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 243 of 295
Found at i:78163234 original size:23 final size:23
Alignment explanation
Indices: 78163204--78163254 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
78163194 GTACAACATA
78163204 TGTTCAATTTTTTTTCCTAAATT
1 TGTTCAATTTTTTTTCCTAAATT
78163227 TGTTCAATTTTTTTTCCTAAATT
1 TGTTCAATTTTTTTTCCTAAATT
78163250 T-TTCA
1 TGTTCA
78163255 TATATATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.61
Consensus pattern (23 bp):
TGTTCAATTTTTTTTCCTAAATT
Found at i:78170298 original size:18 final size:19
Alignment explanation
Indices: 78170272--78170308 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
78170262 CCCACCTTCT
*
78170272 CTTTCCTCCTCCCC-CCTC
1 CTTTACTCCTCCCCTCCTC
78170290 CTTTACTCCTCCCCTCCTC
1 CTTTACTCCTCCCCTCCTC
78170309 TTTCCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.35
Consensus pattern (19 bp):
CTTTACTCCTCCCCTCCTC
Found at i:78170311 original size:18 final size:17
Alignment explanation
Indices: 78170270--78170311 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
78170260 CACCCACCTT
*
78170270 CTCTTTCCTCCTCCCCC
1 CTCTTTACTCCTCCCCC
78170287 CTCCTTTACTCCTCCCCTC
1 CT-CTTTACTCCTCCCC-C
78170306 CTCTTT
1 CTCTTT
78170312 CCCCAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (17 bp):
CTCTTTACTCCTCCCCC
Found at i:78177525 original size:10 final size:9
Alignment explanation
Indices: 78177501--78177526 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
78177491 TTTAAAGATC
78177501 TCAAAAACA
1 TCAAAAACA
78177510 TCAAAAACA
1 TCAAAAACA
78177519 TCAAAAAC
1 TCAAAAAC
78177527 TAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:78179961 original size:46 final size:45
Alignment explanation
Indices: 78179908--78180083 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
78179898 TATTTGGGCA
78179908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
78179954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
78180001 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATTCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
78180047 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78180084 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 65 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:78180063 original size:93 final size:93
Alignment explanation
Indices: 78179904--78180075 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
78179894 AGGATATTTG
*
78179904 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
78179969 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
78179997 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATTCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
78180061 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
78180076 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:78185481 original size:21 final size:22
Alignment explanation
Indices: 78185437--78185487 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
78185427 TTACCTGCAT
78185437 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-TGAACTTA
* *
78185460 TTAAACACATTTAA-GCACTTA
1 TTAAACACATTAAATGAACTTA
*
78185481 TTGAACA
1 TTAAACA
78185488 TGTACTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (22 bp):
TTAAACACATTAAATGAACTTA
Found at i:78186500 original size:17 final size:17
Alignment explanation
Indices: 78186475--78186513 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
78186465 GAACACTTTC
* *
78186475 AAAATACCAAAAACCTT
1 AAAAAACCAAAAACCCT
78186492 AAAAAACCAAAAACCCT
1 AAAAAACCAAAAACCCT
78186509 AAAAA
1 AAAAA
78186514 CCTTAACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAACCAAAAACCCT
Found at i:78187418 original size:27 final size:27
Alignment explanation
Indices: 78187384--78187438 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
78187374 ATTAAAATGA
* *
78187384 TTTATTATGTAAAATTGTAAGTTAAAT
1 TTTATTATGTAAAAATATAAGTTAAAT
78187411 TTTATTATGTAAAAATATAAGTTAAAT
1 TTTATTATGTAAAAATATAAGTTAAAT
78187438 T
1 T
78187439 ATTGAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (27 bp):
TTTATTATGTAAAAATATAAGTTAAAT
Found at i:78187640 original size:26 final size:26
Alignment explanation
Indices: 78187611--78187664 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
78187601 CAAATTACAA
78187611 AATAAAACATTTATCTTAATTTAGTC
1 AATAAAACATTTATCTTAATTTAGTC
78187637 AATAAAACATTTATCTTAATTTAGTC
1 AATAAAACATTTATCTTAATTTAGTC
78187663 AA
1 AA
78187665 AAATTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (26 bp):
AATAAAACATTTATCTTAATTTAGTC
Found at i:78192154 original size:25 final size:25
Alignment explanation
Indices: 78192125--78192179 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
78192115 GATCAATCAT
* *
78192125 TTCATCAAGTAAATTTAGTCATGTA
1 TTCATCAAGTAAATTCAATCATGTA
78192150 TTCATCAAGTAAATTCAATCATGTA
1 TTCATCAAGTAAATTCAATCATGTA
78192175 TTCAT
1 TTCAT
78192180 AACTTGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (25 bp):
TTCATCAAGTAAATTCAATCATGTA
Found at i:78192623 original size:35 final size:35
Alignment explanation
Indices: 78192577--78192645 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
78192567 GCAATATAAA
78192577 TATATTGCAAGACATTCAGTCAATATATTGTTTAT
1 TATATTGCAAGACATTCAGTCAATATATTGTTTAT
78192612 TATATTGCAAGACATTCAGTCAATATATTGTTTA
1 TATATTGCAAGACATTCAGTCAATATATTGTTTA
78192646 CTTTTTTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (35 bp):
TATATTGCAAGACATTCAGTCAATATATTGTTTAT
Found at i:78193684 original size:18 final size:18
Alignment explanation
Indices: 78193661--78193695 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78193651 TCGTCATCCT
* *
78193661 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
78193679 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
78193696 CTGACTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:78195253 original size:15 final size:15
Alignment explanation
Indices: 78195233--78195261 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78195223 ATGCCTCACA
78195233 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
78195248 CACCGTGTTATCAA
1 CACCGTGTTATCAA
78195262 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:78204285 original size:20 final size:20
Alignment explanation
Indices: 78204232--78204283 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
78204222 AATTGGGCCT
*
78204232 CGAGAACCCGAAA-CTGAGAC
1 CGAGAACCCAAAATC-GAGAC
78204252 CGAGAACCCAAAATCGAGAC
1 CGAGAACCCAAAATCGAGAC
*
78204272 TGAG-ACCCAAAA
1 CGAGAACCCAAAA
78204284 ATTGGTCGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.28
20 20 0.69
21 1 0.03
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (20 bp):
CGAGAACCCAAAATCGAGAC
Found at i:78214959 original size:21 final size:21
Alignment explanation
Indices: 78214920--78214959 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
78214910 CATGTACAAT
*
78214920 GTCAACTATAACATCATTTAA
1 GTCAACTATAACATAATTTAA
78214941 GTCAACATATAAC-TAATTT
1 GTCAAC-TATAACATAATTT
78214960 CTTAAGTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (21 bp):
GTCAACTATAACATAATTTAA
Found at i:78222077 original size:27 final size:27
Alignment explanation
Indices: 78222047--78222224 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
78222037 ATATTGAGCC
* *
78222047 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
78222074 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
78222101 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
78222129 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
78222156 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
78222183 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
78222210 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78222225 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:78222186 original size:82 final size:81
Alignment explanation
Indices: 78222068--78222223 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
78222058 TGCTATATAA
* * *
78222068 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
78222133 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78222150 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
78222214 CACTTAGTGC
65 CACTTAGTGC
