Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 187 of 311
Found at i:64317503 original size:42 final size:42
Alignment explanation
Indices: 64317444--64317526 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
64317434 TAAGTATGCA
64317444 ATCGGCCTAAACATAGACATGCATGTTCGGCCACACGAATGG
1 ATCGGCCTAAACATAGACATGCATGTTCGGCCACACGAATGG
*
64317486 ATCGGCCTCAACATAGACATGCATGTTCGGCCACACGAATG
1 ATCGGCCTAAACATAGACATGCATGTTCGGCCACACGAATG
64317527 AATGCATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (42 bp):
ATCGGCCTAAACATAGACATGCATGTTCGGCCACACGAATGG
Found at i:64318229 original size:40 final size:40
Alignment explanation
Indices: 64318128--64318347 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
64318118 TATTCGAATG
* *
64318128 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * * * *
64318169 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
64318209 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
64318249 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
64318288 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
64318327 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
64318348 ATACTTGGGT
Statistics
Matches: 149, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 50 0.34
40 58 0.39
41 27 0.18
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:64318281 original size:39 final size:39
Alignment explanation
Indices: 64318128--64318347 Score: 219
Period size: 39 Copynumber: 5.5 Consensus size: 39
64318118 TATTCGAATG
*
64318128 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGTGACT
* * * *
64318169 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
* ** *
64318209 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGG-CTAAGTCCGAAGGCATTTGTGCTAGTGACT
* *
64318249 ATATCCGGGCTAAGTCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
* * * **
64318288 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
*
64318327 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGT-CCGAAG
64318348 ATACTTGGGT
Statistics
Matches: 147, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
38 12 0.08
39 53 0.36
40 51 0.35
41 30 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
Found at i:64318306 original size:79 final size:81
Alignment explanation
Indices: 64318128--64318311 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 81
64318118 TATTCGAATG
* * *
64318128 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
* * *
64318193 ATTTGTACGAGTTACT
66 ATTTATACGAGTGACC
* * *
64318209 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
* *
64318272 ATTTATGCTAGTGACC
66 ATTTATACGAGTGACC
64318288 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64318312 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 42 0.47
80 19 0.21
81 29 0.32
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATACGAGTGACC
Found at i:64326270 original size:40 final size:40
Alignment explanation
Indices: 64326169--64326389 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
64326159 TATTCGAATG
* * *
64326169 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
64326210 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
64326250 ATATCCGGGCCAAAACCCGAATGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
64326290 ATATCCGGGCTAAGTCCCGAAGGCATTTCTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
64326330 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
64326369 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
64326390 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 94 0.62
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:64329884 original size:16 final size:16
Alignment explanation
Indices: 64329859--64329891 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64329849 ACGGTATTCT
*
64329859 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
64329875 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
64329891 A
1 A
64329892 AGGAATAATA
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:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:64332635 original size:23 final size:23
Alignment explanation
Indices: 64332609--64332676 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
64332599 GATGGATTAT
64332609 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
64332632 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
64332660 ATTATACTAGTGTGTTT
1 ATTATTCTGGTGTGTTT
64332677 TGGTTGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 11 0.30
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.46
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:64332635 original size:28 final size:27
Alignment explanation
Indices: 64332582--64332665 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 27
64332572 CACTTTGTGC
64332582 TATTCTGGTGTGCTTTGGATGGATTATAT
1 TATTCTGGTGTG-TTTGGA-GGATTATAT
64332611 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTT-GGAGGATTATAT
* *
64332639 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
64332666 CTAGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:64336074 original size:23 final size:23
Alignment explanation
Indices: 64336047--64336097 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
64336037 AATTAAAGGA
*
64336047 TTAAATTTATATGTTTAAAATCC
1 TTAAATTTATACGTTTAAAATCC
64336070 TTAAATTTATACGTTTAAAATCC
1 TTAAATTTATACGTTTAAAATCC
*
64336093 CTAAA
1 TTAAA
64336098 GAGTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAAATTTATACGTTTAAAATCC
Found at i:64341746 original size:47 final size:47
Alignment explanation
Indices: 64341687--64341831 Score: 116
Period size: 47 Copynumber: 3.3 Consensus size: 47
64341677 AATGAATAAG
64341687 AATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGA
1 AATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGA
* ** *** *
64341734 AATTGAGAAATGG-ATTA-ATTTGGAAATGA--ATGAG--------GA
1 AATTAAGAAATGGAAAAACATTCAAAAATTATTATG-GTTTTCTCCGA
64341770 GAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGA
1 -AATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGA
*
64341818 AATTGAGAAATGGA
1 AATTAAGAAATGGA
64341832 TTAATTTGGA
Statistics
Matches: 69, Mismatches: 15, Indels: 28
0.62 0.13 0.25
Matches are distributed among these distances:
36 2 0.03
37 12 0.17
38 2 0.03
39 8 0.12
40 1 0.01
41 3 0.04
43 3 0.04
44 1 0.01
45 8 0.12
46 2 0.03
47 25 0.36
48 2 0.03
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.30
Consensus pattern (47 bp):
AATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGA
Found at i:64341774 original size:84 final size:84
Alignment explanation
Indices: 64341685--64341852 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
64341675 AGAATGAATA
64341685 AGAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGAAATTGAGAAATGGATT
1 AGAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGAAATTGAGAAATGGATT
64341750 AATTTGGAAATGAATGAGG
66 AATTTGGAAATGAATGAGG
64341769 AGAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGAAATTGAGAAATGGATT
1 AGAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGAAATTGAGAAATGGATT
64341834 AATTTGGAAATGAATGAGG
66 AATTTGGAAATGAATGAGG
64341853 TTTTCTCAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (84 bp):
AGAATTAAGAAATGGAAAAACATTCAAAAATTATTATGGTTTTCTCCGAAATTGAGAAATGGATT
AATTTGGAAATGAATGAGG
Found at i:64351000 original size:29 final size:29
Alignment explanation
Indices: 64350937--64351004 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
64350927 TAATCAACCA
64350937 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
64350966 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
64350995 CGCACACTTA
1 CGCACACTTA
64351005 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:64351145 original size:29 final size:30
Alignment explanation
Indices: 64351106--64351184 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
64351096 CTTAATAATC
64351106 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
64351136 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
64351165 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
64351185 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:64359152 original size:29 final size:29
Alignment explanation
Indices: 64359089--64359156 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
64359079 TAATCAACCA
64359089 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
64359118 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
64359147 CGCACACTTA
1 CGCACACTTA
64359157 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:64359297 original size:29 final size:30
Alignment explanation
Indices: 64359258--64359336 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
64359248 CTTAATAATC
64359258 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
64359288 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
64359317 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
64359337 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:64370024 original size:27 final size:27
Alignment explanation
Indices: 64369993--64370170 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64369983 TAAATTGTAC
*
64369993 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
64370020 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
64370046 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
64370074 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
64370101 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
64370129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
64370156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64370171 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:64370054 original size:54 final size:55
Alignment explanation
Indices: 64369993--64370170 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
64369983 TAAATTGTAC
* **
64369993 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
64370048 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
64370101 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
64370156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64370171 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:64371696 original size:28 final size:28
Alignment explanation
Indices: 64371656--64371865 Score: 395
Period size: 28 Copynumber: 7.5 Consensus size: 28
64371646 TAAAGATTAC
64371656 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
64371684 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
