Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 159 of 425
Found at i:48368359 original size:54 final size:54
Alignment explanation
Indices: 48368301--48368446 Score: 177
Period size: 54 Copynumber: 2.7 Consensus size: 54
48368291 AGGGTATTTT
*** * * *
48368301 GGTAATTTTGTAAA-CTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAGC
1 GGTAATTTTGTAAATC-AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
* * * *
48368355 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
*
48368409 GGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTAT
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTAT
48368447 CTTATTTCGG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 77 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.34
Consensus pattern (54 bp):
GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:48368359 original size:81 final size:81
Alignment explanation
Indices: 48368212--48368361 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
48368202 ACAAATCAAC
* ****
48368212 GGTATTTTGGTAATTTTACAAACTAGGGATATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGATATTTTAGTAATTTTACAAACCAGGGGTAAAGCGGT
48368277 AATTTTACTGATCGAG
66 AATTTTACTGATCGAG
** ** *
48368293 GGTATTTTGGTAATTTTGTAAACTAAGGG-TATTTTAGTAATTTTGTAAATC-GAGGGTAAAGCG
1 GGTATTTTGGTAATTTTACAAACT-AGGGATATTTTAGTAATTTTACAAACCAG-GGGTAAAGCG
48368356 GTAATT
64 GTAATT
48368362 CTATAAATCG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
80 1 0.02
81 52 0.91
82 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGATATTTTAGTAATTTTACAAACCAGGGGTAAAGCGGT
AATTTTACTGATCGAG
Found at i:48370320 original size:21 final size:21
Alignment explanation
Indices: 48370264--48370314 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
48370254 TGCTCACACA
48370264 GGCATGTGTCCCCTTCATACG
1 GGCATGTGTCCCCTTCATACG
48370285 GGCATGTGTCCCCTTCATACG
1 GGCATGTGTCCCCTTCATACG
*
48370306 GGCCTGTGT
1 GGCATGTGT
48370315 GGCCTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.29
Consensus pattern (21 bp):
GGCATGTGTCCCCTTCATACG
Found at i:48382140 original size:46 final size:45
Alignment explanation
Indices: 48382087--48382206 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 45
48382077 TATGTGTGCT
*
48382087 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC--CCACATTGACGAGAGCC
* * *
48382133 AGTGTAAGACATATCTGGGACATGCA-CCGACATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCCCACATT--GACGAGAGCC
48382179 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
48382207 AGCCTCGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
43 6 0.09
45 1 0.02
46 57 0.88
47 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCCCACATTGACGAGAGCC
Found at i:48382339 original size:49 final size:49
Alignment explanation
Indices: 48382273--48382399 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
48382263 TGTTGGGTGT
*
48382273 CAATGTAAGACCTGTCTGGGACATGGCATCAACAC-CAATAG-ATGAGAGC
1 CAATGTAAGACCTGTCTGGGACATGGCATCAAC-CTCAAT-GTATGAAAGC
* * * * *
48382322 CAGTGTAAGACCTGTCTGGGACACGACATCAGCCTCAATGTATGAAAGT
1 CAATGTAAGACCTGTCTGGGACATGGCATCAACCTCAATGTATGAAAGC
*
48382371 TAATGTAAGACCTGTCTGGGACAT-GCATC
1 CAATGTAAGACCTGTCTGGGACATGGCATC
48382400 GACTTTGATG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
48 6 0.09
49 60 0.91
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (49 bp):
CAATGTAAGACCTGTCTGGGACATGGCATCAACCTCAATGTATGAAAGC
Found at i:48387634 original size:48 final size:48
Alignment explanation
Indices: 48387563--48387668 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
48387553 CAAGATAAAT
* * *
48387563 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
48387611 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48387659 ATGTGTATAT
1 ATATGTATAT
48387669 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:48387852 original size:37 final size:37
Alignment explanation
Indices: 48387802--48387873 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
48387792 GAAATATATT
* * *
48387802 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAAACCCGATGACTACGTATGGAGATTATGC
*
48387839 CCGGGTAAAACCCGATGACTACGTATGGGGATTAT
1 CCGGGTAAAACCCGATGACTACGTATGGAGATTAT
48387874 TCGAGCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (37 bp):
CCGGGTAAAACCCGATGACTACGTATGGAGATTATGC
Found at i:48389569 original size:43 final size:43
Alignment explanation
Indices: 48389521--48389662 Score: 261
Period size: 43 Copynumber: 3.3 Consensus size: 43
48389511 GCAGGAAACT
*
48389521 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
48389564 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
48389607 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGT--
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
48389648 CGGTGATATGTATTC
1 CGGTGATATGTATTC
48389663 CGGTGATATG
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
41 15 0.15
43 83 0.85
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (43 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:48389668 original size:15 final size:15
Alignment explanation
Indices: 48389648--48389677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48389638 CAGGCTTCGT
48389648 CGGTGATATGTATTC
1 CGGTGATATGTATTC
48389663 CGGTGATATGTATTC
1 CGGTGATATGTATTC
48389678 GGGCCTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
CGGTGATATGTATTC
Found at i:48389672 original size:56 final size:57
Alignment explanation
Indices: 48389606--48389720 Score: 214
Period size: 56 Copynumber: 2.0 Consensus size: 57
48389596 AGGCTTCGTG
48389606 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGT-CGGTGATATGTATT
1 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTCCGGTGATATGTATT
48389662 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATT
1 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGT-CCGGTGATATGTATT
48389720 C
1 C
48389721 GGATCTTCGT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 42 0.74
58 15 0.26
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.33
Consensus pattern (57 bp):
CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTCCGGTGATATGTATT
Found at i:48389710 original size:43 final size:43
Alignment explanation
Indices: 48389662--48389743 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
48389652 GATATGTATT
*
48389662 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTTCGTG
*
48389705 CCGGTGATATGTATTCGGATCTTCGTGCCTAGCAGGCTT
1 CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTT
48389744 AATGCTGGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.32
Consensus pattern (43 bp):
CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTTCGTG
Found at i:48389734 original size:99 final size:99
Alignment explanation
Indices: 48389563--48389743 Score: 344
Period size: 99 Copynumber: 1.8 Consensus size: 99
48389553 AGGCTTCGTG
*
48389563 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGGCCT
1 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGACCT
48389628 TCGTGCCTAGCAGGCTTCGTCGGTGATATGTATT
66 TCGTGCCTAGCAGGCTTCGTCGGTGATATGTATT
*
48389662 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGATCT
1 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGACCT
48389727 TCGTGCCTAGCAGGCTT
66 TCGTGCCTAGCAGGCTT
48389744 AATGCTGGTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.32
Consensus pattern (99 bp):
CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTCGGACCT
TCGTGCCTAGCAGGCTTCGTCGGTGATATGTATT
Found at i:48389754 original size:43 final size:43
Alignment explanation
Indices: 48389662--48389755 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
48389652 GATATGTATT
* **
48389662 CCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTTAATG
*
48389705 CCGGTGATATGTATTCGGATCTTCGTGCCTAGCAGGCTTAATG
1 CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTTAATG
*
48389748 CTGGTGAT
1 CCGGTGAT
48389756 TCGAGCAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (43 bp):
CCGGTGATATGTATTCGGACCTTCGTGCCTAGCAGGCTTAATG
Found at i:48389973 original size:29 final size:28
Alignment explanation
Indices: 48389935--48390017 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
48389925 AAATTCCGTT
48389935 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
48389963 AATTGAGGCACTGTGTGTGCGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
48389992 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
48390018 GTAGTGGGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:48393479 original size:48 final size:48
Alignment explanation
Indices: 48393408--48393513 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
48393398 CAAGATAAAT
* * *
48393408 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
48393456 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48393504 ATGTGTATAT
1 ATATGTATAT
48393514 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:48393696 original size:37 final size:37
Alignment explanation
Indices: 48393646--48393717 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
48393636 GAAATATATT
* *
48393646 CCGGGTAAGACCCGATGGCTATGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
48393683 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
48393718 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:48395351 original size:25 final size:23
Alignment explanation
Indices: 48395323--48395376 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 23
48395313 TTAAATTAAA
*
48395323 TAATAAAATTTAAAATTATATTTAT
1 TAATAAAATTTAAAA-TA-ATTCAT
** *
48395348 TAATTCATTTTAAAATAATTCAT
1 TAATAAAATTTAAAATAATTCAT
48395371 TAATAA
1 TAATAA
48395377 TTTTGGTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 9 0.39
24 2 0.09
25 12 0.52