78222224 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78226633 original size:31 final size:31
Alignment explanation
Indices: 78226598--78226665 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
78226588 CATAATAATT
78226598 CAATGACTTAAATAAAAAATTTTAAATAGTC
1 CAATGACTTAAATAAAAAATTTTAAATAGTC
* * * * *
78226629 CAATGACTTAAATGAGAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAAATTTTAAATAGTC
78226660 CAATGA
1 CAATGA
78226666 TCATTTTGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAAATTTTAAATAGTC
Found at i:78228338 original size:27 final size:27
Alignment explanation
Indices: 78228308--78228361 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
78228298 CATCTCTATC
*
78228308 GTTAATGCAGGCAAAGTCCTTTGTTAA
1 GTTAATGCAGGAAAAGTCCTTTGTTAA
78228335 GTTAATGCAGGAAAAGTCCTTTGTTAA
1 GTTAATGCAGGAAAAGTCCTTTGTTAA
78228362 CTTTTTTTTA
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:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (27 bp):
GTTAATGCAGGAAAAGTCCTTTGTTAA
Found at i:78234928 original size:19 final size:20
Alignment explanation
Indices: 78234889--78234929 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
78234879 TTTTTTTACA
* *
78234889 TAAATTATTATTATTATTAT
1 TAAATTATTAATATGATTAT
78234909 TAAATT-TTAATATGATTAT
1 TAAATTATTAATATGATTAT
78234928 TA
1 TA
78234930 TTAAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TAAATTATTAATATGATTAT
Found at i:78259474 original size:19 final size:21
Alignment explanation
Indices: 78259450--78259492 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
78259440 GCACCTAGGA
78259450 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
78259469 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
78259490 TGA
1 TGA
78259493 ATTGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:78270702 original size:19 final size:19
Alignment explanation
Indices: 78270678--78270717 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
78270668 TCCATTCCTA
78270678 ATTAAGATAGTAAAAAATG
1 ATTAAGATAGTAAAAAATG
78270697 ATTAAGATAGTAAAAAATG
1 ATTAAGATAGTAAAAAATG
78270716 AT
1 AT
78270718 GTGCTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (19 bp):
ATTAAGATAGTAAAAAATG
Found at i:78275180 original size:105 final size:101
Alignment explanation
Indices: 78275053--78275248 Score: 268
Period size: 105 Copynumber: 1.9 Consensus size: 101
78275043 GAATCTCATA
* * *
78275053 GTGCCATAGCCCAGTTATGGTCTTTCCA-TTAGGATGCCATAGCCCAGCTATGGTCTTACACACA
1 GTGCCATAACCCAGTTATGGTCTTTCCACTGA-AATGCCATAGCCCAGCTATGGTCTT----ACA
78275117 TATATATACTGCCATGGTCCAACCATGGTCTAACGTTCACG
61 TATATATACTGCCATGGTCCAACCATGGTCTAACGTTCACG
* * * *
78275158 GTGCCATAACCTAGTTATGGTCTTTTCACTGAAATGCTATAGCCCAGCTATGGTCTTACATTTAT
1 GTGCCATAACCCAGTTATGGTCTTTCCACTGAAATGCCATAGCCCAGCTATGGTCTTACATATAT
*
78275223 ATATTGCCATGGTCCAACCATGGTCT
66 ATACTGCCATGGTCCAACCATGGTCT
78275249 TATCAGTCAA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
101 32 0.39
105 48 0.59
106 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTTCCACTGAAATGCCATAGCCCAGCTATGGTCTTACATATAT
ATACTGCCATGGTCCAACCATGGTCTAACGTTCACG
Found at i:78286859 original size:105 final size:105
Alignment explanation
Indices: 78286672--78286869 Score: 272
Period size: 105 Copynumber: 1.9 Consensus size: 105
78286662 AGGGGGAAGG
** * * *
78286672 ATAGGATATTTATCTTGATTTTTGTTGTTGTTACTGTTGTTTATTTCGACCTAGTTGTTTTGTTT
1 ATAGGATATTTATCTTGATTGATGTTGTTATTACTGCTGTTTATTTCGACCTAGTTGTTTTGTTC
* *
78286737 ACATGCATCATTCATTTTTGTTATGCTTCACACCATACCT
66 ACATGCATCATTCATTTTGGCTATGCTTCACACCATACCT
** * *
78286777 ATAGGATATTTATCTTGATTGATGTTGTTATTTTTGCTGTTTA-TTCTGACTTGGTTGTTTTGTT
1 ATAGGATATTTATCTTGATTGATGTTGTTATTACTGCTGTTTATTTC-GACCTAGTTGTTTTGTT
*
78286841 CACATGCATCATTTATTTTGGCTATGCTT
65 CACATGCATCATTCATTTTGGCTATGCTT
78286870 TGCATCATGT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 3 0.04
105 77 0.96
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (105 bp):
ATAGGATATTTATCTTGATTGATGTTGTTATTACTGCTGTTTATTTCGACCTAGTTGTTTTGTTC
ACATGCATCATTCATTTTGGCTATGCTTCACACCATACCT
Found at i:78288009 original size:22 final size:22
Alignment explanation
Indices: 78287984--78288029 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
78287974 GATTAAAGAC
78287984 TTAATAGAATTAAATATTTATA
1 TTAATAGAATTAAATATTTATA
78288006 TTAATAGAATTAAATATTTATA
1 TTAATAGAATTAAATATTTATA
78288028 TT
1 TT
78288030 TTAATATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
TTAATAGAATTAAATATTTATA
Found at i:78290049 original size:15 final size:16
Alignment explanation
Indices: 78290031--78290060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78290021 GAAAAGAAGG
78290031 AAGAAGAAAA-AAAAT
1 AAGAAGAAAAGAAAAT
78290046 AAGAAGAAAAGAAAA
1 AAGAAGAAAAGAAAA
78290061 GAAAAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAT
Found at i:78291550 original size:19 final size:19
Alignment explanation
Indices: 78291501--78291554 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
78291491 AAAAACTCAT
* **
78291501 AAAAACTTAAAATTTTTAA
1 AAAAAATTAAAATTTCAAA
*
78291520 AAAATATATAAAATTTCAAA
1 AAAAAAT-TAAAATTTCAAA
78291540 AAAAAATTAAAATTT
1 AAAAAATTAAAATTT
78291555 GAGATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTAAAATTTCAAA
Found at i:78291728 original size:55 final size:56
Alignment explanation
Indices: 78291667--78291785 Score: 154
Period size: 56 Copynumber: 2.1 Consensus size: 56
78291657 CCTACTCAAC
* *
78291667 TAATTATTAAT-AATTATTTTTGTCACC-TA-TTATGAAACGATATAAAATAATTACT
1 TAATTATTAATAAATT-TTTTTGTC-CCTTACTTATGAAAAGATATAAAATAATCACT
* *
78291722 TAATTATTAATAAATTTTTTTGTCCCTTACTTATGAAAAGTTATAAAATAGTCACT
1 TAATTATTAATAAATTTTTTTGTCCCTTACTTATGAAAAGATATAAAATAATCACT
*
78291778 CAATTATT
1 TAATTATT
78291786 CAATTTGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
54 2 0.04
55 21 0.38
56 33 0.59
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (56 bp):
TAATTATTAATAAATTTTTTTGTCCCTTACTTATGAAAAGATATAAAATAATCACT
Found at i:78292506 original size:18 final size:17
Alignment explanation
Indices: 78292472--78292520 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
78292462 ATGTTATATG
* *
78292472 TTAAAAAATTTATAATT
1 TTAAAAAATTAAAAATT
78292489 TTAAAAAGATTAAAAATT
1 TTAAAAA-ATTAAAAATT
78292507 TTAAAAAA-TAAAAA
1 TTAAAAAATTAAAAA
78292521 AAGTGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 15 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAAATTAAAAATT
Found at i:78294093 original size:23 final size:22
Alignment explanation
Indices: 78294063--78294131 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
78294053 AAAAAATTAT
78294063 AAAAATTTGTAATTAATTTATAA
1 AAAAATTTGTAA-TAATTTATAA
78294086 AAAAATTTGTAACT--TTTA-AA
1 AAAAATTTGTAA-TAATTTATAA
*
78294106 AAAAA-TTGTAAAAATATTATAA
1 AAAAATTTGTAATAAT-TTATAA
78294128 AAAA
1 AAAA
78294132 TTATAAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.15
20 8 0.20
21 7 0.17
22 6 0.15
23 13 0.32
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAAATTTGTAATAATTTATAA
Found at i:78294128 original size:11 final size:10
Alignment explanation
Indices: 78294105--78294139 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
78294095 TAACTTTTAA
*
78294105 AAAAAATTGT
1 AAAAAATTAT
78294115 AAAAATATTAT
1 AAAAA-ATTAT
78294126 AAAAAATTAT
1 AAAAAATTAT
78294136 AAAA
1 AAAA
78294140 TCAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:78294131 original size:21 final size:21
Alignment explanation
Indices: 78294051--78294139 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
78294041 TTATTAAAAA
* *
78294051 TAAAAAAATTATAAAAATTTG
1 TAAAAATATTATAAAAAATTG
*
78294072 TAATTAAT-TTATAAAAAAATTTG
1 TAA-AAATATTAT-AAAAAA-TTG
* * *
78294095 T--AACTTTTAAAAAAAATTG
1 TAAAAATATTATAAAAAATTG
*
78294114 TAAAAATATTATAAAAAATTA
1 TAAAAATATTATAAAAAATTG
78294135 TAAAA
1 TAAAA
78294140 TCAAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 4 0.08
20 8 0.15
21 29 0.56
22 7 0.13
23 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (21 bp):
TAAAAATATTATAAAAAATTG
Found at i:78294268 original size:16 final size:15
Alignment explanation
Indices: 78294238--78294274 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
78294228 GTGGAGAGGT
78294238 TACATACATCATACA
1 TACATACATCATACA
*