64371712 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
64371740 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
64371768 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
64371796 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
64371824 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
64371851 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64371866 GACTTAATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 24 0.13
28 155 0.87
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:64376120 original size:92 final size:93
Alignment explanation
Indices: 64375997--64376172 Score: 239
Period size: 92 Copynumber: 1.9 Consensus size: 93
64375987 TAGTATATCT
* * *
64375997 ATGCTGATGTCATGTCCCAGACATGGTCTTACACTGACACATC-T-CGTAGCTGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCATACGTAGCCGATGCATGTCCC
64376060 AGACATGTCTTACACTAGCACTCGTCTCA
65 AGACATGTCTTACACTAGCACTCGTCTCA
* * * * *
64376089 ATGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATTATGTAGCCGATGCATGTCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCA-TACGTAGCCGATGCATGTCCC
*
64376154 GGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
64376173 TCACACAAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.49
93 1 0.01
94 34 0.47
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATACGTAGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCGTCTCA
Found at i:64381922 original size:30 final size:32
Alignment explanation
Indices: 64381855--64381927 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
64381845 TATACTGGGT
* *
64381855 CCGAAGCCTTTGCATTATTCATGTCACTCGGG
1 CCGAAGCCTTTGCATTATTCATATCACTCGAG
*
64381887 CCGAAGCCTTTTCATTA-TCATATCACT-GAG
1 CCGAAGCCTTTGCATTATTCATATCACTCGAG
64381917 CCGAAGCCTTT
1 CCGAAGCCTTT
64381928 ACTGTAAACG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 13 0.34
31 9 0.24
32 16 0.42
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.32
Consensus pattern (32 bp):
CCGAAGCCTTTGCATTATTCATATCACTCGAG
Found at i:64382196 original size:25 final size:25
Alignment explanation
Indices: 64382164--64382227 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
64382154 CTAACTAGCT
*
64382164 GCAAAGCCCTTTTTGATAAACTGGG
1 GCAAAGCCCTTTTCGATAAACTGGG
*
64382189 GCAAAGCCCTTTTCGGTAAACTGGG
1 GCAAAGCCCTTTTCGATAAACTGGG
64382214 GCAAAAGCCCTTTT
1 GC-AAAGCCCTTTT
64382228 GCCCTTCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 25 0.69
26 11 0.31
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
GCAAAGCCCTTTTCGATAAACTGGG
Found at i:64389869 original size:30 final size:31
Alignment explanation
Indices: 64389799--64389881 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
64389789 TCAATCTCAA
64389799 CATAT-ACTGGGCTGAAGCCTTTGCATTATT
1 CATATCACTGGGCTGAAGCCTTTGCATTATT
* * *
64389829 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCTGAAGCCTTTGCATTATT
64389859 CATATCACTGGGCTGAAGCCTTT
1 CATATCACTGGGCTGAAGCCTTT
64389882 ACTGTAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 26 0.55
31 21 0.45
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTTGCATTATT
Found at i:64390172 original size:26 final size:25
Alignment explanation
Indices: 64390102--64390172 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
64390092 CTCTTTTAAT
* * *
64390102 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
64390127 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
64390152 AACTAGGGCAAAAGCCCTTTT
1 AACTAGGGC-AAAGCCCTTTT
64390173 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 31 0.74
26 11 0.26
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:64414373 original size:29 final size:29
Alignment explanation
Indices: 64414310--64414377 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
64414300 TAATCAACCA
64414310 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
64414339 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
64414368 CGCACACTTA
1 CGCACACTTA
64414378 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:64414489 original size:173 final size:173
Alignment explanation
Indices: 64414200--64414525 Score: 625
Period size: 173 Copynumber: 1.9 Consensus size: 173
64414190 AACTCAAGGT
*
64414200 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
*
64414265 GAAAATATATATTGGGTTGCACACATTATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
64414330 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
64414373 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
64414438 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
*
64414503 CTTTAAACTCGCACACTTAGTGC
131 CTTTAAACTCACACACTTAGTGC
64414526 TGTACAATTT
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:64414525 original size:29 final size:29
Alignment explanation
Indices: 64414478--64414556 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
64414468 TTTAGTAATC
* *
64414478 AACCACGCACACTTAGTGCCATGCACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* **
64414508 AACTCGCACACTTAGTGCTGTACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
64414537 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
64414557 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:64416694 original size:27 final size:27
Alignment explanation
Indices: 64416646--64416804 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
64416636 AGCGAGGCTG
* * *
64416646 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
64416673 CATATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
64416699 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
64416726 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
64416753 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
64416780 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
64416805 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.08
27 102 0.89
28 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:64416805 original size:54 final size:54
Alignment explanation
Indices: 64416646--64416807 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
64416636 AGCGAGGCTG
* * * * * *
64416646 CAGATAT-TGTGACAAAGTCACCAGAT-ACATATATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATA-ATTGTGGCATAGCCACCAGGA
64416699 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
64416753 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
64416807 C
1 C
64416808 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 7 0.07
54 90 0.89
55 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:64418400 original size:26 final size:26
Alignment explanation
Indices: 64418369--64418476 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
64418359 TGAAATGCCC
*
64418369 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
64418395 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
64418421 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
64418447 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64418473 ATCA
1 ATCA
64418477 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64429669 original size:93 final size:93
Alignment explanation
Indices: 64429556--64429727 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64429546 CGCCCATAAG
* *
64429556 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
64429621 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
64429649 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
64429714 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64429728 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64429724 original size:46 final size:46
Alignment explanation
Indices: 64429549--64429724 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
64429539 TGTAACCCGC
* * *
64429549 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
64429595 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64429645 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64429688 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64429725 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64437165 original size:46 final size:46
Alignment explanation
Indices: 64437098--64437226 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
64437088 TGTAACCCGC
* * * *
64437098 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64437144 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
64437190 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64437227 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64437245 original size:46 final size:45
Alignment explanation
Indices: 64437106--64437245 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
64437096 GCCCATAAGC
* ** * *
64437106 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
64437152 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
64437198 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
64437244 GA
1 GA
64437246 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:64444136 original size:27 final size:27
Alignment explanation
Indices: 64444105--64444164 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
64444095 GGGCCAATTT
64444105 GGCCCATGTGGGCCACACGGGTGTGTA
1 GGCCCATGTGGGCCACACGGGTGTGTA
64444132 GGCCCATGTGGGCCACACGGGTGTGTA
1 GGCCCATGTGGGCCACACGGGTGTGTA
64444159 GGCCCA
1 GGCCCA
64444165 CACCGGTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.40, T:0.17
Consensus pattern (27 bp):
GGCCCATGTGGGCCACACGGGTGTGTA
Found at i:64446835 original size:21 final size:21
Alignment explanation
Indices: 64446790--64446835 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64446780 CTAGGATGTG
*
64446790 AATTGAATTAAATTGAGTATG
1 AATTGAATTAAATTGAGTATA
*
64446811 AATTGGATTAAATTGACGT-TA
1 AATTGAATTAAATTGA-GTATA
64446832 AATT
1 AATT
64446836 CATTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (21 bp):
AATTGAATTAAATTGAGTATA
Found at i:64454018 original size:19 final size:19
Alignment explanation
Indices: 64453983--64454020 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64453973 TTGCAATTTA
*
64453983 AATTTTTAGTTTCTTTTCT
1 AATTTTTAGTTTATTTTCT
64454002 AATTTTTCA-TTTATTTTCT
1 AATTTTT-AGTTTATTTTCT
64454021 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTTTAGTTTATTTTCT
Found at i:64455708 original size:29 final size:29
Alignment explanation
Indices: 64455617--64455735 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
64455607 TACATACATG
*
64455617 CATATGGCCCACTAGGCCCAATT-TTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * *
64455645 CAAATGGCGCATCTA-GCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* *
