Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 233 of 292
Found at i:67813925 original size:6 final size:6
Alignment explanation
Indices: 67813911--67813959 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
67813901 TGGAGGACTA
* *
67813911 GTTTTT GTTTCT GTTTTT GTTTTG GTTTTTT GTTTTTT GTTTTTT GTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT G-TTTTT G-TTTTT G-TTTTT GTTT
67813960 ATTTTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 19 0.50
7 19 0.50
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (6 bp):
GTTTTT
Found at i:67813945 original size:7 final size:7
Alignment explanation
Indices: 67813912--67813959 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
67813902 GGAGGACTAG
67813912 TTTTTG-
1 TTTTTGT
*
67813918 TTTCTG-
1 TTTTTGT
67813924 TTTTTG-
1 TTTTTGT
*
67813930 TTTTGGT
1 TTTTTGT
67813937 TTTTTGT
1 TTTTTGT
67813944 TTTTTGT
1 TTTTTGT
67813951 TTTTTGT
1 TTTTTGT
67813958 TT
1 TT
67813960 ATTTTTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 15 0.41
7 22 0.59
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (7 bp):
TTTTTGT
Found at i:67818988 original size:33 final size:33
Alignment explanation
Indices: 67818911--67818995 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
67818901 TTTCTTCTTG
* * *
67818911 ACATTCCAGCTACTATCCAGCAACCAACCACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
67818944 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
67818977 ACATTCCAGCTCCTGTCCA
1 ACATTCCAGCTCCTGTCCA
67818996 ATAACCTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.29, C:0.44, G:0.08, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:67821935 original size:15 final size:15
Alignment explanation
Indices: 67821917--67821968 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
67821907 ATTTAATATT
*
67821917 AATATATTGATAATA
1 AATATATTAATAATA
*
67821932 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
67821951 AATATATTAATAATA
1 AATATATTAATAATA
67821966 AAT
1 AAT
67821969 GTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 8 0.27
19 9 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:67822395 original size:37 final size:37
Alignment explanation
Indices: 67822345--67822417 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
67822335 ATTTTAACTT
*
67822345 AGTATAAAATATGAATATTTTAATTTTATAAATATGC
1 AGTATAAAATATGAATATTTTAATTATATAAATATGC
67822382 AGTATAAAATATGAATATTTTAATTATATAAATATG
1 AGTATAAAATATGAATATTTTAATTATATAAATATG
67822418 TATATTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.42
Consensus pattern (37 bp):
AGTATAAAATATGAATATTTTAATTATATAAATATGC
Found at i:67846425 original size:2 final size:2
Alignment explanation
Indices: 67846418--67846448 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
67846408 TTAACTAAGG
*
67846418 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67846449 AAGCAAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:67851677 original size:31 final size:30
Alignment explanation
Indices: 67851620--67851677 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
67851610 TAGCAAAATT
* *
67851620 AACAATAAAACAAAAGTTATATAATATTCA
1 AACAATAAAACAAAAGTGATACAATATTCA
67851650 AACAATAACAACAAAA-TGATAGCAATAT
1 AACAATAA-AACAAAAGTGATA-CAATAT
67851678 AATAGCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAATAAAACAAAAGTGATACAATATTCA
Found at i:67856779 original size:46 final size:44
Alignment explanation
Indices: 67856675--67856782 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
67856665 TGTCTTTGAC
** * * *
67856675 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
67856719 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
67856765 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
67856783 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:67863414 original size:25 final size:25
Alignment explanation
Indices: 67863362--67863415 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
67863352 AAATATTTTC
* ** *
67863362 TAAAATTAAATATTTTAATTAATGA
1 TAAAATTAAAAATAATAATTAATAA
*
67863387 TAAAATTAAAAATAATAATTACTAA
1 TAAAATTAAAAATAATAATTAATAA
67863412 TAAA
1 TAAA
67863416 TGTAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAATTAAAAATAATAATTAATAA
Found at i:67865447 original size:17 final size:16
Alignment explanation
Indices: 67865399--67865454 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
67865389 TACCAAATAC
*
67865399 TAATCCATTTAAATTT
1 TAATACATTTAAATTT
*
67865415 ATAATAAATCTTAAATTT
1 -TAATACAT-TTAAATTT
*
67865433 TAATACATTTCAAATTA
1 TAATACATTT-AAATTT
67865450 TAATA
1 TAATA
67865455 TGGGTTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 23 0.70
18 8 0.24
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATACATTTAAATTT
Found at i:67866474 original size:56 final size:54
Alignment explanation
Indices: 67866407--67866515 Score: 191
Period size: 56 Copynumber: 2.0 Consensus size: 54
67866397 TTTTGGAAGA
67866407 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATACATGTAATAGAAAGGAGATTAT
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATAT--ATGTAATAGAAAGGAGATTAT
*
67866463 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATGGAAAGGAGATTA
1 TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTA
67866516 GTTAATACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 19 0.37
56 33 0.63
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (54 bp):
TAGCTAAGCTTACTTGTCTCTTTGTCTTAATATATGTAATAGAAAGGAGATTAT
Found at i:67876189 original size:83 final size:81
Alignment explanation
Indices: 67876046--67876222 Score: 237
Period size: 83 Copynumber: 2.2 Consensus size: 81
67876036 CCTTGGCCCA
* ** * * *
67876046 CAAAAATAAAAATTTGTTATTTCAGTCCCCTCATAAATAATAAAATTGTAAATTAATATATGGTG
1 CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
67876111 AAATTGCACTTTGACC
66 AAATTGCACTTTGACC
* * * *
67876127 ATCAAAAATAAAAAATTACTATTTTAGACTCCTCATAAATAATGAAATTATAAATTACTATATAG
1 --CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAG
67876192 TGAAATTGCACTTTGACC
64 TGAAATTGCACTTTGACC
*
67876210 CTAAAATAAAAAA
1 CAAAAATAAAAAA
67876223 ATCTTTTTAG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 12 0.14
83 71 0.86
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (81 bp):
CAAAAATAAAAAATTACTATTTCAGACCCCTCATAAATAATAAAATTATAAATTAATATATAGTG
AAATTGCACTTTGACC
Found at i:67878728 original size:29 final size:30
Alignment explanation
Indices: 67878665--67878730 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
67878655 TACACTACTA
67878665 GTCACCCAATTATCAGCAAATTTCTTTTTTG
1 GTCACCCAATTAT-AGCAAATTTCTTTTTTG
*
67878696 GTCACCCAATTAT-TC-AATTGTCTTTTTTG
1 GTCACCCAATTATAGCAAATT-TCTTTTTTG
67878725 GTCACC
1 GTCACC
67878731 AAAGGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
31 13 0.39
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (30 bp):
GTCACCCAATTATAGCAAATTTCTTTTTTG
Found at i:67902297 original size:1 final size:1
Alignment explanation
Indices: 67902291--67902320 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
67902281 GAGTAGTTTG
*
67902291 TTTTTTTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
67902321 CAAACTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:67902312 original size:15 final size:16
Alignment explanation
Indices: 67902287--67902320 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
67902277 CATTGAGTAG
67902287 TTTGTTTTTTTTTTTT
1 TTTGTTTTTTTTTTTT
67902303 TTTGTTTTTTTTTTTT
1 TTTGTTTTTTTTTTTT
67902319 TT
1 TT
67902321 CAAACTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (16 bp):
TTTGTTTTTTTTTTTT
Found at i:67910813 original size:171 final size:171
Alignment explanation
Indices: 67910527--67910866 Score: 635
Period size: 171 Copynumber: 2.0 Consensus size: 171
67910517 AAGTTGGTTT
67910527 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
* * *
67910592 ATGAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTTTTGCTGGCCAAAGGGAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
67910657 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
*
67910698 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTGAGCTACTTCATATGAGCCAATTCAAAG
1 AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
*
67910763 ATAAAAGAGAAAAAACGTAAAAGATCAGAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
66 ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
67910828 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
131 TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAAC
67910867 CATGAATTAA
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (171 bp):
AAAATACAACTCCAATTCTGTATTTAGATTAAGAACTCAGCTACTTCATATGAGCCAATTCAAAG
ATAAAAGAGAAAAAACGTAAAAGATCAAAGATGACGCCAGGGTATTGCTGGCCAAAGGAAGAATG
TTATAAAACCAAGAATCTTTGGATCTAAGAAATCCTAACTA
Found at i:67912930 original size:15 final size:16
Alignment explanation
Indices: 67912910--67912952 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
67912900 ATTAAATATT
67912910 AATATAACATAAA-AA
1 AATATAACATAAATAA
*
67912925 AATATAAAATAAATTAA
1 AATATAACATAAA-TAA
*
67912942 AATATTACATA
1 AATATAACATA
67912953 TATTTGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
17 11 0.48
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAACATAAATAA
Found at i:67929248 original size:19 final size:21
Alignment explanation
Indices: 67929226--67929271 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
67929216 AAAATATAAA
*
67929226 AAAATTCTTAAT-T-TTTTTG
1 AAAATTCGTAATCTATTTTTG
*
67929245 AAAATTCGTAATCTATTTTTT
1 AAAATTCGTAATCTATTTTTG
