Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 96 of 173
Found at i:30041977 original size:20 final size:18
Alignment explanation
Indices: 30041952--30041991 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
30041942 ACCTAACACG
30041952 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
30041972 AATTAAATTAAACATATT
1 AATTAAATTAAACATATT
30041990 AA
1 AA
30041992 CATCACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:30043063 original size:18 final size:17
Alignment explanation
Indices: 30043034--30043073 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
30043024 TATGTTGTTT
30043034 TCTCCTTCATTTCTTTC
1 TCTCCTTCATTTCTTTC
*
30043051 TCTCCTCTCATTTTTTTC
1 TCTCCT-TCATTTCTTTC
30043069 TCTCC
1 TCTCC
30043074 CCTTCCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (17 bp):
TCTCCTTCATTTCTTTC
Found at i:30043221 original size:9 final size:9
Alignment explanation
Indices: 30043207--30043237 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30043197 AACATTGTCG
30043207 CACCGCCAC
1 CACCGCCAC
30043216 CACCGCCAC
1 CACCGCCAC
*
30043225 CACCACCAC
1 CACCGCCAC
30043234 CACC
1 CACC
30043238 TGTTTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.68, G:0.06, T:0.00
Consensus pattern (9 bp):
CACCGCCAC
Found at i:30049427 original size:18 final size:18
Alignment explanation
Indices: 30049401--30049444 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
30049391 TATAATTTTC
*
30049401 TTTACTTTCTAGTTGTTT-
1 TTTAATTTCTAG-TGTTTG
30049419 TTTAATTTCTAGTGTTTG
1 TTTAATTTCTAGTGTTTG
30049437 TTT-ATTTC
1 TTTAATTTC
30049445 GTCTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.14, C:0.09, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTAATTTCTAGTGTTTG
Found at i:30057869 original size:15 final size:15
Alignment explanation
Indices: 30057849--30057878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30057839 ATTTTACTTA
*
30057849 GTAGTTTTATTTAAT
1 GTAGTTTAATTTAAT
30057864 GTAGTTTAATTTAAT
1 GTAGTTTAATTTAAT
30057879 TTTTACAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
GTAGTTTAATTTAAT
Found at i:30058046 original size:21 final size:21
Alignment explanation
Indices: 30058007--30058046 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30057997 TGGAAACAAG
* *
30058007 AATGATCCCAATGGCAATCAA
1 AATGATCACAATGACAATCAA
*
30058028 AATGATCACAATGATAATC
1 AATGATCACAATGACAATC
30058047 CTCACATGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (21 bp):
AATGATCACAATGACAATCAA
Found at i:30058962 original size:49 final size:49
Alignment explanation
Indices: 30058895--30058994 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
30058885 TGTCCATTCA
* *
30058895 ATCCAGTGTCAATATACTATATGGGGAACTCTAACTAAAAAAATAATCC
1 ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAAAAATAATCC
* *
30058944 ATCCAGTGTCCATATACTATATAGGGAACTCCAACTAAAACAATAATCC
1 ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAAAAATAATCC
30058993 AT
1 AT
30058995 ACTGTAATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (49 bp):
ATCCAGTGTCAATATACTATATAGGGAACTCCAACTAAAAAAATAATCC
Found at i:30067475 original size:41 final size:41
Alignment explanation
Indices: 30067430--30067591 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 41
30067420 TTGTATAAAA
* * * *
30067430 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
30067471 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* *
30067512 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * * * *
30067553 CATCGGCATCAAGCCT-CTTGGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGC-TAGACATAAAGTCTGATACAT
30067592 CTTATTTTCA
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 97 0.92
42 2 0.02
43 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:30067551 original size:82 final size:82
Alignment explanation
Indices: 30067430--30067587 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 82
30067420 TTGTATAAAA
* *
30067430 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCA-CAAAGCCTGC-TAGA
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATC-AAGCCT-CTTAGA
30067493 CATAAAGTCTGAAGTAATT
64 CATAAAGTCTGAAGTAATT
* * * * * * *
30067512 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTTCATCGGCATCAAGCCTCTTGGACG
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
30067577 TAAAGTCTGAA
66 TAAAGTCTGAA
30067588 ACATCTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 63 0.97
83 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (82 bp):
CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
TAAAGTCTGAAGTAATT
Found at i:30068500 original size:8 final size:8
Alignment explanation
Indices: 30068487--30068511 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30068477 ACGGACACAA
30068487 TCGACTAC
1 TCGACTAC
30068495 TCGACTAC
1 TCGACTAC
30068503 TCGACTAC
1 TCGACTAC
30068511 T
1 T
30068512 TTCATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (8 bp):
TCGACTAC
Found at i:30087007 original size:18 final size:18
Alignment explanation
Indices: 30086984--30087018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30086974 TAGTTTATTT
*
30086984 ACCATTTAATATCGTTTA
1 ACCATTTAATATAGTTTA
30087002 ACCATTTAATATAGTTT
1 ACCATTTAATATAGTTT
30087019 TCATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
ACCATTTAATATAGTTTA
Found at i:30087705 original size:39 final size:39
Alignment explanation
Indices: 30087593--30087709 Score: 123
Period size: 39 Copynumber: 3.0 Consensus size: 39
30087583 GGCCTTTGGA
* * *
30087593 TAAAAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTC
1 TAAAAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTT
* * *
30087632 TAAAAAATGCCG-TAAAAGATCGAGTATTAGCGGCGCTTT
1 TAAAAAACGCCGCTAAAA-ATCGAGCATTAACGGCGCTTT
* *
30087671 TAAGAAAACGCAGCTAAAAA-GGAGCATTAACGGCG-TTT
1 TAA-AAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTT
30087709 T
1 T
30087710 CCAAAAGGCG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 9 0.14
39 43 0.66
40 8 0.12
41 5 0.08
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTT
Found at i:30087843 original size:41 final size:41
Alignment explanation
Indices: 30087761--30088017 Score: 259
Period size: 41 Copynumber: 6.3 Consensus size: 41
30087751 TTTTGAGTTT
* * *
30087761 TCGGGGCTTTAGCGGCATTTTT-AATAAGCGCGGCTAATGC
1 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * * *
30087801 TCGGGTCTTTAGCGCCGTTTTTGAAGAAGCGCTGATAATGC
1 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * ** * * *
30087842 TCAGGTTTTTAGCGGTGTTTTTGAAGTAGCACCGCGAATGC
1 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
** *
30087883 TCATGTC-TTAGCAGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* *
30087923 -CTGGGTCTTTAGCGGCAATTTTGAAGAAGCGCCGCTAATTC
1 TC-GGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * * * *
30087964 TCGTGTATTTAGCTGCGTTTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
*
30088005 TCGAGTCTTTAGC
1 TCGGGTCTTTAGC
30088018 AATGTTTTTA
Statistics
Matches: 178, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 49 0.28
41 127 0.71
42 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
Found at i:30087903 original size:81 final size:82
Alignment explanation
Indices: 30087818--30088002 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 82
30087808 TTTAGCGCCG
* * *** *
30087818 TTTTTGAAGAAGCGCTGATAATG-CTCAGGTTTTTAGCGGTGTTTTTGAAGTAGCACCGCGAATG
1 TTTTTGAAGAAGCGCCGATAATGCCT-AGGTCTTTAGCGGCAATTTTGAAGAAGCACCGCGAATG
30087882 CTCATGT-CTTAGCAGCA
65 CTCATGTACTTAGCAGCA
* * * * *
30087899 TTTTTGAAGAAGCGCCGCTAATGCCTGGGTCTTTAGCGGCAATTTTGAAGAAGCGCCGCTAATTC
1 TTTTTGAAGAAGCGCCGATAATGCCTAGGTCTTTAGCGGCAATTTTGAAGAAGCACCGCGAATGC
* * * *
30087964 TCGTGTATTTAGCTGCG
66 TCATGTACTTAGCAGCA
*
30087981 TTTTTGAAGAAGCGCCGCTAAT
1 TTTTTGAAGAAGCGCCGATAAT
30088003 TCTCGAGTCT
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 56 0.64
82 31 0.36
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (82 bp):
TTTTTGAAGAAGCGCCGATAATGCCTAGGTCTTTAGCGGCAATTTTGAAGAAGCACCGCGAATGC
TCATGTACTTAGCAGCA
Found at i:30088013 original size:122 final size:122
Alignment explanation
Indices: 30087767--30088018 Score: 296
Period size: 122 Copynumber: 2.1 Consensus size: 122
30087757 GTTTTCGGGG
* * * **
30087767 CTTTAGCGGCATTTTTAATAAGCGCGGCTAATGCTCGGGTCTTTAGCGCCGTTTTTGAAGAAGCG
1 CTTTAGCAGCATTTTTAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGCCAATTTTGAAGAAGCG
* * * *
30087832 CTGATAATGCTCAGGTTTTTAGCGGTGTTTTTGAAGTAGCACCGCGAATGCTCATGT