64455674 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * *
64455703 GATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
64455732 -ATAT
1 CATAT
64455736 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 23 0.31
29 51 0.69
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:64457183 original size:8 final size:8
Alignment explanation
Indices: 64457170--64457203 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
64457160 AAAAATTCAA
64457170 GATTTTGG
1 GATTTTGG
64457178 GATTTTGG
1 GATTTTGG
64457186 GATTTTGG
1 GATTTTGG
64457194 GATTTCTGG
1 GATTT-TGG
64457203 G
1 G
64457204 GTGTTACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.12, C:0.03, G:0.38, T:0.47
Consensus pattern (8 bp):
GATTTTGG
Found at i:64473496 original size:15 final size:14
Alignment explanation
Indices: 64473476--64473505 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
64473466 GTTTACATTA
64473476 TGATAAGAAAGATTT
1 TGATAAGAAA-ATTT
64473491 TGATAAGAAAATTT
1 TGATAAGAAAATTT
64473505 T
1 T
64473506 ACCAATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (14 bp):
TGATAAGAAAATTT
Found at i:64474121 original size:44 final size:44
Alignment explanation
Indices: 64474072--64474158 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
64474062 AAAATTTCTT
*
64474072 ATTTTTATGAAATATATATGT-TGTAAATGTTATATGTAAAAATG
1 ATTTTTATGAAATATATAT-TCTATAAATGTTATATGTAAAAATG
* *
64474116 ATTTTTATGAAATATATGTTCTATAAATTTTATATGTAAAAAT
1 ATTTTTATGAAATATATATTCTATAAATGTTATATGTAAAAAT
64474159 CAGTTAAGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.47
Consensus pattern (44 bp):
ATTTTTATGAAATATATATTCTATAAATGTTATATGTAAAAATG
Found at i:64482376 original size:48 final size:47
Alignment explanation
Indices: 64482313--64482454 Score: 196
Period size: 48 Copynumber: 3.0 Consensus size: 47
64482303 CCATGGCAAT
64482313 ATATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
1 ATATGTGAT-CCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
* * *
64482361 ATATGTGATCTCATGTAAGACCATGTTTGGGACATGGCATTGGCATCG
1 ATATGTGATC-CATGTAAGACCATATCTGGGATATGGCATTGGCATCG
* *
64482409 ATATATGATCC-TGTATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATATGTGATCCATG--TAAGACCATATCTGGGATATGGCATTGGCAT
64482455 GTGATTTCGT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.02
47 2 0.02
48 79 0.95
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (47 bp):
ATATGTGATCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG
Found at i:64482470 original size:42 final size:42
Alignment explanation
Indices: 64482326--64482534 Score: 123
Period size: 42 Copynumber: 4.7 Consensus size: 42
64482316 TGTGATCCCA
* * *
64482326 TGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGTGATCTCA
1 TGTAAGACCATATCTGGGATATGGCATCGG---C---ATGTGATTTCG
* * * *
64482374 TGTAAGACCATGTTTGGGACATGGCATTGGCATCGAT-ATATGATCCTG
1 TGTAAGACCATATCTGGGATATGGCATCGGCAT-G-TGAT-T--T-C-G
*
64482422 TATAAGACCATATCTGGGATATGGCATCGGCATGTGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATGTGATTTCG
* ** * ** * *
64482464 TGTAAGACCATGTCTTAGACATGGCATCAACATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATGTGATTTCG
* * *
64482506 TGTAAGACCATAGCTGGGCTATGACATCG
1 TGTAAGACCATATCTGGGATATGGCATCG
64482535 TGACGACATG
Statistics
Matches: 126, Mismatches: 27, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
42 57 0.45
43 4 0.03
44 2 0.02
45 1 0.01
46 3 0.02
47 4 0.03
48 55 0.44
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGGCATGTGATTTCG
Found at i:64492243 original size:68 final size:68
Alignment explanation
Indices: 64492076--64492251 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
64492066 TAGTACCACC
* * * *
64492076 CATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
64492138 CACA
65 CACA
** * *
64492142 CATGTGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
64492204 ATCACA
63 ATCACA
*
64492210 CATGTGACCTAGCTACTACATAGTATCTCGTAGCTTTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTCGTAGCTCTCTTGT
64492252 ACACATGATG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
68 38 0.42
69 8 0.09
70 6 0.07
71 26 0.29
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:64495664 original size:30 final size:30
Alignment explanation
Indices: 64495630--64495690 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
64495620 TCCTTAACTC
64495630 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
64495660 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
64495690 A
1 A
64495691 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:64498706 original size:47 final size:46
Alignment explanation
Indices: 64498638--64498945 Score: 235
Period size: 47 Copynumber: 6.7 Consensus size: 46
64498628 TTTGTGCGCT
* *
64498638 AGTGTAAGACATGTTTGGGACAT-GCATCAGCCACATT-ATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCAC-TTGATGAGAGCC
* * **
64498684 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAGACGAGAGTT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCACTT--GATGAGAGCC
*
64498732 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCTTGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCACTTGATG-AGAGCC
* *
64498779 AGTGTAAGACATGTCTGGGACGT-GCATCGACCTCTTGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCACTTGATG-AGAGCC
* * * ** **
64498825 AGTGTAAGACATGTCTAGGACAT-GCATCG--GCTAG-TGATCTGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGCCACTTGATGA-GAGCC
* *
64498868 AGTGTAAGAGCATGTCTGGGACATGGCAT--CAACTTAGCGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGCCACTT-G-ATGAGAGCC
*
64498915 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
64498946 GCATTATACC
Statistics
Matches: 215, Mismatches: 28, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 13 0.06
44 13 0.06
45 8 0.04
46 60 0.28
47 92 0.43
48 24 0.11
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCACTTGATGAGAGCC
Found at i:64498791 original size:36 final size:37
Alignment explanation
Indices: 64498750--64498838 Score: 90
Period size: 46 Copynumber: 2.2 Consensus size: 37
64498740 ACATGTCTGG
64498750 GACATG-GCATCGACCTCTTGATGTAAGCCAGTGTAA
1 GACATGTGCATCGACCTCTTGATGTAAGCCAGTGTAA
64498786 GACATGTCTGGGACGTGCATCGACCTCTTGATGTAAGCCAGTGTAA
1 GACA----T-----GTGCATCGACCTCTTGATGTAAGCCAGTGTAA
64498832 GACATGT
1 GACATGT
64498839 CTAGGACATG
Statistics
Matches: 43, Mismatches: 0, Indels: 19
0.69 0.00 0.31
Matches are distributed among these distances:
36 4 0.09
37 2 0.05
40 1 0.02
42 1 0.02
45 1 0.02
46 34 0.79
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (37 bp):
GACATGTGCATCGACCTCTTGATGTAAGCCAGTGTAA
Found at i:64499849 original size:30 final size:30
Alignment explanation
Indices: 64499808--64499873 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
64499798 GATGGGCAGA
64499808 GACACGGCCGTGTGTCTCAGCCATGTGAAG
1 GACACGGCCGTGTGTCTCAGCCATGTGAAG
*
64499838 GACATGGCCGTGTGTCTCAGCCATGTGAAG
1 GACACGGCCGTGTGTCTCAGCCATGTGAAG
64499868 GACACG
1 GACACG
64499874 ACCTAGTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.20
Consensus pattern (30 bp):
GACACGGCCGTGTGTCTCAGCCATGTGAAG
Found at i:64506394 original size:47 final size:45
Alignment explanation
Indices: 64506327--64506449 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 45
64506317 TGTGCGCTAA
*
64506327 TGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-C-CATTGACGAGAGCCAG
* *
64506373 TGTAAGACAATGGCTGGGACATGGCATCGG-CATTGAGACGAGAGCTAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCCATT--GACGAGAGCCAG
64506421 TGTAAGACATGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
64506450 TACGTGATGT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 4 0.06
46 15 0.22
47 24 0.36
48 24 0.36
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCATTGACGAGAGCCAG
Found at i:64509563 original size:86 final size:86
Alignment explanation
Indices: 64509418--64509600 Score: 366
Period size: 86 Copynumber: 2.1 Consensus size: 86
64509408 TCTAGGACAC
64509418 GCCCGTGTCCCACACCCGTATGGAATTAAATTCTAATTCACACCTACAGGGGTTTTCACACGGCC
1 GCCCGTGTCCCACACCCGTATGGAATTAAATTCTAATTCACACCTACAGGGGTTTTCACACGGCC
64509483 AAACACATGCCCATGTCAATA
66 AAACACATGCCCATGTCAATA
64509504 GCCCGTGTCCCACACCCGTATGGAATTAAATTCTAATTCACACCTACAGGGGTTTTCACACGGCC
1 GCCCGTGTCCCACACCCGTATGGAATTAAATTCTAATTCACACCTACAGGGGTTTTCACACGGCC
64509569 AAACACATGCCCATGTCAATA
66 AAACACATGCCCATGTCAATA
64509590 GCCCGTGTCCC
1 GCCCGTGTCCC
64509601 CTACACGGCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 97 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (86 bp):
GCCCGTGTCCCACACCCGTATGGAATTAAATTCTAATTCACACCTACAGGGGTTTTCACACGGCC
AAACACATGCCCATGTCAATA
Found at i:64520678 original size:25 final size:25
Alignment explanation
Indices: 64520592--64520679 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 25
64520582 CCATTAGGCC
64520592 TCATCACATATATACACTTTCACAT
1 TCATCACATATATACACTTTCACAT
*
64520617 TCATCACATCGCCTATTAGGC-CTTATCACA-
1 TCATCACAT---ATA-TA--CACTT-TCACAT
64520647 T-ATCACATATATACACTTTCACAT
1 TCATCACATATATACACTTTCACAT
64520671 TCATCACAT
1 TCATCACAT
64520680 CGGCCATTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
23 6 0.12
24 4 0.08
25 18 0.35
26 2 0.04
28 2 0.04
29 9 0.18
30 4 0.08
31 6 0.12
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (25 bp):
TCATCACATATATACACTTTCACAT
Found at i:64520725 original size:49 final size:49
Alignment explanation
Indices: 64520497--64521005 Score: 760
Period size: 47 Copynumber: 10.6 Consensus size: 49
64520487 CCCTTCGGGA
* * * * *
64520497 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64520544 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64520591 CTCATCAC--ATATATACACTTTCACATTCATCACATC-GCCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
64520638 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--AT---ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520692 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
64520741 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520790 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520837 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64520884 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520933 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520980 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
64521006 CACAATTATC
Statistics
Matches: 430, Mismatches: 17, Indels: 30
0.90 0.04 0.06
Matches are distributed among these distances:
46 4 0.01