78294253 TACATGCATGCATACA
1 TACATACAT-CATACA
78294269 TACATA
1 TACATA
78294275 TTCACTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (15 bp):
TACATACATCATACA
Found at i:78294656 original size:19 final size:18
Alignment explanation
Indices: 78294596--78294660 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
78294586 TTCTTTTAAC
*
78294596 TTTATAAAATTTTATTATT
1 TTTATAATATTTTA-TATT
* *
78294615 TTTTTTATATTTCTATATAT
1 TTTATAATATTT-TATAT-T
78294635 TTTATAATATTTTATGATT
1 TTTATAATATTTTAT-ATT
78294654 TTTATAA
1 TTTATAA
78294661 AAATTTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATAATATTTTATATT
Found at i:78294673 original size:19 final size:19
Alignment explanation
Indices: 78294651--78294717 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
78294641 ATATTTTATG
78294651 ATTTTTATAAAAATTTTTA
1 ATTTTTATAAAAATTTTTA
* * *
78294670 ATTTTTA-ATAACTTTTAA
1 ATTTTTATAAAAATTTTTA
* *
78294688 ATTTTTTTAAAAATTTATTG
1 ATTTTTATAAAAATTT-TTA
78294708 ATTTTT-TAAA
1 ATTTTTATAAA
78294718 TTTTTTTGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 14 0.37
19 17 0.45
20 7 0.18
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
ATTTTTATAAAAATTTTTA
Found at i:78296744 original size:34 final size:35
Alignment explanation
Indices: 78296679--78296745 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
78296669 TCAAATAGAT
* * * *
78296679 CAATACGGTAGCATTTAATTATGCTTTTAACAGAA
1 CAATACGGTAACAATCAATTATGCTTATAACAGAA
78296714 CAATACGGTAACAATCAA-TATGCTTATAACAG
1 CAATACGGTAACAATCAATTATGCTTATAACAG
78296746 TTTAATACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (35 bp):
CAATACGGTAACAATCAATTATGCTTATAACAGAA
Found at i:78298087 original size:3 final size:3
Alignment explanation
Indices: 78298079--78298124 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
78298069 TCTTTTTACC
78298079 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
78298125 ACATGAAGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:78299045 original size:20 final size:19
Alignment explanation
Indices: 78298984--78299046 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
78298974 CATTTATCAC
*
78298984 AATTGAAATTTTTTATAATA
1 AATT-AAATATTTTATAATA
*
78299004 AATTATATATTTTATAATTA
1 AATTAAATATTTTATAA-TA
78299024 AATTAAAAGTATTTTAT-ATA
1 AATT-AAA-TATTTTATAATA
78299044 AAT
1 AAT
78299047 ACTAATTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.30
20 15 0.41
21 3 0.08
22 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTAAATATTTTATAATA
Found at i:78299308 original size:3 final size:3
Alignment explanation
Indices: 78299302--78299359 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
78299292 AACAAATTAT
* *
78299302 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
78299350 TAA TTA TAA T
1 TAA TAA TAA T
78299360 TTAATTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:78299647 original size:23 final size:24
Alignment explanation
Indices: 78299587--78299640 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
78299577 TGATTTTCGC
78299587 TATTATTTGATATGTT--TAGTTAT
1 TATTATTTGATAT-TTGATAGTTAT
78299610 TATTATTTGATATTTGATAGTT-T
1 TATTATTTGATATTTGATAGTTAT
78299633 TATTATTT
1 TATTATTT
78299641 TTTATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.07
23 22 0.76
24 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (24 bp):
TATTATTTGATATTTGATAGTTAT
Found at i:78301816 original size:40 final size:40
Alignment explanation
Indices: 78301731--78301877 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
78301721 TGAATTTTCG
* * * *
78301731 CACATTAAGTGCCAATACATAGCCGAAGCTGTCTCAAATCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTTAAATCA
* *
78301772 CACACTAAGTGCCATTCATAGCCGAAGCTATCTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTAAATCA
* * * * *
78301812 CACACTAAGTGCTACACATAACCGAAGCTATCTTCAATCT
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTAAATCA
78301852 CACACTAAGTGCCATACATAGCCGAA
1 CACACTAAGTGCCATACATAGCCGAA
78301878 TTGTCATCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 79 0.87
41 12 0.13
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTTAAATCA
Found at i:78310707 original size:25 final size:25
Alignment explanation
Indices: 78310678--78310725 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78310668 TTATAATATG
* * *
78310678 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
78310703 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
78310726 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:78310797 original size:9 final size:9
Alignment explanation
Indices: 78310764--78310839 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
78310754 TTTGATAAAC
78310764 ATGATATGT
1 ATGATATGT
*
78310773 ATG-TATGCAC
1 ATGATATG--T
78310783 ATGATATGT
1 ATGATATGT
*
78310792 ATGATATGCAC
1 ATGATATG--T
*
78310803 ATGACATGT
1 ATGATATGT
*
78310812 ATGATATGCAC
1 ATGATATG--T
78310823 ATGATATGT
1 ATGATATGT
78310832 ATGATATG
1 ATGATATG
78310840 CACACGAGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.08
9 26 0.50
10 3 0.06
11 19 0.37
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:78310851 original size:20 final size:20
Alignment explanation
Indices: 78310762--78310843 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
78310752 ATTTTGATAA
78310762 ACATGATATGTATG-TATGC
1 ACATGATATGTATGATATGC
78310781 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78310801 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78310821 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78310841 ACA
1 ACA
78310844 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
19 14 0.23
20 46 0.77
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78310977 original size:24 final size:24
Alignment explanation
Indices: 78310897--78310991 Score: 124
Period size: 23 Copynumber: 4.0 Consensus size: 24
78310887 GAGGAAGTGC
*
78310897 AAAAGGGCTTATGGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78310921 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78310944 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
78310968 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
78310992 ATGATACAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
23 28 0.44
24 19 0.30
25 17 0.27
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:78311223 original size:31 final size:31
Alignment explanation
Indices: 78311185--78311248 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78311175 CGTTCACCGT
*
78311185 AAAGGCTTCGGACCAGTAATATGAAATTTGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
* **
78311216 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
78311247 AA
1 AA
78311249 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGACCAGTAATATGAAATATGA
Found at i:78313491 original size:25 final size:25
Alignment explanation
Indices: 78313462--78313509 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
78313452 TTATAATATG
* *
78313462 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
78313487 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
78313510 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:78313560 original size:9 final size:9
Alignment explanation
Indices: 78313548--78313624 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
78313538 TTTGATAAAC
78313548 ATGATATGT
1 ATGATATGT
*
78313557 ATGATATGCAC
1 ATGATATG--T
78313568 ATGATATGT
1 ATGATATGT
*
78313577 ATGATATGCAC
1 ATGATATG--T
*
78313588 ATGACATGT
1 ATGATATGT
*
78313597 ATGATATGCAC
1 ATGATATG--T
78313608 ATGATATGT
1 ATGATATGT
78313617 ATGATATG
1 ATGATATG
78313625 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:78313573 original size:11 final size:11
Alignment explanation
Indices: 78313557--78313628 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
78313547 CATGATATGT
78313557 ATGATATGCAC
1 ATGATATGCAC
*
78313568 ATGATATG--T
1 ATGATATGCAC
78313577 ATGATATGCAC
1 ATGATATGCAC
* *
78313588 ATGACATG--T
1 ATGATATGCAC
78313597 ATGATATGCAC
1 ATGATATGCAC
*
78313608 ATGATATG--T
1 ATGATATGCAC
78313617 ATGATATGCAC
1 ATGATATGCAC
78313628 A
1 A
78313629 CGAGATGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:78313636 original size:20 final size:20
Alignment explanation