66 CCGATAATGCTCAGGTATTTAGCGGCGTTTTTGAAGAAGCACCGCGAATGCTCATGT
*
30087889 C-TTAGCAGCATTTTTGAAGAAGCGCCGCTAATGC-CTGGGTCTTTAGCGGCAATTTTGAAGAAG
1 CTTTAGCAGCATTTTT-AAGAAGCGCCGCTAATGCTC-GGGTCTTTAGCGCCAATTTTGAAGAAG
* * * * * *
30087952 CGCCGCTAATTCTC-GTGTATTTAGCTGCGTTTTTGAAGAAGCGCCGCTAATTCTCGA-GT
64 CGCCGATAATGCTCAG-GTATTTAGCGGCGTTTTTGAAGAAGCACCGCGAATGCTC-ATGT
30088011 CTTTAGCA
1 CTTTAGCA
30088019 ATGTTTTTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
121 15 0.14
122 87 0.80
123 7 0.06
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (122 bp):
CTTTAGCAGCATTTTTAAGAAGCGCCGCTAATGCTCGGGTCTTTAGCGCCAATTTTGAAGAAGCG
CCGATAATGCTCAGGTATTTAGCGGCGTTTTTGAAGAAGCACCGCGAATGCTCATGT
Found at i:30088039 original size:41 final size:41
Alignment explanation
Indices: 30087952--30088039 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
30087942 TTTGAAGAAG
* ** * * *
30087952 CGCCGCTAATTCTCGTGTATTTAGCTGCGTTTTTGAAGAAG
1 CGCCGCTAATTCTCGAGTATTTAGCAACGTTTTTAAAAAAA
* *
30087993 CGCCGCTAATTCTCGAGTCTTTAGCAATGTTTTTAAAAAAA
1 CGCCGCTAATTCTCGAGTATTTAGCAACGTTTTTAAAAAAA
*
30088034 TGCCGC
1 CGCCGC
30088040 AAAAAATATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (41 bp):
CGCCGCTAATTCTCGAGTATTTAGCAACGTTTTTAAAAAAA
Found at i:30092486 original size:86 final size:84
Alignment explanation
Indices: 30092390--30092596 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 84
30092380 GTCAATGTTA
*
30092390 TAGCGGCGTTTTTAATAGAAGCGTCGCTAAAGGTCATGATCTTTAGCAGCGTTTGTGGG-GAAAG
1 TAGCGGCGTTTTTAA-A-AAGCGTCGCTAAAGGTCATGATCTTTAGCAGCATTTGTGGGAGAAA-
* *
30092454 AGCCGCTATAGGTCTTATTCTT
63 AGCCGCTAAAGGTCTTAGTCTT
* * * * * *
30092476 TAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCCTGGTTTTTAGCGGCATTTGTGGGAGAAAC
1 TAGCGGCGTTTTT-A-AAAAGCGTCGCTAAAGGTCATGATCTTTAGCAGCATTTGTGGGAGAAAA
*
30092541 GCCGCTAAAGGTCTTGGTCTT
64 GCCGCTAAAGGTCTTAGTCTT
* *
30092562 TAGCTGCGTTTGTGGAAAAAGCGTCGCTAAAGGTC
1 TAGCGGCGTTT-T-TAAAAAGCGTCGCTAAAGGTC
30092597 TTATTAGCGA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
86 94 0.91
87 8 0.08
88 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (84 bp):
TAGCGGCGTTTTTAAAAAGCGTCGCTAAAGGTCATGATCTTTAGCAGCATTTGTGGGAGAAAAGC
CGCTAAAGGTCTTAGTCTT
Found at i:30092598 original size:43 final size:43
Alignment explanation
Indices: 30092408--30092598 Score: 197
Period size: 43 Copynumber: 4.4 Consensus size: 43
30092398 TTTTTAATAG
* * * * **
30092408 AAGCGTCGCTAAAGGTCATGATCTTTAGCAGCGTTTGTGGGGA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
* * ** *
30092451 AAGAGCCGCTATAGGTCTTATTCTTTAGCGGCGTTT-TTGAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGA-AA
* * * *
30092494 AAGCGCCGCTAAAGGTCCTGGTTTTTAGCGGCATTTGTGGGAGA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-GGAAA
*
30092538 AA-CGCCGCTAAAGGTCTTGGTCTTTAGCTGCGTTTGTGGAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
*
30092580 AAGCGTCGCTAAAGGTCTT
1 AAGCGCCGCTAAAGGTCTT
30092599 ATTAGCGACG
Statistics
Matches: 119, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
42 8 0.07
43 105 0.88
44 4 0.03
45 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAA
Found at i:30094607 original size:43 final size:43
Alignment explanation
Indices: 30094480--30094772 Score: 229
Period size: 43 Copynumber: 6.9 Consensus size: 43
30094470 TTACAGAAAT
* * *
30094480 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGC--TGAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAA
** * * *
30094521 AAACGCCGCTAAAAATCATGTTCTGTAGCGGCGC-TTCAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAA
*
30094563 AAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTTACAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAA
* ** ** * * *
30094606 AAACGCTGCTAAAGAACATGACCTATAGCGGCGC--CTACCAAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTA-CAAA
* * * *
30094648 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTATTC-AC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TACAAA
* * * * * * * * *
30094691 AAACACCGCTAAAAGTAATGTTTTTTAGTGGCGTTTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCG-CTTTTACAAA
* *
30094735 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGCGATTTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT
30094773 CCACAAATGC
Statistics
Matches: 200, Mismatches: 44, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
41 32 0.16
42 66 0.33
43 68 0.34
44 33 0.17
45 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAA
Found at i:30094653 original size:85 final size:85
Alignment explanation
Indices: 30094471--30094684 Score: 256
Period size: 85 Copynumber: 2.5 Consensus size: 85
30094461 TTGCAGCGTT
* * *
30094471 TACAGAAATAAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGC--TGAAAAAAAACGCCGCTAAA
1 TACA-AAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTGAAAAAAAACGCCGCTAAA
** *
30094534 AATCATGTTCTGTAGCGGCGC
65 AATCATGACCTATAGCGGCGC
* * * *
30094555 TTCAAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTTACAAAAAACGCTGCTAAAG
1 TACAAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTGAAAAAAAACGCCGCTAAA-
30094620 AA-CATGACCTATAGCGGCGCC
65 AATCATGACCTATAGCGGCG-C
* * *
30094641 TAC-CAACAAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTT
1 TACAAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTT
30094685 ATTCACAAAC
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
83 35 0.31
84 3 0.03
85 69 0.62
86 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (85 bp):
TACAAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTGAAAAAAAACGCCGCTAAAA
ATCATGACCTATAGCGGCGC
Found at i:30094785 original size:42 final size:42
Alignment explanation
Indices: 30094480--30094788 Score: 226
Period size: 42 Copynumber: 7.3 Consensus size: 42
30094470 TTACAGAAAT
* **** *
30094480 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGC-TGAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
** * **** *
30094521 AAACGCCGCTAAAAATCATGTTCTGTAGCGGCGCTTCAAAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
* * *
30094563 AAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTTACAAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT-CCAC
* ** ** * * *
30094606 AAACGCTGCTAAAGAACATGACCTATAGCGGCGC-CTACCAAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCC-AC
* * *
30094648 AAACGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTATTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TCCAC
* * * * * *
30094691 AAACACCGCTAAAAGTAATGTTTTTTAGTGGCGTTTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCG--CTTTTCCAC
* *
30094735 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGCGATTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
*
30094777 AAATGCCGCTAA
1 AAACGCCGCTAA
30094789 TTTTGGAATT
Statistics
Matches: 211, Mismatches: 50, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
41 31 0.15
42 86 0.41
43 59 0.28
44 32 0.15
45 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCAC
Found at i:30095180 original size:21 final size:21
Alignment explanation
Indices: 30095156--30095206 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
30095146 TTCTTTTGAA
*
30095156 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
30095177 CCTCTGTTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
30095198 CCTCTGCTT
1 CCTCTGCTT
30095207 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:30100496 original size:17 final size:16
Alignment explanation
Indices: 30100474--30100508 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
30100464 TAAATATTCA
30100474 AATTTATAAATACTATC
1 AATTT-TAAATACTATC
30100491 AA-TTTAAATACTATC
1 AATTTTAAATACTATC
30100506 AAT
1 AAT
30100509 ATTCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 13 0.76
16 2 0.12
17 2 0.12
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTTAAATACTATC
Found at i:30100500 original size:15 final size:15
Alignment explanation
Indices: 30100480--30100508 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30100470 TTCAAATTTA
30100480 TAAATACTATCAATT
1 TAAATACTATCAATT
30100495 TAAATACTATCAAT
1 TAAATACTATCAAT
30100509 ATTCAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATACTATCAATT
Found at i:30101157 original size:20 final size:20
Alignment explanation
Indices: 30101132--30101169 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30101122 AGTAATGCAT
*
30101132 TTTTAAAAAATAATTACAGA
1 TTTTAAAAAATAAATACAGA