47 229 0.53
49 149 0.35
52 2 0.00
54 43 0.10
55 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64520821 original size:96 final size:94
Alignment explanation
Indices: 64520497--64521005 Score: 759
Period size: 96 Copynumber: 5.3 Consensus size: 94
64520487 CCCTTCGGGA
* * * * * * * *
64520497 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64520562 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
64520591 CTCATCACATATATACACTTTCACATTCATCACATC-GCCTATTAGGCCTTATCACATATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCC-ATTAGGCC---T----TATCACAT
64520655 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
58 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
64520692 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
64520757 ACACTTTCACATTCATCACATCGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
64520790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
64520855 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
64520884 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
64520949 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
64520980 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
64521006 CACAATTATC
Statistics
Matches: 384, Mismatches: 16, Indels: 30
0.89 0.04 0.07
Matches are distributed among these distances:
93 3 0.01
94 99 0.26
96 145 0.38
98 46 0.12
100 1 0.00
101 51 0.13
103 36 0.09
104 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:64521068 original size:143 final size:142
Alignment explanation
Indices: 64520497--64521005 Score: 736
Period size: 143 Copynumber: 3.5 Consensus size: 142
64520487 CCCTTCGGGA
* * * * * * * * *
64520497 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
64520562 TTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCACA
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT-ATCACA
* *
64520625 -TCGCCTATTAGGC
130 TTGGCC-ATTCGGC
64520638 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
64520703 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
59 TATATACA--TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
*
64520768 TTCATCACATCGGCCATTCGGC
122 TT-ATCACATTGGCCATTCGGC
*
64520790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
64520855 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT-ATCACA
64520920 TTGGCCATTCGGC
130 TTGGCCATTCGGC
64520933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
64520998 ATTCACAT
66 ATTCACAT
64521006 CACAATTATC
Statistics
Matches: 337, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
141 1 0.00
143 147 0.44
144 1 0.00
145 62 0.18
148 54 0.16
149 1 0.00
150 35 0.10
152 33 0.10
153 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTATCACAT
TGGCCATTCGGC
Found at i:64526160 original size:27 final size:27
Alignment explanation
Indices: 64525851--64526167 Score: 261
Period size: 27 Copynumber: 11.8 Consensus size: 27
64525841 ATACCCCTGG
* *
64525851 TTTGTAAAATTA-TCAAAATACCC-CTAG
1 TTTGTAAAATTACT-GAAATACCCTC-AA
** **
64525878 TTTGTAAAATTACCAAAATACCC-CTGG
1 TTTGTAAAATTACTGAAATACCCTC-AA
* * * *
64525905 TTTATAAAATTACCGAAATACCGTCGA
1 TTTGTAAAATTACTGAAATACCCTCAA
* *
64525932 -TTGTAAAATTACTAAAATACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCAA
* *
64525958 TTTCTAAAATTAGC-GAAATACCCTCAG
1 TTTGTAAAATTA-CTGAAATACCCTCAA
* * *
64525985 TTTGCAAAATTACTAAAATACCCTTAA
1 TTTGTAAAATTACTGAAATACCCTCAA
* *
64526012 TTTATAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCAA
* * *
64526039 CTTGTAAAATTAC-CAAAGTATTCC-CAA
1 TTTGTAAAATTACTGAAA-TA-CCCTCAA
* ** *
64526066 TTTATAAAATTACCCAAATATCCTCAA
1 TTTGTAAAATTACTGAAATACCCTCAA
* *
64526093 TTTGTAAAATTACCGAAATACCCTCAG
1 TTTGTAAAATTACTGAAATACCCTCAA
**
64526120 TTTGCCAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACTGAAATACCCTCAA
64526147 TTTGTAAAATTACTGAAATAC
1 TTTGTAAAATTACTGAAATAC
64526168 TCCTGTAAAA
Statistics
Matches: 240, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 29 0.12
27 203 0.85
28 8 0.03
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCTCAA
Found at i:64526209 original size:27 final size:27
Alignment explanation
Indices: 64526179--64526266 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
64526169 CCTGTAAAAT
64526179 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
64526206 AGAATTATCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
64526233 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
64526260 AAAATTA
1 AGAATTA
64526267 TTGAAATACC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:64526276 original size:27 final size:27
Alignment explanation
Indices: 64525856--64526385 Score: 130
Period size: 27 Copynumber: 19.7 Consensus size: 27
64525846 CCTGGTTTGT
* * **
64525856 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTATCGAAATACCCTCGA-TTTAC
* * * *
64525883 AAAATTACCAAAATACCC-CTGGTTTAT
1 AAAATTATCGAAATACCCTC-GATTTAC
* *
64525910 AAAATTACCGAAATACCGTCGATTGT--
1 AAAATTATCGAAATACCCTCGATT-TAC
*
64525936 AAAATTA-CTAAAATACCCTCGATTT-C
1 AAAATTATC-GAAATACCCTCGATTTAC
* *
64525962 TAAAATTAGCGAAATACCCTC-AGTTTGC
1 -AAAATTATCGAAATACCCTCGA-TTTAC
* ** *
64525990 AAAATTA-CTAAAATACCCTTAATTTAT
1 AAAATTATC-GAAATACCCTCGATTTAC
* **
64526017 AAAATTA-CTGAAATACCCTCGACTTGT
1 AAAATTATC-GAAATACCCTCGATTTAC
* * * *
64526044 AAAATTA-CCAAAGTATTCC-CAATTTAT
1 AAAATTATCGAAA-TA-CCCTCGATTTAC
* * * * **
64526071 AAAATTACCCAAATATCCTCAATTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* *
64526098 AAAATTACCGAAATACCCTC-AGTTTGC
1 AAAATTATCGAAATACCCTCGA-TTTAC
* * **
64526125 CAAATTA-CTGAAATACCCTCAATTTGT
1 AAAATTATC-GAAATACCCTCGATTTAC
* *
64526152 AAAATTA-CTGAAATACTCCT-G--TAAA
1 AAAATTATC-GAAATAC-CCTCGATTTAC
* **
64526177 ATAGAATTA-CCATTTTACCCTCGATTTAC
1 A-A-AATTATCGA-AATACCCTCGATTTAC
* ***
64526206 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTATCGAAATACCCTCGATTTAC
* * **
64526233 AGAATTA-CCATTTTACCCTCGATTTAC
1 AAAATTATCGA-AATACCCTCGATTTAC
* * *
64526260 AAAATTATTGAAATACCCTTGGTTTAC
1 AAAATTATCGAAATACCCTCGATTTAC
* * ** *
64526287 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTATCGAAATACCCTCGATTTAC
* * * *
64526314 AAAATTACCAAAATACCC-CTAGTTTAT
1 AAAATTATCGAAATACCCTCGA-TTTAC
* * **
64526341 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTATCGAAATACCCTC-GATTTAC
* *
64526368 GAAATTACCGAAATACCC
1 AAAATTATCGAAATACCC
64526386 CTGTAGAGTA
Statistics
Matches: 406, Mismatches: 67, Indels: 60
0.76 0.13 0.11
Matches are distributed among these distances:
25 4 0.01
26 38 0.09
27 342 0.84
28 19 0.05
29 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTAC
Found at i:64526355 original size:81 final size:81
Alignment explanation
Indices: 64525830--64526385 Score: 326
Period size: 81 Copynumber: 6.9 Consensus size: 81
64525820 TTACTTTACC
* * * * * *
64525830 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGA-TTTGCAAAATTACCGA
*
64525894 AATACCC-CTGGTTTATA
65 AATACCCTC-GATTTATA
* * * * * * *
64525911 AAATTACCGAAATA-CCGTCGATTGTAAAATTACTAAAATACCCTCGATTT-CTAAAATTAGCGA
1 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGC-AAAATTACCGA
**
64525974 AATACCCTC-AGTTTGCA
65 AATACCCTCGA-TTTATA
* * * ** * *
64525991 AAATTACTAAAATACCCTTAATTTATAAAATTACTGAAATACCCTCGACTTGTAAAATTACC-AA
1 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGAA
* *
64526055 AGTATTCC-CAATTTATA
66 A-TA-CCCTCGATTTATA
* * * * * * *
64526072 AAATTACCCAAATA-TCCTCAATTTGTAAAATTACCGAAATACCCTC-AGTTTGCCAAATTACTG
1 AAATTACCAAAATACCCCT-AGTTTATAAAATTACCAAAATACCCTCGA-TTTGCAAAATTACCG
* *
64526135 AAATACCCTCAATTTGTA
64 AAATACCCTCGATTTATA
** * ** * *** * * * *
64526153 AAATTACTGAAATACTCCT-GTAAAATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGT
1 AAATTACCAAAATACCCCTAGT-TTATAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGA
** *
64526217 TTTACCCTCGATTTACA
65 AATACCCTCGATTTATA
* *** * * *** * * * *
64526234 GAATTACCATTTTA-CCCTCGATTTACAAAATTATTGAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCCTAG-TTTATAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGA
**
64526298 AATACCCTCGATCAATA
65 AATACCCTCGATTTATA
**
64526315 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCC-CTGATTTGTGAAATTACCGA
1 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTC-GATTTGCAAAATTACCGA
64526379 AATACCC
65 AATACCC
64526386 CTGTAGAGTA
Statistics
Matches: 351, Mismatches: 104, Indels: 40
0.71 0.21 0.08
Matches are distributed among these distances:
80 71 0.20
81 263 0.75
82 17 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGAA
ATACCCTCGATTTATA
Found at i:64526386 original size:27 final size:26
Alignment explanation
Indices: 64526315--64526493 Score: 128
Period size: 27 Copynumber: 6.7 Consensus size: 26
64526305 TCGATCAATA
* * *
64526315 AAATTACCAAAATACCCCTAGT-TTAT
1 AAATTACCGAAATACCCCT-GTAGTGT
* *
64526341 AAAATTACCAAAATACCCCTG-ATTTGT
1 -AAATTACCGAAATACCCCTGTA-GTGT
*
64526368 GAAATTACCGAAATACCCCTGTAGAGT
1 -AAATTACCGAAATACCCCTGTAGTGT
*
64526395 AGAATTACCGAAATACCCCTGTAGGGT
1 A-AATTACCGAAATACCCCTGTAGTGT
* *
64526422 AGAATTACCGAAATACCCCTATAGGGT
1 A-AATTACCGAAATACCCCTGTAGTGT
** * * *
64526449 AGAATTACTAAAATACTCTTGTAGGGT
1 A-AATTACCGAAATACCCCTGTAGTGT
* *
64526476 GGAATTACCGAGATACCC
1 -AAATTACCGAAATACCC
64526494 TTGTGGGGCA
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 127 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (26 bp):
AAATTACCGAAATACCCCTGTAGTGT
Found at i:64526386 original size:54 final size:54
Alignment explanation
Indices: 64525830--64526387 Score: 362
Period size: 54 Copynumber: 10.4 Consensus size: 54
64525820 TTACTTTACC
* * * * *
64525830 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGA-TTTGTA
* * * *
64525884 AAATTACCAAAATACCCCTGGTTTATAAAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGTA
** * * * * *
64525937 AAATTACTAAAATA-CCCTCGATTTCTAAAATTAGCGAAATACCCTC-AGTTTGCA
1 AAATTACCGAAATACCCCTAG-TTTATAAAATTACCAAAATACCCTCGA-TTTGTA
** * * ** *
64525991 AAATTACTAAAATACCCTTAATTTATAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGTA
* * * * *
64526045 AAATTACC-AAAGTATTCCC-AATTTATAAAATTACCCAAATATCCTCAATTTGTA
1 AAATTACCGAAA-TA-CCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGTA
*** ** *
64526099 AAATTACCGAAATA-CCCTCAGTTTGCCAAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-AGTTTATAAAATTACCAAAATACCCTCGATTTGTA
* * ** * *** **
64526153 AAATTACTGAAATACTCCT-GTAAAATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCCTAGT-TTATAAAATTACCAAAATACCCTCGATTTGTA
* * *** * * * *** **