Indices: 78313546--78313628 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
78313536 ATTTTGATAA
78313546 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78313566 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78313586 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78313606 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78313626 ACA
1 ACA
78313629 CGAGATGTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78313708 original size:24 final size:24
Alignment explanation
Indices: 78313681--78313753 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
78313671 GGAGGAAGTG
78313681 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
78313705 TAAAAAGGGCTT-TGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
78313729 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
78313754 ATGATAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 6 0.14
24 20 0.45
25 18 0.41
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:78314010 original size:31 final size:31
Alignment explanation
Indices: 78313947--78314010 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
78313937 CGTTTACCGT
* *
78313947 AAAGGCTTCGGACCAGTAATATGGAATTTGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
* **
78313978 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
78314009 AA
1 AA
78314011 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGACCAGTAATATGAAATATGA
Found at i:78315182 original size:40 final size:40
Alignment explanation
Indices: 78315083--78315271 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
78315073 TTGAATTCTT
* *
78315083 GCACACTAAATGCCAATACATAGCCGAAGCTAT-TTTAATCCC
1 GCACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGAAT--C
* * * *
78315125 GCACACTGAGTGCCATACATAGTCGAAGCTGTCTCGAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATC
*
78315165 GCACACTAAGTGTCATACATAGCCGAAGCTATCTTGAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATC
* * *
78315205 GCACACTAAGTGCCGTACACAACCGAAGCTATCTTGAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATC
78315245 GCACACTAAGTGCCATACATAGCCGAA
1 GCACACTAAGTGCCATACATAGCCGAA
78315272 TTGTCATCAA
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 96 0.75
41 16 0.12
42 16 0.12
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATC
Found at i:78318283 original size:7 final size:7
Alignment explanation
Indices: 78318250--78318282 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
78318240 ATATATCATA
78318250 AATTTTT
1 AATTTTT
78318257 AATTTTT
1 AATTTTT
78318264 AATTTTT
1 AATTTTT
*
78318271 AATTTAT
1 AATTTTT
78318278 AATTT
1 AATTT
78318283 ACCAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:78319239 original size:31 final size:32
Alignment explanation
Indices: 78319201--78319260 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
78319191 GCATTAATAT
*
78319201 TTATATATTTATA-TAATTTAATTTAAATAAA
1 TTATATATTTAAATTAATTTAATTTAAATAAA
* *
78319232 TTATATATTTAAATTTATTTATTTTAAAT
1 TTATATATTTAAATTAATTTAATTTAAAT
78319261 GTAAATTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTATATATTTAAATTAATTTAATTTAAATAAA
Found at i:78319901 original size:17 final size:17
Alignment explanation
Indices: 78319879--78319911 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78319869 ACTATTACAA
78319879 ATATAA-ATACAATATAC
1 ATATAATATA-AATATAC
78319896 ATATAATATAAATATA
1 ATATAATATAAATATA
78319912 TATCTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAATATAAATATAC
Found at i:78319910 original size:11 final size:11
Alignment explanation
Indices: 78319878--78319911 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78319868 CACTATTACA
*
78319878 AATATAAATAC
1 AATATAAATAT
*
78319889 AATATACATAT
1 AATATAAATAT
78319900 AATATAAATAT
1 AATATAAATAT
78319911 A
1 A
78319912 TATCTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:78321339 original size:14 final size:13
Alignment explanation
Indices: 78321319--78321359 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
78321309 ATGTTTTGGC
78321319 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
78321332 AGAAAAAAAGAAAGA
1 A-AAAAAAAGAAA-A
*
78321347 AAGAAAAAGAAAA
1 AAAAAAAAGAAAA
78321360 TACATGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:78326402 original size:23 final size:22
Alignment explanation
Indices: 78326376--78326430 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
78326366 TACTGTGGAG
*
78326376 AAAAAGAAATAAGAAAGCAAAAA
1 AAAAAGAAAAAAGAAAGC-AAAA
* *
78326399 AAAAAAAAAAAAGAAAGCGAAA
1 AAAAAGAAAAAAGAAAGCAAAA
78326421 AAAAAGAAAA
1 AAAAAGAAAA
78326431 GAAAGAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAGAAAGCAAAA
Found at i:78326421 original size:24 final size:23
Alignment explanation
Indices: 78326376--78326437 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
78326366 TACTGTGGAG
* *
78326376 AAAAAGAAATAAGAAAGCAAAAA
1 AAAAAAAAAAAAGAAAGCAAAAA
78326399 AAAAAAAAAAAAGAAAGCGAAAAA
1 AAAAAAAAAAAAGAAAGC-AAAAA
* *
78326423 AAAGAAAAGAAAGAA
1 AAAAAAAAAAAAGAA
78326438 TAAGTAGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAAAGAAAGCAAAAA
Found at i:78326423 original size:20 final size:20
Alignment explanation
Indices: 78326398--78326435 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
78326388 GAAAGCAAAA
78326398 AAAAAAAAAAAAAGAAAGCG
1 AAAAAAAAAAAAAGAAAGCG
*
78326418 AAAAAAAAGAAAAGAAAG
1 AAAAAAAAAAAAAGAAAG
78326436 AATAAGTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAGAAAGCG
Found at i:78334705 original size:56 final size:55
Alignment explanation
Indices: 78334603--78334742 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 55
78334593 CTCATTATAG
* * * *
78334603 AAAGGATTTAGCTCGTACGGGTAATCCTGATATAAGCTCTCTAGCATATGTTACA-
1 AAAGGATTTAGCT-GGACTGGTAATCCTAATATAAGCTCTCTAGCATAAGTTACAT
* * *
78334658 ATTAGGATTTAGCTGGACTAGTAATCCTAAT-TGAGCTCTTCTGAGCATAAGTTACAT
1 A-AAGGATTTAGCTGGACTGGTAATCCTAATATAAGCTC-TCT-AGCATAAGTTACAT
78334715 AAAGGATTTAGCCTGGACTGGTAATCCT
1 AAAGGATTTAG-CTGGACTGGTAATCCT
78334743 CTAATATGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
54 6 0.08
55 17 0.24
56 32 0.45
57 16 0.23
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (55 bp):
AAAGGATTTAGCTGGACTGGTAATCCTAATATAAGCTCTCTAGCATAAGTTACAT
Found at i:78336333 original size:30 final size:30
Alignment explanation
Indices: 78336297--78336358 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
78336287 ATAATTTGTG
* *
78336297 ATAGTGTGATGTCTCCTGATCTTTTTAAAT
1 ATAGTGTGATGTCTCCTGATCATTTGAAAT
78336327 ATAGTGTGATGTCTCCTGATCATTTGAAAT
1 ATAGTGTGATGTCTCCTGATCATTTGAAAT
78336357 AT
1 AT
78336359 GTTTTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (30 bp):
ATAGTGTGATGTCTCCTGATCATTTGAAAT
Found at i:78339789 original size:42 final size:40
Alignment explanation
Indices: 78339736--78339818 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 40
78339726 TTGAAATTTC
* * *
78339736 AATCAAAACTTTCAATTCTGTTTTTTATTTTATTTTTTTCCA
1 AATCAAAACTTTAAATTCT-ATTTTT-TTTTATTTTTTCCCA
*
78339778 AATCAGAACTTTAAATTCTATTTTTTTTTATTTTTTCCCA
1 AATCAAAACTTTAAATTCTATTTTTTTTTATTTTTTCCCA
78339818 A
1 A
78339819 GTACGCAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 15 0.41
41 5 0.14
42 17 0.46
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.55
Consensus pattern (40 bp):
AATCAAAACTTTAAATTCTATTTTTTTTTATTTTTTCCCA
Found at i:78346888 original size:10 final size:10
Alignment explanation
Indices: 78346873--78346922 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
78346863 TAATTTTAGG
78346873 ATTTAT-TTT
1 ATTTATCTTT
78346882 CATTTATCTTT
1 -ATTTATCTTT
*
78346893 AATTATCTTT
1 ATTTATCTTT
78346903 ATTTAT-TTGT
1 ATTTATCTT-T
*
78346913 AATTATCTTT
1 ATTTATCTTT
78346923 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:78346906 original size:20 final size:20
Alignment explanation
Indices: 78346883--78346922 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
78346873 ATTTATTTTC
78346883 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
78346903 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
78346923 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:78348438 original size:39 final size:39
Alignment explanation
Indices: 78348392--78348469 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