30101152 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
30101170 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACAGA
Found at i:30101400 original size:15 final size:16
Alignment explanation
Indices: 30101370--30101405 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
30101360 TTTTTTTTAA
*
30101370 ATATTAATTTATATTT
1 ATATTAATTTACATTT
30101386 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
30101401 ATATT
1 ATATT
30101406 CAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:30101551 original size:7 final size:7
Alignment explanation
Indices: 30101541--30101596 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
30101531 CCGTAAATCT
30101541 TAAACCC
1 TAAACCC
**
30101548 TAAACTA
1 TAAACCC
30101555 TAAACCC
1 TAAACCC
30101562 TAAACCC
1 TAAACCC
*
30101569 CAAACCC
1 TAAACCC
* **
30101576 CAAACTA
1 TAAACCC
30101583 TAAACCC
1 TAAACCC
30101590 TAAACCC
1 TAAACCC
30101597 ATTAATTAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:30101551 original size:14 final size:14
Alignment explanation
Indices: 30101541--30101594 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
30101531 CCGTAAATCT
30101541 TAAACCCTAAACTA
1 TAAACCCTAAACTA
**
30101555 TAAACCCTAAACCC
1 TAAACCCTAAACTA
* *
30101569 CAAACCCCAAACTA
1 TAAACCCTAAACTA
30101583 TAAACCCTAAAC
1 TAAACCCTAAAC
30101595 CCATTAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:30101573 original size:28 final size:28
Alignment explanation
Indices: 30101542--30101596 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
30101532 CGTAAATCTT
*
30101542 AAACCCTAAACTATAAACCCTAAACCCC
1 AAACCCCAAACTATAAACCCTAAACCCC
30101570 AAACCCCAAACTATAAACCCTAAACCC
1 AAACCCCAAACTATAAACCCTAAACCC
30101597 ATTAATTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (28 bp):
AAACCCCAAACTATAAACCCTAAACCCC
Found at i:30101699 original size:21 final size:21
Alignment explanation
Indices: 30101675--30101750 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
30101665 ATCGTAAATC
30101675 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCATAAACA
*
30101696 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCATAAACA
* * *
30101718 --ACAACCACCAAATCATAAACT
1 TTA-AACC-CTAAACCATAAACA
30101739 TTAAACCCTAAA
1 TTAAACCCTAAA
30101751 ACTAGCCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 17 0.39
23 1 0.02
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TTAAACCCTAAACCATAAACA
Found at i:30101711 original size:22 final size:21
Alignment explanation
Indices: 30101675--30101717 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
30101665 ATCGTAAATC
*
30101675 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
30101696 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
30101718 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:30102780 original size:113 final size:114
Alignment explanation
Indices: 30102369--30102760 Score: 608
Period size: 114 Copynumber: 3.4 Consensus size: 114
30102359 CTATTGGCTC
* * *
30102369 TATACCTCAAGACCAAAC-ACTGCGTTTTGGATAAGATATTTTGCAGCGCTTTTTATAATGTGCC
1 TATACCTCAAGACCAAACGA-TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCC
*
30102433 GCTAATTCTGTGCTTTAGCGGCGTTTTTCCATATGCGCCACTAATTCTAA
65 GCTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
* * **
30102483 TTTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCTA
1 TATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
30102548 CTAATGCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACGAATTCTAA
66 CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
* * *
30102597 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGAGGCGCTTTTTATAATGCGCTG
1 TATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
30102662 CTAATTCTGTGATCTAGCGGCGTTTTT-CATAAGCGCCACTAATTCTAA
66 CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
* *
30102710 TATACCTCTAGACCAAATGATGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 TATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTT
30102761 ACAAATAAAC
Statistics
Matches: 255, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
113 67 0.26
114 187 0.73
115 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (114 bp):
TATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
CTAATTCTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
Found at i:30108719 original size:12 final size:11
Alignment explanation
Indices: 30108657--30108721 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 11
30108647 AATTTAATAA
*
30108657 TATTATTATTA
1 TATTATTATTT
**
30108668 T-TTATTAATCC
1 TATTATT-ATTT
30108679 TATTATTATTT
1 TATTATTATTT
*
30108690 GTACTATTATTGT
1 -TATTATTATT-T
30108703 TATTATTATTT
1 TATTATTATTT
30108714 TCATTATT
1 T-ATTATT
30108722 TCTTCTTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 5 0.12
11 8 0.19
12 29 0.67
13 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (11 bp):
TATTATTATTT
Found at i:30118294 original size:3 final size:3
Alignment explanation
Indices: 30118288--30118315 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30118278 GAAGAAGAAG
30118288 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30118316 CAACCTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30127148 original size:6 final size:6
Alignment explanation
Indices: 30127132--30127167 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
30127122 ACTACAGCAT
*
30127132 CATATA TATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA
30127168 ATTAGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
CATATA
Found at i:30129845 original size:6 final size:6
Alignment explanation
Indices: 30129826--30129865 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
30129816 TTCAATTTTT
* *
30129826 TTATAA TTAT-A TTATAA TTATAG TTAAAA TTATAA TTATA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATA
30129866 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTATAA
Found at i:30129859 original size:18 final size:18
Alignment explanation
Indices: 30129836--30129870 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30129826 TTATAATTAT
30129836 ATTATAATTATAGTTAAA
1 ATTATAATTATAGTTAAA
*
30129854 ATTATAATTATATTTAA
1 ATTATAATTATAGTTAA
30129871 TTTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTATAATTATAGTTAAA
Found at i:30130045 original size:17 final size:17
Alignment explanation
Indices: 30130011--30130045 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
30130001 CAACTTTTAA
30130011 TAAATTATAATTATTTT
1 TAAATTATAATTATTTT
30130028 TAAATGTATAATTATTTT
1 TAAAT-TATAATTATTTT
30130046 GCTTCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TAAATTATAATTATTTT
Found at i:30130366 original size:27 final size:29
Alignment explanation
Indices: 30130336--30130405 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 29
30130326 ATTATGTTAT
*
30130336 CTTTTAAAAAATATAC-TTTCAAAA-AAA
1 CTTTTAAAAAATATACTTTTAAAAATAAA
*
30130363 CTTTT-AAAGATATACTTTTAAAAATAAA
1 CTTTTAAAAAATATACTTTTAAAAATAAA
*
30130391 CTTTTAAAATATATA
1 CTTTTAAAAAATATA
30130406 ACCAAGCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 8 0.22
29 8 0.22
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (29 bp):
CTTTTAAAAAATATACTTTTAAAAATAAA
Found at i:30130379 original size:14 final size:13
Alignment explanation
Indices: 30130343--30130403 Score: 70
Period size: 14 Copynumber: 4.6 Consensus size: 13
30130333 TATCTTTTAA
*
30130343 AAAATATACTTTC
1 AAAATATACTTTT
*
30130356 AAAA-AAACTTTT
1 AAAATATACTTTT
30130368 AAAGATATACTTTT
1 AAA-ATATACTTTT
*
30130382 AAAAATAAACTTTT
1 -AAAATATACTTTT
30130396 AAAATATA
1 AAAATATA
30130404 TAACCAAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 9 0.22
13 12 0.30
14 16 0.40
15 3 0.08
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAATATACTTTT
Found at i:30132021 original size:30 final size:30
Alignment explanation
Indices: 30131985--30132044 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30131975 CTAATTGTAT
30131985 TATTTTAGAAAATAAAATAATTTAAAGATA
1 TATTTTAGAAAATAAAATAATTTAAAGATA
30132015 TATTTTAGAAAATAAAATAATTTAAAGATA
1 TATTTTAGAAAATAAAATAATTTAAAGATA
30132045 AATTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (30 bp):
TATTTTAGAAAATAAAATAATTTAAAGATA
Found at i:30132747 original size:17 final size:16
Alignment explanation
Indices: 30132721--30132767 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
30132711 GTAACACTAA
30132721 TTAAATAATA-ATTGAT
1 TTAAATAATATATT-AT
30132737 TTAATATAATATATTAT
