
65619862 AAAAGCCCTAATG-GCGCAA-TCT-AAATG
1 AAAAG-CCT-TTGTG-GCAATTCTGAAA-G
*
65619889 AAAAGCCTTTATGGCAATTCATGAAAG
1 AAAAGCCTTTGTGGCAATTC-TGAAAG
* * ** *
65619916 GAAAGCCCTAATGACGCAA-TCTGAATG
1 AAAAG-CCT-TTGTGGCAATTCTGAAAG
*
65619943 AAAAGCCTTTGTGGTAATTCATGAAAG
1 AAAAGCCTTTGTGGCAATTC-TGAAAG
* ** *
65619970 TAAATGCCCCTGTGACGTAATT-TGAAAG
1 -AAAAGCCTTTGTG--GCAATTCTGAAAG
* *
65619998 AAAAGTCTTGGTGGCAATTCTGAAAAG
1 AAAAGCCTTTGTGGCAATTCTG-AAAG
* * *
65620025 AAATGCCTTTGTGGCATAATGTGAAAG
1 AAAAGCCTTTGTGGCA-ATTCTGAAAG
* *
65620052 GAAAGCCTCTGTGG
1 AAAAGCCTTTGTGG
65620066 TGTATCATAA
Statistics
Matches: 154, Mismatches: 32, Indels: 36
0.69 0.14 0.16
Matches are distributed among these distances:
25 15 0.10
26 16 0.10
27 72 0.47
28 34 0.22
29 11 0.07
30 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGCCTTTGTGGCAATTCTGAAAG
Found at i:65620017 original size:55 final size:54
Alignment explanation
Indices: 65619835--65620031 Score: 231
Period size: 54 Copynumber: 3.6 Consensus size: 54
65619825 TTTTAGATTT
* *
65619835 AAAAGCCTTTGTGGCAATTCATGAAAGAAAAGCCCTAATGGCGCAATCT-AAATG
1 AAAAGCCTTTGTGGCAATTCATGAAAGAAATGCCCTAATGACGCAATCTGAAA-G
* *
65619889 AAAAGCCTTTATGGCAATTCATGAAAGGAAA-GCCCTAATGACGCAATCTGAATG
1 AAAAGCCTTTGTGGCAATTCATGAAA-GAAATGCCCTAATGACGCAATCTGAAAG
* * * *
65619943 AAAAGCCTTTGTGGTAATTCATGAAAGTAAATGCCCCT-GTGACGTAATTTGAAAG
1 AAAAGCCTTTGTGGCAATTCATGAAAG-AAATG-CCCTAATGACGCAATCTGAAAG
* *
65619998 AAAAGTCTTGGTGGCAATTC-TGAAAAGAAATGCC
1 AAAAGCCTTTGTGGCAATTCATG-AAAGAAATGCC
65620032 TTTGTGGCAT
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
53 3 0.02
54 77 0.62
55 41 0.33
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (54 bp):
AAAAGCCTTTGTGGCAATTCATGAAAGAAATGCCCTAATGACGCAATCTGAAAG
Found at i:65620050 original size:54 final size:55
Alignment explanation
Indices: 65619835--65620059 Score: 149
Period size: 54 Copynumber: 4.1 Consensus size: 55
65619825 TTTTAGATTT
* * * * ** *
65619835 AAAAGCCTTTGTGGCAATTCATGAAAG-AAAAG-CCCTAATGGCGCAATCT-AAATG
1 AAAAGCCTTGGTGGCAATTCATGAAAGTAAATGCCCCT-GTGACATAATGTGAAA-G
** * * ** * *
65619889 AAAAGCCTTTATGGCAATTCATGAAAGGAAA-G-CCCTAATGACGCAATCTGAATG
1 AAAAGCCTTGGTGGCAATTCATGAAAGTAAATGCCCCT-GTGACATAATGTGAAAG
* * * *
65619943 AAAAGCCTTTGTGGTAATTCATGAAAGTAAATGCCCCTGTGACGTAATTTGAAAG
1 AAAAGCCTTGGTGGCAATTCATGAAAGTAAATGCCCCTGTGACATAATGTGAAAG
* ** *
65619998 AAAAGTCTTGGTGGCAATTC-TGAAAAG-AAATGCCTTTGTGGCATAATGTGAAAG
1 AAAAGCCTTGGTGGCAATTCATG-AAAGTAAATGCCCCTGTGACATAATGTGAAAG
*
65620052 GAAAGCCT
1 AAAAGCCT
65620060 CTGTGGTGTA
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
54 102 0.70
55 40 0.27
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (55 bp):
AAAAGCCTTGGTGGCAATTCATGAAAGTAAATGCCCCTGTGACATAATGTGAAAG
Found at i:65631779 original size:42 final size:42
Alignment explanation
Indices: 65631671--65631792 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
65631661 TACCGTACCA
* * * * *
65631671 ATGCCATATCCCAAATATGGTCTTACCTGTAATCTCGTATTG
1 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCG
*
65631713 ATGCCAATATCCTAGCTATGGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACATGTAA-TCTCATATCG
* * **
65631756 ATGTCATATCCTAGATATAGTCTTACACATAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCA
65631793 AATAACCCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCG
Found at i:65633885 original size:70 final size:70
Alignment explanation
Indices: 65633725--65633868 Score: 261
Period size: 70 Copynumber: 2.1 Consensus size: 70
65633715 TTAGGGACTA
*
65633725 AATTGAATAAAAGTAAAAATTTAGGGGCAATTTTTTAAAAATTTCAAAAATGAATAAATTGCATA
1 AATTGAATAAAAGTAAAAATTTAGGGGCAATTTTTTAAAAATTTAAAAAATGAATAAATTGCATA
65633790 AAATG
66 AAATG
* *
65633795 AATTGAATAAAAGTAAAAATTTAGGGGTAATTTTTTAAAAATTTAAAAAATGACTAAATTGCATA
1 AATTGAATAAAAGTAAAAATTTAGGGGCAATTTTTTAAAAATTTAAAAAATGAATAAATTGCATA
65633860 AAATG
66 AAATG
65633865 AATT
1 AATT
65633869 ATTTTATTGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.33
Consensus pattern (70 bp):
AATTGAATAAAAGTAAAAATTTAGGGGCAATTTTTTAAAAATTTAAAAAATGAATAAATTGCATA
AAATG
Found at i:65634440 original size:137 final size:138
Alignment explanation
Indices: 65634202--65634459 Score: 358
Period size: 137 Copynumber: 1.9 Consensus size: 138
65634192 AAGGTTTCCA
* * *
65634202 GTTTTGGGTGCTAGTCTTGAAATGTCCTACCGATGGCTGAGCTTTGACTTTAGTTGCAGATACTT
1 GTTTTGGGTGCTAGTCTTGAAATGTCCTACCGATGGCTGAGCTTCGACATTAGTTGCAGATACTC
* * * * * *
65634267 GACAGCTTGTGTGAGTAGCACCGTGTACCTATGTTCCGACCCATAGCTTGTGTGAGCAAACCTAG
66 GACAGCTTGTGTGAGCAGCACCGTATAACTACGTTCCGACCCACAACTTGTGTGAGCAAACCTAG
65634332 GTTACTAT
131 GTTACTAT
* * * *
65634340 GTTTTGGGTGTTGGTCTTG-AATGTCTTACCGATGGCTGAGGTTCGACATTAGTTGC-GAATACT
1 GTTTTGGGTGCTAGTCTTGAAATGTCCTACCGATGGCTGAGCTTCGACATTAGTTGCAG-ATACT
* *
65634403 CGACAGCTTGTGTGAGCAGCATCGTATAACTACGTTCCGACCGACAACTTGTGTGAG
65 CGACAGCTTGTGTGAGCAGCACCGTATAACTACGTTCCGACCCACAACTTGTGTGAG
65634460 TAGGCCTATT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
136 1 0.01
137 86 0.83
138 17 0.16
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (138 bp):
GTTTTGGGTGCTAGTCTTGAAATGTCCTACCGATGGCTGAGCTTCGACATTAGTTGCAGATACTC
GACAGCTTGTGTGAGCAGCACCGTATAACTACGTTCCGACCCACAACTTGTGTGAGCAAACCTAG
GTTACTAT
Found at i:65638010 original size:27 final size:23
Alignment explanation
Indices: 65637958--65638006 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
65637948 GATGAAAATA
65637958 AATAGTTCATAAACAAATATGTT
1 AATAGTTCATAAACAAATATGTT
65637981 AATAGTTCATAAACAAATATGTT
1 AATAGTTCATAAACAAATATGTT
65638004 AAT
1 AAT
65638007 TAATAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
AATAGTTCATAAACAAATATGTT
Found at i:65640551 original size:42 final size:42
Alignment explanation
Indices: 65640492--65640612 Score: 161
Period size: 43 Copynumber: 2.9 Consensus size: 42
65640482 TTAGGGTTAT
*
65640492 TGAGATTACGTGTAAGACCATACCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATACCTAGGATATGGCATCGATA
* ** *
65640534 TGAGATTTCGTGTAAGACCATAGTTAGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATACCTAGGATA-TGGCATCGATA
* * *
65640577 CGAGATTACATGTAAGACCATATCTAGGATATGGCA
1 TGAGATTACGTGTAAGACCATACCTAGGATATGGCA
65640613 CTGGTACGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATACCTAGGATATGGCATCGATA
Found at i:65648290 original size:40 final size:40
Alignment explanation
Indices: 65648246--65648416 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
65648236 ACGTTTATAT
* *
65648246 AAAAATGCCATTATAGATCGAGCATTAGCGGCGCTTTCTG
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTTTG
* * **
65648286 AAAAATGCCACTATAGATTGAGCATTAGCGGCTCTTTTCA
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
65648326 AAAAATGCCGCTATAGATTGAGCATTAGTGGTGCTTTTTG
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
65648366 AAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTTTG
1 AAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTTTG
65648406 AAAAATGCCAC
1 AAAAATGCCAC
65648417 AAAAAAATAA
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:65648730 original size:22 final size:21
Alignment explanation
Indices: 65648705--65648780 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
65648695 AACAGTCACT
*
65648705 TAAACCCTTAAATACAAAATCC
1 TAAACCCTTAAAT-CTAAATCC
* *
65648727 TAAATCCTAAAACTCTAAA-CC
1 TAAACCCTTAAA-TCTAAATCC
*
65648748 TTAAACCC-TAAACCTAAATCAC
1 -TAAACCCTTAAATCTAAATC-C
65648770 TAAACCCTTAA
1 TAAACCCTTAA
65648781 GCCCTTAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 5 0.12
21 13 0.30
22 24 0.56
23 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTTAAATCTAAATCC
Found at i:65648773 original size:21 final size:21
Alignment explanation
Indices: 65648721--65649026 Score: 95
Period size: 21 Copynumber: 14.1 Consensus size: 21
65648711 CTTAAATACA
* *
65648721 AAATCCTAAATCCTAAAACTCT
1 AAATCCTAAACCCT-AAACCCT
* * **
65648743 AAACCTTAAACCCTAAACCTA
1 AAATCCTAAACCCTAAACCCT
* *
65648764 AAT-CACTAAACCCTTAAGCCCTT
1 AAATC-CTAAACCC-TAAACCC-T
* * * *
65648787 AAATACAAAATCCTAAATCCT
1 AAATCCTAAACCCTAAACCCT
** *
65648808 AAATCCTAAAACTATAAACCTT
1 AAATCCT-AAACCCTAAACCCT
*
65648830 AAACCCTAAAGCCC-AAACCCT
1 AAATCCTAAA-CCCTAAACCCT
*
65648851 AAATCCTAAACCATAAACCCT
1 AAATCCTAAACCCTAAACCCT
** *
65648872 AAA--CTATAGACATTAAACCATT
1 AAATCCTA-A-ACCCTAAACC-CT
* ** * * *
65648894 AAACCCCTAAATACAAAATCTT
1 AAA-TCCTAAACCCTAAACCCT
* *
65648916 AAATCTTAAAACTCTAAACCC-
1 AAATCCT-AAACCCTAAACCCT
* * *
65648937 GAATCACTAAACCATAAAACCATT
1 AAATC-CTAAACCCT-AAACC-CT
* *
65648961 AAATAC-AAACTCTAAACCCT
1 AAATCCTAAACCCTAAACCCT
* *
65648981 AAA-CTTTAAACCTTAAACCCT
1 AAATC-CTAAACCCTAAACCCT
*
65649002 AAATCCTAAACCATAAAACCCT
1 AAATCCTAAACCCT-AAACCCT
65649024 AAA