78348382 GTGTTAGTTC
78348392 AACCTAAATCGGGTAAGGAATTTATAATTTACAGTGATG
1 AACCTAAATCGGGTAAGGAATTTATAATTTACAGTGATG
*
78348431 AACCTAAATTGGGTAAGGAATTTATAATTTACAGTGATG
1 AACCTAAATCGGGTAAGGAATTTATAATTTACAGTGATG
78348470 CGTCATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (39 bp):
AACCTAAATCGGGTAAGGAATTTATAATTTACAGTGATG
Found at i:78359157 original size:240 final size:240
Alignment explanation
Indices: 78358734--78359167 Score: 868
Period size: 240 Copynumber: 1.8 Consensus size: 240
78358724 TGCAAACTTT
78358734 GGGAAATCTATAATGGTTAACAAGTTGTTTAGAAACGTCCCTTTAGAGGTTCAAAGGGCAATCTT
1 GGGAAATCTATAATGGTTAACAAGTTGTTTAGAAACGTCCCTTTAGAGGTTCAAAGGGCAATCTT
78358799 TCTGGCTGACCTGATGGAGCTTCTATTTGGGGAGTTTGACTTAATTCTGAGGATGGACTAGTTGG
66 TCTGGCTGACCTGATGGAGCTTCTATTTGGGGAGTTTGACTTAATTCTGAGGATGGACTAGTTGG
78358864 TCAAGCATCATGTCAGCTTGGACTGTACGACTAAGAGGGTCGTATTAAGGACTGAGGAGGATAAC
131 TCAAGCATCATGTCAGCTTGGACTGTACGACTAAGAGGGTCGTATTAAGGACTGAGGAGGATAAC
78358929 AAGTTTGAGAGCACTATGAGTGAGGTTACCGTATTGAGTCTGTTA
196 AAGTTTGAGAGCACTATGAGTGAGGTTACCGTATTGAGTCTGTTA
78358974 GGGAAATCTATAATGGTTAACAAGTTGTTTAGAAACGTCCCTTTAGAGGTTCAAAGGGCAATCTT
1 GGGAAATCTATAATGGTTAACAAGTTGTTTAGAAACGTCCCTTTAGAGGTTCAAAGGGCAATCTT
78359039 TCTGGCTGACCTGATGGAGCTTCTATTTGGGGAGTTTGACTTAATTCTGAGGATGGACTAGTTGG
66 TCTGGCTGACCTGATGGAGCTTCTATTTGGGGAGTTTGACTTAATTCTGAGGATGGACTAGTTGG
78359104 TCAAGCATCATGTCAGCTTGGACTGTACGACTAAGAGGGTCGTATTAAGGACTGAGGAGGATAA
131 TCAAGCATCATGTCAGCTTGGACTGTACGACTAAGAGGGTCGTATTAAGGACTGAGGAGGATAA
78359168 TGAGGTAGTC
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 194 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (240 bp):
GGGAAATCTATAATGGTTAACAAGTTGTTTAGAAACGTCCCTTTAGAGGTTCAAAGGGCAATCTT
TCTGGCTGACCTGATGGAGCTTCTATTTGGGGAGTTTGACTTAATTCTGAGGATGGACTAGTTGG
TCAAGCATCATGTCAGCTTGGACTGTACGACTAAGAGGGTCGTATTAAGGACTGAGGAGGATAAC
AAGTTTGAGAGCACTATGAGTGAGGTTACCGTATTGAGTCTGTTA
Found at i:78363092 original size:34 final size:34
Alignment explanation
Indices: 78363039--78363127 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
78363029 TACAGTGTTG
* **
78363039 ATCAGTCTGGGCCCAAGCCCA-TACCAGTAGCAAT
1 ATCAGTGTGGGCCTTAGCCCATTA-CAGTAGCAAT
* * * * *
78363073 ATTAGTGTGGGCTTTAGCCCATTACGGTAGTAGT
1 ATCAGTGTGGGCCTTAGCCCATTACAGTAGCAAT
78363107 ATCAGTGTGGGCCTTAGCCCA
1 ATCAGTGTGGGCCTTAGCCCA
78363128 ATTTAGTATA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
34 42 0.95
35 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.26
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCATTACAGTAGCAAT
Found at i:78371347 original size:79 final size:81
Alignment explanation
Indices: 78371245--78371429 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
78371235 GCTCCTCGTT
* *
78371245 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
78371308 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
78371325 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
78371389 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
78371405 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78371430 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:78371429 original size:40 final size:40
Alignment explanation
Indices: 78371245--78371429 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
78371235 GCTCCTCGTT
* *
78371245 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
78371285 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
78371325 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
78371364 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
78371405 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78371430 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:78373443 original size:22 final size:21
Alignment explanation
Indices: 78373402--78373443 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78373392 AGCTAGAATA
*
78373402 TTGATACATTAGGAAAATATT
1 TTGATACATTAGAAAAATATT
*
78373423 TTGATACCTTAAGAAAAATAT
1 TTGATACATT-AGAAAAATAT
78373444 CGATACCGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (21 bp):
TTGATACATTAGAAAAATATT
Found at i:78373767 original size:27 final size:27
Alignment explanation
Indices: 78373737--78373791 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
78373727 TAGTTTAATA
** *
78373737 GAAATAGAAGCCTTTGTGGTAATCTAT
1 GAAATAGAAAACTTTGTGGCAATCTAT
* *
78373764 GAAATGGAAAACTTTGTGGCGATCTAT
1 GAAATAGAAAACTTTGTGGCAATCTAT
78373791 G
1 G
78373792 GAAAGGAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (27 bp):
GAAATAGAAAACTTTGTGGCAATCTAT
Found at i:78373805 original size:27 final size:27
Alignment explanation
Indices: 78373748--78373799 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
78373738 AAATAGAAGC
*
78373748 CTTTGTGGTAATCTATGAAATGGAAAA
1 CTTTGTGGCAATCTATGAAATGGAAAA
*
78373775 CTTTGTGGCGATCTATGGAAA-GGAA
1 CTTTGTGGCAATCTAT-GAAATGGAA
78373800 TGCTTTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCAATCTATGAAATGGAAAA
Found at i:78375573 original size:27 final size:27
Alignment explanation
Indices: 78375506--78375600 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
78375496 AACTTTGAAG
* * *
78375506 GAATAGTACACATGGAAAACTCTAAAA
1 GAATAGTACATATGGCAAACACTAAAA
* * * * *
78375533 GAACAATGCGTATGGCGAACACTAAAA
1 GAATAGTACATATGGCAAACACTAAAA
** * *
78375560 GAATAGTACATATGGCAAACTTTGAAG
1 GAATAGTACATATGGCAAACACTAAAA
78375587 GAATAGTACATATG
1 GAATAGTACATATG
78375601 ATGAACACTG
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (27 bp):
GAATAGTACATATGGCAAACACTAAAA
Found at i:78391820 original size:49 final size:48
Alignment explanation
Indices: 78391760--78392027 Score: 234
Period size: 49 Copynumber: 5.6 Consensus size: 48
78391750 ATCTAAGTCA
78391760 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACGTTGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATAC-TTGAGGCTG
* * *
78391809 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTA-TCT-ATG-TCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACT-TC-CATACT-TGAGGCT-G
* * **
78391858 ATGCCATGTCCCAGACAGGTCTTACACTGA----CACACTTCAAACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACTTGAGGCTG
* *
78391902 ATGCCATGTCCCAGATAGGTCTTACACT-AGCTTGCATATCTTGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CTTGAGGCTG
* * *
78391951 ATGCCATGTCCCAGATAGGTCTTACACTGGC-TCTCAT-CTATCG-GTGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTC-CATACT-T-GAG-GCTG
* *
78392000 ATACCATGTCTCAGACAGGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
78392028 ACCACACACA
Statistics
Matches: 182, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
43 4 0.02
44 30 0.16
45 1 0.01
47 2 0.01
48 7 0.04
49 132 0.73
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACTTGAGGCTG
Found at i:78391954 original size:93 final size:94
Alignment explanation
Indices: 78391714--78391979 Score: 292
Period size: 93 Copynumber: 2.8 Consensus size: 94
78391704 CGATACCGAC
* * * * *
78391714 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCTAAGTCAATGCCATGTCCCAGACAG
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTCTCACTATCTAGGTCGATGCCATGTCCCAGACAG
* * **
78391778 GTCTTACACTGACTTCCATACGTTGAGGCTGAT
65 GTCTTACACTGA---CCACACGTTCAAACTGAT
* *
78391811 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCCAGACAG
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTAGGTCGATGCCATGTCCCAGACAG
78391876 GTCTTACACTGA-CACAC-TTCAAACTGAT
65 GTCTTACACTGACCACACGTTCAAACTGAT
*
78391904 GCCATGTCCCAGATAGGTCTTACACTAGCT-TGCA-TATCTTGAGG-CTGATGCCATGTCCCAGA
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTATC-T-AGGTC-GATGCCATGTCCCAGA
*
78391966 TAGGTCTTACACTG
62 CAGGTCTTACACTG
78391980 GCTCTCATCT
Statistics
Matches: 151, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
91 4 0.03
92 3 0.02
93 69 0.46
94 4 0.03
96 19 0.13
97 13 0.09
98 39 0.26
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTAGGTCGATGCCATGTCCCAGACAGG
TCTTACACTGACCACACGTTCAAACTGAT
Found at i:78392034 original size:142 final size:142
Alignment explanation
Indices: 78391760--78392027 Score: 416
Period size: 142 Copynumber: 1.9 Consensus size: 142
78391750 ATCTAAGTCA