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATAAAATTTAAAATAATTCAT
Found at i:48402252 original size:42 final size:43
Alignment explanation
Indices: 48402184--48402287 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
48402174 TAAGAGTATG
* *
48402184 TGTAACACCATATCT-GAGATATGGCATCAATATGAGACTTCC
1 TGTAACACCATATCTGGAGATACGGCATCAATATGACACTTCC
* * * **
48402226 TGTAAGACCATATCTGGA-ATACGGCATCAATGTGACATTTTG
1 TGTAACACCATATCTGGAGATACGGCATCAATATGACACTTCC
48402268 TGTAACACCATATCT-GAGAT
1 TGTAACACCATATCTGGAGAT
48402288 TACATGTAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 48 0.92
43 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (43 bp):
TGTAACACCATATCTGGAGATACGGCATCAATATGACACTTCC
Found at i:48403833 original size:57 final size:56
Alignment explanation
Indices: 48403737--48404027 Score: 271
Period size: 57 Copynumber: 5.1 Consensus size: 56
48403727 TTAAAAATGT
* * * ** *
48403737 TGTCCAAATTAAGTTTAATCAGGTTGTCCGTAATGATGTTAGATTGAGTCATAAAGC
1 TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATGTTA-ATTGAGTCATAAAGC
* * * * *
48403794 TTTCCAAAATAAGGTTATTCAAGTTGTTTATATTGATGTTTAAGTGAATCA-AAATGC
1 TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATG-TTAATTGAGTCATAAA-GC
* * * *
48403851 CGTCCAAATTAAGGTTAATCAAGTTGTCTGTATTGATGTTAAATTGAGTCATAAAGT
1 TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATGTT-AATTGAGTCATAAAGC
* * * **
48403908 TTTCCAAAATAAGGTTATTCAAGTTGTTTATATTGATGTTTAAAAGAGTCA-AAATGC
1 TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATG-TTAATTGAGTCATAAA-GC
* * ** * *
48403965 TGTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATCTTAAATTGAGTCATAAAGT
1 TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATGTT-AATTGAGTCATAAAGC
48404022 TGTCCA
1 TGTCCA
48404028 TTTGGATATC
Statistics
Matches: 186, Mismatches: 40, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
56 10 0.05
57 165 0.89
58 11 0.06
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (56 bp):
TGTCCAAAATAAGGTTAATCAAGTTGTCTATATTGATGTTAATTGAGTCATAAAGC
Found at i:48403930 original size:114 final size:114
Alignment explanation
Indices: 48403738--48404027 Score: 472
Period size: 114 Copynumber: 2.5 Consensus size: 114
48403728 TAAAAATGTT
* * * *
48403738 GTCCAAATTAAGTTTAATCAGGTTGTCCGTAATGATGTTAGATTGAGTCATAAAGCTTTCCAAAA
1 GTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATGTTAAATTGAGTCATAAAGTTTTCCAAAA
**
48403803 TAAGGTTATTCAAGTTGTTTATATTGATGTTTAAGTGAATCAAAATGCC
66 TAAGGTTATTCAAGTTGTTTATATTGATGTTTAAAAGAATCAAAATGCC
* *
48403852 GTCCAAATTAAGGTTAATCAAGTTGTCTGTATTGATGTTAAATTGAGTCATAAAGTTTTCCAAAA
1 GTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATGTTAAATTGAGTCATAAAGTTTTCCAAAA
* *
48403917 TAAGGTTATTCAAGTTGTTTATATTGATGTTTAAAAGAGTCAAAATGCT
66 TAAGGTTATTCAAGTTGTTTATATTGATGTTTAAAAGAATCAAAATGCC
* *
48403966 GTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATCTTAAATTGAGTCATAAAGTTGTCCA
1 GTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATGTTAAATTGAGTCATAAAGTTTTCCA
48404028 TTTGGATATC
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 162 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (114 bp):
GTCCAAATTAAGGTTAATCAGGTTGTCCGTATTGATGTTAAATTGAGTCATAAAGTTTTCCAAAA
TAAGGTTATTCAAGTTGTTTATATTGATGTTTAAAAGAATCAAAATGCC
Found at i:48404699 original size:22 final size:22
Alignment explanation
Indices: 48404674--48404721 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
48404664 CACACGCTCG
*
48404674 TGTGGGAGGGGCAACACACCCA
1 TGTGGGAAGGGCAACACACCCA
**
48404696 TGTGGGAAGGGCAACATGCCCA
1 TGTGGGAAGGGCAACACACCCA
48404718 TGTG
1 TGTG
48404722 ACCAATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.15
Consensus pattern (22 bp):
TGTGGGAAGGGCAACACACCCA
Found at i:48405964 original size:46 final size:45
Alignment explanation
Indices: 48405896--48406091 Score: 141
Period size: 46 Copynumber: 4.2 Consensus size: 45
48405886 CCAAGATATG
** * *
48405896 GTCTTACACTGAATATCATCTCGTAGCCAATGCATGTCCCAGGCAT
1 GTCTTACACTGGCT-TCGTCTCGTAGCCGATGCATGTCCCAGGCAT
48405942 GTCTTACACTGGCTTACGTCTCG-AGGCCGATGCATGTCCC-GGACAT
1 GTCTTACACTGGCTT-CGTCTCGTA-GCCGATGCATGTCCCAGG-CAT
* * **
48405988 GTCTTACACTAGCACTCGTCTCGATA-CCGATGCCATGTCCCAAACAT
1 GTCTTACACTGGC-TTCGTCTCG-TAGCCGATG-CATGTCCCAGGCAT
* * * * *
48406035 GGTCTTACACAGGC-TC-TCACAATATGGCCGATGCATGTCCCTGACAT
1 -GTCTTACACTGGCTTCGTCTC-GTA--GCCGATGCATGTCCCAGGCAT
48406082 GTCTTACACT
1 GTCTTACACT
48406092 AGCCCACAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
45 9 0.07
46 71 0.58
47 24 0.20
48 18 0.15
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGGCTTCGTCTCGTAGCCGATGCATGTCCCAGGCAT
Found at i:48407470 original size:27 final size:27
Alignment explanation
Indices: 48407440--48407535 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 27
48407430 GGCTGCCAAA
*
48407440 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGTCACCAGAT
*
48407467 ACAGATAATCGTGGCAGA-TCCACTAGA-
1 ACAGATAAT-GTGGCAGAGT-CACCAGAT
* *
48407494 ACAGATATATGTGGCACAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGTCACCAGAT
48407522 -CAGATAATTGTGGC
1 ACAGATAA-TGTGGC
48407536 GTAGCCACCA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 42 0.72
28 15 0.26
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGTCACCAGAT
Found at i:48416714 original size:40 final size:40
Alignment explanation
Indices: 48416659--48416876 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
48416649 TGGATGATAA
* *
48416659 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TAT
*
48416699 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
48416739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* * *
48416779 CCGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
48416819 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
48416859 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48416877 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:48424951 original size:40 final size:40
Alignment explanation
Indices: 48424896--48425153 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
48424886 TGGATGATAA
* * *
48424896 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
48424936 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48424976 CCGGGCTAAGCCCCTAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48425016 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48425056 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
48425096 CCGGGATATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48425136 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48425154 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48437337 original size:40 final size:40
Alignment explanation
Indices: 48437292--48437459 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
48437282 CGGAATATAA
48437292 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48437332 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48437372 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
48437412 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
48437452 CCGGATAT
1 CCGGATAT
48437460 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48437442 original size:80 final size:80
Alignment explanation
Indices: 48437308--48437457 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
48437298 ATAACCACGT
* *
48437308 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
48437373 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
48437388 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
48437451 CCCGGAT
64 CCCGGAT
48437458 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:48450650 original size:28 final size:28
Alignment explanation
Indices: 48450619--48450702 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
48450609 GCCTGCACTT
48450619 AGTACTACACACGTGATCGAAGTCATTG
1 AGTACTACACACGTGATCGAAGTCATTG
* * * **
48450647 AGTAC-GCATA-GT-AGC-CTG-CACTT-
1 AGTACTACACACGTGATCGAAGTCA-TTG
48450670 AGTACTACACACGTGATCGAAGTCATTG
1 AGTACTACACACGTGATCGAAGTCATTG
48450698 AGTAC
1 AGTAC
48450703 GCATAGTAGC
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
23 7 0.18
24 6 0.15
25 4 0.10
26 4 0.10
27 6 0.15
28 12 0.31
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (28 bp):
AGTACTACACACGTGATCGAAGTCATTG
Found at i:48450675 original size:51 final size:48
Alignment explanation
Indices: 48450504--48450781 Score: 292
Period size: 51 Copynumber: 5.6 Consensus size: 48
48450494 TCTGATACGT
* *
48450504 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTCG-GTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC-ATT-GAGTACAC
* * *
48450553 GTAGTAGCCTACACTTAGTACTACACACGTGACCTCACCATCTGA-TACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAT-TGAGTACAC
* * *
48450603 GTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CATTGAGTACAC
* *
48450654 ATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CATTGAGTACAC
* * *
48450705 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCG-GTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC-AT-TGAGTACAC
*
48450754 GTAGTAGCCTGCACTTAGTACTACACAC
1 ATAGTAGCCTGCACTTAGTACTACACAC
48450782 ATGTATTCAC
Statistics
Matches: 202, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
48 1 0.00
49 62 0.31
50 48 0.24
51 91 0.45
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (48 bp):
ATAGTAGCCTGCACTTAGTACTACACACGTGACCAACATTGAGTACAC
Found at i:48457196 original size:24 final size:24
Alignment explanation
Indices: 48457168--48457217 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
48457158 TGAATCACTT
48457168 TATTAATACACATTCTCATAATCA
1 TATTAATACACATTCTCATAATCA
48457192 TATTAATACACATTCTCATAATCA
1 TATTAATACACATTCTCATAATCA
48457216 TA
1 TA