67929266 AAAATT
1 AAAATT
67929272 ATATAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 1 0.04
21 11 0.48
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (21 bp):
AAAATTCGTAATCTATTTTTG
Found at i:67936576 original size:22 final size:22
Alignment explanation
Indices: 67936550--67936593 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
67936540 TAAACATTTA
*
67936550 TTTA-TTTTAGTAGAAAACTTAC
1 TTTATTTTTAG-AAAAAACTTAC
67936572 TTTATTTTTAGAAAAAACTTAC
1 TTTATTTTTAGAAAAAACTTAC
67936594 AAGTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTATTTTTAGAAAAAACTTAC
Found at i:67936652 original size:52 final size:53
Alignment explanation
Indices: 67936572--67936675 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 53
67936562 GAAAACTTAC
67936572 TTTATTTTTAGAAAAAACTTACAAGTTATCAAAACCGACTTAGATTAACTAAG
1 TTTATTTTTAGAAAAAACTTACAAGTTATCAAAACCGACTTAGATTAACTAAG
*
67936625 TTTATTTTTAG-AAAAACTTACGAGTTATCAAAACCGACTTAGATTAACTAA
1 TTTATTTTTAGAAAAAACTTACAAGTTATCAAAACCGACTTAGATTAACTAA
67936676 CCTATGTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 39 0.78
53 11 0.22
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (53 bp):
TTTATTTTTAGAAAAAACTTACAAGTTATCAAAACCGACTTAGATTAACTAAG
Found at i:67939916 original size:11 final size:11
Alignment explanation
Indices: 67939900--67939938 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
67939890 GATAATGTGG
67939900 TTAATTGGTAT
1 TTAATTGGTAT
*
67939911 TTAATT-GAAT
1 TTAATTGGTAT
67939921 TTAATTGGTAT
1 TTAATTGGTAT
67939932 TTAATTG
1 TTAATTG
67939939 AATTTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTAATTGGTAT
Found at i:67939924 original size:10 final size:10
Alignment explanation
Indices: 67939909--67939943 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
67939899 GTTAATTGGT
67939909 ATTTAATTGA
1 ATTTAATTGA
*
67939919 ATTTAATTGGT
1 ATTTAATT-GA
67939930 ATTTAATTGA
1 ATTTAATTGA
67939940 ATTT
1 ATTT
67939944 GATGAATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (10 bp):
ATTTAATTGA
Found at i:67939924 original size:21 final size:21
Alignment explanation
Indices: 67939900--67939943 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
67939890 GATAATGTGG
67939900 TTAATTGGTATTTAATTGAAT
1 TTAATTGGTATTTAATTGAAT
67939921 TTAATTGGTATTTAATTGAAT
1 TTAATTGGTATTTAATTGAAT
67939942 TT
1 TT
67939944 GATGAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
TTAATTGGTATTTAATTGAAT
Found at i:67940660 original size:30 final size:30
Alignment explanation
Indices: 67940626--67940684 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
67940616 TATTTTATTA
67940626 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
67940656 TTAATTTTGTTATTATTTTAGAGGTATTT
1 TTAATTTTGTTATTATTTTAAAGGCATTT
67940685 ACTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:67943318 original size:23 final size:22
Alignment explanation
Indices: 67943271--67943406 Score: 78
Period size: 23 Copynumber: 5.9 Consensus size: 22
67943261 GATATGTTGA
**
67943271 AGGGTATATTGGTTGTGTTTTG
1 AGGGTATATTGGTTGTGTTAGG
67943293 AGGGTATACTTGGTTGTGTTAGG
1 AGGGTATA-TTGGTTGTGTTAGG
* *
67943316 AGGTTATATGCATGGTTATGATTA-G
1 AGGGTATAT---TGGTTGTG-TTAGG
* ** *
67943341 AGGGTAAATTTGGTTGCATTCGG
1 AGGGTATA-TTGGTTGTGTTAGG
*
67943364 AGGGTACATATGGTTGTGTTTA-G
1 AGGGTATAT-TGGTTGTG-TTAGG
* *
67943387 CGGCTATGATTGGTTGTGTT
1 AGGGTAT-ATTGGTTGTGTT
67943407 TGGTGGGTGA
Statistics
Matches: 87, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
22 14 0.16
23 51 0.59
24 4 0.05
25 14 0.16
26 4 0.05
ACGTcount: A:0.19, C:0.05, G:0.35, T:0.41
Consensus pattern (22 bp):
AGGGTATATTGGTTGTGTTAGG
Found at i:67949041 original size:29 final size:29
Alignment explanation
Indices: 67949009--67949076 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
67948999 TTTAAATTAG
*
67949009 TCCTCAAACTTTAAAATATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
67949038 TCCTCAAACTTTAAAACATTCTAATTACA
1 TCCTCAAACTTTAAAACATTCTAATTACA
67949067 TCCTCAAACT
1 TCCTCAAACT
67949077 ATCAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (29 bp):
TCCTCAAACTTTAAAACATTCTAATTACA
Found at i:67949320 original size:56 final size:56
Alignment explanation
Indices: 67949250--67949363 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
67949240 GTTTTTTTTT
67949250 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
*
67949306 ATAGAAATTATCGTTTACTCTTTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
1 ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
67949362 AT
1 AT
67949364 TTAAAAGTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (56 bp):
ATAGAAATTATCGTTTACTCTCTCTTTTTTCATTTTTACTTATTTTTGGTTTTAAA
Found at i:67951156 original size:15 final size:16
Alignment explanation
Indices: 67951136--67951165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67951126 AATTAACATC
67951136 TCAAAT-TACAATAGA
1 TCAAATATACAATAGA
67951151 TCAAATATACAATAG
1 TCAAATATACAATAG
67951166 GTATTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (16 bp):
TCAAATATACAATAGA
Found at i:67953292 original size:27 final size:26
Alignment explanation
Indices: 67953253--67953303 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
67953243 TACAAAGACT
67953253 TATGACATATTTTAATCTAGTATAAAAA
1 TATGACATATTTTAAT-TA-TATAAAAA
67953281 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
67953304 TGTGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 10 0.43
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TATGACATATTTTAATTATATAAAAA
Found at i:67955195 original size:85 final size:85
Alignment explanation
Indices: 67955044--67955219 Score: 316
Period size: 85 Copynumber: 2.1 Consensus size: 85
67955034 ATATCCTAGA
*
67955044 TGAGATCGTTATTCTACTTAATAAATGATACAGATAGGTCATAATTCAAACTGATAACATTAAAT
1 TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTAAAT
67955109 TAGTCCAAACCTTTGACTGT
66 TAGTCCAAACCTTTGACTGT
* * *
67955129 TGAGATCTTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACTTTGAAT
1 TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTAAAT
67955194 TAGTCCAAACCTTTGACTGT
66 TAGTCCAAACCTTTGACTGT
67955214 TGAGAT
1 TGAGAT
67955220 TGGAGGATCT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (85 bp):
TGAGATCGTTATTCTACTTAATAAATGATACAGATAAGTCATAATTCAAACTGATAACATTAAAT
TAGTCCAAACCTTTGACTGT
Found at i:67955757 original size:89 final size:89
Alignment explanation
Indices: 67955533--67955760 Score: 264
Period size: 88 Copynumber: 2.6 Consensus size: 89
67955523 CTTAAGTGTG
* * * * ** *
67955533 CAAAAAGCCCTT-AAATTTTTTTAAAAGAAGCAATTAAGCCGTTGTCTTTTTTTTTTCACTCATT
1 CAAAAAGGCCTTCAAACTTTTTAAAAAAAAGCAATTAAGCCCATG-C-TTTTTTTTTCACTCAAT
* *
67955597 TGGATACTTGAATTTTCAAAATGCAT
64 TGGATACTTAAACTTTCAAAATGCAT
** * *
67955623 CAAAAAGGCCTTGGAAC-CTTTAAAAAAAATCAATTAAGCCCATGCTTTTTTTTTCACTCAATTG
1 CAAAAAGGCCTTCAAACTTTTTAAAAAAAAGCAATTAAGCCCATGCTTTTTTTTTCACTCAATTG
*
67955687 GGTACTTAAACTTTCAAAATGCAT
66 GATACTTAAACTTTCAAAATGCAT
* *
67955711 CAAAAAGATCC-TCAAACTTTTTCAAAAAAAGCAATTAAGCCCATGCTTTT
1 CAAAAAG-GCCTTCAAACTTTTTAAAAAAAAGCAATTAAGCCCATGCTTTT
67955761 ATTAAAAATT
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
88 50 0.43
89 32 0.28
90 32 0.28
91 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (89 bp):
CAAAAAGGCCTTCAAACTTTTTAAAAAAAAGCAATTAAGCCCATGCTTTTTTTTTCACTCAATTG
GATACTTAAACTTTCAAAATGCAT
Found at i:67955890 original size:19 final size:19
Alignment explanation
Indices: 67955868--67955919 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
67955858 AAAAATGAGA
*
67955868 AAAAAATATAAAAATTTGT
1 AAAAAATATAAAAAATTGT
*
67955887 AAAAAATAAAAAAAATTGT
1 AAAAAATATAAAAAATTGT
67955906 AAAAAATTATAAAA
1 AAAAAA-TATAAAA
67955920 TATATAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAAATATAAAAAATTGT
Found at i:67955899 original size:29 final size:29
Alignment explanation
Indices: 67955840--67955919 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
67955830 TAAAAAATTC
* *
67955840 AAATATTAAAATTTTATTAAAAATGAGAAAA
1 AAATATAAAAATTTTA--AAAAATGAAAAAA
67955871 AAATATAAAAATTTGTAAAAAAT-AAAAAA
1 AAATATAAAAATTT-TAAAAAATGAAAAAA
* * *
67955900 AATTGTAAAAAATTATAAAA
1 AAATAT-AAAAATTTTAAAA
67955920 TATATAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 14 0.33
30 13 0.31
31 13 0.31
32 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (29 bp):
AAATATAAAAATTTTAAAAAATGAAAAAA
Found at i:67956282 original size:57 final size:56
Alignment explanation
Indices: 67956203--67956309 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 56
67956193 TTTTGATGCA
*
67956203 TTTTATAATTTTGTTATGATTTTT-ATAGAAGTTTACAATTTTT-TATTTTTTACGAT
1 TTTTATAATTTTGTTATAATTTTTAATA-AAGTTTA-AATTTTTATATTTTTTACGAT
* * * *
67956259 TTTTATAAATTTTTTTCTAATTTTTAATAAATTTTAACTTTTTATATTTTT
1 TTTTAT-AATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTT
67956310 ATTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 12 0.28
57 28 0.65
58 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (56 bp):
TTTTATAATTTTGTTATAATTTTTAATAAAGTTTAAATTTTTATATTTTTTACGAT
Found at i:67956357 original size:36 final size:34
Alignment explanation
Indices: 67956267--67956360 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
67956257 ATTTTTATAA
* *
67956267 ATTTTTTTCTAATTTTTAATAAATTTTAACTTTTT
1 ATTTTTTTATAATTTTTAAT-AATTTTAACTATTT
* **
67956302 ATATTTTTATTAAAATTTAATAATTTT-ACTAAAATTT
1 ATTTTTTTA-TAATTTTTAATAATTTTAACT---ATTT
67956339 ATTTTTTTATAATTTTTAATAA
1 ATTTTTTTATAATTTTTAATAA
67956361 GAACAGGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