78391760 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACGTTGAGGCTGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACGTTGAGGCTGATGCCATGTCCCAGAC
* * *
78391825 AGGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCCAGACAGGTCTTACACTGACA
66 AGGTCTTACACTGGCTCTCACTTATCGATGCCGATACCATGTCCCAGACAGGTCTTACACTGACA
78391890 CACTTCAAACTG
131 CACTTCAAACTG
* *
78391902 ATGCCATGTCCCAGATAGGTCTTACACT-AGCTTGCATATC-TTGAGGCTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CGTTGAGGCTGATGCCATGTCCCAG
* * *
78391965 ATAGGTCTTACACTGGCTCTCA-TCTATCGGTGCCGATACCATGTCTCAGACAGGTCTTACACT
64 ACAGGTCTTACACTGGCTCTCACT-TATCGATGCCGATACCATGTCCCAGACAGGTCTTACACT
78392028 ACCACACACA
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
141 2 0.02
142 112 0.97
143 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACGTTGAGGCTGATGCCATGTCCCAGAC
AGGTCTTACACTGGCTCTCACTTATCGATGCCGATACCATGTCCCAGACAGGTCTTACACTGACA
CACTTCAAACTG
Found at i:78399931 original size:27 final size:27
Alignment explanation
Indices: 78399900--78399972 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
78399890 CACGCTGAAA
78399900 AAATGGAAG-CTGTTGTGGCAATATATG
1 AAATGGAAGACT-TTGTGGCAATATATG
*
78399927 AAATGGAAGACTTTGTGGCAATTTATG
1 AAATGGAAGACTTTGTGGCAATATATG
*
78399954 AAATGGAAGCCTTTGTGGC
1 AAATGGAAGACTTTGTGGC
78399973 GATCTATGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (27 bp):
AAATGGAAGACTTTGTGGCAATATATG
Found at i:78400153 original size:27 final size:27
Alignment explanation
Indices: 78400123--78400201 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
78400113 ATAAGTTTAC
78400123 AAGAATAGTGCATATGGAGAACTCTAA
1 AAGAATAGTGCATATGGAGAACTCTAA
** * *
78400150 AAGAATACAGCATATGGAGAACACTGA
1 AAGAATAGTGCATATGGAGAACTCTAA
** * *
78400177 AAGGGTAGTACATATGGCGAACTCT
1 AAGAATAGTGCATATGGAGAACTCT
78400202 GAAGGAATGA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (27 bp):
AAGAATAGTGCATATGGAGAACTCTAA
Found at i:78402449 original size:22 final size:22
Alignment explanation
Indices: 78402423--78402472 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
78402413 TCTTTTCCCC
78402423 TCCCCAAAATCCCCAAC-TTTTT
1 TCCCCAAAATCCCC-ACTTTTTT
*
78402445 TCCCC-AAATCCCCTCTTTTTT
1 TCCCCAAAATCCCCACTTTTTT
78402466 TCCCCAA
1 TCCCCAA
78402473 TGTTTGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.34
Consensus pattern (22 bp):
TCCCCAAAATCCCCACTTTTTT
Found at i:78402508 original size:25 final size:25
Alignment explanation
Indices: 78402480--78402540 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
78402470 CAATGTTTGA
78402480 TGCATCGCCGTCGACAATCCTCTA-C
1 TGCATCGCCGTCGACAATCCTC-AGC
* **
78402505 TGCATTGCCGTCGACGGTCCTCAGC
1 TGCATCGCCGTCGACAATCCTCAGC
78402530 TGCATCGCCGT
1 TGCATCGCCGT
78402541 GTAAGTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.25
Consensus pattern (25 bp):
TGCATCGCCGTCGACAATCCTCAGC
Found at i:78404659 original size:42 final size:42
Alignment explanation
Indices: 78404613--78404701 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
78404603 ATCCTAATTG
*
78404613 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
78404655 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
78404697 TAAAA
1 GAAAA
78404702 AAATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:78404748 original size:19 final size:18
Alignment explanation
Indices: 78404726--78404765 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
78404716 TGAATAAAAC
78404726 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
78404745 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
78404763 TTA
1 TTA
78404766 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:78408664 original size:19 final size:18
Alignment explanation
Indices: 78408642--78408681 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
78408632 TGAATAAAAC
78408642 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
78408661 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
78408679 TTA
1 TTA
78408682 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:78414047 original size:36 final size:36
Alignment explanation
Indices: 78414007--78414080 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
78413997 AAGAAATGAG
78414007 AGGTATTACGTACTTCCAAATTCTTATAATTATTTT
1 AGGTATTACGTACTTCCAAATTCTTATAATTATTTT
78414043 AGGTATTACGTACTTCCAAATTCTTATAATTATTTT
1 AGGTATTACGTACTTCCAAATTCTTATAATTATTTT
78414079 AG
1 AG
78414081 TTTATAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (36 bp):
AGGTATTACGTACTTCCAAATTCTTATAATTATTTT
Found at i:78414942 original size:66 final size:66
Alignment explanation
Indices: 78414816--78414947 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
78414806 AGCAAATTGC
* * * * * ** *
78414816 TCAACTTAAAGCGAAGGCGACATCGAGAGAAGCGGAGGCTCAAAGAAAATATGATGAACTCTAGC
1 TCAACTTAAAGCGAAGGCAACAGCAAGAGAAGCAGAGGCACAAAGAAAATATGACAAACTCCAGC
78414881 T
66 T
*
78414882 TCAACTTAAAGCGAAGGCAACAGCAAGGGAAGCAGAGGCA-ACAAGAAAATATGACAAACTCCAG
1 TCAACTTAAAGCGAAGGCAACAGCAAGAGAAGCAGAGGCACA-AAGAAAATATGACAAACTCCAG
78414946 CT
65 CT
78414948 ACAGGTTCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (66 bp):
TCAACTTAAAGCGAAGGCAACAGCAAGAGAAGCAGAGGCACAAAGAAAATATGACAAACTCCAGC
T
Found at i:78419653 original size:31 final size:32
Alignment explanation
Indices: 78419615--78419678 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
78419605 ATCTCCAACT
78419615 TCAAAACAAAAGATAATTTAAT-GGGAATGAA
1 TCAAAACAAAAGATAATTTAATGGGGAATGAA
78419646 TCAAAACAAAAGATAATTTAATGGGGAATGAA
1 TCAAAACAAAAGATAATTTAATGGGGAATGAA
78419678 T
1 T
78419679 TGTTTAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (32 bp):
TCAAAACAAAAGATAATTTAATGGGGAATGAA
Found at i:78419955 original size:26 final size:26
Alignment explanation
Indices: 78419919--78419969 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
78419909 AAAATATAAC
78419919 ATAATAACTATTTTTATAATTTATCT
1 ATAATAACTATTTTTATAATTTATCT
78419945 ATAATAACTATTTTTATAATTTATC
1 ATAATAACTATTTTTATAATTTATC
78419970 CTTTTATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATAACTATTTTTATAATTTATCT
Found at i:78434316 original size:60 final size:60
Alignment explanation
Indices: 78434248--78434362 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
78434238 ATATTTTTTT
* * *
78434248 AATTTTTAGAATTAGAATTAAATTGA-AAATTATTGTAAATATTCAAGGCTAAATTTGTTA
1 AATTTTTAGAATTAGAACTAAAATGACAAATT-TTGTAAACATTCAAGGCTAAATTTGTTA
* *
78434308 AATTTTTAGAATTTGAACTAAAATGACAAATTTTGTAAACATTGAAGGCTAAATT
1 AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTCAAGGCTAAATT
78434363 CGTCGATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 44 0.90
61 5 0.10
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (60 bp):
AATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTCAAGGCTAAATTTGTTA
Found at i:78434857 original size:19 final size:19
Alignment explanation
Indices: 78434826--78434882 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
78434816 ATATTCAGAG
78434826 AAATAATATTTATATTTTTT
1 AAATAA-ATTTATATTTTTT
**
78434846 TTATAAATTTATATATTTTT
1 AAATAAATTTATAT-TTTTT
*
78434866 AAATAATTTTATATTTT
1 AAATAAATTTATATTTT
78434883 ATATATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATAAATTTATATTTTTT
Found at i:78434864 original size:20 final size:20
Alignment explanation
Indices: 78434826--78434882 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
78434816 ATATTCAGAG
78434826 AAATAATATTTATAT-TTTTT
1 AAATAA-ATTTATATATTTTT
**
78434846 TTATAAATTTATATATTTTT
1 AAATAAATTTATATATTTTT
78434866 AAAT-AATTT-TATATTTT
1 AAATAAATTTATATATTTT
78434883 ATATATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 13 0.41
20 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATAAATTTATATATTTTT
Found at i:78441050 original size:28 final size:28
Alignment explanation
Indices: 78440972--78441052 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
78440962 ATGTTATATT
* *
78440972 TAGCAGGCAC-TAGTTGCCGGTGATTTCAA
1 TAGCAGGCACTTTG-TGCCGGTG-TTGCAA
* *** *
78441001 TAGCAGGTACTTTGTATTGGTGTTGCAG
1 TAGCAGGCACTTTGTGCCGGTGTTGCAA
78441029 TAGCAGGCACTTTGTGCCGGTGTT
1 TAGCAGGCACTTTGTGCCGGTGTT
78441053 ATTTTAGCAG
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
28 24 0.60
29 14 0.35
30 2 0.05
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (28 bp):