1 AAA
65649027 CTATAGAAAA
Statistics
Matches: 202, Mismatches: 60, Indels: 44
0.66 0.20 0.14
Matches are distributed among these distances:
19 3 0.01
20 8 0.04
21 93 0.46
22 76 0.38
23 15 0.07
24 4 0.02
25 3 0.01
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (21 bp):
AAATCCTAAACCCTAAACCCT
Found at i:65648826 original size:73 final size:74
Alignment explanation
Indices: 65648703--65648839 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 74
65648693 TAAACAGTCA
*
65648703 CTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAA-CCTAAAT
1 CTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAAACTTAAACCCTAAACCCTAAAT
65648767 CACTAAACC
66 CACTAAACC
* * *
65648776 CTTAAGCCCTTAAATACAAAATCCTAAATCCTAAATC-CTAAAACTATAAACCTTAAACCCTAAA
1 CTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAAACT-TAAACCCTAAACCCTAAA
65648840 GCCCAAACCC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
72 7 0.12
73 45 0.78
74 6 0.10
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (74 bp):
CTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAAACTTAAACCCTAAACCCTAAAT
CACTAAACC
Found at i:65648875 original size:7 final size:7
Alignment explanation
Indices: 65648725--65648875 Score: 90
Period size: 7 Copynumber: 21.0 Consensus size: 7
65648715 AATACAAAAT
*
65648725 CCTAAAT
1 CCTAAAC
65648732 CCTAAAAC
1 CCT-AAAC
*
65648740 TCTAAAC
1 CCTAAAC
*
65648747 CTTAAAC
1 CCTAAAC
65648754 CCTAAA-
1 CCTAAAC
65648760 CCTAAATC
1 CCTAAA-C
*
65648768 ACTAAAC
1 CCTAAAC
*
65648775 CCTTAAGC
1 CC-TAAAC
*
65648783 CCTTAAAT
1 CC-TAAAC
* * *
65648791 ACAAAAT
1 CCTAAAC
*
65648798 CCTAAAT
1 CCTAAAC
*
65648805 CCTAAAT
1 CCTAAAC
65648812 CCTAAAAC
1 CCT-AAAC
**
65648820 TATAAAC
1 CCTAAAC
*
65648827 CTTAAAC
1 CCTAAAC
65648834 CCTAAAGC
1 CCTAAA-C
65648842 CC-AAAC
1 CCTAAAC
*
65648848 CCTAAAT
1 CCTAAAC
65648855 CCTAAAC
1 CCTAAAC
*
65648862 CATAAAC
1 CCTAAAC
65648869 CCTAAAC
1 CCTAAAC
65648876 TATAGACATT
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
6 9 0.08
7 76 0.67
8 28 0.25
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:65648948 original size:115 final size:116
Alignment explanation
Indices: 65648732--65648954 Score: 249
Period size: 115 Copynumber: 1.9 Consensus size: 116
65648722 AATCCTAAAT
* * * *
65648732 CCTAAAACTCTAAACCTTAAACCCTAAACCTAAATCACTAAACCCTTAAGCCCTTAAATACAAAA
1 CCTAAAACTCTAAACCATAAACCCTAAACCTAAATCACTAAACCATTAAACCCCTAAATACAAAA
* * * *
65648797 TCCTAAATCCTAAATCCTAAAACTATAAACCTTAAACCCTAAAGCCCAAAC
66 TCCTAAATCCTAAAACCTAAAACCAGAAACCTTAAACCATAAAGCCCAAAC
* *
65648848 CCTAAATC-CTAAACCATAAACCCTAAA-CTATAGA-CATTAAACCATTAAACCCCTAAATACAA
1 CCTAAAACTCTAAACCATAAACCCTAAACCTA-A-ATCACTAAACCATTAAACCCCTAAATACAA
* * * *
65648910 AATCTTAAATCTTAAAACTCT-AAACCCGAATCAC-TAAACCATAAA
64 AATCCTAAATCCTAAAAC-CTAAAACCAGAAAC-CTTAAACCATAAA
65648955 ACCATTAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
114 3 0.03
115 75 0.84
116 11 0.12
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (116 bp):
CCTAAAACTCTAAACCATAAACCCTAAACCTAAATCACTAAACCATTAAACCCCTAAATACAAAA
TCCTAAATCCTAAAACCTAAAACCAGAAACCTTAAACCATAAAGCCCAAAC
Found at i:65649026 original size:8 final size:7
Alignment explanation
Indices: 65648967--65649027 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
65648957 CATTAAATAC
*
65648967 AAACTCT
1 AAACCCT
65648974 AAACCCT
1 AAACCCT
**
65648981 AAACTTT
1 AAACCCT
*
65648988 AAACCTT
1 AAACCCT
65648995 AAACCCT
1 AAACCCT
*
65649002 AAATCCT
1 AAACCCT
*
65649009 AAACCAT
1 AAACCCT
65649016 AAAACCCT
1 -AAACCCT
65649024 AAAC
1 AAAC
65649028 TATAGAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:65651300 original size:47 final size:48
Alignment explanation
Indices: 65651226--65651402 Score: 175
Period size: 49 Copynumber: 3.6 Consensus size: 48
65651216 GTATAATGCC
*
65651226 GATGCCATGTCTCAGACATGG-CTTTACACTGGCTCATC-CAT-CAAGTT
1 GATGCCATGTCCCAGACATGGTC-TTACACTGGCTCATCACATAC-AGTT
* * * * *
65651273 AATGCCATGTCTCAGACATGGTCTTACACTGGCT-ATCAAAATAGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATACA-GTT
* * *
65651322 GACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATA-CAGT-T
65651371 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 -GATGCCATGTCCCAGACATGGTCTTACACTG
65651403 ACACATCTCG
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 3 0.03
47 31 0.29
48 9 0.08
49 35 0.33
50 29 0.27
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATACAGTT
Found at i:65651455 original size:46 final size:47
Alignment explanation
Indices: 65651327--65651541 Score: 203
Period size: 46 Copynumber: 4.6 Consensus size: 47
65651317 AGGCTGACGC
* * *
65651327 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGGT-T-ACATCT-CGTAGCCGATG
**
65651376 CCATGTCCCAGACATGGTCTTACACT--GACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGGTTACATCTCGTAGCCGATG
* *
65651422 CATGTCCTAGACGT-GTCTTACACTAGGTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGGTTACATCTCGTA-GCCGATG
** * *
65651468 CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTC-AATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAG-GTTACATCTCGTA-GCCGATG
65651514 CCATGTCCCAGACATGGTCTTACACTAG
1 -CATGTCCCAGACATGGTCTTACACTAG
65651542 CTCACAATAA
Statistics
Matches: 142, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 64 0.45
47 15 0.11
48 12 0.08
50 25 0.18
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGGTTACATCTCGTAGCCGATG
Found at i:65652708 original size:22 final size:22
Alignment explanation
Indices: 65652680--65652722 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
65652670 TATTACCATG
*
65652680 TAATGTTTTAATCAAAAAGTTT
1 TAATGTTTTAATAAAAAAGTTT
65652702 TAATGTTTTAATAAAAAAGTT
1 TAATGTTTTAATAAAAAAGTT
65652723 AATAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (22 bp):
TAATGTTTTAATAAAAAAGTTT
Found at i:65653188 original size:113 final size:114
Alignment explanation
Indices: 65652971--65653300 Score: 317
Period size: 113 Copynumber: 2.9 Consensus size: 114
65652961 AGCCCATTTG
* * ** * * *
65652971 TAGCTTTGTTATTAGTGGCGCTTTTTAAAAAACGTTGCTAAAGGTATGTATTACGGGCGTTTACA
1 TAGCCTTGTTATTAGTGGCGC-TTTT-ATAAACGTCACAAAAGGTATGAATTACCGGCGTTTACA
* * *
65653036 CCGAAAATGCCACAAAAAAACTATTAAGAGATTGTAAAACGGCGTCGTTTA
64 CCGAAAATGCCACAAAAAAACTATTAACAGATTGCAAAACGGCATCGTTTA
* * *
65653087 TAGCCTTGTTATTAGTGGCGCTTTTATAAA-GTCACAAAAGGTGTGAATTGCCGGCGTTTGCACC
1 TAGCCTTGTTATTAGTGGCGCTTTTATAAACGTCACAAAAGGTATGAATTACCGGCGTTTACACC
* * * *
65653151 AGAAAATGCCAC-AAATATCTTTTAACAGATTGCAAAACGGCATCGTTTG
66 -GAAAATGCCACAAAAAAACTATTAACAGATTGCAAAACGGCATCGTTTA
* ** * * * * * *
65653200 TAGCCTTGTTATTAGTGGCGCTTTATAAAAACACCGCAGAAGATATGAATTACCGTCGTTTTCAT
1 TAGCCTTGTTATTAGTGGCGCTTT-TATAAACGTCACAAAAGGTATGAATTACCGGCGTTTACAC
** * * *
65653265 AAAAAATGCCAC-AAACATCTATTAATAGATTG-AAAA
65 CGAAAATGCCACAAAAAAACTATTAACAGATTGCAAAA
65653301 TAGTGCTGTT
Statistics
Matches: 178, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
113 84 0.47
114 47 0.26
115 27 0.15
116 20 0.11
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTATAAACGTCACAAAAGGTATGAATTACCGGCGTTTACACC
GAAAATGCCACAAAAAAACTATTAACAGATTGCAAAACGGCATCGTTTA
Found at i:65663142 original size:46 final size:46
Alignment explanation
Indices: 65663075--65663244 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
65663065 TGTAACCCGC
*
65663075 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
65663121 CCATAAGTGAACTTGGACTCAACTCAACAAGTTCGGATGCCTAGTTACG--T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTT-CGCAT
* * * * *
65663171 -C-TCA-CGAACTTGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
65663214 CCATAAGTGAACTCGGACTCAAATCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
65663245 TTCAGATGCC
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 1 0.01
44 2 0.02
45 2 0.02
46 53 0.54
47 26 0.26
48 3 0.03
49 2 0.02
50 1 0.01
51 3 0.03
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:65663200 original size:93 final size:93
Alignment explanation
Indices: 65663083--65663254 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65663073 GCCCATAAGT
* * * * *
65663083 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
*
65663148 CAAGTTCGGATGCCTAGTTACGTCTCAC
66 CAAGTTCAGATGCCTAGTTACGTCTCAC
*
65663176 GAACTTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
*
65663241 CGAGTTCAGATGCC
66 CAAGTTCAGATGCC
65663255 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CAAGTTCAGATGCCTAGTTACGTCTCAC
Found at i:65664822 original size:14 final size:14
Alignment explanation
Indices: 65664805--65664843 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
65664795 TTAAAATAAG
65664805 AATTAAGAACATAT
1 AATTAAGAACATAT
65664819 AATTAAGAACATAT
1 AATTAAGAACATAT