1 TTAA-ATAATATATTAT
30132754 TTATAACTAATATA
1 TTA-AA-TAATATA
30132768 CTTAGTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAAATAATATATTAT
Found at i:30146995 original size:36 final size:35
Alignment explanation
Indices: 30146953--30147039 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
30146943 TTCATCGAAT
*
30146953 GCATATATATATATTATTCAAATACATATGCCAAAA
1 GCATATATATATATTA-TCAAACACATATGCCAAAA
* * * *
30146989 GCATATACT-TATACTTATCAACCACATGTGCCGAAT
1 GCATATA-TATATA-TTATCAAACACATATGCCAAAA
*
30147025 GCACATATATATATT
1 GCATATATATATATT
30147040 TACTATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 3 0.07
36 35 0.83
37 4 0.10
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (35 bp):
GCATATATATATATTATCAAACACATATGCCAAAA
Found at i:30147300 original size:41 final size:41
Alignment explanation
Indices: 30147245--30147344 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 41
30147235 TTAATTTAAA
* *
30147245 CAGATTCACTGGCACTTAG-CTCGTTAGGCTTAAAGCCTAATT
1 CAGA-TCACCGGCACTTAGCCT-GCTAGGCTTAAAGCCTAATT
* *
30147287 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTAATT
* *
30147328 CAGTTCACCGACACTTA
1 CAGATCACCGGCACTTA
30147345 TACAGAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 45 0.88
42 6 0.12
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTAATT
Found at i:30150036 original size:20 final size:19
Alignment explanation
Indices: 30149980--30150037 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
30149970 TTTAATCATA
* *
30149980 TAATAAATTATTGATATAAT
1 TAATAAATTATTTATAT-TT
30150000 TAATATAATT-TTT-TATTT
1 TAATA-AATTATTTATATTT
30150018 TAATAAATTATTTAATATTT
1 TAATAAATTATTT-ATATTT
30150038 CAATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 3 0.09
20 12 0.38
21 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAATAAATTATTTATATTT
Found at i:30150804 original size:31 final size:31
Alignment explanation
Indices: 30150766--30150842 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 31
30150756 TCTGTCAAAT
*
30150766 AACAGAAAATATTTTATACAGATTCATCCAA
1 AACAGAAAATATTTTATACAAATTCATCCAA
*
30150797 AACAGAAAATATTTTATACAAATTTATCCAA
1 AACAGAAAATATTTTATACAAATTCATCCAA
*
30150828 ACACCAAAAAATATT
1 A-A-CAGAAAATATT
30150843 AACTTTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 30 0.73
32 1 0.02
33 10 0.24
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.29
Consensus pattern (31 bp):
AACAGAAAATATTTTATACAAATTCATCCAA
Found at i:30153162 original size:26 final size:26
Alignment explanation
Indices: 30153112--30153164 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
30153102 TTTAAAATAC
* *
30153112 TTTTAAAATATTTTTTATTTTTTTAT
1 TTTTAAAATATTTTTTATATGTTTAT
30153138 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAAT-ATTTTTTATATGTTTAT
30153164 T
1 T
30153165 AAAAAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTAAAATATTTTTTATATGTTTAT
Found at i:30156114 original size:9 final size:9
Alignment explanation
Indices: 30156088--30156133 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
30156078 AAAATTATTT
30156088 TATATTTTA
1 TATATTTTA
30156097 TATTATTTTA
1 TA-TATTTTA
*
30156107 TATATTTTT
1 TATATTTTA
*
30156116 TAAATTTTA
1 TATATTTTA
30156125 TATATTTTA
1 TATATTTTA
30156134 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATATTTTA
Found at i:30156141 original size:28 final size:28
Alignment explanation
Indices: 30156078--30156137 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
30156068 TTCTTGATAT
*
30156078 AAAATTATTTTATATTTTATATTATTTTA
1 AAAATT-TTTTAAATTTTATATTATTTTA
* *
30156107 TATATTTTTTAAATTTTATA-TATTTTA
1 AAAATTTTTTAAATTTTATATTATTTTA
30156134 AAAA
1 AAAA
30156138 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 9 0.35
28 13 0.50
29 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AAAATTTTTTAAATTTTATATTATTTTA
Found at i:30156142 original size:18 final size:18
Alignment explanation
Indices: 30156103--30156142 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30156093 TTTATATTAT
** *
30156103 TTTATATATTTTTTAAAT
1 TTTATATATTTTAAAAAA
30156121 TTTATATATTTTAAAAAA
1 TTTATATATTTTAAAAAA
30156139 TTTA
1 TTTA
30156143 AAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATATTTTAAAAAA
Found at i:30160001 original size:8 final size:7
Alignment explanation
Indices: 30159974--30159999 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30159964 TTAATCCCTC
30159974 TTTTTAA
1 TTTTTAA
30159981 TTTTTAA
1 TTTTTAA
30159988 TTTTTAA
1 TTTTTAA
30159995 TTTTT
1 TTTTT
30160000 TATGGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:30162170 original size:20 final size:20
Alignment explanation
Indices: 30162145--30162184 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30162135 AATAATTTCC
*
30162145 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30162165 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30162185 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30168524 original size:17 final size:18
Alignment explanation
Indices: 30168497--30168530 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30168487 TTGACAAATT
30168497 GAAAGATGAAAAATAGAA
1 GAAAGATGAAAAATAGAA
*
30168515 GAAA-ATGAAAATTAGA
1 GAAAGATGAAAAATAGA
30168531 TATAATCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
GAAAGATGAAAAATAGAA
Found at i:30168558 original size:52 final size:52
Alignment explanation
Indices: 30168474--30168604 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
30168464 ATCAACCATC
* * *
30168474 TAAGAAATAATCATTGACAAATTGAAAGATGAAAAATAGAAGAAAAT-GAAAA
1 TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAG-AAATCAAAAA
* * *
30168526 TTAGATATAATCCTTGATAAATTGAAATATGAAAAATAGAAGAAATCAAAAA
1 TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAGAAATCAAAAA
*
30168578 TAAGATATAATCCTTGACAAATCGAAA
1 TAAGATATAATCCTTGACAAATTGAAA
30168605 ATAAGATGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 4 0.06
52 65 0.94
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (52 bp):
TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAGAAATCAAAAA
Found at i:30185029 original size:22 final size:22
Alignment explanation
Indices: 30185004--30185047 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
30184994 ATTTATATTT
30185004 TATATTTTTGTTA-TTTTTAAAA
1 TATATTTTT-TTATTTTTTAAAA
30185026 TATATTTTTTTATTTTTTAAAA
1 TATATTTTTTTATTTTTTAAAA
30185048 AAATTGGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TATATTTTTTTATTTTTTAAAA
Found at i:30185641 original size:31 final size:31
Alignment explanation
Indices: 30185606--30185664 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
30185596 ATTTAATATA
* *
30185606 TAAAT-TAGTATATAAAATTTTTATTTTATTT
1 TAAATGTA-TATATAAAAATTTAATTTTATTT
30185637 TAAATGTATATATAAAAATTTAATTTTA
1 TAAATGTATATATAAAAATTTAATTTTA
30185665 ATTCAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TAAATGTATATATAAAAATTTAATTTTATTT
Found at i:30187499 original size:21 final size:20
Alignment explanation
Indices: 30187464--30187547 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 20
30187454 ATATATCAAT
30187464 TTAATATATTATAAACTTAAAAA
1 TTAA-ATATTA-AAA-TTAAAAA
* **
30187487 TTAATATATTAAATTTAAACT
1 TTAA-ATATTAAAATTAAAAA
*
30187508 TTAAATATTAAATATTAAATA
1 TTAAATATTAAA-ATTAAAAA
30187529 TTAAATATTAAATATTAAA
1 TTAAATATTAAA-ATTAAA
30187548 TTCGAATTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
20 8 0.15
21 33 0.61
22 2 0.04
23 11 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAATATTAAAATTAAAAA
Found at i:30187512 original size:7 final size:6
Alignment explanation
Indices: 30187495--30187549 Score: 56
Period size: 7 Copynumber: 8.2 Consensus size: 6
30187485 AATTAATATA
30187495 TTAAAT TTAAACT TTAAAT ATTAAAT ATTAAAT ATTAAAT ATTAAAT ATTAAAT
1 TTAAAT TTAAA-T TTAAAT -TTAAAT -TTAAAT -TTAAAT -TTAAAT -TTAAAT
30187549 T
1 T
30187550 CGAATTCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 7 0.15
7 40 0.85
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:30187518 original size:14 final size:14
Alignment explanation
Indices: 30187480--30187548 Score: 97
Period size: 14 Copynumber: 4.9 Consensus size: 14
30187470 TATTATAAAC
*
30187480 TTAAAAATTAATATA
1 TTAAATATTAA-ATA
30187495 TTAAAT-TTAAACT-
1 TTAAATATTAAA-TA
30187508 TTAAATATTAAATA
1 TTAAATATTAAATA
30187522 TTAAATATTAAATA
1 TTAAATATTAAATA
30187536 TTAAATATTAAAT
1 TTAAATATTAAAT
30187549 TCGAATTCGA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