34 3 0.06
35 13 0.28
36 20 0.43
37 11 0.23
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (34 bp):
ATTTTTTTATAATTTTTAATAATTTTAACTATTT
Found at i:67956481 original size:87 final size:87
Alignment explanation
Indices: 67956365--67956560 Score: 247
Period size: 87 Copynumber: 2.2 Consensus size: 87
67956355 TAATAAGAAC
*
67956365 AGGGGTTTAATTG-TTTTTTTAAAAAATTTGAGTGTCTTTTTTATACATTTTGAAAGTTT-AAGT
1 AGGGGCTTAATTGCTTTTTTTAAAAAATTTGAGTGTCTTTTTTATACATTTTGAAA-TTTCAAGT
* *
67956428 ACT-TTGGAGTGG-GAAAAAAAAT
65 ACTATT-GAGTGGAAAAAAAAAAG
* * * *
67956450 AGGGGCTTAATTGCTTTTTTTGAAGAAATTTGAGTTTTTTTTTTATGCATTTTGAAATTTCAAGT
1 AGGGGCTTAATTGCTTTTTTT-AAAAAATTTGAGTGTCTTTTTTATACATTTTGAAATTTCAAGT
*
67956515 GCTGAATTGAGTGGAAAAAAAAAAG
65 ACT--ATTGAGTGGAAAAAAAAAAG
67956540 AGGGGCTTAATTGCTTTTTTT
1 AGGGGCTTAATTGCTTTTTTT
67956561 TTAAAAAGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
85 12 0.12
86 10 0.10
87 37 0.39
89 6 0.06
90 31 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (87 bp):
AGGGGCTTAATTGCTTTTTTTAAAAAATTTGAGTGTCTTTTTTATACATTTTGAAATTTCAAGTA
CTATTGAGTGGAAAAAAAAAAG
Found at i:67962067 original size:21 final size:21
Alignment explanation
Indices: 67962043--67962082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67962033 TTAGTTCAAG
* *
67962043 TAGTTAAATTATGTATTTAGT
1 TAGTTAAACTATCTATTTAGT
*
67962064 TAGTTTAACTATCTATTTA
1 TAGTTAAACTATCTATTTA
67962083 CCAATATTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (21 bp):
TAGTTAAACTATCTATTTAGT
Found at i:67964054 original size:18 final size:18
Alignment explanation
Indices: 67964033--67964072 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
67964023 ATAATTTTAA
*
67964033 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
67964051 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
67964069 AAAA
1 AAAA
67964073 TAAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:67964242 original size:22 final size:22
Alignment explanation
Indices: 67964217--67964259 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
67964207 TATCCAAACA
67964217 ATAACAATAAAAT-AGTAGCAAC
1 ATAACAATAAAATGA-TAGCAAC
* *
67964239 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATGATAGCAA
67964260 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATGATAGCAAC
Found at i:67966894 original size:12 final size:12
Alignment explanation
Indices: 67966877--67966903 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67966867 TGTTTAAAAA
67966877 AAAAAAAGAAAG
1 AAAAAAAGAAAG
67966889 AAAAAAAGAAAG
1 AAAAAAAGAAAG
67966901 AAA
1 AAA
67966904 GAGAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:67966894 original size:16 final size:16
Alignment explanation
Indices: 67966873--67966905 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
67966863 TTGGTGTTTA
67966873 AAAAAAAAAAAGAAAG
1 AAAAAAAAAAAGAAAG
*
67966889 AAAAAAAGAAAGAAAG
1 AAAAAAAAAAAGAAAG
67966905 A
1 A
67966906 GAAATTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAG
Found at i:67974057 original size:17 final size:18
Alignment explanation
Indices: 67974030--67974075 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
67974020 AAGCCAGTAT
67974030 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
67974046 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
67974063 TATATATATTATA
1 TATATATATTATA
67974076 TGCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:67975868 original size:26 final size:26
Alignment explanation
Indices: 67975839--67975922 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
67975829 TGATACAAAT
*
67975839 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67975865 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67975891 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67975917 TGATAA
1 TGATAA
67975923 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:67977433 original size:25 final size:26
Alignment explanation
Indices: 67977405--67977456 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
67977395 TTTACAGTTT
67977405 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
67977430 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
67977456 T
1 T
67977457 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:67982839 original size:26 final size:26
Alignment explanation
Indices: 67982810--67982893 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
67982800 TGATACAAAT
*
67982810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67982836 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67982862 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67982888 TGATAA
1 TGATAA
67982894 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:67984394 original size:25 final size:26
Alignment explanation
Indices: 67984366--67984417 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
67984356 TTTACAGTTT
67984366 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
67984391 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
67984417 T
1 T
67984418 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:67990375 original size:4 final size:4
Alignment explanation
Indices: 67990368--67990394 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
67990358 AAACAAAAAG
67990368 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
67990395 CATTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:67991786 original size:24 final size:26
Alignment explanation
Indices: 67991759--67991810 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
67991749 TATAATTTAT
67991759 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATACATATA
**
67991783 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATACATATA
67991809 TT
1 TT
67991811 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATACATATA
Found at i:67991890 original size:24 final size:24
Alignment explanation
Indices: 67991858--67991925 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
67991848 TATATATTTA
*
67991858 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
67991882 TATTATATTTTTATTATATATTACT
1 TATTATA-TTTTATTATATAACACT
*
67991907 TATTATTTTTTATTATATA
1 TATTATATTTTATTATATA
67991926 TTATGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:67991919 original size:35 final size:34
Alignment explanation
Indices: 67991835--67991989 Score: 91
Period size: 35 Copynumber: 4.4 Consensus size: 34
67991825 ATTTATCATA
* *
67991835 TATTATTTTCCTATATATATTTATATTATATTTTAT
1 TATTATTTT-TTAT-TATATTTATATTATATATTAT
*** *
67991871 TATATAACATTTATTATATTTTTATTATATATTACT
1 TAT-TATTTTTTATTATATTTATATTATATATTA-T
* **
67991907 TATTATTTTTTATTATATATTAT-GTATATCGTA-
1 TATTATTTTTTATTATAT-TTATATTATATATTAT
* * * *
67991940 TATTATCTATTA-TATTATTTATGTTTTATATTAT
1 TATTATTTTTTATTA-TATTTATATTATATATTAT
67991974 TCATTATATTATTTAT
1 T-ATTAT-TT-TTTAT
67991990 AATTTTAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
32 6 0.07
33 19 0.22
34 1 0.01
35 42 0.48
36 14 0.16
37 6 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (34 bp):
TATTATTTTTTATTATATTTATATTATATATTAT
Found at i:67991926 original size:24 final size:24
Alignment explanation
Indices: 67991858--67991928 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
67991848 TATATATTTA
* ** *
67991858 TATTATATTTTATTATATAACATT
1 TATTATTTTTTATTATATATTACT
67991882 TATTATATTTTTATTATATATTACT
1 TATTAT-TTTTTATTATATATTACT
67991907 TATTATTTTTTATTATATATTA
1 TATTATTTTTTATTATATATTA
67991929 TGTATATCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.52
25 20 0.48
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTTTTTATTATATATTACT
Found at i:67991927 original size:7 final size:7
Alignment explanation
Indices: 67991848--67991982 Score: 56
Period size: 7 Copynumber: 19.7 Consensus size: 7
67991838 TATTTTCCTA
67991848 TATATAT
1 TATATAT
67991855 T-TATAT
1 TATATAT
*
67991861 TATATTT
1 TATATAT
67991868 TATTATAT
1 TA-TATAT
* *
67991876 AACAT-T
1 TATATAT
67991882 TATTATAT
1 TA-TATAT
*
67991890 T-TTTAT
1 TATATAT
67991896 TATATAT
1 TATATAT
67991903 TACT-TAT
1 TA-TATAT
67991910 TAT-T-T
1 TATATAT
67991915 T-T-TAT
1 TATATAT
67991920 TATATAT
1 TATATAT
67991927 TATGTATAT
1 TA--TATAT
**
67991936 CGTATAT
1 TATATAT
*
67991943 TATCTAT
1 TATATAT
67991950 TATATTAT
1 TATA-TAT
*
67991958 T-TATGT
1 TATATAT
*
67991964 TTTATAT
1 TATATAT
67991971 TAT-TCAT
1 TATAT-AT
67991978 TATAT
1 TATAT
67991983 TATTTATAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 20 0.21
7 52 0.54
8 13 0.14
9 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:67991957 original size:28 final size:28
Alignment explanation
Indices: 67991922--67991990 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
67991912 TTTTTTATTA
*
67991922 TATATTATGTATATCGTATATTA-TCTAT
1 TATATTATTTATATCGTATATTATTC-AT
* **
67991950 TATATTATTTATGTTTTATATTATTCAT
1 TATATTATTTATATCGTATATTATTCAT
67991978 TATATTATTTATA
1 TATATTATTTATA
67991991 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TATATTATTTATATCGTATATTATTCAT
Found at i:67995002 original size:21 final size:20
Alignment explanation
Indices: 67994976--67995030 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
67994966 ATGTACCTAT
*
67994976 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
67994997 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
67995017 -TA-ATATTAATAACA
1 ATATATATTAA-AACA
67995031 ATAATAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 7 0.23
21 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:67995083 original size:2 final size:2