64526207 GAATTATCGTTTTA-CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCCTAG-TTTATAAAATTACCAAAATACCCTCGATTTGTA
** * * * ***
64526261 AAATTATTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATA
1 AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGTA
* *
64526315 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTC-GATTTGTA
64526369 AAATTACCGAAATACCCCT
1 AAATTACCGAAATACCCCT
64526388 GTAGAGTAGA
Statistics
Matches: 402, Mismatches: 85, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
52 9 0.02
53 49 0.12
54 325 0.81
55 19 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCGATTTGTA
Found at i:64526401 original size:54 final size:54
Alignment explanation
Indices: 64526289--64526464 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 54
64526279 TGGTTTACAA
* * * * ** *
64526289 AATTACCAAAATA-CCCTCGATCAATAAAATTACCAAAATACCCCTAGTTTA-TAA
1 AATTACCAAAATACCCCT-GATTAGTGAAATTACCGAAATACCCCT-GTAGAGTAG
*
64526343 AATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCCTGTAGAGTAG
1 AATTACCAAAATACCCCTGATTAGTGAAATTACCGAAATACCCCTGTAGAGTAG
* * * *
64526397 AATTACCGAAATACCCCTG--TAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGATTAGTG-A-AATTACCGAAATACCCCTGTAGAGTAG
*
64526451 AATTACTAAAATAC
1 AATTACCAAAATAC
64526465 TCTTGTAGGG
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.03
53 4 0.04
54 92 0.89
55 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTAGTGAAATTACCGAAATACCCCTGTAGAGTAG
Found at i:64526472 original size:54 final size:54
Alignment explanation
Indices: 64526316--64526493 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
64526306 CGATCAATAA
* ** * **
64526316 AATTACCAAAATACCCCTAGTTTA-TAAAATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCTA-TAGAGTAGAATTACCAAAATACCCCTGTA-GGGTAG
* *
64526369 AAATTACCGAAATACCCCTGTAGAGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 -AATTACCGAAATACCCCTATAGAGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
64526424 AATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATACTCTTGTAGGGTGG
1 AATTACCGAAATACCCCTATAGAGTAGAATTACCAAAATACCCCTGTAGGGTAG
*
64526478 AATTACCGAGATACCC
1 AATTACCGAAATACCC
64526494 TTGTGGGGCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 101 0.96
55 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTATAGAGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:64526496 original size:27 final size:27
Alignment explanation
Indices: 64526370--64526511 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
64526360 TGATTTGTGA
*
64526370 AATTACCGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
64526397 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64526424 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
64526451 AATTACTAAAATACTCTTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
64526478 AATTACCGAGATACCCTTGTGGGGCAA
1 AATTACCGAAATACCCCTGTAGGGTAG
64526505 AATTACC
1 AATTACC
64526512 ATTTTACCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:64526990 original size:22 final size:22
Alignment explanation
Indices: 64526938--64527002 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
64526928 TTAAAGCCTT
* *
64526938 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
* *
64526960 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
64526982 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
64527003 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:64527216 original size:27 final size:27
Alignment explanation
Indices: 64527168--64527262 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
64527158 TAAGTGCCTT
* * * * *
64527168 TGCCACATTATCTATTTTTGGTGACTA
1 TGCCACAATATCTGTATCTGGTGACTC
*
64527195 TGCCACAAATATCTGT-TCTGGTGGCTC
1 TGCCAC-AATATCTGTATCTGGTGACTC
*
64527222 TGCCACAATAGCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
64527249 TGTCACAATATCTG
1 TGCCACAATATCTG
64527263 ATAACTGAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.14
27 42 0.74
28 7 0.12
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:64527439 original size:6 final size:6
Alignment explanation
Indices: 64527428--64527518 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
64527418 TTACCTGGTA
* * *
64527428 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT TTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* * * *
64527477 CTG-TCAC CTAATT TTGATT CTGATC CTGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
64527519 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
5 4 0.06
6 51 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:64527445 original size:31 final size:31
Alignment explanation
Indices: 64527399--64527509 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
64527389 TTGCATTCAC
*
64527399 ATTCTGATTTTTGATTCTGTTACCTGGTACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
64527431 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * **
64527462 ATTTTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
**
64527493 ATTCTGATCCTGATTCT
1 ATTCTGATTTTGATTCT
64527510 AGTTCTGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 63 0.90
32 7 0.10
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:64528253 original size:38 final size:38
Alignment explanation
Indices: 64528209--64528286 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
64528199 CACTATGAAC
*
64528209 CTAATTTCAAAATCCAAATCAAACTCTTGATTCACTAA
1 CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
*
64528247 CTAATTTCAGAATCCAAATCAAACTCTCGATTCACTAA
1 CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
64528285 CT
1 CT
64528287 CGATTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.31
Consensus pattern (38 bp):
CTAATTTCAAAATCCAAATCAAACTCTCGATTCACTAA
Found at i:64533697 original size:11 final size:11
Alignment explanation
Indices: 64533681--64533705 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64533671 AATTTGTATA
64533681 AAAAATAAAAT
1 AAAAATAAAAT
64533692 AAAAATAAAAT
1 AAAAATAAAAT
64533703 AAA
1 AAA
64533706 GAACACATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:64534759 original size:69 final size:69
Alignment explanation
Indices: 64534531--64534753 Score: 344
Period size: 69 Copynumber: 3.3 Consensus size: 69
64534521 TTATTATATC
* * *
64534531 GTGTTTTAGTTTATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTTGGACATAAT
1 GTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGACATAAT
64534596 TATA
66 TATA
*
64534600 GTGTTTAAGTTGATTTAATGTGCTGTTATGATATGG---ATTGGCTGTCCGAATTACGACATAAT
1 GTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGACATAAT
64534662 TATA
66 TATA
* * * *
64534666 GTGTTTAAGTTGATTTAATGTGCTGCTATGATATGGATTATTAGCTGTCCGAAGTAGGACATATT
1 GTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGACATAAT
64534731 TATA
66 TATA
64534735 GTGTTTAAGTTGAATTTAA
1 GTGTTTAAGTTG-ATTTAA
64534754 ATGCTGTACA
Statistics
Matches: 141, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
66 63 0.45
69 72 0.51
70 6 0.04
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (69 bp):
GTGTTTAAGTTGATTTAATGTGCTGTTATGATATGGATTATTGGCTGTCCGAATTAGGACATAAT
TATA
Found at i:64538482 original size:24 final size:23
Alignment explanation
Indices: 64538420--64538476 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
64538410 TAAAATATTT
* *
64538420 AAATACTTTTTAATT-TCTAAAA
1 AAATAATTTTTAATTAACTAAAA
*
64538442 AAATAATTTTTAATTAACTAACA
1 AAATAATTTTTAATTAACTAAAA
64538465 AAAT-ATTTTTAA
1 AAATAATTTTTAA
64538477 AATTAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATTTTTAATTAACTAAAA
Found at i:64541135 original size:18 final size:19
Alignment explanation
Indices: 64541108--64541150 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
64541098 ATTGAACATT
*
64541108 ATTATATATTTA-AAATAA
1 ATTATTTATTTATAAATAA
*
64541126 TTTATTTATTTATAAATAA
1 ATTATTTATTTATAAATAA
64541145 ATTATT
1 ATTATT
64541151 GTAATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATTTATTTATAAATAA
Found at i:64541147 original size:20 final size:18
Alignment explanation
Indices: 64541109--64541149 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64541099 TTGAACATTA
64541109 TTATATATTTAAAATAAT
1 TTATATATTTAAAATAAT
* *
64541127 TTATTTATTTATAAATAAA
1 TTATATATTTA-AAATAAT
64541146 TTAT
1 TTAT
64541150 TGTAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATATATTTAAAATAAT
Found at i:64541181 original size:16 final size:17
Alignment explanation
Indices: 64541160--64541201 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
64541150 TGTAATATAT
64541160 ATATAAATATT-TTAAA
1 ATATAAATATTATTAAA
*
64541176 ATATAAAT-TTATTAAT
1 ATATAAATATTATTAAA
64541192 ATATATAATA
1 ATATA-AATA
64541202 AACTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAAATATTATTAAA
Found at i:64541352 original size:20 final size:19
Alignment explanation
Indices: 64541313--64541350 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64541303 TCTAAATATC
*
64541313 AAAAAAATAAATTATTTTT
1 AAAAAAATAAATCATTTTT
64541332 AAAAAAATAAATCATTTTT
1 AAAAAAATAAATCATTTTT
64541351 TAGAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAAAATAAATCATTTTT
Found at i:64542307 original size:22 final size:22
Alignment explanation
Indices: 64542279--64542325 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
64542269 TTAAGGGCCT
64542279 AAGAAACTTTCTGATACCCTCA
1 AAGAAACTTTCTGATACCCTCA
64542301 AAGAAACTTTCTGATACCCTCA
1 AAGAAACTTTCTGATACCCTCA
64542323 AAG
1 AAG
64542326 CAGCACCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.26
Consensus pattern (22 bp):
AAGAAACTTTCTGATACCCTCA
Found at i:64545810 original size:21 final size:20
Alignment explanation
Indices: 64545782--64545826 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
64545772 AAAAAATAAT
64545782 AGTTGTGATGAGATATTGGC
1 AGTTGTGATGAGATATTGGC
64545802 AGTTCGTGATGAGATATTGGC
1 AGTT-GTGATGAGATATTGGC
64545823 AGTT
1 AGTT
64545827 TATGATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.24, C:0.07, G:0.33, T:0.36
Consensus pattern (20 bp):
AGTTGTGATGAGATATTGGC
Found at i:64545832 original size:21 final size:21
Alignment explanation
Indices: 64545787--64545833 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
64545777 ATAATAGTTG
*
64545787 TGATGAGATATTGGCAGTTCG
1 TGATGAGATATTGGCAGTTCA
*
64545808 TGATGAGATATTGGCAGTTTA
1 TGATGAGATATTGGCAGTTCA
64545829 TGATG
1 TGATG
64545834 GATTGAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.36
Consensus pattern (21 bp):
TGATGAGATATTGGCAGTTCA
Found at i:64553331 original size:24 final size:24