13 8 0.16
14 37 0.74
15 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAATATTAAATA
Found at i:30187548 original size:21 final size:21
Alignment explanation
Indices: 30187480--30187548 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
30187470 TATTATAAAC
*
30187480 TTAAAAATTAATATATTAAAT-
1 TTAAATATTAA-ATATTAAATA
30187501 TTAAACT-TTAAATATTAAATA
1 TTAAA-TATTAAATATTAAATA
30187522 TTAAATATTAAATATTAAATA
1 TTAAATATTAAATATTAAATA
30187543 TTAAAT
1 TTAAAT
30187549 TCGAATTCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 10 0.23
21 34 0.77
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATATTAAATATTAAATA
Found at i:30187580 original size:13 final size:13
Alignment explanation
Indices: 30187562--30187608 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
30187552 AATTCGATTT
*
30187562 ATATTTTAAACTA
1 ATATTTTAAATTA
*
30187575 ATATTTTTAATTTA
1 ATA-TTTTAAATTA
30187589 AT-TTTTAAATTTA
1 ATATTTTAAA-TTA
30187602 ATATTTT
1 ATATTTT
30187609 TGTACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 8 0.29
14 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTTTAAATTA
Found at i:30193909 original size:30 final size:30
Alignment explanation
Indices: 30193822--30193898 Score: 110
Period size: 25 Copynumber: 2.7 Consensus size: 30
30193812 TCCATATTTA
*
30193822 TGGAAAGTCAAAGATATGAGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
30193849 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
30193877 TGGAAAGTCAAAGATATGGGTA
1 TGGAAAGTCAAAGATATGGGTA
30193899 CGAGATATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 20 0.45
26 2 0.05
27 2 0.05
28 1 0.02
30 19 0.43
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:30198516 original size:25 final size:29
Alignment explanation
Indices: 30198481--30198566 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
30198471 CATATTTATG
30198481 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
30198507 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
30198535 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-AAATATT
30198566 G
1 G
30198567 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 22 0.42
31 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:30198543 original size:30 final size:30
Alignment explanation
Indices: 30198479--30198567 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
30198469 TCCATATTTA
30198479 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
30198506 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
30198534 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
30198565 TGG
1 TGG
30198568 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 21 0.38
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:30208617 original size:2 final size:2
Alignment explanation
Indices: 30208600--30208634 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
30208590 GGTATTTATT
30208600 AC AC A- AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
30208635 ATACAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30220664 original size:16 final size:16
Alignment explanation
Indices: 30220643--30220674 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30220633 ATTTTGTTGC
30220643 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
30220659 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
30220675 CTTTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:30229253 original size:23 final size:23
Alignment explanation
Indices: 30229223--30229276 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
30229213 AGGCATTTAG
*
30229223 AAACTTAAGTAGCTGGTTAGGGA
1 AAACTTAAATAGCTGGTTAGGGA
* *
30229246 AAAGTTAAATCGCTGGTTAGGGA
1 AAACTTAAATAGCTGGTTAGGGA
30229269 AAACTTAA
1 AAACTTAA
30229277 CCGGTTTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (23 bp):
AAACTTAAATAGCTGGTTAGGGA
Found at i:30237217 original size:41 final size:41
Alignment explanation
Indices: 30237144--30237488 Score: 321
Period size: 41 Copynumber: 8.4 Consensus size: 41
30237134 TAATTATTCA
* * ** * **
30237144 CTAAATTGCACAAACATGCCATTGTTTGTACTTTGGCACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
*
30237185 CTAAATTGCACATACGTGCCCCTATTTTTACTTTGATACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* ** *
30237226 CTAAATTACACATAATTGCCCCTATTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* * * * * **
30237267 TTGAATTGTACATACATGCCCCTATTTGCACTTCAATACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* * * **
30237308 CTGAATTACACATATGTGCCCCTATTTGTACTTTGGGACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* * * * *
30237349 CTGAATTGCACATATGTGCCCTTATTTGTACTTCGATACCT
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* *
30237390 CTAAATTGCACATACGTGCCCTTGTTTGTACTTTGATACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* * ** * * *
30237431 CTAAATTGTACATATGTGCCATTGTTTGTACTTCGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
* * *
30237472 CTGAATAGCACCTACGT
1 CTAAATTGCACATACGT
30237489 TCCCTGTTTA
Statistics
Matches: 250, Mismatches: 54, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 250 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (41 bp):
CTAAATTGCACATACGTGCCCCTATTTGTACTTTGATACCC
Found at i:30237474 original size:123 final size:122
Alignment explanation
Indices: 30237144--30237482 Score: 383
Period size: 123 Copynumber: 2.8 Consensus size: 122
30237134 TAATTATTCA
* * ** *
30237144 CTAAATTGCACAAACATGCCATTGTTTGTACTTTGGCACCCCTAAATTGCACATACGTGCCCCTA
1 CTAAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCCTAAATTGCACATATGTGCCCCTA
* * * * * *
30237209 TTTTTACTTTGATACCCCTAAATTACACATAATTGCCCCTATTTGTACTTTGGTACC
66 TTTGTACTTTGGTACCCCTGAATTGCACATAATTGCCCCTATTTGTACTTCGATACC
* * * * * ** * *
30237266 CTTGAATTGTACATACATGCCCCTATTTGCACTTCAATACCCCTGAATTACACATATGTGCCCCT
1 C-TAAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCCTAAATTGCACATATGTGCCCCT
* *
30237331 ATTTGTACTTTGGGACCCCTGAATTGCACAT-ATGTGCCCTTATTTGTACTTCGATACC
65 ATTTGTACTTTGGTACCCCTGAATTGCACATAAT-TGCCCCTATTTGTACTTCGATACC
* * **
30237389 TCTAAATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTAAATTGTACATATGTGCCATT
1 -CTAAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCCTAAATTGCACATATGTGCCCCT
* * *
30237454 GTTTGTACTTCGGTACCCCTGAATAGCAC
65 ATTTGTACTTTGGTACCCCTGAATTGCAC
30237483 CTACGTTCCC
Statistics
Matches: 175, Mismatches: 39, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
122 3 0.02
123 171 0.98
124 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (122 bp):
CTAAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCCTAAATTGCACATATGTGCCCCTA
TTTGTACTTTGGTACCCCTGAATTGCACATAATTGCCCCTATTTGTACTTCGATACC
Found at i:30237488 original size:82 final size:82
Alignment explanation
Indices: 30237166--30237473 Score: 355
Period size: 82 Copynumber: 3.8 Consensus size: 82
30237156 AACATGCCAT
* * *
30237166 TGTTTGTACTTTGGCACCCCTAAATTGCACATACGTGCCCCTATTTTTACTTTGATACCCCTAAA
1 TGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAA
**
30237231 TTACACATAATTGCCCC
66 TTACACATACGTGCCCC
* * * * * * * *
30237248 TATTTGTACTTTGGTACCCTTGAATTGTACATACATGCCCCTATTTGCACTTCAATACCCCTGAA
1 TGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAA
*
30237313 TTACACATATGTGCCCC
66 TTACACATACGTGCCCC
* * * * * *
30237330 TATTTGTACTTTGGGACCCCTGAATTGCACATATGTGCCCTTATTTGTACTTCGATACCTCTAAA
1 TGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAA
* *
30237395 TTGCACATACGTGCCCT
66 TTACACATACGTGCCCC
* * * ** * *
30237412 TGTTTGTACTTTGATACCCCTAAATTGTACATATGTGCCATTGTTTGTACTTCGGTACCCCT
1 TGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCT
30237474 GAATAGCACC
Statistics
Matches: 191, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 191 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (82 bp):
TGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTAAA
TTACACATACGTGCCCC
Found at i:30242613 original size:32 final size:32
Alignment explanation
Indices: 30242572--30242648 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
30242562 ATTTGAGTGA
30242572 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
1 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
30242604 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
1 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
30242636 TTAAATGG-TAATT
1 TTAAATGGTTAATT
30242649 AGACCATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 5 0.11
32 40 0.89