Alignment explanation
Indices: 67995076--67995121 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
67995066 ATAGTATAAA
*
67995076 AT AT AT AT AT A- ACT A- AT A- AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67995116 AT AT AT
1 AT AT AT
67995122 GAAATAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 3 0.08
2 34 0.89
3 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:67995128 original size:34 final size:34
Alignment explanation
Indices: 67995076--67995141 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
67995066 ATAGTATAAA
* * *
67995076 ATATATATATAACTAATAATATAAATATATATAT
1 ATATATATATAACAAATAACATAAAAATATATAT
**
67995110 ATATATATATATGAAATAACATAAAAATATAT
1 ATATATATATAACAAATAACATAAAAATATAT
67995142 GAATAGTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (34 bp):
ATATATATATAACAAATAACATAAAAATATATAT
Found at i:67995181 original size:26 final size:26
Alignment explanation
Indices: 67995134--67995183 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
67995124 AATAACATAA
* *
67995134 AAATATATGAATAGTATGATATTTAC
1 AAATATATGAATAATATAATATTTAC
67995160 AAATATAT-ACATAATATAATATTT
1 AAATATATGA-ATAATATAATATTT
67995184 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AAATATATGAATAATATAATATTTAC
Found at i:67995431 original size:3 final size:3
Alignment explanation
Indices: 67995423--67995487 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
67995413 ATAACTAAAT
67995423 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67995471 ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA
67995488 TTAGAATAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:67995584 original size:24 final size:25
Alignment explanation
Indices: 67995543--67995598 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
67995533 ACATACATAT
*
67995543 ATAATAA-AACATACACTAAG-ATTA
1 ATAATAATAACATACACT-AGCAATA
*
67995567 ATAATAATAACA-ATACTAGCAATA
1 ATAATAATAACATACACTAGCAATA
67995591 ATAATAAT
1 ATAATAAT
67995599 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAACATACACTAGCAATA
Found at i:67999873 original size:31 final size:30
Alignment explanation
Indices: 67999829--67999921 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
67999819 TATTTAAATG
67999829 TATATAAT-TGAACCAAAATCAAAATTTCA
1 TATATAATATGAACCAAAATCAAAATTTCA
* *
67999858 TATATACATATGAACCACAATTC-AAGTTTCA
1 TATATA-ATATGAACCA-AAATCAAAATTTCA
*
67999889 TATAT-ATAATTACACC-AAATCAAAA-TTCA
1 TATATAAT-ATGA-ACCAAAATCAAAATTTCA
67999918 TATA
1 TATA
67999922 GTAAATTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
29 20 0.38
30 7 0.13
31 22 0.42
32 4 0.08
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (30 bp):
TATATAATATGAACCAAAATCAAAATTTCA
Found at i:68002801 original size:21 final size:20
Alignment explanation
Indices: 68002777--68002816 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
68002767 ATTTAATATA
*
68002777 TGAATTTTGAATTAGTAAATT
1 TGAATTGTGAATTA-TAAATT
*
68002798 TGAATTGTGATTTATAAAT
1 TGAATTGTGAATTATAAAT
68002817 GTGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TGAATTGTGAATTATAAATT
Found at i:68005562 original size:2 final size:2
Alignment explanation
Indices: 68005557--68005582 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68005547 ATTACCCAAC
68005557 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
68005583 AAATCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68005863 original size:22 final size:20
Alignment explanation
Indices: 68005814--68005873 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
68005804 TTTTACACAT
68005814 TATTTA-TATATATATTTAAA
1 TATTTATTATATAT-TTTAAA
*
68005834 TTTATTATTATATATTTTGGAAA
1 TAT-TTATTATATATTTT--AAA
*
68005857 TATTTATGTATTTATTT
1 TATTTAT-TATATATTT
68005874 AATTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 11 0.34
23 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTATTATATATTTTAAA
Found at i:68006293 original size:13 final size:13
Alignment explanation
Indices: 68006271--68006333 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
68006261 TTGGTAATGT
*
68006271 TTTTGGAAAGTGC
1 TTTTGAAAAGTGC
68006284 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
68006296 TTGTGAAAAAGTAC
1 TTTTG-AAAAGTGC
*
68006310 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
*
68006323 TTTTTAAAAGT
1 TTTTGAAAAGT
68006334 TTAGTTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 4 0.10
13 32 0.80
14 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:68011308 original size:18 final size:19
Alignment explanation
Indices: 68011280--68011319 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
68011270 ACGTAAAAAG
68011280 TAAAAAGTAAA-AGATGAAA
1 TAAAAAGTAAATA-ATGAAA
68011299 TAAAAA-TAAATAATGAAA
1 TAAAAAGTAAATAATGAAA
68011317 TAA
1 TAA
68011320 TTTAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
TAAAAAGTAAATAATGAAA
Found at i:68012232 original size:16 final size:16
Alignment explanation
Indices: 68012202--68012249 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
68012192 GAAAATTAAT
68012202 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
68012217 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
68012234 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
68012249 A
1 A
68012250 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:68012248 original size:11 final size:11
Alignment explanation
Indices: 68012193--68012263 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
68012183 ATAGCTTAAG
*
68012193 AAAATTAATAT
1 AAAATTAAAAT
68012204 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
68012216 AATAA-T-AATT
1 AA-AATTAAAAT
*
68012226 AAAAAT-AAAT
1 AAAATTAAAAT
68012236 AAAATTAAAAT
1 AAAATTAAAAT
*
68012247 AAACTTAAAAT
1 AAAATTAAAAT
*
68012258 AGAATT
1 AAAATT
68012264 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:68015106 original size:20 final size:21
Alignment explanation
Indices: 68015077--68015116 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
68015067 TTTTAAAGAG
68015077 AAGAAAAAGAA-AAAAATAAT
1 AAGAAAAAGAATAAAAATAAT
*
68015097 AAGAATAAGAATAAAAATAA
1 AAGAAAAAGAATAAAAATAA
68015117 GGTTTAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (21 bp):
AAGAAAAAGAATAAAAATAAT
Found at i:68021192 original size:15 final size:15
Alignment explanation
Indices: 68021172--68021212 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
68021162 TTTCCCACGT
*
68021172 CGAATTGCTTCCGCA
1 CGAATTACTTCCGCA
68021187 CGAATTACTTCCGCA
1 CGAATTACTTCCGCA
68021202 CGAATTACTTC
1 CGAATTACTTC
68021213 GCTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (15 bp):
CGAATTACTTCCGCA
Found at i:68022583 original size:16 final size:16
Alignment explanation
Indices: 68022553--68022600 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
68022543 GAAAATTAAT
68022553 ATAAAA-TATAAAAT-A
1 ATAAAATTA-AAAATAA
68022568 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
68022585 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
68022600 A
1 A
68022601 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.40
16 11 0.37
17 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:68022605 original size:11 final size:11
Alignment explanation
Indices: 68022544--68022614 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
68022534 ATAGCTTAAG
*
68022544 AAAATTAATAT
1 AAAATTAAAAT
68022555 AAAATATAAAAT
1 AAAAT-TAAAAT
*
68022567 AATAA-T-AATT
1 AA-AATTAAAAT
*
68022577 AAAAAT-AAAT
1 AAAATTAAAAT
68022587 AAAATTAAAAT
1 AAAATTAAAAT
*
68022598 AAACTTAAAAT
1 AAAATTAAAAT
*
68022609 AGAATT
1 AAAATT
68022615 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:68028192 original size:15 final size:15
Alignment explanation
Indices: 68028172--68028201 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68028162 GTCACATAGC
68028172 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
68028187 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
68028202 GCTATTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:68028625 original size:37 final size:39
Alignment explanation
Indices: 68028551--68028634 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
68028541 TTACAGCCTT
*
68028551 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
68028590 TTGTTGAAACCTTAGT-TCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
68028627 TTGCTGAA
1 TTGTTGAA
68028635 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 2 0.05
39 16 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:68029119 original size:18 final size:18
Alignment explanation
Indices: 68029070--68029109 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
68029060 AATTGTTCCA
* *
68029070 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAAACT
68029088 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAAACT
68029106 GATT
1 GATT
68029110 CTTTGGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (18 bp):
GATTTCTAGGGATAAACT
Found at i:68040888 original size:46 final size:44
Alignment explanation
Indices: 68040829--68040943 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
68040819 ACAGGACAGA
* *
68040829 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
68040875 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
68040919 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
68040944 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:68040924 original size:44 final size:45
Alignment explanation
Indices: 68040829--68040962 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