48457218 CTTACTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (24 bp):
TATTAATACACATTCTCATAATCA
Found at i:48457234 original size:24 final size:24
Alignment explanation
Indices: 48457168--48457241 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
48457158 TGAATCACTT
*
48457168 TATTAATACACATTCTCATAATCA
1 TATTAATACACACTCTCATAATCA
*
48457192 TATTAATACACATTCTCATAATCA
1 TATTAATACACACTCTCATAATCA
* * *
48457216 TACTTACTTCACACT-TCATCATCA
1 TA-TTAATACACACTCTCATAATCA
48457240 TA
1 TA
48457242 AACACACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 36 0.80
25 9 0.20
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (24 bp):
TATTAATACACACTCTCATAATCA
Found at i:48457480 original size:40 final size:39
Alignment explanation
Indices: 48457431--48457638 Score: 238
Period size: 40 Copynumber: 5.2 Consensus size: 39
48457421 TCTTCGGAAT
* **
48457431 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
48457470 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* *
48457510 TTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
*
48457550 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* *
48457590 TTAGCCCGGATATAACAACTCGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTCGCA-CAATGCCTTCGGGTC
48457630 TTAGCCCGG
1 TTAGCCCGG
48457639 GTATCATTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:48462662 original size:40 final size:40
Alignment explanation
Indices: 48462599--48462689 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
48462589 CTATGTTCGG
* *
48462599 CACTAAGTGTGTGGTTCGAAATAGCTTTGGCTACAA-ATGC
1 CACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAGA-GC
* * *
48462639 CACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTATAAGAGG
1 CACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACAAGAGC
48462679 CACTAAGTGTG
1 CACTAAGTGTG
48462690 TGATACTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (40 bp):
CACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAGAGC
Found at i:48467250 original size:40 final size:40
Alignment explanation
Indices: 48467193--48467377 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
48467183 TCGAATGATG
* * *
48467193 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
48467233 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48467273 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
48467312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
48467353 T-CGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
48467378 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 40 0.31
40 80 0.61
41 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48467330 original size:79 final size:80
Alignment explanation
Indices: 48467206--48467354 Score: 214
Period size: 79 Copynumber: 1.9 Consensus size: 80
48467196 GGGCTAAGTC
*
48467206 CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTA
48467271 -AATCCGACTAAGAT
66 TAATCCGACTAAGAT
* * **
48467285 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTAC
1 CCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTAC
48467348 TATAATC
64 TATAATC
48467355 GGGCTATGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.02
79 50 0.81
80 11 0.18
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (80 bp):
CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTA
TAATCCGACTAAGAT
Found at i:48467399 original size:79 final size:79
Alignment explanation
Indices: 48467227--48467400 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 79
48467217 GTGCTAAGTG
** *
48467227 ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGACTAAGATCCGAAG
1 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAG
**
48467291 GCATTTGTGCGAGTT
65 GCATTTGAACGAGTT
* * *
48467306 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAATCGGGCTATG-TCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGACTAAGAT-CCGAA
*
48467370 GGTATTTGAACGAG-T
64 GGCATTTGAACGAGTT
*
48467385 AGCTATATCC-GGTTAA
1 A-CTAAATCCGGGTTAA
48467401 ACTCCGAAGG
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 48 0.59
80 32 0.40
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAGG
CATTTGAACGAGTT
Found at i:48476163 original size:52 final size:53
Alignment explanation
Indices: 48476091--48476196 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
48476081 CCTCATACGA
48476091 AGTTAGATCGGGACAAAGGAAAATTATTGGATTAGTCGCCTTCGTATCTATGT
1 AGTTAGATCGGGACAAAGGAAAATTATTGGATTAGTCGCCTTCGTATCTATGT
48476144 AGTTAGATC-GGACAAAGGAAAATTATTGGATTAGTCGCCTTCGTATCTATGT
1 AGTTAGATCGGGACAAAGGAAAATTATTGGATTAGTCGCCTTCGTATCTATGT
48476196 A
1 A
48476197 CATTCGTCGA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 44 0.83
53 9 0.17
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (53 bp):
AGTTAGATCGGGACAAAGGAAAATTATTGGATTAGTCGCCTTCGTATCTATGT
Found at i:48478693 original size:47 final size:47
Alignment explanation
Indices: 48478618--48478728 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
48478608 CCCCTCGGGA
* * *
48478618 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
48478665 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
48478712 CTTATCACATATATACA
1 CTTATCACTTATATACA
48478729 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:48478790 original size:46 final size:46
Alignment explanation
Indices: 48478732--48478867 Score: 254
Period size: 46 Copynumber: 3.0 Consensus size: 46
48478722 ATATACATCT
* *
48478732 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
48478778 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
48478824 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
48478868 ATATTTAACT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:48481618 original size:40 final size:40
Alignment explanation
Indices: 48481569--48481673 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
48481559 GACTCGCTCG
* * *
48481569 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
48481609 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
48481649 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
48481674 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 52 0.95
41 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:48482433 original size:40 final size:40
Alignment explanation
Indices: 48482333--48482639 Score: 483
Period size: 40 Copynumber: 7.7 Consensus size: 40
48482323 CCAGCATGAT
* *
48482333 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
48482373 TGCTC-TCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
48482412 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
48482452 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
48482492 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
48482532 TGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
48482572 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
48482612 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
48482640 GTCGAGACCT
Statistics
Matches: 249, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 39 0.16
40 210 0.84
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:48482555 original size:120 final size:120
Alignment explanation
Indices: 48482317--48482639 Score: 551
Period size: 120 Copynumber: 2.7 Consensus size: 120
48482307 GCCCGAATAC
* * * *
48482317 ACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTC-TCG
1 ACGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
* *
48482381 GAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
66 GAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
*
48482436 ACGTCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
1 ACGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
*
48482501 GAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
66 GAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
48482556 ACGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
1 ACGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
*
48482621 GGACTTAGCCCGGAT-CATC
66 GAACTTAGCCCGGATACATC
48482640 GTCGAGACCT
Statistics
Matches: 192, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
119 59 0.31
120 133 0.69
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
ACGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
GAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
Found at i:48485268 original size:47 final size:47
Alignment explanation
Indices: 48485193--48485303 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
48485183 CCCCTCGGGA
* * *
48485193 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
48485240 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
48485287 CTTATCACATATATACA
1 CTTATCACTTATATACA
48485304 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:48485359 original size:46 final size:46
Alignment explanation
Indices: 48485307--48485488 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
48485297 ATATACATCT
* * *
48485307 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
48485353 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
48485399 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
48485445 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
48485489 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:48487209 original size:15 final size:15
Alignment explanation
Indices: 48487189--48487220 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48487179 CTTTTCTTTT
48487189 GCTTCTCAAGTCACG
1 GCTTCTCAAGTCACG
48487204 GCTTCTCAAGTCACG
1 GCTTCTCAAGTCACG
48487219 GC
1 GC
48487221 AATGGGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.25
Consensus pattern (15 bp):
GCTTCTCAAGTCACG
Found at i:48489336 original size:50 final size:50
Alignment explanation
Indices: 48489217--48489652 Score: 333