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (32 bp):
TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
Found at i:30247201 original size:20 final size:20
Alignment explanation
Indices: 30247157--30247195 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30247147 TGGAGCAGGA
* *
30247157 ATATCGATACCTTAGGAAAT
1 ATATCGATACATTAAGAAAT
30247177 ATATCGATACATTAAGAAA
1 ATATCGATACATTAAGAAA
30247196 AGTATCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACATTAAGAAAT
Found at i:30251770 original size:18 final size:17
Alignment explanation
Indices: 30251733--30251770 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
30251723 GATAAATTGT
30251733 TTTATTTAATTTATCCA
1 TTTATTTAATTTATCCA
30251750 TTTATTTACTATTTA-CCA
1 TTTATTTA--ATTTATCCA
30251768 TTT
1 TTT
30251771 TAACCTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTTAATTTATCCA
Found at i:30253169 original size:20 final size:20
Alignment explanation
Indices: 30253131--30253169 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30253121 TGGAGCAGGA
*
30253131 ATATCGATAACTTAGGAAAT
1 ATATCGATAACTTAAGAAAT
30253151 ATATCGAT-ACTTTAAGAAA
1 ATATCGATAAC-TTAAGAAA
30253170 AGTGTCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATAACTTAAGAAAT
Found at i:30255496 original size:31 final size:31
Alignment explanation
Indices: 30255458--30255519 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30255448 AGACAAATTA
30255458 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
30255489 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
30255520 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:30261093 original size:21 final size:20
Alignment explanation
Indices: 30261067--30261112 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
30261057 GGTATGCAAC
30261067 TTTTTTTTGCGCTTTTTGCT
1 TTTTTTTTGCGCTTTTTGCT
30261087 TCTTTTTTTGCGCTTTTTGCT
1 T-TTTTTTTGCGCTTTTTGCT
30261108 TTTTT
1 TTTTT
30261113 CTGTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.00, C:0.15, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTGCGCTTTTTGCT
Found at i:30261695 original size:31 final size:31
Alignment explanation
Indices: 30261657--30261718 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
30261647 AGGCAAATTA
30261657 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
30261688 CAAGAGTAATTGAATCCTAATAAAGCTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
30261719 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:30263443 original size:43 final size:43
Alignment explanation
Indices: 30263381--30263534 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
30263371 TTCAAATGCC
*
30263381 CACACGGCCTGAG--ACACGGGCGTGTCTCTTAGCCGTGTGAGA
1 CACACGGCCTG-GCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
* * *
30263423 CACACGGCCTAGCCATACGGGCGTGTCTCTTGGCCATGTGAGA
1 CACACGGCCTGGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
* *
30263466 CACACGGCCTGGCCACACGAGTGTGTCTCTTGGCCGTGTGAGA
1 CACACGGCCTGGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
*
30263509 CACACAGCCTGGCCACACGGGCGTGT
1 CACACGGCCTGGCCACACGGGCGTGT
30263535 ATCCCCTATA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 87 0.89
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (43 bp):
CACACGGCCTGGCCACACGGGCGTGTCTCTTGGCCGTGTGAGA
Found at i:30266199 original size:9 final size:10
Alignment explanation
Indices: 30266160--30266260 Score: 54
Period size: 10 Copynumber: 10.4 Consensus size: 10
30266150 TTTTGGTACG
30266160 ATAA-TTTTT
1 ATAATTTTTT
30266169 ATAAATTTTTT
1 AT-AATTTTTT
*
30266180 ATGAA--TATT
1 AT-AATTTTTT
30266189 AT-ATTTTTT
1 ATAATTTTTT
30266198 ATAATTTTCTT
1 ATAATTTT-TT
**
30266209 ACGA--TTTT
1 ATAATTTTTT
**
30266217 ATAAAATTTT
1 ATAATTTTTT
30266227 ATAATTTTTT
1 ATAATTTTTT
*
30266237 -TAAGATTTTT
1 ATAA-TTTTTT
*
30266247 ATAATTTTTA
1 ATAATTTTTT
30266257 ATAA
1 ATAA
30266261 AATTTAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 4 0.06
9 17 0.24
10 32 0.46
11 16 0.23
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:30266226 original size:29 final size:28
Alignment explanation
Indices: 30266194--30266258 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
30266184 ATATTATATT
*
30266194 TTTTATAATTTTCTTACGATTTTATAAAA
1 TTTTATAATTTTCTTAAGATTTT-TAAAA
* *
30266223 TTTTATAATTTTTTTAAGATTTTTATAA
1 TTTTATAATTTTCTTAAGATTTTTAAAA
30266251 TTTT-TAAT
1 TTTTATAAT
30266259 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 4 0.12
28 8 0.24
29 21 0.64
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATAATTTTCTTAAGATTTTTAAAA
Found at i:30274359 original size:30 final size:31
Alignment explanation
Indices: 30274304--30274364 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
30274294 TAAAATTTTG
30274304 TTCAAGTCCGGCCCAGATAAAAATACTAAAA
1 TTCAAGTCCGGCCCAGATAAAAATACTAAAA
* *
30274335 TTCAGGTCCGGCCCGGAT-AAAATACTAAAA
1 TTCAAGTCCGGCCCAGATAAAAATACTAAAA
30274365 CCTGAGGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (31 bp):
TTCAAGTCCGGCCCAGATAAAAATACTAAAA
Found at i:30274409 original size:12 final size:12
Alignment explanation
Indices: 30274390--30274424 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
30274380 GGTCCGGCCG
30274390 TATTATTTTTTA
1 TATTATTTTTTA
*
30274402 TTTTATTTTTTA
1 TATTATTTTTTA
*
30274414 TATAATTTTTT
1 TATTATTTTTT
30274425 TAAAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:30274447 original size:16 final size:18
Alignment explanation
Indices: 30274426--30274462 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
30274416 TAATTTTTTT
*
30274426 AAAAATA-TAATACA-TA
1 AAAAATACTAAAACATTA
30274442 AAAAATACTAAAACATTA
1 AAAAATACTAAAACATTA
30274460 AAA
1 AAA
30274463 CAAATGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATACTAAAACATTA
Found at i:30274626 original size:11 final size:11
Alignment explanation
Indices: 30274607--30274652 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
30274597 TAATAGTGAA
30274607 AAAACAACAAG
1 AAAACAACAAG
* *
30274618 AAAATAACAAT
1 AAAACAACAAG
*
30274629 AAAACAATAA-
1 AAAACAACAAG
30274639 AAAACAACAAG
1 AAAACAACAAG
30274650 AAA
1 AAA
30274653 GCAGTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.76, C:0.13, G:0.04, T:0.07
Consensus pattern (11 bp):
AAAACAACAAG
Found at i:30274647 original size:21 final size:21
Alignment explanation
Indices: 30274607--30274663 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
30274597 TAATAGTGAA
* * *
30274607 AAAACAACAAGAAAATAACAAT
1 AAAACAATAA-AAAACAACAAG
30274629 AAAACAATAAAAAACAACAAG
1 AAAACAATAAAAAACAACAAG
* *
30274650 AAAGCAGTAAAAAA
1 AAAACAATAAAAAA
30274664 AATTTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.74, C:0.12, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAACAATAAAAAACAACAAG
Found at i:30278253 original size:27 final size:27
Alignment explanation
Indices: 30278217--30278275 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
30278207 CAACATTTGG
* *
30278217 AGTCCGTCGAGACAT-TAAACATGGGGT
1 AGTCCATCGAGA-ATATAAAAATGGGGT
30278244 AGTCCATCGAGAATATAAAAATGGGGT
1 AGTCCATCGAGAATATAAAAATGGGGT
30278271 AGTCC
1 AGTCC
30278276 GTTAGGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTCCATCGAGAATATAAAAATGGGGT
Found at i:30282711 original size:45 final size:44
Alignment explanation
Indices: 30282655--30282773 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 44
30282645 ATTAACTTGG
* * * *
30282655 GAAAAGAGAAAGACCATGGTTGAAAGATATCATGGCATTATAACC
1 GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATA-AACC
*
30282700 GAAATGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
1 GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
* *
30282744 -AAAACGAGTAAGACCCTAGTTGAAAGATAC
1 GAAAA-GAGAAAGACCATAGTTGAAAGATAC
30282774 TATGACACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 3 0.05
44 27 0.42
45 35 0.54
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (44 bp):
GAAAAGAGAAAGACCATAGTTGAAAGATACCATGGAAATAAACC
Found at i:30284080 original size:10 final size:10
Alignment explanation
Indices: 30284065--30284127 Score: 56
Period size: 10 Copynumber: 5.9 Consensus size: 10
30284055 AAAACAAATA
30284065 AAAGAAAAAG
1 AAAGAAAAAG
30284075 AAAGAAAAAGG
1 AAAGAAAAA-G
*
30284086 AATACAAAACCA-
1 AA-AGAAAA--AG
*
30284098 AAACGAAACAG
1 AAA-GAAAAAG
30284109 AAAGAAAAAG
1 AAAGAAAAAG
30284119 AAAGAAAAA
1 AAAGAAAAA
30284128 AAGAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 25 0.58
11 7 0.16
12 10 0.23
14 1 0.02