68040819 ACAGGACAGA
* *
68040829 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
68040875 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
68040919 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
68040963 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:68046854 original size:43 final size:45
Alignment explanation
Indices: 68046761--68046893 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 45
68046751 ACAGGACAGA
* *
68046761 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
*
68046807 ACAGG-ATGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
68046850 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
68046894 CAGGATATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 19 0.26
44 17 0.23
45 23 0.31
46 15 0.20
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:68055471 original size:46 final size:44
Alignment explanation
Indices: 68055412--68055526 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
68055402 ACAGGACAGA
* *
68055412 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
68055458 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
68055502 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
68055527 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:68055507 original size:44 final size:45
Alignment explanation
Indices: 68055412--68055545 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
68055402 ACAGGACAGA
* *
68055412 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
68055458 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
68055502 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
68055546 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:68061390 original size:46 final size:44
Alignment explanation
Indices: 68061331--68061445 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
68061321 ACAGGACAGA
* *
68061331 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
68061377 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
68061421 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
68061446 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:68061426 original size:44 final size:45
Alignment explanation
Indices: 68061331--68061464 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
68061321 ACAGGACAGA
* *
68061331 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
68061377 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
68061421 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
68061465 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:68063412 original size:26 final size:24
Alignment explanation
Indices: 68063372--68063431 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
68063362 TTATTTCATT
* * *
68063372 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
68063396 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
68063422 AAATAAATAT
1 AAATAAATAT
68063432 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:68063443 original size:22 final size:22
Alignment explanation
Indices: 68063394--68063457 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
68063384 TTAAAAATAT
* *
68063394 AATAAAT-CAAATATAT-TTAA
1 AATAAATAAAAATAAATATTAA
*
68063414 AA-ACATAAAAATAAATATTAA
1 AATAAATAAAAATAAATATTAA
*
68063435 AATAAATAAAAAT-AATACTAA
1 AATAAATAAAAATAAATATTAA
68063456 AA
1 AA
68063458 CAATTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.08
20 9 0.25
21 15 0.42
22 9 0.25
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAATAAAAATAAATATTAA
Found at i:68063537 original size:15 final size:16
Alignment explanation
Indices: 68063507--68063539 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
68063497 AAATAGTTAT
68063507 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
68063524 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
68063539 A
1 A
68063540 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:68065550 original size:3 final size:3
Alignment explanation
Indices: 68065527--68065579 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
68065517 TGTCTAACAC
* * *
68065527 TAT TAT TTT TAT TTT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68065574 ATAT TA
1 -TAT TA
68065580 GTGTATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:68065593 original size:26 final size:24
Alignment explanation
Indices: 68065527--68065887 Score: 101
Period size: 24 Copynumber: 15.3 Consensus size: 24
68065517 TGTCTAACAC
**
68065527 TATTATTTTTATTTTTA-TATTAT
1 TATTATTACTATTTTTATTATTAT
*
68065550 TATTATTACTATTATTATTATTAT
1 TATTATTACTATTTTTATTATTAT
68065574 ATATTAGTGTA-TATTTTTATTATATACGT
1 -TATTA-T-TACTATTTTTATTAT-TA--T
* * *
68065603 ATATGTATT--TATATTTA-TACATAG
1 -TAT-TATTACTATTTTTATTA-TTAT
* *
68065627 TATTATT--T-TTTTAATTACT-T
1 TATTATTACTATTTTTATTATTAT
*
68065647 TATT-TTAATATTTTTATTA-TAT
1 TATTATTACTATTTTTATTATTAT
* *
68065669 TA-TATTTGCT-TTTTT-TT-GTAT
1 TATTA-TTACTATTTTTATTATTAT
* *
68065690 T-TCA--A-TATTATTATTATTAT
1 TATTATTACTATTTTTATTATTAT
* *
68065710 TATTATTATTATTATTATTATTAT
1 TATTATTACTATTTTTATTATTAT
* *
68065734 TATTATTATTATTATTATTATTAT
1 TATTATTACTATTTTTATTATTAT
* * *
68065758 ATACGTATATA-TATATATATT-TTA-
1 -TA-TTAT-TACTATTTTTATTATTAT
* *
68065782 TATATAATACTATTTTTAATTACT-T
1 TAT-TATTACTATTTTT-ATTATTAT
*
68065807 TATT-TTAAC-ATTATTATTA-TAT
1 TATTATT-ACTATTTTTATTATTAT
* *
68065829 TATGT-TTATTTTTTTTGTATTTCATTAT
1 TAT-TATTA-CTATTTT-TA-TT-ATTAT
* *
68065857 TATTATTATTATTATTATTATTAT
1 TATTATTACTATTTTTATTATTAT
68065881 TATTATT
1 TATTATT
68065888 TAGTATATGT
Statistics
Matches: 260, Mismatches: 35, Indels: 85
0.68 0.09 0.22
Matches are distributed among these distances:
17 1 0.00
18 4 0.02
19 4 0.02
20 8 0.03
21 18 0.07
22 34 0.13
23 39 0.15
24 66 0.25
25 18 0.07
26 30 0.12
27 20 0.08
28 10 0.04
29 6 0.02
30 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (24 bp):
TATTATTACTATTTTTATTATTAT
Found at i:68065633 original size:22 final size:23
Alignment explanation
Indices: 68065585--68065634 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
68065575 TATTAGTGTA
* *
68065585 TATTTTTATTATATACGTATATG
1 TATTTATATTATATACATATATG
68065608 TATTTATATT-TATACATAGTAT-
1 TATTTATATTATATACATA-TATG
68065630 TATTT
1 TATTT
68065635 TTTTAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTTATATTATATACATATATG
Found at i:68065701 original size:3 final size:3
Alignment explanation
Indices: 68065695--68066174 Score: 172
Period size: 3 Copynumber: 158.7 Consensus size: 3
68065685 TGTATTTCAA
68065695 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68065743 TAT TAT TAT TAT TAT ATACG TAT ATAT ATAT ATAT T-T TA- TAT ATAA
1 TAT TAT TAT TAT TAT -TA-T TAT -TAT -TAT -TAT TAT TAT TAT -TAT
* * * * *
68065789 TAC TAT TTT TAAT TAC T-T TAT T-T TAA CAT TAT TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68065832 GT-T TAT T-T T-T TTT GTAT T-T CAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68065875 TAT TAT TAT TATT TAG TA- TAT GTTT TAT TAT ATAT GTA- TAT ATAT
1 TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT -TAT -TAT TAT -TAT
* * * *
68065920 ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT
1 -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * *
68065966 TAT TA- TAT TA- TATT TACT T-T TTT GTAT T-T CAT TAC TAT TGT TAG
1 TAT TAT TAT TAT TA-T TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
68066010 CAT TAT TAT CAT TAT TAA TAT TAGT GTAT GT-T TAT TAT ATAGG TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T -TAT -TAT TAT TAT -TA-T TAT
* * * *
68066056 ATAT ATAT T-T TA- TAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA
1 -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* *
68066101 TAT TAT TAT TA- TAT TAT GT-T TAT T-T T-T TTT GTAT T-T CAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *
68066143 TAT T-T CTAG TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
68066175 GTATATGTTT
Statistics
Matches: 364, Mismatches: 61, Indels: 104
0.69 0.12 0.20
Matches are distributed among these distances:
2 47 0.13
3 242 0.66
4 73 0.20
5 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:68065785 original size:17 final size:17
Alignment explanation
Indices: 68065763--68065797 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
68065753 ATTATATACG
68065763 TATATATATATA-TATTT
1 TATATATA-ATACTATTT
68065780 TATATATAATACTATTT
1 TATATATAATACTATTT
68065797 T
1 T
68065798 TAATTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATATAATACTATTT
Found at i:68066404 original size:143 final size:144
Alignment explanation
Indices: 68065705--68066405 Score: 1022
Period size: 143 Copynumber: 4.9 Consensus size: 144
68065695 TATTATTATT
* * * * * * * *
68065705 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTAT-TATTATTATATACGTATATA
1 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTA-TATGTTTTATTATATA--TGTATA
* * * *
68065769 TATATATATTTTATATATAATACTATTTTTAATTACTTTATTTTAACATTATTATTATATTATGT
63 TATATATA-TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
*
68065834 TTATTTTTTTTGTATTTC
127 TTACTTTTTTTGTATTTC
* * * * *
68065852 ATTATTATTATTATTATTATTATTATTATTATTATTTAGTATATGTTTTATTATATATGTATATA
1 ATTACTATTGTTAGTATTATTATCATTATTAATA-TTAGTATATGTTTTATTATATATGTATATA
68065917 TATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTA
65 TATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTA
68065982 C-TTTTTTGTATTTC
130 CTTTTTTTGTATTTC
* * *
68065996 ATTACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATG-TTTATTATATAGGTATATAT