Period size: 50 Copynumber: 8.8 Consensus size: 50
48489207 ATTGTGAGAA
* *
48489217 CACATGTGTAGTAC-AATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAA-GTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* **
48489269 CATATGCATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * *
48489319 CGCATGTGTAGCACTAAGTGCAAGCTACTATGCGTACTC-GATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TTAGGT
* * *
48489370 CACGTGTGTAGTAC----T-----CTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * *
48489411 CACGTGCGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
48489461 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTCACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
* * * * * *
48489512 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATCGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
48489562 CACATGTGTAGTACTAAGTGTATGCTACTACGTGTACCAGATTGATAGTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
48489612 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
48489653 GAGCTTCAGT
Statistics
Matches: 301, Mismatches: 65, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
41 18 0.06
42 14 0.05
45 1 0.00
47 1 0.00
48 3 0.01
49 5 0.02
50 176 0.58
51 53 0.18
52 28 0.09
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:48489519 original size:142 final size:146
Alignment explanation
Indices: 48489263--48489649 Score: 516
Period size: 142 Copynumber: 2.6 Consensus size: 146
48489253 TAAGACAGTT
* * * *
48489263 TTAGGTCATATGCATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGCGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
* * *
48489328 AGCACTAAGTGCAAGCTACTATGCGTA-CTCGATAGTTTCGATCACGTGTGTAGTAC-T-C-TAC
66 AGTACTAAGTGCAGGCTACTATGCGTACCTCGATAGCTTCGATCACGTGTGTAGTACATGCATAC
*
48489389 TACGTGTATCAGATGG
131 TACGTGTATCAGATCG
* * *
48489405 TTAGGTCACGTGCGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGATAGGTCACATGTGT
1 TTAGGTCACATGCGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
*
48489470 AGTACTAAGTGCAGGCTACTATGCGTACCT-GTTCA-CTTCGATCACGTGTGTAGTACTAAGTGC
66 AGTACTAAGTGCAGGCTACTATGCGTACCTCGAT-AGCTTCGATCACGTGTGTAGTAC--A-TGC
48489533 AGGATACTACGTGTATCAGATCG
127 ---ATACTACGTGTATCAGATCG
* * * * *
48489556 ATAAGTCACATGTGTAGTACTAAGTGTATGCTACTACGTGTACCAGATTGATAGTTCGCATGTGT
1 TTAGGTCACATGCGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
48489621 AGTACTAAGTGCAGGCTACTATGCGTACC
66 AGTACTAAGTGCAGGCTACTATGCGTACC
48489650 AGAGAGCTTC
Statistics
Matches: 214, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
142 105 0.49
143 3 0.01
146 1 0.00
147 1 0.00
151 104 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (146 bp):
TTAGGTCACATGCGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCTCGATAGCTTCGATCACGTGTGTAGTACATGCATAC
TACGTGTATCAGATCG
Found at i:48489589 original size:101 final size:101
Alignment explanation
Indices: 48489410--48489591 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
48489400 GATGGTTAGG
* * * * *
48489410 TCACGTGCGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGCGTAGTACTAAGTGCAGGATACTACGTGTACCAGATCGATAAGTCACATGTGTAGTAC
48489475 TAAGTGCAGGCTACTATGCGTACCTGTTCACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCTGTTCACTTCGA
* *
48489511 TCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATCGATAAGTCACATGTGTAGTAC
1 TCACGTGCGTAGTACTAAGTGCAGGATACTACGTGTACCAGATCGATAAGTCACATGTGTAGTAC
* *
48489576 TAAGTGTATGCTACTA
66 TAAGTGCAGGCTACTA
48489592 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGCGTAGTACTAAGTGCAGGATACTACGTGTACCAGATCGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCTGTTCACTTCGA
Found at i:48490513 original size:180 final size:180
Alignment explanation
Indices: 48490211--48490568 Score: 522
Period size: 180 Copynumber: 2.0 Consensus size: 180
48490201 ATCCGAGATC
* *
48490211 TGTACCATGAGATAAATAACTTTTAGTAAAGAAAGATCAGAACTATCAGACAGTGAAACAGGGGT
1 TGTACCATGAGATAAATAACTTTTAGTAAAGAAAGATCAGAACTATCAGACAGTGAAACAGAGGC
* * * * *
48490276 ATATTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTATTAAAATTTTATGGTAATAAT
66 AAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAAT
*
48490341 ATATGTGAGTCTCA-TTTCTGGGAAAATTAGAGGTTCTTAATTTGGAGTCT
131 ATATGTGAGTCT-AGTTTCTGGGAAAATTAGAGGATCTTAATTTGGAGTCT
* * * * * ** *
48490391 TGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTC-GAAACTGTTGGACAGTGAAATAGAGG
1 TGTACCATGAGATAAATAACTTTTAGTAAAGAAAGATCAG-AACTATCAGACAGTGAAACAGAGG
*
48490455 CAAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAA
65 CAAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAA
*
48490520 TATATGTGAGTCTAGTTTCTGGGAAAATTAGCGGATCTTAATTTGGAGT
130 TATATGTGAGTCTAGTTTCTGGGAAAATTAGAGGATCTTAATTTGGAGT
48490569 TCCGTAGCTC
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 2 0.01
180 156 0.99
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (180 bp):
TGTACCATGAGATAAATAACTTTTAGTAAAGAAAGATCAGAACTATCAGACAGTGAAACAGAGGC
AAATTTAATCAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAAT
ATATGTGAGTCTAGTTTCTGGGAAAATTAGAGGATCTTAATTTGGAGTCT
Found at i:48497018 original size:13 final size:14
Alignment explanation
Indices: 48497000--48497034 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
48496990 ATTCCAAGAT
48497000 TTGAAATCTTGA-C
1 TTGAAATCTTGATC
48497013 TTGAAATCTTGATTC
1 TTGAAATCTTGA-TC
48497028 TTGAAAT
1 TTGAAAT
48497035 TGTTTGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGAAATCTTGATC
Found at i:48515449 original size:48 final size:48
Alignment explanation
Indices: 48515378--48515475 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
48515368 AGTATTTTCA
*
48515378 ATTCGTACCAACTACTTTGTTCGATGACATTTTGTGCCACTACAATGG
1 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATGG
*
48515426 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCATTACAATGG
1 ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATGG
48515474 AT
1 AT
48515476 CTCGACATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (48 bp):
ATTCGTACCAACTACTTTGTTCGACGACATTTTGTGCCACTACAATGG
Found at i:48516351 original size:21 final size:20
Alignment explanation
Indices: 48516305--48516344 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48516295 TTAATGTTTA
*
48516305 TATTTTTTTATTAATTTGAC
1 TATTTTTTAATTAATTTGAC
*
48516325 TGTTTTTTAATTAAATTTGA
1 TATTTTTTAATT-AATTTGA
48516345 GCATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (20 bp):
TATTTTTTAATTAATTTGAC
Found at i:48522649 original size:23 final size:23
Alignment explanation
Indices: 48522623--48522667 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48522613 ACGAAATGTG
*
48522623 TAACGGGACAACACCAAAGTGCA
1 TAACAGGACAACACCAAAGTGCA
* *
48522646 TAACAGGATAACTCCAAAGTGC
1 TAACAGGACAACACCAAAGTGC
48522668 GTAAACAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.13
Consensus pattern (23 bp):
TAACAGGACAACACCAAAGTGCA
Found at i:48527869 original size:26 final size:26
Alignment explanation
Indices: 48527840--48527949 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
48527830 TGGTACAAAT
48527840 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
48527866 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
48527892 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
48527918 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
48527944 TGATAA
1 TGATAA
48527950 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:48529609 original size:27 final size:27
Alignment explanation
Indices: 48529568--48529707 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
48529558 GAGGAAGCGT
*
48529568 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
48529595 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
48529622 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
48529648 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
48529677 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
48529703 TCTGG
1 TCTGG
48529708 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 80 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:48535860 original size:32 final size:32
Alignment explanation
Indices: 48535822--48535889 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
48535812 TGTACTTTGA
*
48535822 TGATTAATGGAAGATTATGAAAGTTTGATGTG
1 TGATTAATGGAAGATTATGAAAGTCTGATGTG
48535854 TGATTAATGGAAGATTATGAAAGTCTGATGTG
1 TGATTAATGGAAGATTATGAAAGTCTGATGTG
48535886 TGAT
1 TGAT
48535890 GAACATCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.37
Consensus pattern (32 bp):
TGATTAATGGAAGATTATGAAAGTCTGATGTG
Found at i:48538490 original size:30 final size:30
Alignment explanation
Indices: 48538450--48538506 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48538440 ATTTTCCCTA
*
48538450 TTAGTCCTTCAAAATTTTCA-TATTTACACT
1 TTAGCCCTTC-AAATTTTCAGTATTTACACT
*
48538480 TTAGCCCTTCAAATTTTGAGTATTTAC
1 TTAGCCCTTCAAATTTTCAGTATTTAC
48538507 TCTTGTGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (30 bp):
TTAGCCCTTCAAATTTTCAGTATTTACACT
Found at i:48545248 original size:14 final size:15
Alignment explanation
Indices: 48545224--48545256 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
48545214 TATCATCATC
48545224 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
48545239 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
48545253 TCAT
1 TCAT
48545257 CCTTTTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:48546727 original size:22 final size:22
Alignment explanation
Indices: 48546700--48546743 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48546690 TGGGGAAGAA
48546700 GATGATATAAATGATTTTTATT
1 GATGATATAAATGATTTTTATT
48546722 GATGATATAAATGATTTTTATT
1 GATGATATAAATGATTTTTATT
48546744 TCTATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