ACGTcount: A:0.75, C:0.08, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:30310443 original size:26 final size:25
Alignment explanation
Indices: 30310414--30310462 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
30310404 CGGTGAGCCA
30310414 TTAATCAGGAAGCTTACAAAGAGCTT
1 TTAATCAGGAAGC-TACAAAGAGCTT
* *
30310440 TTAATCGGGAAGCTCCAAAGAGC
1 TTAATCAGGAAGCTACAAAGAGC
30310463 CATATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
TTAATCAGGAAGCTACAAAGAGCTT
Found at i:30320318 original size:62 final size:59
Alignment explanation
Indices: 30320238--30320354 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
30320228 AATGGTTATC
* *
30320238 TTAATATTAAATTAAATTTAATGTTTATCTTATAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATTTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
*
30320300 TTAATATTAAATTTAATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
30320355 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
60 1 0.02
61 1 0.02
62 27 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATTTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:30321415 original size:21 final size:21
Alignment explanation
Indices: 30321382--30321424 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30321372 AAATAGTCTT
* *
30321382 ATTTAACAACCAAGTTCTTAA
1 ATTTAACAACCAACTTCATAA
* *
30321403 ATTTATCATCCAACTTCATAA
1 ATTTAACAACCAACTTCATAA
30321424 A
1 A
30321425 CAACTCAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTAACAACCAACTTCATAA
Found at i:30322776 original size:19 final size:19
Alignment explanation
Indices: 30322740--30322779 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30322730 AGTTAATAAC
* *
30322740 AAATTTGATTACGGTGGGT
1 AAATTTGATCACGATGGGT
*
30322759 AAATTTGATCACTATGGGT
1 AAATTTGATCACGATGGGT
30322778 AA
1 AA
30322780 CTATGGCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (19 bp):
AAATTTGATCACGATGGGT
Found at i:30331079 original size:18 final size:17
Alignment explanation
Indices: 30331052--30331085 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30331042 ATTTGGGCCA
*
30331052 TGTGGGCCACATGGGCG
1 TGTGGGCCACACGGGCG
30331069 TGTGGGCCCACACGGGC
1 TGTGGG-CCACACGGGC
30331086 AAACATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCG
Found at i:30332076 original size:18 final size:18
Alignment explanation
Indices: 30332032--30332079 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
30332022 GCAATAAGAA
30332032 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
30332050 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
30332068 AATGTTTTGAAA
1 AATGTTTTGAAA
30332080 ACAAGCGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:30334415 original size:21 final size:22
Alignment explanation
Indices: 30334371--30334421 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
30334361 TTGTTATAAC
*
30334371 TTTATAAAACACACAAATTATT
1 TTTATAATACACACAAATTATT
* *
30334393 TTTATAATACA-AGAAATTGTT
1 TTTATAATACACACAAATTATT
*
30334414 TTCATAAT
1 TTTATAAT
30334422 CATCCCAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTATAATACACACAAATTATT
Found at i:30335659 original size:18 final size:17
Alignment explanation
Indices: 30335638--30335712 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
30335628 ATCTTACGAC
*
30335638 TTTATAAAATTTTATATT
1 TTTAT-AAATTTTATAAT
*
30335656 TTTATATATTTTATAAAT
1 TTTATAAATTTTAT-AAT
30335674 TTTATAAATTTTATAAAT
1 TTTATAAATTTTAT-AAT
*
30335692 TTT-TAGTATTTTTATAAT
1 TTTATA--AATTTTATAAT
30335710 TTT
1 TTT
30335713 TTCTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.20
18 33 0.66
19 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTATAAATTTTATAAT
Found at i:30335669 original size:9 final size:9
Alignment explanation
Indices: 30335646--30335743 Score: 69
Period size: 9 Copynumber: 10.7 Consensus size: 9
30335636 ACTTTATAAA
30335646 ATTTTATAT
1 ATTTTATAT
30335655 -TTTTATAT
1 ATTTTATAT
*
30335663 ATTTTATAA
1 ATTTTATAT
*
30335672 ATTTTATAA
1 ATTTTATAT
*
30335681 ATTTTATAA
1 ATTTTATAT
30335690 ATTTT-TAGT
1 ATTTTATA-T
30335699 ATTTT-TAT
1 ATTTTATAT
* *
30335707 AATTTTTTCT
1 -ATTTTATAT
30335717 AATTTT-TAAT
1 -ATTTTAT-AT
30335727 ATTTTTATTAT
1 A-TTTTA-TAT
30335738 ATTTTA
1 ATTTTA
30335744 ATAATTTCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
8 11 0.14
9 44 0.57
10 18 0.23
11 3 0.04
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:30335669 original size:27 final size:27
Alignment explanation
Indices: 30335638--30335694 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30335628 ATCTTACGAC
* *
30335638 TTTATAAAATTTTAT-ATTTTTATATAT
1 TTTAT-AAATTTTATAAATTTTATAAAT
30335665 TTTATAAATTTTATAAATTTTATAAAT
1 TTTATAAATTTTATAAATTTTATAAAT
30335692 TTT
1 TTT
30335695 TAGTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTATAAATTTTATAAATTTTATAAAT
Found at i:30335742 original size:28 final size:28
Alignment explanation
Indices: 30335673--30335742 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
30335663 ATTTTATAAA
* *
30335673 TTTTATAA-ATTTTATAAATTTTTAGTAT
1 TTTTATAATATTTTCT-AATTTTTAATAT
*
30335701 TTTTATAATTTTTTCTAATTTTTAATAT
1 TTTTATAATATTTTCTAATTTTTAATAT
*
30335729 TTTTATTATATTTT
1 TTTTATAATATTTT
30335743 AATAATTTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTATAATATTTTCTAATTTTTAATAT
Found at i:30335761 original size:19 final size:18
Alignment explanation
Indices: 30335712--30335762 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
30335702 TTTATAATTT
*
30335712 TTTC-TAATTTTTAATAT
1 TTTCATAATTTTTAATAA
* *
30335729 TTTTATTATATTTTAATAA
1 TTTCATAAT-TTTTAATAA
30335748 TTTCAGTAATTTTTA
1 TTTCA-TAATTTTTA
30335763 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 17 0.65
20 3 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTCATAATTTTTAATAA
Found at i:30338551 original size:14 final size:13
Alignment explanation
Indices: 30338515--30338552 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
30338505 TCTATCACCA
*
30338515 AATTGTTAACTTT
1 AATTGTTAACATT
30338528 AATT-TTAACATT
1 AATTGTTAACATT
30338540 AATTGATTAACAT
1 AATTG-TTAACAT
30338553 ATACAGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (13 bp):
AATTGTTAACATT
Found at i:30348935 original size:24 final size:24
Alignment explanation
Indices: 30348887--30348935 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30348877 ACTGGTCATA
* * *
30348887 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGAGAAAATTG
*
30348911 GAGAGATTTGAGGAGAGAAAATTG
1 GAGAGAATTGAGGAGAGAAAATTG
30348935 G
1 G
30348936 GATTTGGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (24 bp):
GAGAGAATTGAGGAGAGAAAATTG
Found at i:30349653 original size:27 final size:27
Alignment explanation
Indices: 30349605--30349774 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
30349595 AGAGGTCGAT
*
30349605 AAATGACCGAAATACCCTCTATAGGTTA
1 AAATGACCGAAATACCC-CTATAGGGTA
* *
30349633 AAATGACCAAAATACCCCTATAGGATA
1 AAATGACCGAAATACCCCTATAGGGTA
**
30349660 AAATGACCGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
*
30349687 AAATGACCGAAATA-CCTTCATAGGGTA
1 AAATGACCGAAATACCCCT-ATAGGGTA
*
30349714 AAATGACCGAAATATCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
** * * *
30349741 AAATGACTAAAATACCCCCATAGGATG
1 AAATGACCGAAATACCCCTATAGGGTA
30349768 AAATGAC
1 AAATGAC
30349775 TGTTATACCC
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 103 0.83
28 19 0.15
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAGGGTA
Found at i:30349783 original size:81 final size:82
Alignment explanation
Indices: 30349605--30349774 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 82
30349595 AGAGGTCGAT
* *
30349605 AAATGACCGAAATACCCTCTATAGGTTAAAATGACCAAAATACCCCTATAGGATAAAATGACCGA
1 AAATGACCGAAATACCCTCTATAGGGTAAAATGACCAAAATACCCCTATAGGATAAAATGACCAA
* *
30349670 AATACCCCCGTAGGGTA
66 AATACCCCCATAGGATA
* * * * *
30349687 AAATGACCGAAATACCTTC-ATAGGGTAAAATGACCGAAATATCCCTATAGGGTAAAATGACTAA
1 AAATGACCGAAATACCCTCTATAGGGTAAAATGACCAAAATACCCCTATAGGATAAAATGACCAA
*
30349751 AATACCCCCATAGGATG
66 AATACCCCCATAGGATA
30349768 AAATGAC
1 AAATGAC
30349775 TGTTATACCC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 60 0.77
82 18 0.23
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.20
Consensus pattern (82 bp):
AAATGACCGAAATACCCTCTATAGGGTAAAATGACCAAAATACCCCTATAGGATAAAATGACCAA
AATACCCCCATAGGATA
Found at i:30359828 original size:21 final size:21
Alignment explanation