1 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTATATGTTTTATTATATATGTATATAT
* *
68066060 ATAT-TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTAT
66 ATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTAC
68066124 TTTTTTTGTATTTC
131 TTTTTTTGTATTTC
* *
68066138 ATTATTATT-TCTAGTATTATTATTATTATTAATATTAGTATATGTTTTATTATATATGTATATA
1 ATTACTATTGT-TAGTATTATTATCATTATTAATATTAGTATATGTTTTATTATATATGTATATA
* *
68066202 TATATATTTATATATAGCATT-TTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTA
65 TATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTA
68066266 CTTTTTTTGTATTTC
130 CTTTTTTTGTATTTC
* *
68066281 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATG-TTT-TTATTATATGTGTATA
1 ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTATATGTTTTATTA-TATATGTATATA
68066344 TATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
65 TATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
68066406 GCCTTCCTTT
Statistics
Matches: 512, Mismatches: 33, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
141 62 0.12
142 108 0.21
143 165 0.32
144 56 0.11
145 55 0.11
146 13 0.03
147 37 0.07
148 16 0.03
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (144 bp):
ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTATATGTTTTATTATATATGTATATAT
ATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTAC
TTTTTTTGTATTTC
Found at i:68078644 original size:64 final size:64
Alignment explanation
Indices: 68078530--68078655 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
68078520 AAAAAAATCA
* * ** * * *
68078530 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGTATTTTTAGTTTCTATCC
1 ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
*
68078594 ACTCATATTACGAGAGGTGAGTTGA-CCATCGGGCCACATGCCGAGATATTTTCAATTTCTAT
1 ACTCATATTACGAGAGGTGAGTTGAGCC-TCGGGCCACACGCCGAGATATTTTCAATTTCTAT
68078656 TTTTTAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (64 bp):
ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
Found at i:68078664 original size:14 final size:15
Alignment explanation
Indices: 68078642--68078677 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
68078632 TGCCGAGATA
68078642 TTTTCAATTTCTA-T
1 TTTTCAATTTCTACT
*
68078656 TTTTTAATTTCTACT
1 TTTTCAATTTCTACT
68078671 TTTTCAA
1 TTTTCAA
68078678 AAAATTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTCAATTTCTACT
Found at i:68078782 original size:77 final size:78
Alignment explanation
Indices: 68078656--68078823 Score: 241
Period size: 77 Copynumber: 2.2 Consensus size: 78
68078646 CAATTTCTAT
* * *
68078656 TTTTTAATTTCTACTTTTTCAAAAAATTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTCAATTTCTACTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
68078721 ACACGGC-GAGGTA
66 ACA-GGCTGAGGTA
* *
68078734 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTCAATTTCTACTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
68078798 ACATGCTGAGGTA
66 ACAGGCTGAGGTA
* *
68078811 TTTTTAGTTTCTA
1 TTTTCAATTTCTA
68078824 TCCACTCATA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
76 2 0.03
77 67 0.84
78 11 0.14
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (78 bp):
TTTTCAATTTCTACTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
ACAGGCTGAGGTA
Found at i:68078886 original size:64 final size:64
Alignment explanation
Indices: 68078767--68078886 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
68078757 AAATCAACTT
* * * * * *
68078767 ATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTTAGTTTCTATCCACTC
1 ATATTGCGAGAGGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCTATCCACTC
68078831 ATATTGCGAGAGGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCT
1 ATATTGCGAGAGGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCT
68078887 GTTTTTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (64 bp):
ATATTGCGAGAGGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCTATCCACTC
Found at i:68080568 original size:3 final size:3
Alignment explanation
Indices: 68080544--68080591 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
68080534 TGTCTAACAC
* *
68080544 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68080589 TAT
1 TAT
68080592 ATAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:68080623 original size:22 final size:21
Alignment explanation
Indices: 68080597--68080655 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 21
68080587 ATTATATAAT
68080597 ATATATATTTTTTATTATATAC
1 ATATATATTTTTTATT-TATAC
* * *
68080619 GTATATGTATTTATATTTATAC
1 ATATATAT-TTTTTATTTATAC
68080641 ATAGTATTATTTTTT
1 ATA-TA-TATTTTTT
68080656 TAATTACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
22 13 0.46
23 13 0.46
24 2 0.07
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATATATTTTTTATTTATAC
Found at i:68080726 original size:3 final size:3
Alignment explanation
Indices: 68080711--68080765 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
68080701 TGTATTTCAA
* * * *
68080711 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAG TAG TAG TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
68080757 TTT TAT TAT
1 TAT TAT TAT
68080766 ATATGTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:68080798 original size:151 final size:149
Alignment explanation
Indices: 68080561--68082026 Score: 1583
Period size: 151 Copynumber: 9.9 Consensus size: 149
68080551 TTTATTTTTT
* * * *
68080561 ATATTATTATTATTACTATTATTATTATTA-TATAATA-TATATATTTTTTATTATATACGTATA
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATA-TTTTTATTATATATGTATA
* * *
68080624 TGTATTTATATTTATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTA
65 TATATTTATATTTATATATAGTATTA-TTTTTTAATTACTTTATTTTAATATTATTATTATATTA
*
68080689 TATTTGCTTTTTTGTATTTCA
129 TATTTACTTTTTTGTATTTCA
*
68080710 ATATTATTACTATTATTATTATTATTATTATTAGTAGTAGTATATATTTTTATTATATATGTATA
1 ATATTATTACTATTATTATTATTATTATTATTA-TATTAGTATATATTTTTATTATATATGTATA
* * *
68080775 TGTATTTGTATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATT-TTATTATATTAT
65 TATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTAT
*
68080839 ATTTTCTTTTTTTTGTATTTCA
130 ATTTAC--TTTTTTGTATTTCA
*
68080861 ATATTATTACTATTATCATTATTATTATTA--ATATTAGTATATATTTTTATTATATATGTATAT
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATGTATAT
* * * *
68080924 GTATTTATATTTATACAGAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATA
66 ATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATA
*
68080989 TTTTCTTTTTTTGTATTTCA
131 TTTAC-TTTTTTGTATTTCA
* *
68081009 ATATTATTACTATTGTCATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATA
1 ATATTATTACTATTATTATTATTATTATTATT-ATATTAGTATATATTTTTATTATATATGTATA
* * * * *
68081074 TGTATTTATATTTATACAGAGTATTATTTTTTAATTACTTTA-TTTAATATTTTTATTATATTAC
65 TATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTAT
*
68081138 ATTTGCTTTTTT-TATTTCA
130 ATTTACTTTTTTGTATTTCA
*
68081157 ATATTATTACTATTATTATTATTATTATTATTATTATTATTATTATTAGTGTATATTCTTATTAT
1 ATATTATTAC---TATTATTATTATTATTATTATTA-TATTAGTA-TA---TAT-TT-TTATTAT
* * * *
68081222 ATACGTATATATATATATATATTTATATATAATACTA-TTTTTAATTACTTTATTTTAACATTAT
56 ATATGTATATATAT-T-TATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTAT
68081286 TA-T-TA-T-T-TTTACTTTTTTTGTATTTCA
119 TATTATATTATATTTAC-TTTTTTGTATTTCA
* * * * * *
68081313 TTATTATTGCTAGTATTATTATTATTATTA--ATATTAGTGTATGTTTTTATTATATAGGTATAT
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATGTATAT
* * *
68081376 ATA--TATTTTTACATATAGTATTA-TTTTTAATTACTTTATTTT-A-A-TATTATTATATTATG
66 ATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATA
*
68081435 TTTATTTTGTTTGTATTTCA
131 TTTACTTT-TTTGTATTTCA
* * * *
68081455 TTATTATT--T-CTAGTATTATTATTATTA--ATATTAGTATAT-GTTTTATTATATATGTATAT
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATGTATAT
68081514 ATATATT-T-TTTATATATAG---TATTTTTTAATTACTTTATTTTAATATTATTATTATATTAT
66 ATAT-TTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTAT
68081574 ATTTACTTTTTTGTATTTCA
130 ATTTACTTTTTTGTATTTCA
* * ** ** * * * * *
68081594 TTACTATTGTTAGCATTATTATCATTATTA--ATATTTGTGTATGTTTTTATTATATAGGTATAT
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATGTATAT
* * *
68081657 ATATATATTTTTATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTATG
66 ATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATA
*
68081721 TTTATTTTTTTGTATTTCA
131 TTTACTTTTTTGTATTTCA
* * * * * * * * *
68081740 TTATTATTTCTAGTATTATTATTATTATTATTATTATTATTA-ATAATATTAGTATATGTTTTAT
1 ATATTATTACTATTATTATTATTATTATTATTA-TATTAGTATATATTTTTATTATAT-ATGTA-
* **
68081804 TATATATGTATA--TATATATTTTATATAGTATTTTTAATTACTTTATTTTAATATTATTATTAT
63 TATATATTTATATTTATATATAGTAT-TA-T-TTTTTAATTACTTTATTTTAATATTATTATTAT
68081867 ATTATATTTACTTTTTTTGTATTTCA
125 ATTATATTTAC-TTTTTTGTATTTCA
* * ** * * * * *
68081893 TTACTATTGTTAGTATTATTATCATTATTA--ATATTAGTGTATGTTTTTATTATATGTGTCTAT
1 ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATG--TAT
*
68081956 ATACATATATATATATTTATATATAGTATT-GTTTTTAATTACTTTATTTTAATATTATTATTAT
64 AT--ATAT-T-TATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTAT
68082020 ATTATAT
125 ATTATAT
68082027 GCCTTCCTTT
Statistics
Matches: 1157, Mismatches: 95, Indels: 126
0.84 0.07 0.09
Matches are distributed among these distances:
136 2 0.00
137 24 0.02
138 24 0.02
139 59 0.05
140 59 0.05
141 6 0.01
142 48 0.04
143 23 0.02
144 30 0.03
145 2 0.00
146 83 0.07
147 2 0.00
148 163 0.14
149 81 0.07
150 78 0.07
151 207 0.18
152 52 0.04
153 103 0.09
154 4 0.00
155 13 0.01
156 19 0.02