GATGATATAAATGATTTTTATT
Found at i:48548644 original size:15 final size:15
Alignment explanation
Indices: 48548624--48548654 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48548614 AGTTTTGTTG
48548624 GAATAGAACTAGTCA
1 GAATAGAACTAGTCA
48548639 GAATAGAACTAGTCA
1 GAATAGAACTAGTCA
48548654 G
1 G
48548655 TCCTTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (15 bp):
GAATAGAACTAGTCA
Found at i:48549681 original size:27 final size:27
Alignment explanation
Indices: 48549651--48549710 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
48549641 TGGCATCATA
48549651 GATAGTTTGATGGGACATTAAACACGG
1 GATAGTTTGATGGGACATTAAACACGG
* *
48549678 GATAGTTTGATGGGATATTAAACATGG
1 GATAGTTTGATGGGACATTAAACACGG
48549705 GATAGT
1 GATAGT
48549711 CCTCTGGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (27 bp):
GATAGTTTGATGGGACATTAAACACGG
Found at i:48549718 original size:27 final size:27
Alignment explanation
Indices: 48549651--48549732 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
48549641 TGGCATCATA
* *
48549651 GATAGTTTGATGGGACATTAAACACGG
1 GATAGTCTGATGGGATATTAAACACGG
* *
48549678 GATAGTTTGATGGGATATTAAACATGG
1 GATAGTCTGATGGGATATTAAACACGG
*
48549705 GATAGTCCT-CTGGGATGA-TAAACACGG
1 GATAGT-CTGATGGGAT-ATTAAACACGG
48549732 G
1 G
48549733 GTAATGTCGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 46 0.96
28 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (27 bp):
GATAGTCTGATGGGATATTAAACACGG
Found at i:48553065 original size:16 final size:16
Alignment explanation
Indices: 48553046--48553078 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
48553036 TAAAAAAATC
48553046 AAAAAGAGAAAAGAAAA
1 AAAAAGA-AAAAGAAAA
48553063 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
48553079 CCGAAGAGCC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:48558556 original size:40 final size:40
Alignment explanation
Indices: 48558500--48558717 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
48558490 CGGATGATAA
* *
48558500 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
48558540 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48558580 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48558620 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48558660 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48558700 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48558718 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48560414 original size:27 final size:26
Alignment explanation
Indices: 48560379--48560490 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
48560369 AGCATGGCTG
* *
48560379 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
48560405 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
48560433 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
48560460 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
48560487 CCAG
1 CCAG
48560491 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.09
27 54 0.69
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:48560443 original size:54 final size:54
Alignment explanation
Indices: 48560379--48560490 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
48560369 AGCATGGCTG
*
48560379 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGC-GTAGCCA
* *
48560433 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
48560487 CCAG
1 CCAG
48560491 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.64
55 18 0.34
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
Found at i:48567009 original size:27 final size:27
Alignment explanation
Indices: 48566974--48567085 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
48566964 AGCATAGCTG
*
48566974 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGACAGAGCCA
* *
48567000 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGACAGAGCCA
48567028 CCAGA-ACAGATATATGTGACAGAGCCA
1 CCAGATACAGATA-ATGTGACAGAGCCA
* *
48567055 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGACAGAGCCA
48567082 CCAG
1 CCAG
48567086 GACTCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGACAGAGCCA
Found at i:48567038 original size:54 final size:54
Alignment explanation
Indices: 48566974--48567085 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
48566964 AGCATAGCTG
* *
48566974 CCAGAACAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* *
48567028 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
48567082 CCAG
1 CCAG
48567086 GACTCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:48569057 original size:40 final size:40
Alignment explanation
Indices: 48568865--48569050 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
48568855 TCGAATGATG
* * *
48568865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48568905 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48568945 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48568985 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48569026 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48569051 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48569068 original size:80 final size:80
Alignment explanation
Indices: 48568865--48569073 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
48568855 TCGAATGATG
*
48568865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGGACTAAGATCCGAAGGCAT
48568928 TCGTGCGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* * **
48568945 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TAGCTATATCCGGACTAAGAT-CCGAAGGCA
48569007 -TCTGTGCGAGTTACTATAA
63 TTC-GTGCGAGTTACTA-AA
* **
48569026 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGG-CTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGACTAA
48569074 ACTCTGAAGG
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
79 9 0.08
80 89 0.82
81 11 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:48577026 original size:40 final size:40
Alignment explanation
Indices: 48576834--48577019 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
48576824 TCGAATGATG
* * *
48576834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48576874 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48576914 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48576954 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48576995 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48577020 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48577026 original size:80 final size:80
Alignment explanation
Indices: 48576834--48577052 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
48576824 TCGAATGATG
* * **
48576834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
48576898 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
48576914 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
48576976 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
48576995 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
48577053 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:48585137 original size:3 final size:3
Alignment explanation
Indices: 48585131--48585247 Score: 166
Period size: 3 Copynumber: 39.7 Consensus size: 3
48585121 TTCTATTTTC
* * * * * *
48585131 TTA TTA TGA TTA TTA TTA TT- TT- TTC TTC TTA ATG TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48585177 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48585225 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
48585248 TTAATTTTTG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 4 0.04
3 100 0.96
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:48586732 original size:12 final size:12
Alignment explanation
Indices: 48586715--48586769 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 12
48586705 ATTAATTTTA
*
48586715 TTTATTTTCTTT
1 TTTATTTTATTT
48586727 TTTATTTTA--T
1 TTTATTTTATTT
48586737 TTTATTTTA--T
1 TTTATTTTATTT
48586747 TTTATTTTA--T
1 TTTATTTTATTT
48586757 TTTATTTTATTT
1 TTTATTTTATTT
48586769 T
1 T
48586770 ATTCTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 30 0.75
12 10 0.25
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:48586734 original size:5 final size:5
Alignment explanation
Indices: 48586726--48586779 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
48586716 TTATTTTCTT
*
48586726 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTCTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
48586776 TTTT
1 TTTT
48586780 TAGTCGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:48596218 original size:27 final size:27
Alignment explanation
Indices: 48596188--48596242 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
48596178 AAATTGACAA
48596188 TAAATGTCAATTTACATCAAGCTTATC
1 TAAATGTCAATTTACATCAAGCTTATC
48596215 TAAATGTCAATTTACATCAAGCTTATC
1 TAAATGTCAATTTACATCAAGCTTATC
48596242 T
1 T
48596243 TACTCCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.38
Consensus pattern (27 bp):
TAAATGTCAATTTACATCAAGCTTATC
Found at i:48596759 original size:48 final size:48
Alignment explanation
Indices: 48596433--48596756 Score: 434
Period size: 48 Copynumber: 6.8 Consensus size: 48
48596423 TAAAGTACCA
* * * ** * *
48596433 ATGCCATGCCCCTGACATGGTCTTACATAAATC-CACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* * * *
48596481 ATGCCATGCCCCAGACATGGTCTTACACTGACACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
48596529 ATGTCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
48596577 ATGCCATTTCCCAGACATGGTCTTACACAGGCACATATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
48596625 ATGCCATGTCCCATACATGGTCTTACACAGGCACATTTATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * * * *
48596673 ATGCCATGTCGCAGACATGGCCTTACACAGGTACATTTATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
48596721 ATGCCATGTCCCAGACATGGTCTTACACAAGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
48596757 TTAGCACAGT
Statistics
Matches: 248, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
47 1 0.00
48 247 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:48600996 original size:32 final size:32
Alignment explanation
Indices: 48600955--48601018 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
48600945 TTGAGTAGAC
48600955 ATGGAAGAAATCACTGCAATCATGCCATTTAA
1 ATGGAAGAAATCACTGCAATCATGCCATTTAA
48600987 ATGGAAGAAATCACTGCAATCATGCCATTTAA
1 ATGGAAGAAATCACTGCAATCATGCCATTTAA
48601019 TTTATCTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (32 bp):
ATGGAAGAAATCACTGCAATCATGCCATTTAA
Found at i:48604369 original size:48 final size:48
Alignment explanation
Indices: 48604313--48604675 Score: 309
Period size: 48 Copynumber: 7.6 Consensus size: 48
48604303 TAAAGTACCA
** *
48604313 ATGCCATGTCCTTGACATGGTCTTACATGAATC-CACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACAT-AAGCACACATATCATCACCG
* * **
48604361 ATGCCATGTCCTAGACATGGTCTTACACT-GGCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TAAGCACACATATCATCACCG
* * * *
48604409 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATAAGCACACATATCATCACCG
* * **
48604457 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACATAAGCACACATATCATCACCG
* * * * ** ***
48604505 ATGCCATGTCCCAGACATCGTCTTAAACAGGCACATTTATCATCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACATAAGCACACATATCATCACCG
* * * ** *** *
48604553 ATTCCATATCCCAGACATGGTCTTACATAGGCACATTTATCATTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATAAGCACACATATCATCACCG
* * * ** * *
48604601 ATGCCTTGTCCCA-ACCATGGTCTTACACAGGCACATTTATTATCACCA
1 ATGCCATGTCCCAGA-CATGGTCTTACATAAGCACACATATCATCACCG
*
48604649 ATGCCATGTCCCAAACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
48604676 CAGGCACATT
Statistics
Matches: 275, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.01
48 270 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATAAGCACACATATCATCACCG
Found at i:48604573 original size:144 final size:144
Alignment explanation
Indices: 48604350--48604686 Score: 496
Period size: 144 Copynumber: 2.3 Consensus size: 144
48604340 TGAATCCACA
* * **
48604350 TATCATCACCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCGTCGATGCCA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
* *
48604415 TGTCCCAAACATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGA-CATGGTC
66 TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCA-ACCATGGTC
48604479 TTACACAGGCACATT
130 TTACACAGGCACATT
* * * *
48604494 TATCATCACCGATGCCATGTCCCAGACATCGTCTTAAACAGGCACATTTATCATCGTTGATTCCA
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
* * * * *
48604559 TATCCCAGACATGGTCTTACATAGGCACATTTATCATTGTCAATGCCTTGTCCCAACCATGGTCT
66 TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCAACCATGGTCT
48604624 TACACAGGCACATT
131 TACACAGGCACATT
* * *
48604638 TATTATCACCAATGCCATGTCCCAAACATGGTCTTACACAGGCACATTT
1 TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTT
48604687 GTAACATCCC
Statistics
Matches: 172, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 1 0.01
144 171 0.99
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (144 bp):
TATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGTCGATGCCA
TATCCCAAACATGGTCTTACATAGGCACATATATCATCGCCAATGCCATGTCCCAACCATGGTCT
TACACAGGCACATT
Found at i:48604676 original size:48 final size:48
Alignment explanation
Indices: 48604350--48604686 Score: 433
Period size: 48 Copynumber: 7.0 Consensus size: 48
48604340 TGAATCCACA
* * * **
48604350 TATCATCACCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACA
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * * *
48604398 TATCATCGTCGATGCCATGTCCCAAACATGGTCTTACATAGGCACATA
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
48604446 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * *
48604494 TATCATCACCGATGCCATGTCCCAGACATCGTCTTAAACAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
** * * *
48604542 TATCATCGTTGATTCCATATCCCAGACATGGTCTTACATAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
* * * *
48604590 TATCATTGTCAATGCCTTGTCCCA-ACCATGGTCTTACACAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGA-CATGGTCTTACACAGGCACATT
* * * *
48604638 TATTATCACCAATGCCATGTCCCAAACATGGTCTTACACAGGCACATT
1 TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
48604686 T
1 T
48604687 GTAACATCCC
Statistics
Matches: 253, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
47 1 0.00
48 251 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (48 bp):
TATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATT
Found at i:48610550 original size:26 final size:26
Alignment explanation
Indices: 48610514--48610623 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
48610504 TGATACAAAT
48610514 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48610540 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48610566 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48610592 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48610618 TGATAA
1 TGATAA
48610624 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:48612120 original size:26 final size:26
Alignment explanation
Indices: 48612057--48612132 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
48612047 AAAAGTAGCT
* * * *
48612057 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
48612085 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
48612111 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
48612133 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:48612276 original size:27 final size:27
Alignment explanation
Indices: 48612235--48612361 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
48612225 GAGGAAGCGT
*
48612235 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
48612262 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
48612289 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
48612316 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* *
48612344 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
48612362 TTATCTGTTC
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 74 0.83
28 15 0.17
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:48612460 original size:19 final size:22
Alignment explanation
Indices: 48612436--48612475 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
48612426 CTCCCCACAC
48612436 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
48612455 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
48612476 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:48614694 original size:25 final size:25
Alignment explanation
Indices: 48614666--48614718 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
48614656 AATAACCTTA
48614666 TAAATATTAAATAAATAAAAAATAC
1 TAAATATTAAATAAATAAAAAATAC
48614691 TAAATATTAAATAAATAAAAAATAC
1 TAAATATTAAATAAATAAAAAATAC
48614716 TAA
1 TAA
48614719 CTCTTTGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAATATTAAATAAATAAAAAATAC
Found at i:48619797 original size:2 final size:2
Alignment explanation
Indices: 48619790--48619818 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48619780 GGAAAGTAAA
48619790 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48619819 TATAGAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:48622301 original size:60 final size:59
Alignment explanation
Indices: 48622164--48622312 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 59
48622154 CTATTCAAAA
* *
48622164 ATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
* * * *
48622224 TATCAGAGTATACTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAG
* *
48622284 AGTC-GAGATATGTTGGGCCTTGCCCATAT
1 A-TCAGAG-TATATTGGGCCTAGCCCATAT
48622313 TAACACAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
59 4 0.05
60 50 0.67
61 20 0.27
62 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
Found at i:48622330 original size:20 final size:19
Alignment explanation
Indices: 48622305--48622360 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
48622295 GTTGGGCCTT
*
48622305 GCCCATATTAACACAGTTGG
1 GCCCATATCAACACAGTT-G
* *
48622325 GCCCATCTCAATACAGTTG
1 GCCCATATCAACACAGTTG
* *
48622344 GCCCATAACAAAACAGT
1 GCCCATATCAACACAGT
48622361 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (19 bp):
GCCCATATCAACACAGTTG
Found at i:48625552 original size:40 final size:40
Alignment explanation
Indices: 48625497--48625580 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
48625487 ATGTAACTTT
48625497 CTTTAAGAAAAAAAACATGAGTTGACACTATCACTGTTTG
1 CTTTAAGAAAAAAAACATGAGTTGACACTATCACTGTTTG
48625537 CTTTAAGAAAAAAAACATGAGTTGACACTATCACTGTTTG
1 CTTTAAGAAAAAAAACATGAGTTGACACTATCACTGTTTG
48625577 CTTT
1 CTTT
48625581 TTCAGGTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (40 bp):
CTTTAAGAAAAAAAACATGAGTTGACACTATCACTGTTTG
Found at i:48633110 original size:22 final size:23
Alignment explanation
Indices: 48633085--48633130 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48633075 TGTTTCACTA
**
48633085 ATTA-TCAAATTTCTTGTACTTT
1 ATTATTCAAATTTAATGTACTTT
*
48633107 ATTATTCAACTTTAATGTACTTT
1 ATTATTCAAATTTAATGTACTTT
48633130 A
1 A
48633131 GTGAAACAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTATTCAAATTTAATGTACTTT
Found at i:48633464 original size:17 final size:17
Alignment explanation
Indices: 48633430--48633464 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48633420 TTGATATACT
* *
48633430 ATATTTTTTAAAATAAA
1 ATATTTTTAAAAAAAAA
48633447 ATATTTTTAAAAAAAAA
1 ATATTTTTAAAAAAAAA
48633464 A
1 A