Alignment explanation
Indices: 64553302--64553350 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
64553292 GCTTTACTGG
*
64553302 TGGCATGGTATGAAATGAGACATT
1 TGGCATGGTATGAAACGAGACATT
64553326 TGGCATGGTATGAAACGAGACATT
1 TGGCATGGTATGAAACGAGACATT
64553350 T
1 T
64553351 CTAACTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (24 bp):
TGGCATGGTATGAAACGAGACATT
Found at i:64555358 original size:38 final size:38
Alignment explanation
Indices: 64555302--64555385 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
64555292 ATACATATGT
*
64555302 CATGACATAGGATTCTGACATCTGTGTTCGAGTATAAC
1 CATGGCATAGGATTCTGACATCTGTGTTCGAGTATAAC
64555340 CATGGCATAGGATTCTGACATCTGTGTTCGAGTATAAC
1 CATGGCATAGGATTCTGACATCTGTGTTCGAGTATAAC
64555378 CATGGCAT
1 CATGGCAT
64555386 TGATATGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (38 bp):
CATGGCATAGGATTCTGACATCTGTGTTCGAGTATAAC
Found at i:64558887 original size:26 final size:27
Alignment explanation
Indices: 64558851--64558911 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
64558841 GGAAATCAGA
64558851 AACCACCA-CCCCTCCAGGCTTTTAGC
1 AACCACCACCCCCTCCAGGCTTTTAGC
64558877 AACCACCACCCCCTCCAGGCTTTTAGC
1 AACCACCACCCCCTCCAGGCTTTTAGC
64558904 AACCACCA
1 AACCACCA
64558912 TACCAGCAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.26, C:0.48, G:0.10, T:0.16
Consensus pattern (27 bp):
AACCACCACCCCCTCCAGGCTTTTAGC
Found at i:64572432 original size:32 final size:32
Alignment explanation
Indices: 64572396--64572460 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
64572386 CTACAACTGT
64572396 CGGAGTATCCTCCTCCACTCTCAAACCAATCA
1 CGGAGTATCCTCCTCCACTCTCAAACCAATCA
64572428 CGGAGTATCCTCCTCCACTCTCAAACCAATCA
1 CGGAGTATCCTCCTCCACTCTCAAACCAATCA
64572460 C
1 C
64572461 TCTCCAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.42, G:0.09, T:0.22
Consensus pattern (32 bp):
CGGAGTATCCTCCTCCACTCTCAAACCAATCA
Found at i:64576713 original size:280 final size:280
Alignment explanation
Indices: 64576212--64576736 Score: 863
Period size: 280 Copynumber: 1.9 Consensus size: 280
64576202 TGGGGGTATT
*
64576212 TGATAAACCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTTATGGATGAATTTTCCT
1 TGATAAACCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTTATGGATGAATTTCCCT
* * *
64576277 TAGAATTGGTGAATTCGATGCTCCTAATGCCTTAATTTCATATTTTATACTTAGGCGAGCATAGG
66 TAGAATTGGTGAATTCGATGCTCCTAATGCCTTAATTTAATATTTTATACTTAGGAGAGCATAAG
* * * * *
64576342 AGAGCGAAAGGAACGAGAAACGGGCCAAAAACGGAGAAAATGGGCCAATGTACGAAATTAACATA
131 AGAGCGAAAGGAACGAGAAACGAGCCAAAAACGGAGAAAATGGGCCAAAGTACAAAATCAACACA
* * *
64576407 GCCTGTACCTCCTCACACGGGCAGACCACACGGCTGTGTCTATTTGGCAGAATCGAAGAACGACT
196 GCCTGAACCTCCTCACACGGGCAGACCACACGACTGTGTCAATTTGGCAGAATCGAAGAACGACT
64576472 CATACGGGTATATTACACGC
261 CATACGGGTATATTACACGC
* *
64576492 TGATAAACCGTAATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATG-ATTTCCCA
1 TGATAAACCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTTATGGATGAATTTCCC-
* *
64576556 TTAGAATTGGTGAATTCGATGCTCCTAATGCTTTAATTTAATTTTTTATACTTAGGAGAGCATAA
65 TTAGAATTGGTGAATTCGATGCTCCTAATGCCTTAATTTAATATTTTATACTTAGGAGAGCATAA
*
64576621 GAGAGCGAAAGGAATGAGAAACGAGCCAAAAACGGAGAAAATGGGCCAAAGTACAAAATCAACAC
130 GAGAGCGAAAGGAACGAGAAACGAGCCAAAAACGGAGAAAATGGGCCAAAGTACAAAATCAACAC
* *
64576686 GGTCTGAACCTCCTCACACGGGCAGACCACACGACTGTGTCAATTTGGCAG
195 AGCCTGAACCTCCTCACACGGGCAGACCACACGACTGTGTCAATTTGGCAG
64576737 GCTCGAGCAC
Statistics
Matches: 225, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
279 6 0.03
280 219 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (280 bp):
TGATAAACCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTTATGGATGAATTTCCCT
TAGAATTGGTGAATTCGATGCTCCTAATGCCTTAATTTAATATTTTATACTTAGGAGAGCATAAG
AGAGCGAAAGGAACGAGAAACGAGCCAAAAACGGAGAAAATGGGCCAAAGTACAAAATCAACACA
GCCTGAACCTCCTCACACGGGCAGACCACACGACTGTGTCAATTTGGCAGAATCGAAGAACGACT
CATACGGGTATATTACACGC
Found at i:64593088 original size:84 final size:84
Alignment explanation
Indices: 64592912--64593935 Score: 1010
Period size: 84 Copynumber: 12.1 Consensus size: 84
64592902 TTAAATCAAC
* ** * * * **
64592912 ATAAAAT-ATGTTAAACGGCAAGAATAAATCCCAAAACATAAGTTT-TTT-A-TTAAGTCTTTGT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACA-GATTTTATTTAATTTAATTC-TAAT
* *
64592973 TTGGAAA-TAAATCAATATCGA
64 TTGGAAACAAAAT-AAAATCGA
* * *
64592994 ATAAAATCTTGTTAAGCGGTGGGAATAAATCCCAAAATAGATTTTATTTAATTTAATTCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
*
64593059 GGAAACAAAATAAAATTGA
66 GGAAACAAAATAAAATCGA
* * * *
64593078 ATAAAATCTTGTTAAGCAGCGGGAATAAATCTCGAAACAGATTTTATTTAATTTAATTCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
64593143 GGAAACAAAATAAAATCGA
66 GGAAACAAAATAAAATCGA
* *
64593162 ATAAAATCTTGTTAAATGGCAGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
64593227 GGAAACAAAATAAAATCGA
66 GGAAACAAAATAAAATCGA
* * * * * * *
64593246 ATAAAATCTTATTAAACGACGAGAATAAATCTCGAAATAAATTTTATTTAATTTAATTCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
*
64593311 AGAAACAAAATAAAATCGA
66 GGAAACAAAATAAAATCGA
** * * * * *
64593330 ATAAAATCTTGTTAATTGGCGGCAATAAATCTCGAAATAGA-TTTATTTAATTTAATTCTAGTTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
* *
64593394 TGAAAAAAAATAAAATCGA
66 GGAAACAAAATAAAATCGA
* * * * * * *
64593413 ATAAAATATTGTTAAATGGTGGGAATAAAT-CGAGAAGCAGACTTTATTTAATTTAATTTTAATT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCA-AAACAGATTTTATTTAATTTAATTCTAATT
* *
64593477 TCGAAACAAAATCAAATCGA
65 TGGAAACAAAATAAAATCGA
* * ** * * *
64593497 ATAAAATCTTGTTAAACGGTGAGAATAAATCCTGAAATAAATTTTATTTAATTTAATCCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
*
64593562 GGAAACAAAATCAAATCGA
66 GGAAACAAAATAAAATCGA
*
64593581 ATAAAATCTTGTTAAACGGTGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
*
64593646 GGAATCAAAATAAAATCGA
66 GGAAACAAAATAAAATCGA
* * * * * **
64593665 ATAAAATCTTGTTAAACTGCGGGAATAAATCTCGAAACAGATTTTATTTGATTTTAGTTTCTCGT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTT-AATTTA-ATTCT-AA
* *
64593730 TTTGGCAACAAAATCAAAAT-GTG
63 TTTGGAAACAAAAT-AAAATCG-A
** * * * * *
64593753 ATAAAATC-AATTGAACGG-GTAAGAATAAATCTCAAAATAGATTTTATTTAACTTTAATTTCTC
1 ATAAAATCTTGTTAAACGGCG--GGAATAAATCCCAAAACAGATTTTATTTAA-TTTAA-TTCTA
* * * ** *
64593816 GTTTGAAAATAAAATCAAAAAAAGG
62 ATTTGGAAACAAAAT--AAAATCGA
** * * * * *
64593841 A-AAAATC-CATTGAACGGCGGGAATAAATCCTAAAACAAATTTTAATTTAATTTTAATACTCAT
1 ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTT-ATTTAA-TTTAATTCT-AA
*
64593904 TTTGGAAACAAAATTAAAATTGGA
63 TTTGGAAACAAAA-TAAAA-TCGA
64593928 ATAAAATC
1 ATAAAATC
64593936 CGTTGAAAAA
Statistics
Matches: 795, Mismatches: 122, Indels: 44
0.83 0.13 0.05
Matches are distributed among these distances:
82 11 0.01
83 98 0.12
84 508 0.64
85 16 0.02
86 31 0.04
87 70 0.09
88 60 0.08
89 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (84 bp):
ATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
GGAAACAAAATAAAATCGA
Found at i:64593543 original size:335 final size:336
Alignment explanation
Indices: 64592989--64593718 Score: 1036
Period size: 335 Copynumber: 2.2 Consensus size: 336
64592979 ATAAATCAAT
* * *
64592989 ATCGAATAAAATCTTGTTAAGC-GGTGGGAATAAATCCCAAAATAGATTTTATTTAATTTAATTC
1 ATCGAATAAAATCTTGTTAA-CTGGCGGGAATAAATCTCGAAATAGATTTTATTTAATTTAATTC
* * * * **
64593053 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAGCAGCGGGAATAAATCTCGAAACAG
65 TAATTTGGAAAAAAAATAAAATCGAATAAAATATTGTTAAACAGCGGGAATAAATCGAGAAACAG
* * *
64593118 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAATGGCA
130 ACTTTATTTAATTTAATTCTAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCA
* *
64593183 GGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCGAAT
195 GGAATAAATCCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAAT
* * *
64593248 AAAATCTTATTAAACGACGAGAATAAATCTCGAAATAAATTTTATTTAATTTAATTCTAATTTAG
260 AAAATCTTATTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTAG
64593313 AAACAAAATAAA
325 AAACAAAATAAA
* *
64593325 ATCGAATAAAATCTTGTTAATTGGCGGCAATAAATCTCGAAATAGA-TTTATTTAATTTAATTCT
1 ATCGAATAAAATCTTGTTAACTGGCGGGAATAAATCTCGAAATAGATTTTATTTAATTTAATTCT
* * ** * *
64593389 AGTTTTGAAAAAAAATAAAATCGAATAAAATATTGTTAAATGGTGGGAATAAATCGAGAAGCAGA
66 AATTTGGAAAAAAAATAAAATCGAATAAAATATTGTTAAACAGCGGGAATAAATCGAGAAACAGA
* * *
64593454 CTTTATTTAATTTAATTTTAATTTCGAAACAAAATCAAATCGAATAAAATCTTGTTAAACGG-TG
131 CTTTATTTAATTTAATTCTAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCAG
** * *
64593518 AGAATAAATCCTGAAATAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATCAAATCGAAT
196 -GAATAAATCCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAAT
* ** * * *
64593583 AAAATCTTGTTAAACGGTGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTTGG
260 AAAATCTTATTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTAG
*
64593648 AATCAAAATAAA
325 AAACAAAATAAA
* *
64593660 ATCGAATAAAATCTTGTTAAACT-GCGGGAATAAATCTCGAAACAGATTTTATTTGATTT
1 ATCGAATAAAATCTTGTT-AACTGGCGGGAATAAATCTCGAAATAGATTTTATTTAATTT
64593719 TAGTTTCTCG
Statistics
Matches: 347, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
334 1 0.00
335 292 0.84
336 54 0.16
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (336 bp):
ATCGAATAAAATCTTGTTAACTGGCGGGAATAAATCTCGAAATAGATTTTATTTAATTTAATTCT
AATTTGGAAAAAAAATAAAATCGAATAAAATATTGTTAAACAGCGGGAATAAATCGAGAAACAGA
CTTTATTTAATTTAATTCTAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCAG
GAATAAATCCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAATA
AAATCTTATTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTAGA
AACAAAATAAA
Found at i:64593811 original size:335 final size:328
Alignment explanation
Indices: 64592989--64593813 Score: 881
Period size: 335 Copynumber: 2.4 Consensus size: 328
64592979 ATAAATCAAT
* * * * *
64592989 ATCGAATAAAATCTTGTTAAGC-GGTGGGAATAAATCCCAAAATAGATTTTATTTAATTTAATTC
1 ATCGAATAAAATCTTGTTAA-CTGGCGGCAATAAATCTCGAAACAGA-TTTATTTAATTTAATTC
* * * * * * * ***
64593053 TAATTTGGAAACAAAATAAAATTGAATAAAATCTTGTTAAGCAGCGGGAATAAATCTC-GAAACA
64 TAGTTTTGAAAAAAAATAAAATCGAATAAAATATTGTAAAG-GGTAAGAATAAATC-CAGAAACA
* *
64593117 GATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAATGGC
127 GA---T-TTT-ATTTAATT-TAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGC
* *
64593182 AGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCGAA
186 AGGAATAAATCCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAA
* * *
64593247 TAAAATCTTATTAAACGACGAGAATAAATCTCGAAATAAATTTTATTTAATTTAATTCTAATTTA