157 31 0.03
158 17 0.01
159 27 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (149 bp):
ATATTATTACTATTATTATTATTATTATTATTATATTAGTATATATTTTTATTATATATGTATAT
ATATTTATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATA
TTTACTTTTTTGTATTTCA
Found at i:68080868 original size:3 final size:3
Alignment explanation
Indices: 68080862--68080913 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
68080852 TGTATTTCAA
* * * * *
68080862 TAT TAT TAC TAT TAT CAT TAT TAT TAT TAA TAT TAG TAT ATAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
68080908 TAT TAT
1 TAT TAT
68080914 ATATGTATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:68080937 original size:299 final size:296
Alignment explanation
Indices: 68080568--68082026 Score: 1600
Period size: 299 Copynumber: 4.9 Consensus size: 296
68080558 TTTATATTAT
* *
68080568 TATTATTACTATTATTATTATTA-TA-TAATA-TA-TATAT-TTTTTATTATATACGTATATGTA
1 TATTATTACTATTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATATA
*
68080628 TTTATATTTATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATT
66 TTTATATTTATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTATTATTATATTATATT
* * * * *
68080693 TGCTTTTTTGTATTTCAATATTATTACTATTATTATTATTATTATTATTAGTAGTAGTATATATT
130 TACTTTTTTGTATTTC-ATATTATTACTATTATTATTATTATTATTATTAATATTAGTGTATGTT
* * *
68080758 TTTATTATATATGTATATGTATTTGTATTTATACATAGTATTATTTTTTAATTACTTTATTTTAA
194 TTTATTATATATGTATATATATTTATATTTATATATAGTATTA-TTTTTAATTACTTTATTTTAA
68080823 TATTTTATTATATTATATTTTCTTTTTTTTGTATTTCAA
258 TATTTTATTATATTATATTTTCTTTTTTTTGTATTTCAA
* *
68080862 TATTATTACTATTATCATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTA
1 TATTATTACTATTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATATA
* *
68080927 TTTATATTTATACAGAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTT
66 TTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT
* * * * *
68080992 TCTTTTTTTGTATTTCAATATTATTACTATTGTCATTATTATTATTATTAATATTAGTATATATT
131 AC-TTTTTTGTATTTC-ATATTATTACTATTATTATTATTATTATTATTAATATTAGTGTATGTT
* * *
68081057 TTTATTATATATGTATATGTATTTATATTTATACAGAGTATTATTTTTTAATTACTTTA-TTTAA
194 TTTATTATATATGTATATATATTTATATTTATATATAGTATTA-TTTTTAATTACTTTATTTTAA
* * *
68081121 TATTTTTATTATATTACATTTGCTTTTTTTATTTCAATATT-ATTA
258 TA-TTTTATTATATTATATTTTCTTTTTTT-TGT--AT-TTCA--A
* * * *
68081166 CTATTATTATTATTATTATTATTATTATTATTATTATTAGTGTATATTCTTATTATATACGTATA
1 -TATTATTACTATTATTATTATTATTATTA--A-TATTAGTATATATTTTTATTATATATGTATA
* * * *
68081231 TATATATATATATTTATATATAATACTA-TTTTTAATTACTTTATTTTAACATTATTA-T-TA-T
62 TATAT-T-TATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATT
* *
68081292 -T-TTTACTTTTTTTGTATTTCATTATTATTGC---TAGTATTATTATTATTATTAATATTAGTG
125 ATATTTAC-TTTTTTGTATTTCA-TATTATTACTATTATTATTATTATTATTATTAATATTAGTG
* * *
68081352 TATGTTTTTATTATATAGGTATATATA--TATTTTTACATATAGTATTATTTTTAATTACTTTAT
188 TATGTTTTTATTATATATGTATATATATTTATATTTATATATAGTATTATTTTTAATTACTTTAT
* * * *
68081415 TTTAATA--TTATTATATTAT-GTTTATTTTGTTTGTATTTCAT
253 TTTAATATTTTATTATATTATATTTTCTTTTTTTTGTATTTCAA
* * *
68081456 TATTATT--T-CTAGTATTATTATTATTAATATTAGTATAT-GTTTTATTATATATGTATATATA
1 TATTATTACTATTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATATA
*
68081517 TATT-T-TTTAT--ATA-TAGTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATT
66 T-TTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATT
* * * ** * *
68081577 TACTTTTTTGTATTTC--ATTACTATTGTTAGCATTATTATCATTATTAATATTTGTGTATGTTT
130 TACTTTTTTGTATTTCATATTATTACTATTATTATTATTATTATTATTAATATTAGTGTATGTTT
* * *
68081640 TTATTATATAGGTATATATATATATTTTTATATATAGTATTATTTTTAATTACTTTATTTTAATA
195 TTATTATATATGTATATATATTTATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATA
* * *
68081705 TTATTATTATATTATGTTTATTTTTTTGTATTTCATTATTATTTCTAG
260 TT-TTATTATATTA----TATTTTCTT-T-TTT--TT-GTATTTC-AA
* * *
68081753 TATTATTATTATTATTATTATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATA
1 TATTATTACTATTATTATTATTATTATTAATATTAGTA-TATAT-TTTTATTATATATGTATATA
68081818 TA--TAT-TTTAT--ATAG---TA-TTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
64 TATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
* * * * *
68081874 TTACTTTTTTTGTATTTC--ATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATGT
129 TTAC-TTTTTTGTATTTCATATTATTACTATTATTATTATTATTATTATTAATATTAGTGTATGT
* *
68081937 TTTTATTATATGTGTCTATATACATATATATATATTTATATATAGTATTGTTTTTAATTACTTTA
193 TTTTATTATATATG--TATAT--ATAT-T-TATATTTATATATAGTATTATTTTTAATTACTTTA
68082002 TTTTAATATTATTATTATATTATAT
252 TTTTAATATT-TTATTATATTATAT
68082027 GCCTTCCTTT
Statistics
Matches: 1026, Mismatches: 77, Indels: 117
0.84 0.06 0.10
Matches are distributed among these distances:
276 4 0.00
277 31 0.03
278 6 0.01
279 7 0.01
280 2 0.00
281 68 0.07
282 28 0.03
283 52 0.05
284 1 0.00
286 27 0.03
287 1 0.00
289 7 0.01
290 1 0.00
291 7 0.01
292 4 0.00
293 2 0.00
294 24 0.02
295 12 0.01
296 22 0.02
297 10 0.01
298 115 0.11
299 277 0.27
300 26 0.03
301 69 0.07
302 3 0.00
303 29 0.03
304 27 0.03
305 83 0.08
306 1 0.00
307 3 0.00
308 33 0.03
309 28 0.03
310 16 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (296 bp):
TATTATTACTATTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATATA
TTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTT
ACTTTTTTGTATTTCATATTATTACTATTATTATTATTATTATTATTAATATTAGTGTATGTTTT
TATTATATATGTATATATATTTATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATAT
TTTATTATATTATATTTTCTTTTTTTTGTATTTCAA
Found at i:68081164 original size:3 final size:3
Alignment explanation
Indices: 68081158--68081928 Score: 104
Period size: 3 Copynumber: 253.7 Consensus size: 3
68081148 TTTATTTCAA
*
68081158 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
68081207 GTA- TAT TCT TAT TAT ATACG TA- TAT ATAT ATAT ATAT T-T ATAT ATAA
1 -TAT TAT TAT TAT TAT -TA-T TAT TAT -TAT -TAT -TAT TAT -TAT -TAT
* * * * * *
68081254 TAC TAT TTT TAAT TAC T-T TAT T-T TAA CAT TAT TAT TAT TTT TACT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * ** * *
68081299 TTT TTT GTAT T-T CAT TAT TAT TGC TAG TAT TAT TAT TAT TAT TAA
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
68081344 TAT TAGT GTAT GT-T T-T TAT TAT ATAGG TAT ATAT ATAT TTT TA- CAT
1 TAT TA-T -TAT -TAT TAT TAT TAT -TA-T TAT -TAT -TAT TAT TAT TAT
* * * *
68081390 ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TA- TAT TAT
1 -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
68081434 GT-T TAT T-T TGT T-T GTAT T-T CAT TAT TAT T-T CTAG TAT TAT TAT
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * *
68081477 TAT TAA TAT TAG TA- TAT GTTT TAT TAT ATAT GTAT ATAT ATAT T-T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT -TAT -TAT TAT
* * *
68081522 T-T TA- TAT ATAG TAT T-T T-T TAAT TAC T-T TAT T-T TAA TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * *
68081563 TAT TA- TAT TA- TATT TACT T-T TTT GTAT T-T CAT TAC TAT TGT TAG
1 TAT TAT TAT TAT TA-T TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * *
68081607 CAT TAT TAT CAT TAT TAA TATT TGT GTAT GT-T T-T TAT TAT ATAGG
1 TAT TAT TAT TAT TAT TAT TA-T TAT -TAT -TAT TAT TAT TAT -TA-T
* * * *
68081652 TA- TAT ATAT ATAT TTT TA- TAT ATAG TAT TAT TTT TAAT TAC T-T TAT
1 TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT
* * * *
68081698 T-T TAA TAT TAT TAT TA- TAT TAT GT-T TAT TTT TTT GTAT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT
* * *
68081741 TAT TAT T-T CTAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
68081786 TAT TAG TA- TAT GTTT TAT TAT ATAT GTAT ATAT ATAT T-T TAT ATAG
1 TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT -TAT -TAT TAT TAT -TAT
* * *
68081832 TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TAT TA- TAT TA- TATT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * *
68081875 TACT TTT TTT GTAT T-T CAT TAC TAT TGT TAG TAT TAT TAT CAT TAT
1 TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
68081921 TAA TAT TA
1 TAT TAT TA
68081929 GTGTATGTTT
Statistics
Matches: 560, Mismatches: 125, Indels: 166
0.66 0.15 0.20
Matches are distributed among these distances:
2 73 0.13
3 364 0.65
4 119 0.21
5 4 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:68081529 original size:15 final size:16
Alignment explanation
Indices: 68081509--68081541 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
68081499 ATTATATATG
68081509 TATATATA-TATTTTT
1 TATATATAGTATTTTT
68081524 TATATATAGTATTTTT
1 TATATATAGTATTTTT
68081540 TA
1 TA
68081542 ATTACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TATATATAGTATTTTT
Found at i:68081671 original size:16 final size:18
Alignment explanation
Indices: 68081652--68081687 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
68081642 ATTATATAGG
68081652 TATATATA-TA-TATTTT
1 TATATATAGTATTATTTT
68081668 TATATATAGTATTATTTT
1 TATATATAGTATTATTTT
68081686 TA
1 TA
68081688 ATTACTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATATAGTATTATTTT
Found at i:68081928 original size:153 final size:152
Alignment explanation
Indices: 68081610--68082026 Score: 504
Period size: 153 Copynumber: 2.7 Consensus size: 152
68081600 TTGTTAGCAT
* * * *
68081610 TATTATCATTATTAATATTTGTGTATGTTTTTATTATATAGGTATATATATATATTTTTATATAT
1 TATTATTATTAATAATATTAGTATATG-TTTTATTATATA--T-TATATATATA--TTTATATAT
*
68081675 AGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTATTTTTTTGTATTTCA
60 AG---TATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTATTTTTTTGTATTTCA
* * *
68081740 TTATTATTTCTAGTATTATTATTATTATTAT