TAGCAGGCACTTTGTGCCGGTGTTGCAA
Found at i:78443357 original size:50 final size:49
Alignment explanation
Indices: 78443189--78443431 Score: 290
Period size: 49 Copynumber: 4.9 Consensus size: 49
78443179 TATTGTGAGG
* * *
78443189 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGA
* * * * * *
78443238 TCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GA
* **
78443289 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GA
* *
78443339 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGA
* * *
78443388 TCACGTGTGTAGTACTAAGTGTC-GGCTGCTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTG-CAGGCTACTACGTGTACCAGATA
78443432 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 77 0.47
50 50 0.30
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGA
Found at i:78443461 original size:150 final size:150
Alignment explanation
Indices: 78443189--78443469 Score: 370
Period size: 150 Copynumber: 1.9 Consensus size: 150
78443179 TATTGTGAGG
* * * *
78443189 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCACATGTGTAGTACT
* * * * *
78443254 AAATGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACT
66 AAATGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCAACT
78443319 ACGTGTATCAGATGGTTAGA
131 ACGTGTATCAGATGGTTAGA
*
78443339 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCACGTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCACATGTGTAGTACT
* * * * * *
78443404 AAGTGTC-GGCTGCTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAGGCA
66 AAATG-CAGGCTACTATGCGTACCAGATAAC-TTCGAT-CAAGTGTGTAGAAATAAGTGCAGGCA
78443466 ACTA
128 ACTA
78443470 AGTATCAGTT
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
150 99 0.88
151 6 0.05
152 7 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCACATGTGTAGTACT
AAATGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCAACT
ACGTGTATCAGATGGTTAGA
Found at i:78445898 original size:12 final size:12
Alignment explanation
Indices: 78445881--78445926 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
78445871 ATTCATTGAA
78445881 CTTCTTTTTCTT
1 CTTCTTTTTCTT
78445893 CTTCTTGTTTCCTT
1 CTTCTT-TTT-CTT
*
78445907 -TTTTTTTTC-T
1 CTTCTTTTTCTT
78445917 CTTCTTTTTC
1 CTTCTTTTTC
78445927 AAGATCTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 1 0.03
11 9 0.31
12 9 0.31
13 7 0.24
14 3 0.10
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (12 bp):
CTTCTTTTTCTT
Found at i:78447894 original size:50 final size:50
Alignment explanation
Indices: 78447819--78447919 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
78447809 AGGGTATCCT
*
78447819 AAGATCACTAAGATACTTAGTGCCTATAAATACAACTCTTATTCCATGAA
1 AAGATCACTAAGATACTTAGTGCCTATAAATACAACCCTTATTCCATGAA
78447869 AAGATCACTAAGATACTTAGTGCCTATAAATACAACCCTTATTCCATGAA
1 AAGATCACTAAGATACTTAGTGCCTATAAATACAACCCTTATTCCATGAA
78447919 A
1 A
78447920 GAAATTCTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (50 bp):
AAGATCACTAAGATACTTAGTGCCTATAAATACAACCCTTATTCCATGAA
Found at i:78448369 original size:13 final size:13
Alignment explanation
Indices: 78448336--78448383 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
78448326 GTTCTAATAC
*
78448336 TATGTTTTCAAGA
1 TATGTTTTAAAGA
* * *
78448349 TATATTTTTAAGC
1 TATGTTTTAAAGA
78448362 TATGTTTTAAAGA
1 TATGTTTTAAAGA
78448375 TATGTTTTA
1 TATGTTTTA
78448384 CATATACTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (13 bp):
TATGTTTTAAAGA
Found at i:78449445 original size:16 final size:16
Alignment explanation
Indices: 78449424--78449460 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
78449414 TAACATCATA
78449424 TGCAAGCCAATTTTAT
1 TGCAAGCCAATTTTAT
*
78449440 TGCAAGCTAATTTTAT
1 TGCAAGCCAATTTTAT
78449456 TGCAA
1 TGCAA
78449461 AGTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (16 bp):
TGCAAGCCAATTTTAT
Found at i:78454293 original size:56 final size:55
Alignment explanation
Indices: 78454228--78454336 Score: 173
Period size: 56 Copynumber: 2.0 Consensus size: 55
78454218 TTATAGATTG
*
78454228 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATAATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATCTTA
* * *
78454283 CAAATTTAATTATTCATAAGTATTATTCAAATTAAAAGTGATGATTTATCATCT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATCT
78454337 AATGGATACA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 4 0.08
56 45 0.92
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.40
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATCTTA
Found at i:78455337 original size:58 final size:58
Alignment explanation
Indices: 78455273--78455395 Score: 246
Period size: 58 Copynumber: 2.1 Consensus size: 58
78455263 TTTAAGTTTT
78455273 AAATATTATTCTATTTATGAATTGGGGAGAAGTTATTAGTAATTTTAAGTATTATGTA
1 AAATATTATTCTATTTATGAATTGGGGAGAAGTTATTAGTAATTTTAAGTATTATGTA
78455331 AAATATTATTCTATTTATGAATTGGGGAGAAGTTATTAGTAATTTTAAGTATTATGTA
1 AAATATTATTCTATTTATGAATTGGGGAGAAGTTATTAGTAATTTTAAGTATTATGTA
78455389 AAATATT
1 AAATATT
78455396 GCATATATGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (58 bp):
AAATATTATTCTATTTATGAATTGGGGAGAAGTTATTAGTAATTTTAAGTATTATGTA
Found at i:78455338 original size:28 final size:28
Alignment explanation
Indices: 78455306--78455395 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
78455296 GGGGAGAAGT
78455306 TATTAGTAATTTTAAGTATTATGTAAAA
1 TATTAGTAATTTTAAGTATTATGTAAAA
** * * ** * *
78455334 TATTA-TTCTATTTATGAATTGGGGAGAAGT
1 TATTAGTAAT-TTTAAGTATTATGTA-AA-A
78455364 TATTAGTAATTTTAAGTATTATGTAAAA
1 TATTAGTAATTTTAAGTATTATGTAAAA
78455392 TATT
1 TATT
78455396 GCATATATGG
Statistics
Matches: 42, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
27 2 0.05
28 19 0.45
29 4 0.10
30 15 0.36
31 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (28 bp):
TATTAGTAATTTTAAGTATTATGTAAAA
Found at i:78455368 original size:30 final size:30
Alignment explanation
Indices: 78455276--78455368 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
78455266 AAGTTTTAAA
78455276 TATTATTCTATTTATGAATTGGGGAGAAGT
1 TATTATTCTATTTATGAATTGGGGAGAAGT
* * * * ** * *
78455306 TATTAGT-AATTTTAAGTATTATGTA-AA-A
1 TATTATTCTA-TTTATGAATTGGGGAGAAGT
78455334 TATTATTCTATTTATGAATTGGGGAGAAGT
1 TATTATTCTATTTATGAATTGGGGAGAAGT
78455364 TATTA
1 TATTA
78455369 GTAATTTTAA
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
28 16 0.37
29 6 0.14
30 21 0.49
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.45
Consensus pattern (30 bp):
TATTATTCTATTTATGAATTGGGGAGAAGT
Found at i:78463600 original size:22 final size:21
Alignment explanation
Indices: 78463541--78463600 Score: 93
Period size: 22 Copynumber: 2.8 Consensus size: 21
78463531 AATAATTAAT
*
78463541 TAATTTTTAAAAATTTAAAAA
1 TAATTTTTATAAATTTAAAAA
78463562 TATATTTTTATAAATTTAAAAA
1 TA-ATTTTTATAAATTTAAAAA
78463584 TAATTTTTATAATATTT
1 TAATTTTTATAA-ATTT
78463601 TGAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTTTTATAAATTTAAAAA
Found at i:78463627 original size:21 final size:21
Alignment explanation
Indices: 78463544--78463627 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 21
78463534 AATTAATTAA
* *
78463544 TTTTTAAAAATTTAAAAATAT
1 TTTTTTAAAATTTAAAAAAAT
*
78463565 ATTTTTATAAATTTAAAAATAAT
1 TTTTTTA-AAATTTAAAAA-AAT
* * **
78463588 TTTTATAATATTT---TGAAT
1 TTTTTTAAAATTTAAAAAAAT
78463606 TTTTTTAAAATTTAAAAAAAT
1 TTTTTTAAAATTTAAAAAAAT
78463627 T
1 T
78463628 AATTAATTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
18 14 0.30
21 9 0.20
22 16 0.35
23 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
TTTTTTAAAATTTAAAAAAAT
Found at i:78468413 original size:63 final size:63
Alignment explanation
Indices: 78468314--78468439 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
78468304 GATTCCTAAA
78468314 GGTTGTAAACTAGTTTAAGGTGATACAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAG
1 GGTTGTAAACTAGTTTAAGGTGATACAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAG
*
78468377 GGTTGTAAACTAGTTTAAGGTGATAGAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAG
1 GGTTGTAAACTAGTTTAAGGTGATACAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAG
78468440 AGGCTAATTG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (63 bp):
GGTTGTAAACTAGTTTAAGGTGATACAATAAAATGTTAATTGAGAAAAATCAGCTCAATTGAG