Indices: 30359784--30359841 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
30359774 TAACACACTT
*
30359784 AGATGCATCCACAACAAAGCC
1 AGATGCATCCACAACAAAACC
* * *
30359805 AGATGCATCCATACCAAAATC
1 AGATGCATCCACAACAAAACC
* *
30359826 AGATGTAGCCACAACA
1 AGATGCATCCACAACA
30359842 CTTTTTAGTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (21 bp):
AGATGCATCCACAACAAAACC
Found at i:30379135 original size:51 final size:50
Alignment explanation
Indices: 30379070--30379200 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 50
30379060 TGATAGGTCG
30379070 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TAT-GATCA
* * ** * *
30379121 CGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGATAGTGATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-ATGATCA
* *
30379172 TATGTGCAGTACTATGTGCAGGCTACTAT
1 CATGTGTAGTACTATGTGCAGGCTACTAT
30379201 TTGAACCGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.01
51 66 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTATGATCA
Found at i:30379209 original size:102 final size:101
Alignment explanation
Indices: 30379017--30379200 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 101
30379007 AAAGTGATGG
* * * * *
30379017 TCACGTGTGTAGTACTATGCGTAGGTTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGAATGATAGGTCACATGTGCAGTAC
30379082 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* * * * *
30379118 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTATCGGATAGTGAT-GGTCATATGTGCAGT
1 TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGCAGT
30379182 ACTATGTGCAGGCTACTAT
64 ACTATGTGCAGGCTACTAT
30379201 TTGAACCGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 35 0.49
102 32 0.45
103 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGCGCAAGCTACTACGTGTACCAGAATGATAGGTCACATGTGCAGTAC
TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:30379296 original size:46 final size:43
Alignment explanation
Indices: 30379205--30379289 Score: 98
Period size: 46 Copynumber: 1.9 Consensus size: 43
30379195 TACTATTTGA
* *
30379205 ACCGGTATCATTAATTATAAGGTGGTTGATATGTGTTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGATCCC
* * *
30379248 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGATATGTGCTGA
30379290 ATCCACCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 5 0.15
44 11 0.32
45 2 0.06
46 16 0.47
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGATCCC
Found at i:30384134 original size:45 final size:45
Alignment explanation
Indices: 30383979--30384135 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
30383969 GTGTACTAAG
* * **
30383979 TATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
* * *
30384024 TACCATTGATTATAAAGGTGGTTGCTATGTGCTGACACAACCGGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACC-GAA
* ** * * *
30384070 -ATCACTGAAAATAAAGGTGGTTGCTATATGCTAATGCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
* *
30384114 TATAATTGATTATAAGGGTGGT
1 TATCATTGATTATAAAGGTGGT
30384136 GCAATGCGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
44 3 0.03
45 85 0.96
46 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATACCACCGAA
Found at i:30387296 original size:21 final size:22
Alignment explanation
Indices: 30387267--30387310 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
30387257 ATGAACTCAG
30387267 TTTTAAAAGAA-ATATCAGATTA
1 TTTTAAAAGAATATA-CAGATTA
*
30387289 TTTT-AAAGATTATACAGATTA
1 TTTTAAAAGAATATACAGATTA
30387310 T
1 T
30387311 GTAATGTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
TTTTAAAAGAATATACAGATTA
Found at i:30392590 original size:3 final size:3
Alignment explanation
Indices: 30392584--30392667 Score: 64
Period size: 3 Copynumber: 27.7 Consensus size: 3
30392574 TAGAACTAAC
* *
30392584 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AA- AACT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * *
30392629 AAG AAA AAT AA- AAC AACA AAT AAT AATT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AA
30392668 AAAGAAATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
2 4 0.06
3 54 0.83
4 7 0.11
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:30392638 original size:24 final size:25
Alignment explanation
Indices: 30392599--30392664 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
30392589 TAATAATAAT
* *
30392599 AATAATAATG-ATAATAAAACTAA-G
1 AATAATAATGAAAAATAAAAC-AACA
30392623 AATAATAA-GAAAAATAAAACAACA
1 AATAATAATGAAAAATAAAACAACA
*
30392647 AATAATAATTAAAAATAA
1 AATAATAATGAAAAATAA
30392665 TAAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.08
24 25 0.69
25 8 0.22
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (25 bp):
AATAATAATGAAAAATAAAACAACA
Found at i:30396522 original size:28 final size:29
Alignment explanation
Indices: 30396473--30396527 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
30396463 CAGAATAAGA
* *
30396473 AAAAAAATTAGAATGTAAAAATTAAATTT
1 AAAAAAATTAGAATATAAAAATAAAATTT
* *
30396502 AAAAAAA-TATAATATATAAATAAAAT
1 AAAAAAATTAGAATATAAAAATAAAAT
30396528 AAAAATGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAAAAATTAGAATATAAAAATAAAATTT
Found at i:30398744 original size:16 final size:15
Alignment explanation
Indices: 30398715--30398747 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
30398705 AAGGAGTTTA
30398715 AGAAATTTTATTTTT
1 AGAAATTTTATTTTT
30398730 AGAAATTTTATTTTT
1 AGAAATTTTATTTTT
30398745 AGA
1 AGA
30398748 GAGCAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
AGAAATTTTATTTTT
Found at i:30401750 original size:16 final size:17
Alignment explanation
Indices: 30401719--30401751 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30401709 TATAATCCAG
30401719 CATATATCAAAACATAT
1 CATATATCAAAACATAT
*
30401736 CATATA-CAGAACATAT
1 CATATATCAAAACATAT
30401752 AACAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
CATATATCAAAACATAT
Found at i:30403291 original size:42 final size:44
Alignment explanation
Indices: 30403193--30403300 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 44
30403183 TCGTACAATT
***
30403193 CCAATGTCCCAGAC-GAGGTCTTACATTTAATCAAATATCGATG
1 CCAATGTCCCAGACAGAGGTCTTACACGAAATCAAATATCGATG
* * *
30403236 CCACTATCCCAGACAG-GGTCTTACACGAAATCATATA-CGATG
1 CCAATGTCCCAGACAGAGGTCTTACACGAAATCAAATATCGATG
* *
30403278 CCAATGTCTCAGACATA-GTCTTA
1 CCAATGTCCCAGACAGAGGTCTTA
30403301 TACTTAAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 23 0.43
43 29 0.55
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
CCAATGTCCCAGACAGAGGTCTTACACGAAATCAAATATCGATG
Found at i:30404479 original size:13 final size:13
Alignment explanation
Indices: 30404461--30404487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30404451 CACAAACGAT
30404461 AAAATTTTCACAC
1 AAAATTTTCACAC
30404474 AAAATTTTCACAC
1 AAAATTTTCACAC
30404487 A
1 A
30404488 TATCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:30405208 original size:54 final size:54
Alignment explanation
Indices: 30405075--30405208 Score: 128
Period size: 54 Copynumber: 2.5 Consensus size: 54
30405065 TGGTTTGTCA
*
30405075 TGCTGATTTACGAA-CACGACCTTCTACTTTCGAGATTTTATGAATCTCACAGTC
1 TGCTGATTTAC-AATCACGACCTTCTACTTTCGAGATTTTACGAATCTCACAGTC
** * * ** * ** *
30405129 CACTGATTTACTATCACAATTTTCTACTTTTGAGATTTTACGAATCTTC-TGGTT
1 TGCTGATTTACAATCACGACCTTCTACTTTCGAGATTTTACGAATC-TCACAGTC
*
30405183 TGCTGATTTACAATTACGACCTTCTA
1 TGCTGATTTACAATCACGACCTTCTA
30405209 TATACAAGAT
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.95
55 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (54 bp):
TGCTGATTTACAATCACGACCTTCTACTTTCGAGATTTTACGAATCTCACAGTC
Found at i:30405331 original size:24 final size:24
Alignment explanation
Indices: 30405273--30405339 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
30405263 TGTTTACAAA
* *
30405273 ATTTATGCAAATACAATTCAAAAC
1 ATTTCTGCAAATACAGTTCAAAAC
* ** *
30405297 ATGTCAACAAATATAGTTCAAAAC
1 ATTTCTGCAAATACAGTTCAAAAC
30405321 ATTTCTGCAAATACAGTTC
1 ATTTCTGCAAATACAGTTC
30405340 GCAATATTCT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (24 bp):
ATTTCTGCAAATACAGTTCAAAAC
Found at i:30405437 original size:24 final size:24
Alignment explanation
Indices: 30405410--30405456 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30405400 ATGTAGTTTG
*
30405410 CAACATTTATGTAAATACAGTTCA
1 CAACATTTATGCAAATACAGTTCA
*
30405434 CAACATTTTTGCAAATACAGTTC
1 CAACATTTATGCAAATACAGTTC
30405457 GTAATATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (24 bp):
CAACATTTATGCAAATACAGTTCA
Done.