65664833 AATTAAGAACA
1 AATTAAGAACA
65664844 AATCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (14 bp):
AATTAAGAACATAT
Found at i:65675930 original size:47 final size:49
Alignment explanation
Indices: 65675600--65675933 Score: 486
Period size: 49 Copynumber: 7.0 Consensus size: 49
65675590 ATGATAGTAA
* *
65675600 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
65675647 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* *
65675696 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
65675745 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGGTAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
65675794 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
65675841 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * * *
65675888 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCAT-TA-ATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65675934 AGTCCCGAAG
Statistics
Matches: 268, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 125 0.47
48 2 0.01
49 141 0.53
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:65676110 original size:37 final size:37
Alignment explanation
Indices: 65676054--65676132 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65676044 CCGAGCTCTA
* * *
65676054 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65676091 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65676128 AAGAC
1 AAGAC
65676133 TTCCTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65678017 original size:29 final size:29
Alignment explanation
Indices: 65677982--65678055 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
65677972 GTTGTGAGAT
* *
65677982 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65678011 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65678040 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65678056 TGGATGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65678455 original size:40 final size:39
Alignment explanation
Indices: 65678366--65678508 Score: 139
Period size: 39 Copynumber: 3.6 Consensus size: 39
65678356 TCGAATGATG
* * * *
65678366 TCCGGGCTAAGTCCCGAAGTC-TTGGTGCTA-ATGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGAT-ACTAAA
* * *
65678405 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGATACTAAA
*
65678445 TCCGGGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTC-CGAAGGCATTGGTGCGAGATACTAAA
65678484 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGT-CCGAAG-GCATT
65678509 CATGCTAGTG
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 51 0.59
40 26 0.30
41 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAAA
Found at i:65678527 original size:40 final size:40
Alignment explanation
Indices: 65678483--65678679 Score: 259
Period size: 40 Copynumber: 4.9 Consensus size: 40
65678473 GAGTTACTAA
*
65678483 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
65678523 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
65678563 ATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
65678603 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
65678643 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
65678680 CGTGTATTCG
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:65682201 original size:47 final size:47
Alignment explanation
Indices: 65682132--65682470 Score: 507
Period size: 49 Copynumber: 7.1 Consensus size: 47
65682122 GAAATGATAG
*
65682132 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
65682179 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
65682228 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
65682277 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
65682326 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
65682373 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
65682420 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
65682467 TAAG
1 TAAG
65682471 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 134 0.49
49 141 0.51
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:65682647 original size:37 final size:37
Alignment explanation
Indices: 65682589--65682667 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
65682579 CCGAGCTCTA
* * * *
65682589 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
65682626 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
65682663 AAGAC
1 AAGAC
65682668 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:65684651 original size:40 final size:40
Alignment explanation
Indices: 65684498--65684682 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
65684488 TTGAATGATG
* * * *
65684498 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
65684538 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
65684578 TCCAGACTAAGAT-CCGAAGGCATTTGTCCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65684618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65684659 -CCGGGCTATGTCCCGAAGG-ATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65684683 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 6 0.05
40 111 0.87
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65692706 original size:40 final size:40
Alignment explanation
Indices: 65692474--65692698 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
65692464 TTGAATGATG
* * * *
65692474 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
65692514 TCCGGACTAA-TATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGT-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
65692554 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65692594 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65692634 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65692675 -CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
65692699 AAACGAGTAG
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 2 0.01
40 153 0.93
41 9 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65696049 original size:18 final size:18
Alignment explanation
Indices: 65696018--65696054 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65696008 CGGTTTTCTA
*
65696018 TAGCCGAACCACTCTTGC
1 TAGCCAAACCACTCTTGC
*
65696036 TAGCCAAACTACTCTTGC
1 TAGCCAAACCACTCTTGC
65696054 T
1 T
65696055 TTCTTCTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (18 bp):
TAGCCAAACCACTCTTGC
Found at i:65697755 original size:22 final size:22
Alignment explanation
Indices: 65697715--65697761 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
65697705 ATCAGAAATC
*
65697715 CTACCCATCCATCCTCTACACT
1 CTACCCATCCAGCCTCTACACT
65697737 CTACTCCATCCAGCC-CTACACT
1 CTAC-CCATCCAGCCTCTACACT
65697759 CTA
1 CTA
65697762 TGTGGGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.23, C:0.49, G:0.02, T:0.26
Consensus pattern (22 bp):
CTACCCATCCAGCCTCTACACT
Found at i:65700789 original size:33 final size:34
Alignment explanation
Indices: 65700752--65700825 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 34
65700742 GGAACATTAA
65700752 TAGATCATGTTTTTAA-CTTATGCTGTTTATCCT
1 TAGATCATGTTTTTAATCTTATGCTGTTTATCCT
* * *
65700785 TAGATTATTTTTTTAATTTGCTTATGTTGTTTATCCT
1 TAGATCATGTTTTTAA--T-CTTATGCTGTTTATCCT
65700822 TAGA
1 TAGA
65700826 GACTTGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 14 0.41
37 20 0.59
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (34 bp):
TAGATCATGTTTTTAATCTTATGCTGTTTATCCT
Found at i:65701782 original size:11 final size:11
Alignment explanation
Indices: 65701766--65701841 Score: 51
Period size: 11 Copynumber: 7.6 Consensus size: 11
65701756 TGGATTAATG
65701766 TATTTAAATAT
1 TATTTAAATAT
65701777 TATTTAAATA-
1 TATTTAAATAT
**
65701787 -AAAT-AAT-T
1 TATTTAAATAT
65701795 TATTTAAATAT
1 TATTTAAATAT
65701806 TATTT-AAT-T
1 TATTTAAATAT
* **
65701815 AAAAT-AAT-T
1 TATTTAAATAT
65701824 TATTTAAATAT
1 TATTTAAATAT
65701835 TATTTAA
1 TATTTAA
65701842 TTAAAATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
8 3 0.06
9 13 0.27
10 9 0.18
11 24 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTTAAATAT
Found at i:65701798 original size:29 final size:29
Alignment explanation
Indices: 65701761--65701850 Score: 162
Period size: 29 Copynumber: 3.1 Consensus size: 29
65701751 TAGTTTGGAT
* *
65701761 TAATGTATTTAAATATTATTTAAATAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
65701790 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
65701819 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
65701848 TAA
1 TAA
65701851 AATTTTTCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:65702018 original size:29 final size:29
Alignment explanation
Indices: 65701984--65702044 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
65701974 TAATTTGGAT