48633465 GGTCGATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTTTTAAAAAAAAA
Found at i:48634280 original size:7 final size:8
Alignment explanation
Indices: 48634263--48634290 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
48634253 TCTTTTTTGC
48634263 TTTATTTT
1 TTTATTTT
48634271 TTTATTTT
1 TTTATTTT
48634279 TTTATTTT
1 TTTATTTT
48634287 TTTA
1 TTTA
48634291 AAGTGGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTATTTT
Found at i:48639492 original size:31 final size:31
Alignment explanation
Indices: 48639457--48639517 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
48639447 AAGTTTGAGA
48639457 ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
1 ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
* *** *
48639488 ACCAAATTGGATCTAGTTGCCAAGTTCAAG
1 ACCAAAATGGAAAAAGCTGCCAAGTTCAAG
48639518 GGCCAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (31 bp):
ACCAAAATGGAAAAAGCTGCCAAGTTCAAGT
Found at i:48664630 original size:51 final size:51
Alignment explanation
Indices: 48664563--48664664 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
48664553 GTAAAATACA
48664563 ATGTTTAGACTACAGAGTGCATGATTTCTGTGCCTTCGATATTTTGGGCTT
1 ATGTTTAGACTACAGAGTGCATGATTTCTGTGCCTTCGATATTTTGGGCTT
*
48664614 ATGTTTAGACTGCAGAGTGCATGATTTCTGTGCCTTCGATATTTTGGGCTT
1 ATGTTTAGACTACAGAGTGCATGATTTCTGTGCCTTCGATATTTTGGGCTT
48664665 TATGGGCCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.41
Consensus pattern (51 bp):
ATGTTTAGACTACAGAGTGCATGATTTCTGTGCCTTCGATATTTTGGGCTT
Found at i:48668803 original size:40 final size:40
Alignment explanation
Indices: 48668662--48668953 Score: 451
Period size: 40 Copynumber: 7.2 Consensus size: 40
48668652 CGGGATTTAA
* * * * *
48668662 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
48668702 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668742 CCGGATATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGG--ATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668784 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668824 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668864 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668904 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48668944 CCGGATATAT
1 CCGGATATAT
48668954 TTCAATGTTC
Statistics
Matches: 233, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 200 0.86
41 1 0.00
42 32 0.14
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:48675854 original size:18 final size:20
Alignment explanation
Indices: 48675818--48675864 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
48675808 AGTTGTAAGT
48675818 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
48675838 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
48675857 ATGATATA
1 AT-ATATA
48675865 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:48676389 original size:101 final size:101
Alignment explanation
Indices: 48676214--48676402 Score: 342
Period size: 101 Copynumber: 1.9 Consensus size: 101
48676204 TCGTTGTGAG
* *
48676214 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
48676279 TAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGA
* *
48676315 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
48676380 TAAGTGCAGGCTACTATGCGTAC
66 TAAGTGCAGGCTACTATGCGTAC
48676403 CAGAGATGTG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGA
Found at i:48676403 original size:50 final size:50
Alignment explanation
Indices: 48676213--48676406 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 50
48676203 TTCGTTGTGA
* ** * *
48676213 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
* * * *
48676263 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-G-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAGATTGA--TAG
* * *
48676314 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
*
48676364 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
48676407 GATGTGACAG
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.03
50 76 0.64
51 37 0.31
52 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
Found at i:48678593 original size:49 final size:49
Alignment explanation
Indices: 48678537--48678651 Score: 212
Period size: 49 Copynumber: 2.3 Consensus size: 49
48678527 TACATATATG
48678537 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
*
48678586 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
*
48678635 TGTGATCAGGCCTAATG
1 TGTGATAAGGCCTAATG
48678652 TATATGTGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
Found at i:48678654 original size:21 final size:21
Alignment explanation
Indices: 48678628--48678672 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
48678618 GTGAAAGTGT
48678628 ATGTATATGTGATCAGGCCTA
1 ATGTATATGTGATCAGGCCTA
*
48678649 ATGTATATGTGATGAGGCCTA
1 ATGTATATGTGATCAGGCCTA
48678670 ATG
1 ATG
48678673 GCCGATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (21 bp):
ATGTATATGTGATCAGGCCTA
Found at i:48678655 original size:70 final size:70
Alignment explanation
Indices: 48678579--48678721 Score: 259
Period size: 70 Copynumber: 2.0 Consensus size: 70
48678569 GTGAAAGTGG
48678579 ATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATCAG
1 ATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATCAG
48678644 GCCTA
66 GCCTA
* * *
48678649 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAG
1 ATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATCAG
48678714 GCCTA
66 GCCTA
48678719 ATG
1 ATG
48678722 GCCGATGTGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (70 bp):
ATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATCAG
GCCTA
Found at i:48678675 original size:119 final size:119
Alignment explanation
Indices: 48678537--48678770 Score: 414
Period size: 119 Copynumber: 2.0 Consensus size: 119
48678527 TACATATATG
48678537 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
*
48678602 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATCAGGCCTAATGTATA
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGTATA
* * * *
48678656 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
*
48678721 GGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
48678771 GCTAATGTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (119 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGTATA
Found at i:48678706 original size:49 final size:49
Alignment explanation
Indices: 48678649--48678772 Score: 239
Period size: 49 Copynumber: 2.5 Consensus size: 49
48678639 ATCAGGCCTA
48678649 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
48678698 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
48678747 ATGTATATGTGATAAGGCCTAATGGC
1 ATGTATATGTGATGAGGCCTAATGGC
48678773 TAATGTAAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 74 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (49 bp):
ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:48678924 original size:37 final size:37
Alignment explanation
Indices: 48678874--48678995 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
48678864 GGAATATGTT
*
48678874 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
48678911 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
48678948 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
48678985 CCGGGTAAGAC
1 CCGGGTAAGAC
48678996 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:48680577 original size:16 final size:16
Alignment explanation
Indices: 48680556--48680587 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48680546 AGAATGGAGT
48680556 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
48680572 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
48680588 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:48682923 original size:22 final size:20
Alignment explanation
Indices: 48682882--48682924 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
48682872 GATAATAGAT
*
48682882 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
48682902 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
48682924 A
1 A
48682925 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:48685323 original size:44 final size:43
Alignment explanation
Indices: 48685275--48685425 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 43
48685265 GGCTTGTTAT
* *
48685275 CCTACTGCTTAGGGGGTTAAAGCTCATTATCTTCGATCTATTTC
1 CCTACTGCTTAGGGGGTTAAAGCTCATCAACTTCGATCT-TTTC
* * * * *
48685319 CCTACTGCTTAGGGTGAT-AAGATCTATGAACTTC-AGCTTGTTAC
1 CCTACTGCTTAGGGGGTTAAAGCTC-ATCAACTTCGATCTT-TT-C
* **
48685363 CCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATCTGTTTC
1 CCTACTGCTTAGGGGGTTAAAGCTCATCAACTTCGATCT-TTTC
*
48685407 CCTACTACTTAGGGGGTTA
1 CCTACTGCTTAGGGGGTTA
48685426 CGATCTGTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 10 0.12
44 64 0.74
45 10 0.12
46 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CCTACTGCTTAGGGGGTTAAAGCTCATCAACTTCGATCTTTTC
Found at i:48685373 original size:88 final size:87
Alignment explanation
Indices: 48685266--48685469 Score: 255
Period size: 88 Copynumber: 2.3 Consensus size: 87
48685256 TGTAAATTTG
* * * *
48685266 GCTTGTTATCCTACTGCTTAGGGGGTTAAAGCTCATTATCTTCGATCTATTTCCCTACTGCTTAG
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCTATTTCCCTACTACTTAG
* *
48685331 GGTGATAAGATCTATGAACTTCA
66 GGGGATAAGATCTAT-AAATTCA
* * *
48685354 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTCGCCTTCGATCTGTTTCCCTACTACTTAG
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCTATTTCCCTACTACTTAG
* * *
48685419 GGGGTTACGATCTGTAAATTCA
66 GGGGATAAGATCTATAAATTCA
* * * *
48685441 ACCTGTTACCCTGCTGTTTAGGGGGTTAA
1 GCTTGTTACCCTACTGCTTAGGGGGTTAA
48685470 GGCTTAGTGA
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 31 0.31