Found at i:78476779 original size:19 final size:19
Alignment explanation
Indices: 78476748--78476785 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
78476738 TAAAAATCGG
*
78476748 TAAATAATATTTTGGAAAA
1 TAAATAATATTTTAGAAAA
78476767 TAAA-AATATTTTTAGAAAA
1 TAAATAATA-TTTTAGAAAA
78476786 ATTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (19 bp):
TAAATAATATTTTAGAAAA
Found at i:78480074 original size:40 final size:40
Alignment explanation
Indices: 78480037--78480261 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
78480027 GCTACTCGTT
* *
78480037 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
78480077 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
78480117 CAAATGCCTTCGGAACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
78480157 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
78480196 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
78480237 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
78480262 CATCATTCGA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 114 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:78480221 original size:119 final size:119
Alignment explanation
Indices: 78480004--78480254 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
78479994 AAATCACGTA
* ** *
78480004 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
* *
78480069 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATG
66 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAA-G
* * *
78480123 CCTTCGGAACTTAACTCGGATTTAG-TAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAAC-CGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-T
* * ** * *
78480185 AGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
63 AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAG
*
78480242 CCTTCGGGACTTA
1 CCTTCGGAACTTA
78480255 GCCCGGACAT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.04
119 73 0.66
120 34 0.31
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (119 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAG
Found at i:78481456 original size:56 final size:56
Alignment explanation
Indices: 78481389--78481508 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78481379 TATTAGTTTA
78481389 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
78481445 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
78481501 TTGCCCAT
1 TTGCCCAT
78481509 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78488054 original size:80 final size:80
Alignment explanation
Indices: 78487950--78488174 Score: 276
Period size: 80 Copynumber: 2.8 Consensus size: 80
78487940 GCTACTCGTT
* * *
78487950 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
*
78488015 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
78488030 CAAATGCCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGAACTTAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCG
*
78488093 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
78488109 CAAATGCCTTTGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCG
78488173 GA
65 GA
78488175 CATCATTCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 58 0.47
80 62 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:78488134 original size:79 final size:80
Alignment explanation
Indices: 78487950--78488174 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 80
78487940 GCTACTCGTT
* * * * * * *
78487950 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
78488015 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
78488030 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
78488094 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * ** * * * *
78488109 CAAATGCCTTTGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAACTTAACCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
78488173 GA
65 GA
78488175 CATCATTCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 62 0.50
80 62 0.50
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:78488134 original size:119 final size:120
Alignment explanation
Indices: 78487917--78488174 Score: 276
Period size: 119 Copynumber: 2.2 Consensus size: 120
78487907 AAATCACGTA
* ** *
78487917 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGAACTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
* *
78487981 TAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATG
66 TAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAA-G
* * *
78488036 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAACCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-T
* * * ** * *
78488098 AGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
64 AGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAG
* *
78488155 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGA
78488175 CATCATTCGA
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.03
119 77 0.66
120 35 0.30
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CCTTCGGAACTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAG
Found at i:78488174 original size:40 final size:41
Alignment explanation
Indices: 78487950--78488174 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 41
78487940 GCTACTCGTT
* * *
78487950 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
78487990 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
78488030 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
78488070 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * * *
78488109 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
78488150 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78488175 CATCATTCGA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:78489366 original size:56 final size:56
Alignment explanation
Indices: 78489299--78489418 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78489289 TATTAGTTTA
78489299 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
78489355 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
78489411 TTGCCCAT
1 TTGCCCAT
78489419 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78499061 original size:21 final size:21
Alignment explanation
Indices: 78499037--78499106 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
78499027 CATCATGATG
78499037 GAAATGAATAAGACCATAGTT
1 GAAATGAATAAGACCATAGTT
* * *
78499058 GAAA-GACACTATGGCAACAT-GAT
1 GAAATGA-A-TA-AG-ACCATAGTT
78499081 GAAAATGAATAAGACCATAGTT
1 G-AAATGAATAAGACCATAGTT
78499103 GAAA
1 GAAA
78499107 GACACTATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 2 0.06
21 12 0.33
22 6 0.17
23 6 0.17
24 8 0.22
25 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (21 bp):
GAAATGAATAAGACCATAGTT
Found at i:78499070 original size:45 final size:45
Alignment explanation
Indices: 78499000--78499164 Score: 233
Period size: 45 Copynumber: 3.7 Consensus size: 45
78498990 AGAAAACGAG
**
78499000 TAAGACCATAGTTGAAAGATGCTATGGCATCATGATGGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAA
* *
78499045 TAAGACCATAGTTGAAAGACACTATGGCAACATGATGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAA
* * *
78499090 TAAGACCATAGTTGAAAGACACTATGGAATCATGTTAGG-AATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGAT-GGAAATGAA
* *
78499135 TAAGATCATAGTTGAAAGAAACTATGGCAT
1 TAAGACCATAGTTGAAAGACACTATGGCAT
78499165 TATATCAGAA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 106 0.99
46 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAA
Found at i:78503263 original size:7 final size:7
Alignment explanation
Indices: 78503251--78503282 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
78503241 GTAATAAAAT
78503251 AAAATAA
1 AAAATAA
78503258 AAAATAA
1 AAAATAA
78503265 AAAATAA
1 AAAATAA
78503272 AAAATAA
1 AAAATAA
78503279 AAAA
1 AAAA
78503283 ATGGATCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:78504324 original size:30 final size:31
Alignment explanation
Indices: 78504263--78504325 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
78504253 GTTTCGGGAC
*
78504263 TACAAATCTGACATAGTAAAATTTGTTTTAT
1 TACAAATCTGACACAGTAAAATTTGTTTTAT
78504294 TACAAATCTGACACAGTAAAATTT-TTTTAT
1 TACAAATCTGACACAGTAAAATTTGTTTTAT
78504324 TA
1 TA
78504326 TATTTTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (31 bp):
TACAAATCTGACACAGTAAAATTTGTTTTAT
Done.