65701984 TAATTTACTTAAATATTATTTAACTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
* * *
65702013 TAATTTATTTATATATTATTTAATTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
65702042 TAA
1 TAA
65702045 ATTTTTTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATTTACTTAAATATTATTTAACTAAAA
Found at i:65702100 original size:195 final size:194
Alignment explanation
Indices: 65701790--65702162 Score: 647
Period size: 195 Copynumber: 1.9 Consensus size: 194
65701780 TTAAATAAAA
* *
65701790 TAATTTATTTAAATATTATTTAATTAAAATAATTTATTTAAATATTATTTAATTAAAATAAAATT
1 TAATTTACTTAAATATTATTTAACTAAAATAATTTATTTAAATATTATTTAATTAAAATAAAATT
*
65701855 TTTCCATGTGATTTTCCACATAATCAAATTTTATTTTTATTATTTCTTTTTCATGGAACAAAGTT
66 TTTCCATGTGATTTTCCACATAATCAAATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGTT
* *
65701920 GACATTTCATCTTATACGGTTTTCAACTTTTTATAAACAATTTTTTAAATTACATAATTTGGAT
131 GACATTTCATCTTATACGCTTTTCAACTTTTTATAAACAAATTTTTAAATTACATAATTTGGAT
* *
65701984 TAATTTACTTAAATATTATTTAACTAAAATAATTTATTTATATATTATTTAATTAAAATAAATTT
1 TAATTTACTTAAATATTATTTAACTAAAATAATTTATTTAAATATTATTTAATTAAAATAAA-AT
**
65702049 TTTTCCATGTGATTTTCCACATCGTCAAATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGT
65 TTTTCCATGTGATTTTCCACATAATCAAATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGT
*
65702114 TGACATTTCATCTTATACGCTTTTCAACTTTTTATACACAAATTTTTAA
130 TGACATTTCATCTTATACGCTTTTCAACTTTTTATAAACAAATTTTTAA
65702163 TAACTTACAT
Statistics
Matches: 168, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
194 59 0.35
195 109 0.65
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (194 bp):
TAATTTACTTAAATATTATTTAACTAAAATAATTTATTTAAATATTATTTAATTAAAATAAAATT
TTTCCATGTGATTTTCCACATAATCAAATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGTT
GACATTTCATCTTATACGCTTTTCAACTTTTTATAAACAAATTTTTAAATTACATAATTTGGAT
Found at i:65702176 original size:9 final size:9
Alignment explanation
Indices: 65702162--65702249 Score: 74
Period size: 9 Copynumber: 10.0 Consensus size: 9
65702152 CAAATTTTTA
65702162 ATAACTTAC
1 ATAACTTAC
65702171 ATAACTTAC
1 ATAACTTAC
*
65702180 AAAACTTAC
1 ATAACTTAC
*
65702189 GTAA--TAC
1 ATAACTTAC
* *
65702196 ATAA-ATAT
1 ATAACTTAC
* *
65702204 ATATCATATC
1 ATAACTTA-C
65702214 ATAACTTAC
1 ATAACTTAC
65702223 ATAACTTAC
1 ATAACTTAC
*
65702232 AAAACTTAC
1 ATAACTTAC
*
65702241 TTAACTTAC
1 ATAACTTAC
65702250 GTAATACATA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
7 6 0.09
8 5 0.08
9 47 0.73
10 6 0.09
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:65707670 original size:14 final size:14
Alignment explanation
Indices: 65707646--65707680 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65707636 TTAAATATTT
65707646 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
65707659 ATAATGGTTTAATT
1 ATAATGGTTTAATC
65707673 ATAATGGT
1 ATAATGGT
65707681 ATATTCATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:65708510 original size:85 final size:85
Alignment explanation
Indices: 65708387--65708598 Score: 266
Period size: 85 Copynumber: 2.5 Consensus size: 85
65708377 AAATTAGTGG
* * * *
65708387 GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTATTTAGCGGTGTTTGTATGAAAAGCGCCGCTA
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGCT-TTTGTATGAAAAACGCCACTA
* *
65708452 AATGTGACA-TTCTTTAGCGGC
65 AAGGTGA-AGTTCTGTAGCGGC
* *
65708473 GTTTTTGAGAAAAGTGCCG-TAAAGGTCATGTTCTTTAGCAGCTTTTGTATGAAAAATGCCACTA
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC-GCTTTTGTATGAAAAACGCCACTA
* * *
65708537 TAGGTTAAGTTCTGTAGTGGC
65 AAGGTGAAGTTCTGTAGCGGC
* *
65708558 GTTTTTGAGAAAAGCACCGCTAAAGGTCACGTTCTTTAGCG
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
65708599 ACATTTTTGA
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 69 0.63
86 39 0.36
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGCTTTTGTATGAAAAACGCCACTAA
AGGTGAAGTTCTGTAGCGGC
Found at i:65708606 original size:43 final size:43
Alignment explanation
Indices: 65708387--65708614 Score: 196
Period size: 43 Copynumber: 5.3 Consensus size: 43
65708377 AAATTAGTGG
* *
65708387 GTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTTATTTAGCG--
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
* * * * *
65708428 GTGTTTGTATGAAAAGCGCCGCTAAATGTGACATTCTTTAGCGGC
1 GTTTTTG-A-GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
* *
65708473 GTTTTTGAGAAAAGTGCCG-TAAAGGTCATGTTCTTTAGC-A-
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
* ** * * * * * * *
65708513 GCTTTTGTATGAAAAATGCCACTATAGGTTAAGTTCTGTAGTGGC
1 GTTTTTG-A-GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
*
65708558 GTTTTTGAGAAAAGCACCGCTAAAGGTCACGTTCTTTAGCGAC
1 GTTTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
*
65708601 ATTTTTGAGAAAAG
1 GTTTTTGAGAAAAG
65708615 AGGCGTTTGT
Statistics
Matches: 144, Mismatches: 34, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
40 6 0.04
41 7 0.05
42 26 0.18
43 91 0.63
44 2 0.01
45 12 0.08
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GTTTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGAC
Found at i:65708688 original size:43 final size:43
Alignment explanation
Indices: 65708619--65708761 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
65708609 GAAAAGAGGC
* *
65708619 GTTTGTGTGAAAAGCACCACTGAAGGTCATATTCTTTAGCGGT
1 GTTTGTATGAAAAGCACCACTAAAGGTCATATTCTTTAGCGGT
* * ** * * *
65708662 ATTGGTATGAAAAGCACTGCTAAAGGTCATGTTCTTTAGTGGC
1 GTTTGTATGAAAAGCACCACTAAAGGTCATATTCTTTAGCGGT
* *
65708705 GTTTGTATGAAAAG-AGCCACTAAAGGTCACATTCTTTAGCGAT
1 GTTTGTATGAAAAGCA-CCACTAAAGGTCATATTCTTTAGCGGT
65708748 GTTTGTATGAAAAG
1 GTTTGTATGAAAAG
65708762 TGCCGCTACA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 80 0.99
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (43 bp):
GTTTGTATGAAAAGCACCACTAAAGGTCATATTCTTTAGCGGT
Found at i:65708777 original size:43 final size:43
Alignment explanation
Indices: 65708619--65708786 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
65708609 GAAAAGAGGC
* * * *
65708619 GTTTGTGTGAAAAGCA-CCACTGAAGGTCATATTCTTTAGCGGT
1 GTTTGTATGAAAAG-AGCCACTAAAGGTCACATTCTTTAGCGAT
* * ** ** * **
65708662 ATTGGTATGAAAAGCA-CTGCTAAAGGTCATGTTCTTTAGTGGC
1 GTTTGTATGAAAAG-AGCCACTAAAGGTCACATTCTTTAGCGAT
65708705 GTTTGTATGAAAAGAGCCACTAAAGGTCACATTCTTTAGCGAT
1 GTTTGTATGAAAAGAGCCACTAAAGGTCACATTCTTTAGCGAT
* *
65708748 GTTTGTATGAAAAGTGCCGCTACAA-GTCACATTCTTTAG
1 GTTTGTATGAAAAGAGCCACTA-AAGGTCACATTCTTTAG
65708787 TGACGCTTTT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.97
44 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GTTTGTATGAAAAGAGCCACTAAAGGTCACATTCTTTAGCGAT
Found at i:65708783 original size:86 final size:86
Alignment explanation
Indices: 65708616--65708788 Score: 215
Period size: 86 Copynumber: 2.0 Consensus size: 86
65708606 TGAGAAAAGA
* * * * *
65708616 GGCGTTTGTGTGAAAAGCACCACTGAAGGTCATATTCTTTAGCGGTATTGGTATGAAAAGCACTG
1 GGCGTTTGTATGAAAAGCACCACTAAAGGTCACATTCTTTAGCGATATTGGTATGAAAAGCACCG
**
65708681 CTAAAGGTCATGTTCTTTAGT
66 CTAAAGGTCACATTCTTTAGT
* * **
65708702 GGCGTTTGTATGAAAAG-AGCCACTAAAGGTCACATTCTTTAGCGATGTTTGTATGAAAAGTGCC
1 GGCGTTTGTATGAAAAGCA-CCACTAAAGGTCACATTCTTTAGCGATATTGGTATGAAAAGCACC
65708766 GCTACAA-GTCACATTCTTTAGT
65 GCTA-AAGGTCACATTCTTTAGT
65708788 G
1 G
65708789 ACGCTTTTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 71 0.96
87 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (86 bp):
GGCGTTTGTATGAAAAGCACCACTAAAGGTCACATTCTTTAGCGATATTGGTATGAAAAGCACCG
CTAAAGGTCACATTCTTTAGT
Found at i:65710534 original size:29 final size:28
Alignment explanation
Indices: 65710479--65710591 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 28
65710469 GTGAGCATGA
* * * *
65710479 ATATGAATGTGACTGGGCCGAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
65710507 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
65710536 ATATACATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* ** *
65710565 ATATGAATACGATTGGGCTTAATGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
65710592 TAGATACATG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 25 0.34
29 49 0.66
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:65710564 original size:58 final size:57
Alignment explanation
Indices: 65710492--65710602 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
65710482 TGAATGTGAC
** *
65710492 TGGGCCGAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCGAACGGGCCATATAAATACGA-TTGGGCCTAATGGGCCAGATACATGTGATT
* * * * *
65710550 TGGGCCTAATGGGCCATATGAATACGATTGGGCTTAATGGGCTAGATACATGT
1 TGGGCCGAACGGGCCATATAAATACGATTGGGCCTAATGGGCCAGATACATGT
65710603 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCGAACGGGCCATATAAATACGATTGGGCCTAATGGGCCAGATACATGTGATT