88 69 0.69
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCTATTTCCCTACTACTTAG
GGGGATAAGATCTATAAATTCA
Found at i:48685464 original size:218 final size:217
Alignment explanation
Indices: 48684961--48685471 Score: 529
Period size: 218 Copynumber: 2.3 Consensus size: 217
48684951 CATCGCATTT
* * ** *
48684961 GATCTGTTTCCCTATTGCTTAGGGGGTTTTGAT-TCGTACATTCAACCTGTTACCCTACTGCTTA
1 GATCTGTTTCCCTACTACTTAGGGGGTTAAGATCT-GTAAATTCAACCTGTTACCCTACTGCTTA
* *
48685025 GGGATTTAAGGTCTGTAAATTTGGCTTGTTATCCTACTGCTTAGGGGGTTCAGCCCATCATCTTC
65 GGGGTTTAAGGTCTGTAAATTTGGCTTGTTATCCTACTGCTTAGGGGGTTAAGCCCATCATCTTC
* * *
48685090 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGTCTGCTCTACTGCAGCTTCA
130 GATCTATTTCCCTACTGCTTAGGGGGATAAGATCTATAAATTCAGTCTGCTCTACTACAGCTTCA
* * **
48685155 GGGAGATGAGACTTGCTGGGTTC
195 GGGAGATAAGACTCGCTGCCTTC
* ** * * ** * * *
48685178 GATCTG-TTCCATTGTAACTTCAGAGAGACAAGATCTGTAATTTCAGA-CTATTACCCTATTGCT
1 GATCTGTTTCCCTACT-ACTT-AGGGGGTTAAGATCTGTAAATTCA-ACCTGTTACCCTACTGCT
* *
48685241 TAGGGGTTTACA-GTCTGTAAATTTGGCTTGTTATCCTACTGCTTAGGGGGTTAAAGCTCATTAT
63 TAGGGGTTTA-AGGTCTGTAAATTTGGCTTGTTATCCTACTGCTTAGGGGGTT-AAGCCCATCAT
* *
48685305 CTTCGATCTATTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAG-CTTG-T-TACCCTA
126 CTTCGATCTATTTCCCTACTGCTTAGGGGGATAAGATCTAT-AAATTCAGTC-TGCTCTA--CTA
* * *
48685367 CTGCTT-AGGGGGTTAA-AGCTCG-TCGCCTTC
187 CAGCTTCAGGGAGATAAGA-CTCGCT-GCCTTC
* * *
48685397 GATCTGTTTCCCTACTACTTAGGGGGTTACGATCTGTAAATTCAACCTGTTACCCTGCTGTTTAG
1 GATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAG
*
48685462 GGGGTTAAGG
66 GGGTTTAAGG
48685472 CTTAGTGAAT
Statistics
Matches: 235, Mismatches: 44, Indels: 29
0.76 0.14 0.09
Matches are distributed among these distances:
216 6 0.03
217 11 0.05
218 121 0.51
219 75 0.32
220 22 0.09
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (217 bp):
GATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAG
GGGTTTAAGGTCTGTAAATTTGGCTTGTTATCCTACTGCTTAGGGGGTTAAGCCCATCATCTTCG
ATCTATTTCCCTACTGCTTAGGGGGATAAGATCTATAAATTCAGTCTGCTCTACTACAGCTTCAG
GGAGATAAGACTCGCTGCCTTC
Found at i:48690238 original size:46 final size:44
Alignment explanation
Indices: 48690185--48690360 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 44
48690175 TATCTGGGCA
*
48690185 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
48690231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* * * *
48690278 TCTGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATATGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAA-G
*
48690324 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48690361 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 65 0.61
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:48690340 original size:93 final size:93
Alignment explanation
Indices: 48690181--48690352 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
48690171 AGGATATCTG
* * *
48690181 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATACGAACGTCCGAACTCGTTGAG
48690246 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
48690274 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATATGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATACGAACGTC-CGAACTCGTTGA
48690338 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
48690353 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTAACTTATGGATACGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48690575 original size:16 final size:16
Alignment explanation
Indices: 48690554--48690587 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48690544 TCGGGTTGAA
48690554 AACTCGATATAACAAC
1 AACTCGATATAACAAC
48690570 AACTCGATATAACAAC
1 AACTCGATATAACAAC
48690586 AA
1 AA
48690588 TATGGTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (16 bp):
AACTCGATATAACAAC
Found at i:48700007 original size:22 final size:20
Alignment explanation
Indices: 48699966--48700008 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
48699956 GATAATAGAT
*
48699966 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
48699986 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
48700008 A
1 A
48700009 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:48702496 original size:21 final size:21
Alignment explanation
Indices: 48702472--48702513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48702462 GATACCTGGT
* * *
48702472 AAAAGGTATCGATATTTTTTG
1 AAAAGATATCAATACTTTTTG
48702493 AAAAGATATCAATACTTTTTG
1 AAAAGATATCAATACTTTTTG
48702514 TCATTGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
AAAAGATATCAATACTTTTTG
Found at i:48702735 original size:22 final size:24
Alignment explanation
Indices: 48702708--48702751 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
48702698 AATTTTTTCA
48702708 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
48702730 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
48702752 CATATTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:48706160 original size:10 final size:9
Alignment explanation
Indices: 48706101--48706305 Score: 99
Period size: 9 Copynumber: 24.1 Consensus size: 9
48706091 GTCAATCTGT
48706101 TATG-TATG
1 TATGTTATG
48706109 TATGTTATG
1 TATGTTATG
*
48706118 TATATTAT-
1 TATGTTATG
*
48706126 TGT-TTATG
1 TATGTTATG
48706134 TATGCTTAT-
1 TATG-TTATG
48706143 TATG-TATG
1 TATGTTATG
*
48706151 TTATGATATG
1 -TATGTTATG
*
48706161 TTTGTTATG
1 TATGTTATG
48706170 TATGTTATG
1 TATGTTATG
* *
48706179 AATATTACTG
1 TATGTTA-TG
48706189 --T-TTATG
1 TATGTTATG
48706195 TAT-TTATG
1 TATGTTATG
48706203 TATG-TATG
1 TATGTTATG
* *
48706211 TCTATTA-G
1 TATGTTATG
48706219 TATGTTATG
1 TATGTTATG
48706228 TA-GTATAT-
1 TATGT-TATG
48706236 TATTGTTATG
1 TA-TGTTATG
48706246 TA---TA--
1 TATGTTATG
*
48706250 TATATTATG
1 TATGTTATG
48706259 TATGTTATG
1 TATGTTATG
*
48706268 TATATTATTG
1 TATGTTA-TG
48706278 TTTATG-TATG
1 --TATGTTATG
*
48706288 TCTGTTA-G
1 TATGTTATG
48706296 TATGTTATG
1 TATGTTATG
48706305 T
1 T
48706306 TTGAATATTA
Statistics
Matches: 153, Mismatches: 17, Indels: 53
0.69 0.08 0.24
Matches are distributed among these distances:
4 2 0.01
6 4 0.03
7 12 0.08
8 44 0.29
9 68 0.44
10 18 0.12
11 2 0.01
12 3 0.02
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.56
Consensus pattern (9 bp):
TATGTTATG
Found at i:48706203 original size:52 final size:49
Alignment explanation
Indices: 48706098--48706264 Score: 142
Period size: 52 Copynumber: 3.3 Consensus size: 49
48706088 AAGGTCAATC
* * ** *
48706098 TGTTATGTATGTATGTTATGTATATTATTGTTTATGTATGCTTAT-TATGTA
1 TGTTATGTATGTTTGTTATGTATGTTA-TGAATAT-TATG-TTATGTATATA
*
48706149 TGTTATGATATGTTTGTTATGTATGTTATGAATATTACTGTTTATGTATTTA
1 TGTTATG-TATGTTTGTTATGTATGTTATGAATATTA-TG-TTATGTATATA
* *
48706201 TG-TATGTATGTCTATTA-GTATGTTATGTAGTATATTATTGTTATGTATATA
1 TGTTATGTATGTTTGTTATGTATGTTATG-A--ATATTA-TGTTATGTATATA
*
48706252 TATTATGTATGTT
1 TGTTATGTATGTT
48706265 ATGTATATTA
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
49 10 0.10
50 12 0.12
51 33 0.34
52 42 0.43
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.56
Consensus pattern (49 bp):
TGTTATGTATGTTTGTTATGTATGTTATGAATATTATGTTATGTATATA
Found at i:48706208 original size:12 final size:13
Alignment explanation
Indices: 48706098--48706377 Score: 120
Period size: 13 Copynumber: 20.6 Consensus size: 13
48706088 AAGGTCAATC
48706098 TGTTATGTATGTA
1 TGTTATGTATGTA
*
48706111 TGTTATGTATAT-
1 TGTTATGTATGTA
* * *
48706123 TATTGTTTATGTA
1 TGTTATGTATGTA
48706136 TGCTTAT-TATGTA
1 TG-TTATGTATGTA
*
48706149 TGTTATGATATGTT
1 TGTTATG-TATGTA
48706163 TGTTATGTATGTTA
1 TGTTATGTATG-TA
48706177 TGAATATTACTGTTTATGTA
1 TG----TTA-TG--TATGTA
48706197 T-TTATGTATGTA
1 TGTTATGTATGTA
48706209 TGTCTAT-TA-GTA
1 TGT-TATGTATGTA
48706221 TGTTATGTA-GTA
1 TGTTATGTATGTA
*
48706233 TATTATTGTTATGTA
1 TGTTA-TG-TATGTA
*
48706248 TATATAT-TATGTA
1 TGT-TATGTATGTA
*
48706261 TGTTATGTATATTA
1 TGTTATGTAT-GTA
*
48706275 TTGTTTATGTATGTC
1 -TG-TTATGTATGTA
48706290 TGTTA-GTATGTTA
1 TGTTATGTATG-TA
48706303 TGTT-TGAATAT-TA
1 TGTTATG--TATGTA
48706316 T-TTATGTTATGTTTA
1 TGTTATG-TATG--TA
*
48706331 T-TACTATTTATGTA
1 TGT--TATGTATGTA
**
48706345 TG-TCCGT-TAGTA
1 TGTTATGTAT-GTA
48706357 TGTTATGTATGTA
1 TGTTATGTATGTA
48706370 TGTTATGT
1 TGTTATGT
48706378 TTATTACTGT
Statistics
Matches: 208, Mismatches: 22, Indels: 74
0.68 0.07 0.24
Matches are distributed among these distances:
11 4 0.02
12 54 0.26
13 68 0.33
14 33 0.16
15 20 0.10
16 14 0.07
17 3 0.01
18 3 0.01
19 2 0.01
20 3 0.01
21 4 0.02
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (13 bp):
TGTTATGTATGTA
Found at i:48706228 original size:77 final size:77
Alignment explanation
Indices: 48706105--48706317 Score: 223
Period size: 77 Copynumber: 2.8 Consensus size: 77
48706095 ATCTGTTATG
*
48706105 TATGTATGTTATGTATATTATTGTTTATGTATG-CTTATTATGTATGTTATG--A-TAT-GT-TT
1 TATGTATGTTATGTATATTATTG-TTATGTATGTC-TATTA-GTATGTTATGTTAGTATATTATT
*
48706164 GTTATGTATGTTATGAA
63 GTTATGTAT-ATAT-AA
48706181 TAT-TACTGTTTATGTAT-TTA-TG-TATGTATGTCTATTAGTATGTTATG-TAGTATATTATTG
1 TATGTA-TG-TTATGTATATTATTGTTATGTATGTCTATTAGTATGTTATGTTAGTATATTATTG
*
48706241 TTATGTATATATAT
64 TTATGTATATATAA
* * *
48706255 TATGTATGTTATGTATATTATTGTTTATGTATGTCTGTTAGTATGTTATGTTTGAATATTATT
1 TATGTATGTTATGTATATTATTG-TTATGTATGTCTATTAGTATGTTATGTTAGTATATTATT
48706318 TATGTTATGT
Statistics
Matches: 118, Mismatches: 6, Indels: 24
0.80 0.04 0.16
Matches are distributed among these distances:
72 10 0.08
73 22 0.19
74 13 0.11
75 12 0.10
76 19 0.16
77 32 0.27
78 10 0.08
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.56
Consensus pattern (77 bp):
TATGTATGTTATGTATATTATTGTTATGTATGTCTATTAGTATGTTATGTTAGTATATTATTGTT
ATGTATATATAA
Done.