251 TAAAATCTTATTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTA
64593312 GAAACAAAATAAA
316 GAAACAAAATAAA
* *
64593325 ATCGAATAAAATCTTGTTAATTGGCGGCAATAAATCTCGAAATAGATTTATTTAATTTAATTCTA
1 ATCGAATAAAATCTTGTTAACTGGCGGCAATAAATCTCGAAACAGATTTATTTAATTTAATTCTA
* ** * *
64593390 GTTTTGAAAAAAAATAAAATCGAATAAAATATTGTTAAATGGTGGGAATAAATCGAGAAGCAGAC
66 GTTTTGAAAAAAAATAAAATCGAATAAAATATTG-TAAAGGGTAAGAATAAATCCAGAAACAGA-
* *
64593455 TTTATTTAATTTAATTTTAATTTCGAAACAAAATCAAATCGAATAAAATCTTGTTAAACGG-TGA
129 --T-TTT-ATTTAA-TTTAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCAG-
** * *
64593519 GAATAAATCCTGAAATAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATCAAATCGAATA
188 GAATAAATCCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAATA
* ** * * *
64593584 AAATCTTGTTAAACGGTGGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTTGGA
253 AAATCTTATTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTAGA
*
64593649 ATCAAAATAAA
318 AACAAAATAAA
* * *
64593660 ATCGAATAAAATCTTGTTAAACT-GCGGGAATAAATCTCGAAACAGATTTTATTTGATTTTAGTT
1 ATCGAATAAAATCTTGTT-AACTGGCGGCAATAAATCTCGAAACAGA-TTTATTT-AATTTA-AT
* * * * *
64593724 TCTCGTTTTGGCAACAAAATCAAAAT-GTGATAAAATCAATTG-AACGGGTAAGAATAAATCTCA
62 TCTAGTTTT-GAAAAAAAAT-AAAATCG-AATAAAAT--ATTGTAAAGGGTAAGAATAAATC-CA
*
64593787 -AAATAGATTTTATTTAACTTTAATTTC
121 GAAACAGATTTTATTTAA-TTTAATTTC
64593814 TCGTTTGAAA
Statistics
Matches: 420, Mismatches: 54, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
334 1 0.00
335 301 0.72
336 58 0.14
337 6 0.01
338 9 0.02
339 9 0.02
340 31 0.07
341 1 0.00
342 4 0.01
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (328 bp):
ATCGAATAAAATCTTGTTAACTGGCGGCAATAAATCTCGAAACAGATTTATTTAATTTAATTCTA
GTTTTGAAAAAAAATAAAATCGAATAAAATATTGTAAAGGGTAAGAATAAATCCAGAAACAGATT
TTATTTAATTTAATTTCGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCAGGAATAAAT
CCCAAAACAAATTTTATTTAATTTAATCCTAATTTGGAAACAAAATAAAATCGAATAAAATCTTA
TTAAACGACGAGAATAAATCCCAAAACAAATTTTATTTAATTTAATTCTAATTTAGAAACAAAAT
AAA
Found at i:64601167 original size:43 final size:43
Alignment explanation
Indices: 64601013--64601168 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
64601003 GTGTTATCGC
* * *
64601013 GTAAGACCATGTTTGGGACGTTGGCATCGACT-TATGATTTACAT
1 GTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACAT
*** * * *
64601057 GTAAGACCGTATCTGGGATGTTGGCATC-ATATTTGATTTCGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACAT
*
64601099 GTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTACAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACAT
64601142 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
64601169 TGTTCGAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 25 0.27
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACAT
Found at i:64605499 original size:29 final size:29
Alignment explanation
Indices: 64605427--64605534 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
64605417 TTCACATACC
* * * *
64605427 TGTATTTGGCCCATTAAGCCC-ATTCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
64605455 T-TCATACGGCCTATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
64605484 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
64605513 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
64605535 GTCACATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.23
29 48 0.74
30 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:64605628 original size:17 final size:18
Alignment explanation
Indices: 64605606--64605639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64605596 TACCTATTAT
64605606 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
64605623 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
64605640 TCTGGCCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:64610361 original size:14 final size:14
Alignment explanation
Indices: 64610325--64610363 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
64610315 TTGTTTCACT
*
64610325 GAAAATGACTTCCG
1 GAAAATGATTTCCG
*
64610339 GAAAATGATTTCTG
1 GAAAATGATTTCCG
64610353 GAAAATGATTT
1 GAAAATGATTT
64610364 ACTTTACTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:64610871 original size:34 final size:34
Alignment explanation
Indices: 64610828--64610951 Score: 108
Period size: 34 Copynumber: 3.4 Consensus size: 34
64610818 TCTACAGAAC
64610828 ATTTATTATTAATAAATGTATATTTGTAATGAAT
1 ATTTATTATTAATAAATGTATATTTGTAATGAAT
*
64610862 ATTTATTATTAAAATATTAATATTGAATATTT-TCAAT-AAT
1 ATTTATTATT---A-A-TAA-A-TGTATATTTGT-AATGAAT
*
64610902 ATGTGAATAATATTAATAAATGTATATTTGTAATGAAT
1 AT-T---TATTATTAATAAATGTATATTTGTAATGAAT
64610940 ATTTATTATTAA
1 ATTTATTATTAA
64610952 AATATTAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 28
0.69 0.04 0.27
Matches are distributed among these distances:
34 18 0.25
37 13 0.18
38 8 0.11
39 6 0.08
40 8 0.11
41 13 0.18
44 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (34 bp):
ATTTATTATTAATAAATGTATATTTGTAATGAAT
Found at i:64610914 original size:36 final size:36
Alignment explanation
Indices: 64610874--64610994 Score: 129
Period size: 36 Copynumber: 3.2 Consensus size: 36
64610864 TTATTATTAA
64610874 AATATTAATATTGAATATTTTCAATAATATGTGAAT
1 AATATTAATATTGAATATTTTCAATAATATGTGAAT
* * *
64610910 AATATTAATAAATGTATATTTGT-AATGAATAT-TTATTATT
1 AATATTAAT-ATTGAATATTT-TCAAT-AATATGTGA--A-T
64610950 AAAATATTAATATTGAATATTTTCAATAATATGTGAAT
1 --AATATTAATATTGAATATTTTCAATAATATGTGAAT
64610988 AATATTA
1 AATATTA
64610995 TTTAAATTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
36 16 0.23
37 14 0.20
38 7 0.10
39 2 0.03
40 7 0.10
41 14 0.20
42 9 0.13
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (36 bp):
AATATTAATATTGAATATTTTCAATAATATGTGAAT
Found at i:64610919 original size:78 final size:78
Alignment explanation
Indices: 64610834--64611030 Score: 323
Period size: 78 Copynumber: 2.6 Consensus size: 78
64610824 GAACATTTAT
64610834 TATTAATAAATGTATATTTGTAATGAATATTTATTATTAAAATATTAATATTGAATATTTTCAAT
1 TATTAATAAATGTATATTTGTAATGAATATTTATTATTAAAATATTAATATTGAATATTTTCAAT
64610899 AATATGTGAATAA
66 AATATGTGAATAA
64610912 TATTAATAAATGTATATTTGTAATGAATATTTATTATTAAAATATTAATATTGAATATTTTCAAT
1 TATTAATAAATGTATATTTGTAATGAATATTTATTATTAAAATATTAATATTGAATATTTTCAAT
64610977 AATATGTGAATAA
66 AATATGTGAATAA
* *
64610990 TATTATTTAAAT-TATTATTT-T--T-AAAATTTATTATTAAAATA
1 TATTA-ATAAATGTA-TATTTGTAATGAATATTTATTATTAAAATA
64611031 AAATTGAAAT
Statistics
Matches: 115, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
75 18 0.16
76 1 0.01
78 86 0.75
79 10 0.09
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (78 bp):
TATTAATAAATGTATATTTGTAATGAATATTTATTATTAAAATATTAATATTGAATATTTTCAAT
AATATGTGAATAA
Found at i:64611084 original size:22 final size:21
Alignment explanation
Indices: 64611037--64611091 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
64611027 AATAAAATTG
*
64611037 AAATATTAAA-TA-ATTTATT
1 AAATAATAAATTATATTTATT
64611056 AAATAATAAATTATATTTATT
1 AAATAATAAATTATATTTATT
* *
64611077 ATATTAATAATTTAT
1 A-AATAATAAATTAT
64611092 TATGTGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 8 0.27
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAATAAATTATATTTATT
Found at i:64611355 original size:22 final size:22
Alignment explanation
Indices: 64611325--64611380 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
64611315 AAAAGGCTTA
* *
64611325 TTTTACGTTGACTTGTAAGTCT
1 TTTTCCGTTGACTTGTAAATCT
64611347 TTTTCCGTTGACTTGTAAATCT
1 TTTTCCGTTGACTTGTAAATCT
64611369 TTTTCCGTTGAC
1 TTTTCCGTTGAC
64611381 CAAGTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (22 bp):
TTTTCCGTTGACTTGTAAATCT
Found at i:64613319 original size:50 final size:50
Alignment explanation
Indices: 64613196--64613376 Score: 200
Period size: 49 Copynumber: 3.8 Consensus size: 50
64613186 TCCATCAAGT
* * *
64613196 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-A-AATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCG-TGC
* * *
64613245 TGATGCCATGTCCCAGACATGGTCTTCCACTAGCTCTCACATATTCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCGTGC
* * *
64613295 CGATGCCATGTCTCAGACATGGTCTTACACT-G---ACACAT-CTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCGT-GC
64613341 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
64613377 GTCTCAATGC
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.09
45 18 0.16
46 12 0.11
48 1 0.01
49 36 0.32
50 31 0.28
51 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCGTGC
Found at i:64613382 original size:99 final size:99
Alignment explanation
Indices: 64613196--64613376 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 99
64613186 TCCATCAAGT
*
64613196 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCCAG
*
64613261 ACATGGTCTTCCACTAGCTCTCACATATTCGTGC
66 ACATGGTCTTACACTAGCTCTCACATATTCGTGC
* * **
64613295 CGATGCCATGTCTCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCG-AGGCCGATGCCATGTCCCA
64613355 GACAT-GTCTTACACTAGCTCTC
65 GACATGGTCTTACACTAGCTCTC
64613377 GTCTCAATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 16 0.21
95 14 0.19
96 10 0.13
97 2 0.03
98 1 0.01
99 32 0.43
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (99 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCACATATTCGTGC
Found at i:64617583 original size:40 final size:40
Alignment explanation
Indices: 64617417--64617585 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
64617407 AGATCAATTG
* *
64617417 AACAAACCAGACAGAAGCTCATAAGAGTTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
* * * * *
64617457 GACACATCAAATAGAAGCTAATAAGAGTTGATCCAACCAA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
*** * * *
64617497 AACTTGCCAAATAGAAGTTCATAAGAGTTGGTCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
*
64617537 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
64617577 AACACACCA
1 AACACACCA
64617586 GGCAGAGAGT
Statistics
Matches: 106, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGTTGATCCAACCGA
Found at i:64618544 original size:21 final size:19
Alignment explanation
Indices: 64618520--64618567 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
64618510 CCATTATGTT
64618520 TTCTTATATTTTAACCTTTTA
1 TTCTTATATTTTAA--TTTTA
*
64618541 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTTAATTTTA
64618560 TTACTTAT
1 TT-CTTAT
64618568 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATATTTTAATTTTA
Found at i:64622142 original size:48 final size:48
Alignment explanation