Found at i:65713467 original size:26 final size:26
Alignment explanation
Indices: 65713431--65713480 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
65713421 ATTGACTTAG
65713431 AAATTTTGTGTCACGATCAGAGACAA
1 AAATTTTGTGTCACGATCAGAGACAA
*
65713457 AAATTTTGTGTCACGATCGGAGAC
1 AAATTTTGTGTCACGATCAGAGAC
65713481 GATAGTACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (26 bp):
AAATTTTGTGTCACGATCAGAGACAA
Found at i:65715604 original size:14 final size:14
Alignment explanation
Indices: 65715571--65715613 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
65715561 ACTTTTTCCA
65715571 CTCTTTTTCTTTT-
1 CTCTTTTTCTTTTG
65715584 CATTCTTTTTCTTTTG
1 C--TCTTTTTCTTTTG
65715600 CTCTTTTTCTTTTG
1 CTCTTTTTCTTTTG
65715614 ATCTCTCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 12 0.44
16 1 0.04
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.72
Consensus pattern (14 bp):
CTCTTTTTCTTTTG
Found at i:65729191 original size:27 final size:27
Alignment explanation
Indices: 65729161--65729338 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
65729151 ATATTGAGCC
* *
65729161 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
65729188 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65729215 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
65729243 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65729270 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65729297 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
65729324 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65729339 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65729300 original size:82 final size:81
Alignment explanation
Indices: 65729182--65729337 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
65729172 TGCTATATAA
* * *
65729182 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
65729247 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65729264 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
65729328 CACTTAGTGC
65 CACTTAGTGC
65729338 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65737225 original size:27 final size:27
Alignment explanation
Indices: 65737195--65737372 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
65737185 ATATTGAGCC
* *
65737195 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
65737222 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
65737249 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
65737277 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65737304 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65737331 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
65737358 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65737373 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65737307 original size:55 final size:54
Alignment explanation
Indices: 65737195--65737372 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
65737185 ATATTGAGCC
* * * * *
65737195 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
65737249 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
65737304 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
65737358 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65737373 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:65742827 original size:21 final size:21
Alignment explanation
Indices: 65742801--65742850 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
65742791 CAACAACTTA
*
65742801 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCAAGAG
*
65742822 AAGCAGAAGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
65742843 AAGCAGAG
1 AAGCAGAG
65742851 CACGCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.38, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:65743265 original size:43 final size:42
Alignment explanation
Indices: 65743210--65743367 Score: 178
Period size: 42 Copynumber: 3.7 Consensus size: 42
65743200 TAAGAATAAA
* *
65743210 CGCCGCTAAAAGAGCATTGTCTTTAGCGTCGTTTCTTTTTAAAG
1 CGCCGCT-AAAGAACATTGTCTTTAGCGGCGTTTCTTTTT-AAG
* * *
65743254 CGCCACTAAAGAACATT-TTTTTAGCGGCATTTCTTTTCTAAG
1 CGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTCTTTT-TAAG
*
65743296 CGCCGCTAAAGAACA-TGTTCTTTAGCGGCGTTT-TGTTCTAAG
1 CGCCGCTAAAGAACATTG-TCTTTAGCGGCGTTTCT-TTTTAAG
* *
65743338 CGCTGCTAAAGAACATGGTCTTTAGCGGCG
1 CGCCGCTAAAGAACATTGTCTTTAGCGGCG
65743368 CTTTTATTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 26 0.27
44 6 0.06
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTCTTTTTAAG
Found at i:65743362 original size:85 final size:86
Alignment explanation
Indices: 65743210--65743366 Score: 196
Period size: 85 Copynumber: 1.8 Consensus size: 86
65743200 TAAGAATAAA
* * * * *
65743210 CGCCGCTAAAAGAGCATTGTCTTTAGCGTCGTTTCTTTTTAAAGCGCCACTAAAGAACATTTTTT
1 CGCCGCTAAAAGAACATTGTCTTTAGCGGCGTTTCTTTCTAAAGCGCCACTAAAGAACATGTCTT
65743275 TAGCGGCATTTCTTTTCTAAG
66 TAGCGGCATTTCTTTTCTAAG
**
65743296 CGCCGCT-AAAGAACA-TGTTCTTTAGCGGCGTTT-TGTTCT-AAGCGCTGCTAAAGAACATGGT
1 CGCCGCTAAAAGAACATTG-TCTTTAGCGGCGTTTCT-TTCTAAAGCGCCACTAAAGAACAT-GT
65743357 CTTTAGCGGC
63 CTTTAGCGGC
65743367 GCTTTTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 20 0.33
85 34 0.56
86 7 0.11
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (86 bp):
CGCCGCTAAAAGAACATTGTCTTTAGCGGCGTTTCTTTCTAAAGCGCCACTAAAGAACATGTCTT
TAGCGGCATTTCTTTTCTAAG
Found at i:65746646 original size:50 final size:50
Alignment explanation
Indices: 65746527--65746769 Score: 414
Period size: 50 Copynumber: 4.8 Consensus size: 50
65746517 GATAATAACA
* **
65746527 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
65746578 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
65746628 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
65746678 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
65746728 TGCCAACGCCACGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
65746770 TTACCCAAAT
Statistics
Matches: 183, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
50 146 0.80
51 37 0.20
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:65750434 original size:3 final size:3
Alignment explanation
Indices: 65750426--65750478 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
65750416 TATATTTCTA
*
65750426 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAC CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
65750474 CAT CA
1 CAT CA
65750479 CAAGAATCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:65753349 original size:18 final size:19
Alignment explanation
Indices: 65753323--65753365 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
65753313 CAAAGTTTTG
*
65753323 TTTTCATTTTCATT-TATT
1 TTTTTATTTTCATTCTATT
* *
65753341 TTTTTATTTTCTTTCTCTT
1 TTTTTATTTTCATTCTATT
65753360 TTTTTA
1 TTTTTA
65753366 GAACATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTCATTCTATT
Found at i:65758890 original size:40 final size:40
Alignment explanation
Indices: 65758842--65759068 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
65758832 GCACACACAT
* *
65758842 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65758882 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
65758922 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65758962 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65759002 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65759042 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
65759069 ATCCAATGCT
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:65767414 original size:40 final size:40
Alignment explanation
Indices: 65767366--65767672 Score: 542
Period size: 40 Copynumber: 7.7 Consensus size: 40
65767356 GCAAACACAT
* *
65767366 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65767406 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
65767446 TTGCCTTCGGGTCACAGCCCGGCTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65767486 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65767526 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65767566 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65767606 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65767646 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
65767673 ATCCAATGCT
Statistics
Matches: 256, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 256 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:65770012 original size:126 final size:126
Alignment explanation
Indices: 65769838--65770095 Score: 489
Period size: 126 Copynumber: 2.0 Consensus size: 126
65769828 AGCTCAGCTT
65769838 GAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTGATG
1 GAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTGATG
65769903 CTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATCCTA
66 CTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATCCTA
*
65769964 GAATTAAGTTTGGGTTCTTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTGATG
1 GAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTGATG
* *
65770029 CTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATGCTT
66 CTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATCCTA
65770090 GAATTA
1 GAATTA
65770096 GTAGGTAATA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 129 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (126 bp):
GAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTGATG
CTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATCCTA
Found at i:65789772 original size:18 final size:18
Alignment explanation
Indices: 65789749--65789789 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
65789739 TGTTTGTTAA
65789749 TATGATTGAGTTGA-ATTG
1 TATGATTGAGTTGATA-TG
*
65789767 TATGATTGTGTTGATATG
1 TATGATTGAGTTGATATG
65789785 TATGA
1 TATGA
65789790 GATGATAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (18 bp):
TATGATTGAGTTGATATG
Found at i:65796762 original size:27 final size:27
Alignment explanation
Indices: 65796724--65796777 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
65796714 ACTTCCCAAT
*
65796724 TGATAAAATGACTATTATGCCCCTATG
1 TGATAAAATGACTAGTATGCCCCTATG
65796751 TGATAAAATGACTAGTATGCCCCTATG
1 TGATAAAATGACTAGTATGCCCCTATG
65796778 AGATGAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (27 bp):
TGATAAAATGACTAGTATGCCCCTATG
Found at i:65798445 original size:13 final size:13
Alignment explanation
Indices: 65798427--65798452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65798417 TTGAATCAGT
65798427 ACCAAAACAATCA
1 ACCAAAACAATCA
65798440 ACCAAAACAATCA
1 ACCAAAACAATCA
65798453 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:65799368 original size:43 final size:44
Alignment explanation
Indices: 65799300--65799411 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 44
65799290 GTTCCAGACG
**
65799300 TGGTCTTACATGT-AATCACATATCGATGCC-ATGTCCCAAACA
1 TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
* * * *
65799342 TGGTCTTACACGTAAATCACAAATCGATGCCAACATCCCAGACG
1 TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
65799386 TGGTCTTACATG-AAATCACATATCGA
1 TGGTCTTACATGTAAATCACATATCGA
65799412 AATCCTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 12 0.20
43 29 0.48
44 19 0.32
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
Found at i:65807393 original size:31 final size:31
Alignment explanation
Indices: 65807348--65807462 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
65807338 TTAGTCTTGA
*
65807348 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65807378 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65807409 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65807440 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65807463 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:65808930 original size:40 final size:40
Alignment explanation
Indices: 65808886--65809188 Score: 302
Period size: 40 Copynumber: 7.6 Consensus size: 40
65808876 GCTCCTCGTT
*
65808886 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
65808926 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
65808966 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
65809006 CCAATGCCTTCGGG-CTTAGCCTGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
65809045 CAAATACCTTC-GGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTAACTCGCA
* *
65809086 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
65809125 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
65809166 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
65809189 ACATCATTCA
Statistics
Matches: 229, Mismatches: 22, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
38 4 0.02
39 68 0.30
40 123 0.54
41 32 0.14
42 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:65808990 original size:80 final size:79
Alignment explanation
Indices: 65808886--65809189 Score: 382
Period size: 80 Copynumber: 3.8 Consensus size: 79
65808876 GCTCCTCGTT
* * *
65808886 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
* *
65808950 GATTTAGTAACTCGCA
64 GAATTAGTATCTCGCA
* * * *
65808966 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCTGG
1 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
65809030 AATTAGTATCTCGCA
65 AATTAGTATCTCGCA
* * *
65809045 CAAATACCTTCGGATCTTAGTCCGGATATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGATCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
65809110 AATTAGTATCTCGCA
65 AATTAGTATCTCGCA
* * * *
65809125 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
65809188 GA
64 GA
65809190 CATCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
78 12 0.06
79 58 0.29
80 129 0.65
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTATCTCGCA
Found at i:65809070 original size:119 final size:120
Alignment explanation
Indices: 65808886--65809189 Score: 343
Period size: 119 Copynumber: 2.5 Consensus size: 120
65808876 GCTCCTCGTT
* *
65808886 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
*
65808951 AT-TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCA
* * * * **
65809006 CCAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCC
* * *
65809068 GGATATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGATATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
* * * * * * *
65809125 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATACCTTCGGGACTTAACCC
65809187 GGA
64 GGA
65809190 CATCATTCAA
Statistics
Matches: 155, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
118 6 0.04
119 86 0.55
120 57 0.37
121 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
ATATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
Found at i:65809183 original size:39 final size:41
Alignment explanation
Indices: 65808886--65809154 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 41
65808876 GCTCCTCGTT
* * *
65808886 CAAATGCCTTCGGGA-CATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATTAGTATCTCGCA
* *
65808926 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATTAGTATCTCGCA
* *
65808966 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATTAGTATCTCGCA
* * *
65809006 CCAATGCCTTCGG-GCTTAGCCTGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATTAGTATCTCGCA
* *
65809045 CAAATACCTTCGGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATTAGTATCTCGCA
*
65809086 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATTAGTATCTCGCA
*
65809125 CAAATGCCTTCGGATCTTAGTCCGGATATT
1 CAAATGCCTTCGGATCTTAGCCCGGATATT
65809155 GTCACTTAGC
Statistics
Matches: 205, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 61 0.30
40 115 0.56
41 29 0.14
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGATCTTAGCCCGGATATTAGTATCTCGCA
Found at i:65817071 original size:39 final size:39
Alignment explanation
Indices: 65816954--65817217 Score: 277
Period size: 40 Copynumber: 6.6 Consensus size: 39
65816944 GCTCCTCGTT
* * *
65816954 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
* * *
65816994 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
65817034 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
65817073 CAAATACCTTCGGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTATCTCGCA
*
65817114 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
65817153 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
65817194 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
65817218 CATCATTCAA
Statistics
Matches: 198, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
39 77 0.39
40 83 0.42
41 38 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:65817120 original size:80 final size:80
Alignment explanation
Indices: 65816954--65817217 Score: 337
Period size: 80 Copynumber: 3.3 Consensus size: 80
65816944 GCTCCTCGTT
* * * **
65816954 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
65817017 GGAT-TTAGTAACTCGCA
64 GGATATTAGT-ACTCGCA
* *
65817034 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
65817098 ATATTAGTATCTCGCA
66 ATATTAGTA-CTCGCA
*
65817114 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
65817178 ATATT-GTCACTTAGCA
66 ATATTAGT-AC-TCGCA
65817194 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65817218 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
78 12 0.07
79 57 0.34
80 97 0.58
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATATTAGTACTCGCA
Found at i:65821150 original size:47 final size:47
Alignment explanation
Indices: 65821069--65821319 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