122 TTACTATTTCTAGTATTATTATCATTATTAA
68081771 TATTATTATTAATAATATTAGTATATGTTTTATTATATATGTATATATATATTT-TATATAGTAT
1 TATTATTATTAATAATATTAGTATATGTTTTATTATATAT-TATATATATATTTATATATAGTAT
68081835 TTTTAATTACTTTATTTTAATATTATTATTATATTATATTTACTTTTTTTGTATTTCATTACTAT
65 TTTTAATTACTTTATTTTAATATTATTATTATATTATATTTA-TTTTTTTGTATTTCATTACTAT
68081900 TGT-TAGTATTATTATCATTATTAA
129 T-TCTAGTATTATTATCATTATTAA
* * ** * * * *
68081924 TATTAGT-GT-ATGTTTTTATTATATGTGTCTA-TATACA-TATATATATATTTATATATAGTAT
1 TATTATTATTAATAATATTAGTATATGT-TTTATTATATATTATATATATATTTATATATAGTA-
68081985 TGTTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
64 --TTTTTAATTACTTTATTTTAATATTATTATTATATTATAT
68082027 GCCTTCCTTT
Statistics
Matches: 232, Mismatches: 17, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
149 13 0.06
150 9 0.04
151 18 0.08
152 48 0.21
153 87 0.38
154 1 0.00
155 7 0.03
156 3 0.01
158 11 0.05
160 12 0.05
161 23 0.10
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (152 bp):
TATTATTATTAATAATATTAGTATATGTTTTATTATATATTATATATATATTTATATATAGTATT
TTTAATTACTTTATTTTAATATTATTATTATATTATATTTATTTTTTTGTATTTCATTACTATTT
CTAGTATTATTATCATTATTAA
Found at i:68089906 original size:31 final size:31
Alignment explanation
Indices: 68089870--68089948 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
68089860 TTATTTTTAT
* *
68089870 TTAAATTTGATTTTTAATTTTTTAAAAAGAG
1 TTAAATTTGATTTTTAATATTTTAAAAAAAG
* * *
68089901 TTAAATTTGACTATTAACATTTTAAAAAAAG
1 TTAAATTTGATTTTTAATATTTTAAAAAAAG
*
68089932 TTAAA-TTGTTTTTTAAT
1 TTAAATTTGATTTTTAAT
68089949 GAAAATATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (31 bp):
TTAAATTTGATTTTTAATATTTTAAAAAAAG
Found at i:68090269 original size:24 final size:24
Alignment explanation
Indices: 68090235--68090281 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
68090225 AATGTTAATA
*
68090235 ACTAAATTTAACTAAAAAATTATAG
1 ACTAAATTTAA-TAAAAAAATATAG
68090260 ACTAAA-TTAATAAAAAAATATA
1 ACTAAATTTAATAAAAAAATATA
68090282 AAAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 4 0.19
25 6 0.29
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
ACTAAATTTAATAAAAAAATATAG
Found at i:68091577 original size:49 final size:49
Alignment explanation
Indices: 68091522--68091668 Score: 176
Period size: 49 Copynumber: 3.0 Consensus size: 49
68091512 ACCACCATCT
* *
68091522 TTTCCATAAGCCTCCTCCTTATGTGTCT-AGAGTAGAGTCA-TCTTATTAC
1 TTTCCATAAGCCTCC-CCCTATGCGTCTGAGAGTAGAGTCACT-TTATTAC
* *
68091571 TTTCCATAAGCCTCCCCCTATGCGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTCCCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
* * * *
68091620 TTTCCATAA-CCACCCCC-ATACGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTCCCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
68091667 TT
1 TT
68091669 ATCGAGTCGC
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 31 0.34
48 17 0.19
49 41 0.46
50 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (49 bp):
TTTCCATAAGCCTCCCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
Found at i:68091655 original size:47 final size:49
Alignment explanation
Indices: 68091551--68091668 Score: 179
Period size: 47 Copynumber: 2.4 Consensus size: 49
68091541 TATGTGTCTA
* * *
68091551 GAGTAGAGTCA-TCTTATTACTTTCCATAAGCCTCCCCCTATGCGTCTGG
1 GAGTAGGGTCACT-TTATTACTTTCCATAAGCCACCCCCTATACGTCTGG
68091600 GAGTAGGGTCACTTTATTACTTTCCATAA-CCACCCCC-ATACGTCTGG
1 GAGTAGGGTCACTTTATTACTTTCCATAAGCCACCCCCTATACGTCTGG
68091647 GAGTAGGGTCACTTTATTACTT
1 GAGTAGGGTCACTTTATTACTT
68091669 ATCGAGTCGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 31 0.48
48 7 0.11
49 26 0.40
50 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (49 bp):
GAGTAGGGTCACTTTATTACTTTCCATAAGCCACCCCCTATACGTCTGG
Found at i:68091793 original size:29 final size:29
Alignment explanation
Indices: 68091703--68091832 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 29
68091693 TTGTGTTTAT
* *
68091703 TGGTTGTGTCGCCATACTCGTTAACAACC
1 TGGTTGAGTCGCCATACTCATTAACAACC
* * * * *
68091732 TAGTT-AGGTCGTCAAACTCATCAATAACC
1 TGGTTGA-GTCGCCATACTCATTAACAACC
* *
68091761 TGGTTGAGTCACCATACTCATTAACAACT
1 TGGTTGAGTCGCCATACTCATTAACAACC
** ** *
68091790 TGGTCAAGTTTCCATACTC-GTAAGCAACC
1 TGGTTGAGTCGCCATACTCATTAA-CAACC
*
68091819 TGGTCGAGTCGCCA
1 TGGTTGAGTCGCCA
68091833 CACCCGTCAA
Statistics
Matches: 75, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
28 3 0.04
29 71 0.95
30 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (29 bp):
TGGTTGAGTCGCCATACTCATTAACAACC
Found at i:68094018 original size:8 final size:8
Alignment explanation
Indices: 68094005--68094039 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
68093995 TTCACATTCA
68094005 TTTTTTTC
1 TTTTTTTC
68094013 TTTTTTTC
1 TTTTTTTC
68094021 TTTTTTTC
1 TTTTTTTC
*
68094029 TTTTCTTC
1 TTTTTTTC
68094037 TTT
1 TTT
68094040 CAAAACCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:68095050 original size:21 final size:21
Alignment explanation
Indices: 68095025--68095069 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
68095015 TAAAATTTTT
*
68095025 ATATAACAAATTTA-TAAAAAA
1 ATATAA-AAATTAATTAAAAAA
68095046 ATATAAAAATTAATTAAAAAA
1 ATATAAAAATTAATTAAAAAA
68095067 ATA
1 ATA
68095070 AAGTTGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATATAAAAATTAATTAAAAAA
Found at i:68098662 original size:2 final size:2
Alignment explanation
Indices: 68098655--68098703 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
68098645 TAACACAAGA
68098655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68098697 AT AT AT A
1 AT AT AT A
68098704 AACATGAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:68101300 original size:29 final size:29
Alignment explanation
Indices: 68101267--68101325 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
68101257 GCAGTTTTAT
68101267 GATAGACGATGGCTGAAAGGGTTTTTGGA
1 GATAGACGATGGCTGAAAGGGTTTTTGGA
68101296 GATAGACGATGGCTGAAAGGGTTTTTGGA
1 GATAGACGATGGCTGAAAGGGTTTTTGGA
68101325 G
1 G
68101326 TTCTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (29 bp):
GATAGACGATGGCTGAAAGGGTTTTTGGA
Found at i:68101388 original size:25 final size:25
Alignment explanation
Indices: 68101360--68101410 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
68101350 TTATGCCTGA
68101360 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
68101385 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
68101410 T
1 T
68101411 ATGTAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (25 bp):
TTACATAATGATAATCAACAAATAC
Found at i:68104962 original size:14 final size:14
Alignment explanation
Indices: 68104938--68104978 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
68104928 ATGTTTTATG
68104938 TTTTATATTTATTTA
1 TTTTAT-TTTATTTA
68104953 TTTTATTTTATTTA
1 TTTTATTTTATTTA
68104967 -TTTATTATTATT
1 TTTTATT-TTATT
68104979 AACTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.24
14 13 0.52
15 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:68104966 original size:18 final size:19
Alignment explanation
Indices: 68104943--68104978 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
68104933 TTATGTTTTA
68104943 TATTTATTTATT-TTATTT
1 TATTTATTTATTATTATTT
68104961 TATTTATTTATTATTATT
1 TATTTATTTATTATTATT
68104979 AACTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTATTTATTATTATTT
Found at i:68105048 original size:18 final size:18
Alignment explanation
Indices: 68105025--68105064 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
68105015 TTATTAATAT
68105025 ATATTTTTAAAATTTTAA
1 ATATTTTTAAAATTTTAA
68105043 ATATTTTTAAAATTTTAA
1 ATATTTTTAAAATTTTAA
68105061 ATAT
1 ATAT
68105065 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTTTTAAAATTTTAA
Found at i:68105133 original size:9 final size:9
Alignment explanation
Indices: 68105116--68105207 Score: 59
Period size: 8 Copynumber: 10.0 Consensus size: 9
68105106 TAATAATATA
68105116 AAATA-TTT
1 AAATATTTT
68105124 AAATATTTT
1 AAATATTTT
*
68105133 AAA-CTTTT
1 AAATATTTT
68105141 AAAT-TTGTT
1 AAATATT-TT
*
68105150 -ATTAGTTTT
1 AAATA-TTTT
68105159 ATAATATTTT
1 A-AATATTTT
68105169 AAATATTATTT
1 AAATA-T-TTT
*
68105180 AATTTATTTT
1 AA-ATATTTT
68105190 ATAATATTTT
1 A-AATATTTT
68105200 AAA-ATTTT
1 AAATATTTT
68105208 TATATATACT
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
8 21 0.31
9 16 0.24
10 19 0.28
11 10 0.15
12 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (9 bp):
AAATATTTT
Found at i:68105206 original size:22 final size:21
Alignment explanation
Indices: 68105163--68105202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
68105153 AGTTTTATAA
*
68105163 TATTTTAAATATTATTTAATT
1 TATTTTAAATATTATTAAATT
68105184 TATTTTATAATATT-TTAAA
1 TATTTTA-AATATTATTAAA
68105203 ATTTTTATAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTAAATATTATTAAATT
Found at i:68111643 original size:4 final size:4
Alignment explanation
Indices: 68111634--68111741 Score: 67
Period size: 4 Copynumber: 27.0 Consensus size: 4
68111624 TAATTCTGGC
* * * * * *
68111634 ATTT ATTT ATTC ATCT ACTT GTTT ATTT A-TT CTTT ATTCC ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-TTT
* * * * * * *
68111683 ATTC ATTT ATCT GTTC ATTT ACTT ATTT ATTT ATAT A-TT ATTA ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
68111730 ATTT ATTT ATTT
1 ATTT ATTT ATTT
68111742 TTGTTTCAAT
Statistics
Matches: 74, Mismatches: 26, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
3 4 0.05
4 63 0.85
5 7 0.09
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Done.