Indices: 64622057--64622148 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
64622047 TAGGGTTATG
* *
64622057 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATCGATA
* *
64622105 TGTGATCCCATGTAAGACCATATCTGGGATATAGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATC
64622149 TTACTATGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTAGGACATAGCATTGGCATCGATA
Found at i:64632385 original size:26 final size:26
Alignment explanation
Indices: 64632349--64632429 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
64632339 TGATACAATT
64632349 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64632375 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
64632401 TGAT-A-A-GTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
64632424 TGATAA
1 TGATAA
64632430 GAATTTCATG
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
23 20 0.38
24 2 0.04
25 1 0.02
26 30 0.57
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:64632414 original size:23 final size:23
Alignment explanation
Indices: 64632358--64632430 Score: 110
Period size: 23 Copynumber: 3.0 Consensus size: 23
64632348 TTGATAATAG
64632358 GTTAGGTAAATGTTCCATGATAATA
1 GTTAGGTAAATGTTCCATGAT-A-A
64632383 GGTTAGGTAAATGTTCCATGATAA
1 -GTTAGGTAAATGTTCCATGATAA
*
64632407 GTTAGGTAAATGTTTCATGATAA
1 GTTAGGTAAATGTTCCATGATAA
64632430 G
1 G
64632431 AATTTCATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 23 0.50
24 1 0.02
25 1 0.02
26 21 0.46
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (23 bp):
GTTAGGTAAATGTTCCATGATAA
Found at i:64634090 original size:27 final size:27
Alignment explanation
Indices: 64634049--64634161 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
64634039 GAGGAAGCGT
*
64634049 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
64634076 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* ** *
64634103 TCTGGTGGCTTTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
64634131 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
64634157 TCTGG
1 TCTGG
64634162 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.75
28 13 0.18
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:64634154 original size:54 final size:54
Alignment explanation
Indices: 64634047--64634161 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
64634037 TGGAGGAAGC
*
64634047 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* ** * *
64634101 GTTCTGGTGGCTTTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
64634155 GTTCTGG
1 GTTCTGG
64634162 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:64636663 original size:50 final size:50
Alignment explanation
Indices: 64636548--64636741 Score: 289
Period size: 50 Copynumber: 3.8 Consensus size: 50
64636538 GATAATAACA
* ** * *
64636548 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
64636599 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
64636649 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
64636699 TGCCAATGCCATGTCCCAGACATGGTCCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGT-CTTACATGGGACCTCT
64636742 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 80 0.62
51 49 0.38
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:64636737 original size:101 final size:101
Alignment explanation
Indices: 64636548--64636741 Score: 300
Period size: 101 Copynumber: 1.9 Consensus size: 101
64636538 GATAATAACA
** * * *
64636548 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCAATGCCATGT
*
64636613 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
64636649 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCAATGCCATGT
*
64636713 CCCAGACATGGTCCTTACATGGGACCTCT
66 CCCAGACATGGT-CTTACAGGGGACCTCT
64636742 TTACCCAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 34 0.40
101 50 0.60
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCAATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:64637114 original size:30 final size:30
Alignment explanation
Indices: 64637079--64637136 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
64637069 CCTCGACTCT
*
64637079 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
64637109 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
64637137 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:64644164 original size:50 final size:50
Alignment explanation
Indices: 64644093--64644278 Score: 270
Period size: 50 Copynumber: 3.8 Consensus size: 50
64644083 ACATGCCAAA
** *
64644093 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCAT
* * * *
64644143 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
*
64644193 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTG-CCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
64644242 GCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
64644279 GTCATGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
48 11 0.09
49 34 0.28
50 77 0.63
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
Found at i:64644462 original size:13 final size:13
Alignment explanation
Indices: 64644441--64644472 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64644431 GCTTGGATCA
*
64644441 TCATCAAATAAAT
1 TCATAAAATAAAT
64644454 TCATAAAATAAAT
1 TCATAAAATAAAT
64644467 TCATAA
1 TCATAA
64644473 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:64644719 original size:30 final size:30
Alignment explanation
Indices: 64644684--64644741 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
64644674 CCTCGACTCT
*
64644684 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
64644714 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
64644742 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:64645609 original size:49 final size:49
Alignment explanation
Indices: 64645537--64645639 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 49
64645527 GGCCATTACA
* *
64645537 TACTACGTGTACCGGATAATTGGTCACGTGTGTAGTACTAAGTGCAGGC
1 TACTACGTGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
* *
64645586 TACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTATGTGCAGGC
1 TACTACGTGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
64645635 TACTA
1 TACTA
64645640 TGCGTACCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TACTACGTGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
Found at i:64645647 original size:49 final size:49
Alignment explanation
Indices: 64645537--64645652 Score: 160
Period size: 49 Copynumber: 2.4 Consensus size: 49
64645527 GGCCATTACA
* * *
64645537 TACTACGTGTACCGGATAATTGGTCACGTGTGTAGTACTAAGTGCAGGC
1 TACTACGCGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
* * *
64645586 TACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTATGTGCAGGC
1 TACTACGCGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
* *
64645635 TACTATGCGTACCAGATA
1 TACTACGCGTACCGGATA
64645653 GCTTTGGCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TACTACGCGTACCGGATAATTGGTCACATGTGTAATACTAAGTGCAGGC
Found at i:64647505 original size:6 final size:7
Alignment explanation
Indices: 64647475--64647504 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
64647465 ATCGTATTAC
64647475 TTTTAA-
1 TTTTAAT
64647481 TTTTAAT
1 TTTTAAT
64647488 TTTTAAT
1 TTTTAAT
64647495 TTTTAAT
1 TTTTAAT
64647502 TTT
1 TTT
64647505 ATTTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:64648847 original size:29 final size:29
Alignment explanation
Indices: 64648805--64648866 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
64648795 TTCTTAGTCG
64648805 TCCCTCTACTATAAATACCACCCTTTAAT
1 TCCCTCTACTATAAATACCACCCTTTAAT
*
64648834 TCCCTCTACTATAAATACCACCCTTTACT
1 TCCCTCTACTATAAATACCACCCTTTAAT
64648863 TCCC
1 TCCC
64648867 ATTCATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.39, G:0.00, T:0.34
Consensus pattern (29 bp):
TCCCTCTACTATAAATACCACCCTTTAAT
Found at i:64649773 original size:16 final size:17
Alignment explanation
Indices: 64649752--64649784 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64649742 TTCATCACAC
64649752 TTAGG-TTAATTTGCAT
1 TTAGGTTTAATTTGCAT
*
64649768 TTAGGTTTATTTTGCAT
1 TTAGGTTTAATTTGCAT
64649785 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TTAGGTTTAATTTGCAT
Found at i:64650055 original size:18 final size:15
Alignment explanation
Indices: 64650032--64650075 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
64650022 GCATTTTTTA
64650032 TTTTTATTTTTAATTAAT
1 TTTTTATTTTT-ATT--T
64650050 TTTTTATTCTTTATTT
1 TTTTTATT-TTTATTT
64650066 TTTTTATTTT
1 TTTTTATTTT
64650076 CAAGTCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
18 11 0.44
19 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:64655990 original size:16 final size:17
Alignment explanation
Indices: 64655969--64656001 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
64655959 GCCATCACAC
64655969 TTAGGTTAA-TTTGCAT
1 TTAGGTTAATTTTGCAT
64655985 TTAGGTTAATTTTGCAT
1 TTAGGTTAATTTTGCAT
64656002 CTAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (17 bp):
TTAGGTTAATTTTGCAT
Found at i:64656008 original size:16 final size:16
Alignment explanation
Indices: 64655970--64656005 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
64655960 CCATCACACT
*
64655970 TAGGTTAATTTGCATT
1 TAGGTTAATTTGCATC
64655986 TAGGTTAATTTTGCATC
1 TAGGTTAA-TTTGCATC
64656003 TAG
1 TAG
64656006 TTATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (16 bp):
TAGGTTAATTTGCATC
Found at i:64663503 original size:7 final size:7
Alignment explanation
Indices: 64663491--64663517 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
64663481 TAGTAAACAA
64663491 TAATATT
1 TAATATT
64663498 TAATATT
1 TAATATT
64663505 TAATATT
1 TAATATT
64663512 TAATAT
1 TAATAT
64663518 ATTATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:64664502 original size:21 final size:21
Alignment explanation
Indices: 64664461--64664502 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
64664451 TAAGTTTAAT
* *
64664461 ATAATATATTTTAGTTTTGAG
1 ATAATATATTTTAGATATGAG
64664482 ATAA-ATATTTTAGAATATGAG
1 ATAATATATTTTAG-ATATGAG
64664503 TATTATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
ATAATATATTTTAGATATGAG
Found at i:64678033 original size:16 final size:16
Alignment explanation
Indices: 64678012--64678043 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64678002 TGGTTGATTT
64678012 GATAATTGATATGAAA
1 GATAATTGATATGAAA
64678028 GATAATTGATATGAAA
1 GATAATTGATATGAAA
64678044 AAATGGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (16 bp):
GATAATTGATATGAAA
Done.