65821059 TAATTGAATA
* * *
65821069 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
65821117 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
65821164 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
65821211 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
65821258 AATGTGAGCATGTGTATGTGAGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
65821305 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
65821320 AAATGTGATA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:65821506 original size:37 final size:37
Alignment explanation
Indices: 65821450--65821529 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
65821440 CCGGACTCTA
* * *
65821450 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
65821487 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
65821524 AAGACT
1 AAGACT
65821530 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:65823194 original size:48 final size:48
Alignment explanation
Indices: 65823134--65823431 Score: 497
Period size: 48 Copynumber: 6.2 Consensus size: 48
65823124 TTCGGCCGCA
* * * *
65823134 ATATACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAA
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
65823182 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
65823230 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
65823278 ATATACATATCTCATAGATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
65823326 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* * *
65823374 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
65823422 ATATATATAT
1 ATATACATAT
65823432 TTGTCTTGTA
Statistics
Matches: 240, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 240 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:65826512 original size:25 final size:25
Alignment explanation
Indices: 65826471--65826554 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
65826461 CTGGAGGCCT
65826471 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
65826495 AGCCCTTTTCGATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
65826520 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
65826546 AGCCCTTTT
1 AGCCCTTTT
65826555 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.09
24 6 0.11
25 34 0.62
26 10 0.18
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:65826614 original size:20 final size:20
Alignment explanation
Indices: 65826589--65826669 Score: 128
Period size: 20 Copynumber: 4.0 Consensus size: 20
65826579 CCCAACCCAA
65826589 TGCATTTCATACATATCATG
1 TGCATTTCATACATATCATG
65826609 TGCATTTCATACATATCATG
1 TGCATTTCATACATATCATG
*
65826629 TGCATTTTATACATATCATG
1 TGCATTTCATACATATCATG
*
65826649 TGCATATCATATCA-ATCATG
1 TGCATTTCATA-CATATCATG
65826669 T
1 T
65826670 AATCATTCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (20 bp):
TGCATTTCATACATATCATG
Found at i:65827646 original size:27 final size:27
Alignment explanation
Indices: 65827470--65827647 Score: 130
Period size: 27 Copynumber: 6.6 Consensus size: 27
65827460 CATCCTCCAA
* * * *
65827470 GGGTGTTTTGGTAAATCTACAAA-TCAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
**
65827497 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
* *
65827524 GGGTATTTTGGTAACTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
65827550 AGGGTATTTCCGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
** *
65827578 TAGTATTTTGGAAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
65827605 AGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
65827632 GGGTATTGTGGTAATT
1 GGGTATTTTGGTAATT
65827648 CTATCTTACA
Statistics
Matches: 117, Mismatches: 30, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
26 2 0.02
27 113 0.97
28 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:65827712 original size:27 final size:27
Alignment explanation
Indices: 65827683--65827876 Score: 255
Period size: 27 Copynumber: 7.2 Consensus size: 27
65827673 TTTCATAATT
*
65827683 GAGGGTAAAATGGTAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
65827709 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
65827737 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
65827764 GAGGATAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
65827791 GAGGGTAAAATAGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * * * *
65827818 GAGGGTGAAACGATAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
**
65827845 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
65827872 GAGGG
1 GAGGG
65827877 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 146 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:65827796 original size:81 final size:81
Alignment explanation
Indices: 65827683--65827876 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 81
65827673 TTTCATAATT
* * *
65827683 GAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 GAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAA
* * *
65827747 TGGTAATTCTGTAAATC
65 CGATAATTCTATAAATC
* *
65827764 GAGGATAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
*
65827829 GATAATTCTATAAATT
66 GATAATTCTATAAATC
*
65827845 GAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGG
65827877 CATTTCAGTA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
81 100 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
GATAATTCTATAAATC
Found at i:65829280 original size:37 final size:37
Alignment explanation
Indices: 65829235--65829337 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
65829225 ATGTGGTAAG
65829235 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
* *
65829272 TGTAAGACCATAGTTGGGCTATGGCATCGTGATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
65829309 TGTAAGACCAT-GTCTGGGAC-ATGGCATCG
1 TGTAAGACCATAG-CTGGG-CTATGGCATCG
65829338 ATATGAGATC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 59 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTGATGACA
Found at i:65829375 original size:42 final size:42
Alignment explanation
Indices: 65829309--65829647 Score: 242
Period size: 42 Copynumber: 7.7 Consensus size: 42
65829299 CGTGATGGCA
* * *
65829309 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTTG
* *
65829351 TGTAAGACCATATCTAGGATATGGCATCAACATCAATATGAGATCTTG
1 TGTAAGACCATATCTGGGATATGG------CATCGATATGAGATCTTG
65829399 TGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGAGATCTTG
1 TGTAAGACCATATCTGGGATAT-G-----GCATCGATATGAGATCTTG
*
65829447 TGTAAGACCATATCTGGGAATGACATCGGCATCGATATGAGAT-TACG
1 TGTAAGACCATATCTGGG-AT---AT-GGCATCGATATGAGATCT-TG
* *
65829494 TGTAAGACCATATCTGGGATATGGCTTCGGTATGAGAT-TTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTT-G
* * * * *
65829536 TGTAAGACCGTGTTTGGGATGCT-GCATCGATATGTGAT-TTCG
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCTT-G
* * * * * *
65829578 TATAAGACCATGTCTGGGACATGGCATCTATGTGAGA-CTTTA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-TTG
65829620 TGTAAGACCATAGT-T-GGACTATGGCATC
1 TGTAAGACCATA-TCTGGGA-TATGGCATC
65829648 AAGTAAACGA
Statistics
Matches: 242, Mismatches: 31, Indels: 48
0.75 0.10 0.15
Matches are distributed among these distances:
41 4 0.02
42 116 0.48
43 6 0.02
46 3 0.01
47 34 0.14
48 72 0.30
49 3 0.01
52 3 0.01
54 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTTG
Found at i:65829409 original size:48 final size:48
Alignment explanation
Indices: 65829332--65829518 Score: 288
Period size: 48 Copynumber: 3.9 Consensus size: 48
65829322 CTGGGACATG
* *
65829332 GCATCGATATGAGATCCTGTGTAAGACCATATCTAGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
65829380 ACATCAATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
65829428 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGA-ATGACATCG
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
*
65829475 GCATCGATATGAGAT-TACGTGTAAGACCATATCTGGGATATGGC
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGC
65829519 TTCGGTATGA
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 42 0.33
48 84 0.66
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:65833215 original size:40 final size:40
Alignment explanation
Indices: 65833168--65833243 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
65833158 GCTAAAAAAA
**
65833168 TGGCACTTAGTGTGCGGTTCGAAATAGCTTCTGCTAAATG
1 TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTAAATG
* * *
65833208 TGGCACTTGGTGTGCAATTGGAGATAGCTTCTGCTA
1 TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTA
65833244 TATATGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGAAATAGCTTCTGCTAAATG
Found at i:65836076 original size:27 final size:27
Alignment explanation
Indices: 65836046--65836207 Score: 148
Period size: 27 Copynumber: 6.0 Consensus size: 27
65836036 ACACTACAAA
* *
65836046 GGTATTTCGGTCATTTTACAAGTCAGG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* * * *
65836073 GGTATTTCAATAAATTTAGAAGTCAAG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* * *
65836100 GGTATTTCGGTAATTTCACAAATC-GAG
1 GGTATTTCAGTAATTTTACAAGTCAG-G
* * * *
65836127 GGTATTTCAGTAATTTCACAAATTAAG
1 GGTATTTCAGTAATTTTACAAGTCAGG
* *
65836154 GGTGTTTCAGTAATTTTACAA-CCAGAG
1 GGTATTTCAGTAATTTTACAAGTCAG-G
*
65836181 GATATTTCAGTAATTTTACAAGTCAGG
1 GGTATTTCAGTAATTTTACAAGTCAGG
65836208 AGTCTTAACG
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.96
28 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAGTCAGG
Found at i:65836104 original size:54 final size:54
Alignment explanation
Indices: 65836046--65836205 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
65836036 ACACTACAAA
* * *
65836046 GGTATTTCGGTCATTTTACAAGTCAG-GGGTATTTCAATAAATTTAGAAGTCAAG
1 GGTATTTCGGTAATTTTACAA-TCAGAGGGTATTTCAGTAAATTTACAAGTCAAG
* * *
65836100 GGTATTTCGGTAATTTCACAAATC-GAGGGTATTTCAGT-AATTTCACAAATTAAG
1 GGTATTTCGGTAATTTTAC-AATCAGAGGGTATTTCAGTAAATTT-ACAAGTCAAG
* * * * *
65836154 GGTGTTTCAGTAATTTTACAACCAGAGGATATTTCAGTAATTTTACAAGTCA
1 GGTATTTCGGTAATTTTACAATCAGAGGGTATTTCAGTAAATTTACAAGTCA
65836206 GGAGTCTTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
53 9 0.10
54 72 0.83
55 6 0.07
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAATCAGAGGGTATTTCAGTAAATTTACAAGTCAAG
Found at i:65840436 original size:20 final size:20
Alignment explanation
Indices: 65840413--65840458 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
65840403 GGGTTAAGAT
*
65840413 TGAGCTAAATTGAGCTTGAG
1 TGAGCTAAATTGAGCTCGAG
* * *
65840433 TGAGTTGACTTGAGCTCGAG
1 TGAGCTAAATTGAGCTCGAG
65840453 TGAGCT
1 TGAGCT
65840459 GGAAACGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCGAG
Found at i:65842181 original size:48 final size:48
Alignment explanation
Indices: 65842129--65842234 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
65842119 TTGTCTTTTC
*
65842129 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
65842177 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
65842225 TTTCTTTTTC
1 TTTCTTTTTC
65842235 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:65844868 original size:20 final size:20
Alignment explanation
Indices: 65844845--65844891 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
65844835 GGGTTAAGAT
*
65844845 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
65844865 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
65844885 TGAGCTG
1 TGAGCTG
65844892 GAAACGATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:65855122 original size:27 final size:27
Alignment explanation
Indices: 65855092--65855289 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
65855082 TACTGAAATG
**
65855092 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
65855119 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
65855146 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
65855173 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
65855200 CCCTTGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
65855227 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
65855254 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
65855281 CCCTTGATT
1 CCCTCGATT
65855290 GTGAAATTAC
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:65855209 original size:81 final size:81
Alignment explanation
Indices: 65855092--65855289 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
65855082 TACTGAAATG
* * * *
65855092 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
*
65855157 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
*
65855173 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
65855238 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
65855254 CCCTC-AGTTTACAAAATTACCGTTTTACCCTTGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTTGATT
65855290 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:65855333 original size:27 final size:27
Alignment explanation
Indices: 65855293--65855420 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 27
65855283 CTTGATTGTG
**
65855293 AAATTACTGAAATACCCCT-GTTGGATA
1 AAATTACCAAAATACCCCTAGTTGG-TA
* * * *
65855320 GAATTACCACAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTGGTA
** * * *
65855347 AAATTACCAAAATACCAATGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTGGTA
** * *
65855374 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTGGTA
65855401 AAATTACCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
65855421 ATTTACAAAA
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
26 2 0.03
27 67 0.87
28 8 0.10
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTGGTA
Found at i:65855362 original size:54 final size:54
Alignment explanation
Indices: 65855279--65855419 Score: 137
Period size: 54 Copynumber: 2.6 Consensus size: 54
65855269 ATTACCGTTT
* * **
65855279 TACCCTT-GATTGTGAAATTACTGAAATACCCCT-GTTGGAT-AGAATTAC-CACAA
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGG-TGA-AATTACTCA-AA
** * *
65855332 TACCCTTAGTTTGTAAAATTACCAAAATACCAATGGTTTGTGAAATTACTGAAA
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGGTGAAATTACTCAAA
* *
65855386 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTTAGTTTGTAAAATTACCAAAATACCCCT
65855420 AATTTACAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 7 0.10
54 59 0.82
55 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (54 bp):
TACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTGGTGAAATTACTCAAA
Found at i:65855423 original size:27 final size:27
Alignment explanation
Indices: 65855321--65855433 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 27
65855311 TGTTGGATAG
* * *
65855321 AATTACCACAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
** ** *
65855348 AATTACCAAAATACCAATGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
**
65855375 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
65855402 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
65855429 AATTA
1 AATTA
65855434 TAGAAATACC
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.91
28 4 0.06
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:65855432 original size:54 final size:54
Alignment explanation
Indices: 65855330--65855522 Score: 183
Period size: 54 Copynumber: 3.5 Consensus size: 54
65855320 GAATTACCAC
* ***
65855330 AATACCCTTAGTTTGTAAAATTACCAAAATACCAATGGTTTGTGAAATTACTGA
1 AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACTGA
* ** **
65855384 AATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-TAGA
1 AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACT-GA
* * * * *
65855438 AATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGA
1 AATACCC-TCAGTTTGT-AAAATTACCA-AAATACCAATGGTTTACAAAATTACTGA
* * *
65855494 AATACCCTCGGTTTGTAGATTTACCAAAA
1 AATACCCTCAGTTTGTAAAATTACCAAAA
65855523 CACCCTTGCA
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
53 1 0.01
54 58 0.53
55 13 0.12
56 36 0.33
57 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AATACCCTCAGTTTGTAAAATTACCAAAATACCAATGGTTTACAAAATTACTGA
Found at i:65855440 original size:27 final size:27
Alignment explanation
Indices: 65855374--65855501 Score: 93
Period size: 27 Copynumber: 4.7 Consensus size: 27
65855364 ATGGTTTGTG
* **
65855374 AAATTACT-GAAATACCCTCAATTTGTA
1 AAATTA-TAGAAATACCCTTAATTTACA
* *
65855401 AAATTACCA-AAATACCCCTAATTTACA
1 AAATTA-TAGAAATACCCTTAATTTACA
*
65855428 AAATTATAGAAATACCCTTGACTTT-CTAA
1 AAATTATAGAAATACCCTT-AATTTAC--A
* **
65855457 AAATTATAGAAATACCATTGGTTTACA
1 AAATTATAGAAATACCCTTAATTTACA
65855484 AAATTACT-GAAATACCCT
1 AAATTA-TAGAAATACCCT
65855502 CGGTTTGTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 53 0.65
28 8 0.10
29 20 0.24
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTATAGAAATACCCTTAATTTACA
Found at i:65855591 original size:27 final size:27
Alignment explanation
Indices: 65855548--65855621 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
65855538 AAATGACTAA
*
65855548 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
65855575 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
65855602 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
65855622 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:65855625 original size:27 final size:27
Alignment explanation
Indices: 65855561--65855625 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
65855551 ACCCCTAATA
*
65855561 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
65855588 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
65855615 GGTAAAATGAC
1 GGTAAAATGAC
65855626 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Done.