Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 201 of 213
Found at i:60132952 original size:21 final size:21
Alignment explanation
Indices: 60132926--60132965 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60132916 TTACAAATTT
*
60132926 AAAAAATAGTTAAATTTTATA
1 AAAAAAAAGTTAAATTTTATA
60132947 AAAAAAAAGTTAAATTTTA
1 AAAAAAAAGTTAAATTTTA
60132966 ATTTCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAAAAAGTTAAATTTTATA
Found at i:60135936 original size:16 final size:15
Alignment explanation
Indices: 60135898--60135933 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
60135888 TTTAATCTTT
60135898 TAAAAATTATAAAAA
1 TAAAAATTATAAAAA
*
60135913 TAAAAATTATTAAAA
1 TAAAAATTATAAAAA
60135928 TAAAAA
1 TAAAAA
60135934 ATTTCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATTATAAAAA
Found at i:60137900 original size:41 final size:39
Alignment explanation
Indices: 60137812--60137901 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
60137802 AAAATTTATA
* * * *
60137812 TTTAATACAATACAATATTTATTATATTTATTCGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTAGTGTTT
60137851 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTAT--TAGTGTTT
60137892 TTTAATATAA
1 TTTAATATAA
60137902 ATATTCTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 28 0.62
41 17 0.38
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTAGTGTTT
Found at i:60142042 original size:76 final size:76
Alignment explanation
Indices: 60141911--60142102 Score: 278
Period size: 76 Copynumber: 2.5 Consensus size: 76
60141901 AGTACTGGGT
* *
60141911 GCAAATCTTTGTTGATTTATTCTACTAGTGTTGGGCACACAATTAATATAGTCAGTTAATCTGAC
1 GCAAATCTTTGTTGATTTATTCAACTAGTGTTGGGCACATAATTAATATAGTCAGTTAATCTGAC
60141976 AAGCGCTAGGC
66 AAGCGCTAGGC
60141987 GCAAATCTTTGTTGATTTATTCAACTAGTGTTGGGCACATAATTAATATCA-TCAGTTAATCTGA
1 GCAAATCTTTGTTGATTTATTCAACTAGTGTTGGGCACATAATTAATAT-AGTCAGTTAATCTGA
* * * *
60142051 CTAGCGTTGGGT
65 CAAGCGCTAGGC
* * **
60142063 GCAAATCTTTGTCGATTTATTCGACTAGTGCAGGGCACAT
1 GCAAATCTTTGTTGATTTATTCAACTAGTGTTGGGCACAT
60142103 CTAATGTCGA
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
76 104 0.99
77 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (76 bp):
GCAAATCTTTGTTGATTTATTCAACTAGTGTTGGGCACATAATTAATATAGTCAGTTAATCTGAC
AAGCGCTAGGC
Found at i:60143245 original size:160 final size:160
Alignment explanation
Indices: 60142981--60143314 Score: 533
Period size: 160 Copynumber: 2.1 Consensus size: 160
60142971 AATACGTTGC
** * *
60142981 ACACGGCCACGTGTCTTATTGTCTTTAGGTGCAGGTTTTACATGGCCTGGCACACAACCCACGAC
1 ACACGGCCGTGTGTCTTATTGTCTTTAAGTGCAAGTTTTACATGGCCTGGCACACAACCCACGAC
* *
60143046 ATGGTCGTGTGTCTTAAAATAGTTTATTACACGATATGAGACACAGCCTGCGACACGACCGTGTG
66 ATGGCCGCGTGTCTTAAAATAGTTTATTACACGATATGAGACACAGCCTGCGACACGACCGTGTG
* * *
60143111 ACTTTAATTCGAATATCCACACGGGCTGGG
131 ACCTTAATTCAAATATCCACACGGGCTAGG
**
60143141 ACACGGCCGTGTGTCTTATTGTCTTTAAGTGCAAGTTTTACATGGCCTGGCACACGGCCCACGAC
1 ACACGGCCGTGTGTCTTATTGTCTTTAAGTGCAAGTTTTACATGGCCTGGCACACAACCCACGAC
* * *
60143206 ATGGCCGCGTGTCTTAAAATAGTTTATTACACGATATGAGAGACGGCCTGCGACACGACTGTGTG
66 ATGGCCGCGTGTCTTAAAATAGTTTATTACACGATATGAGACACAGCCTGCGACACGACCGTGTG
*
60143271 ACCTTAATTCAAATATCCACACGGTCTAGG
131 ACCTTAATTCAAATATCCACACGGGCTAGG
60143301 ACACGGCCGTGTGT
1 ACACGGCCGTGTGT
60143315 TTGCACTTCG
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (160 bp):
ACACGGCCGTGTGTCTTATTGTCTTTAAGTGCAAGTTTTACATGGCCTGGCACACAACCCACGAC
ATGGCCGCGTGTCTTAAAATAGTTTATTACACGATATGAGACACAGCCTGCGACACGACCGTGTG
ACCTTAATTCAAATATCCACACGGGCTAGG
Found at i:60157749 original size:95 final size:91
Alignment explanation
Indices: 60157586--60157769 Score: 278
Period size: 95 Copynumber: 2.0 Consensus size: 91
60157576 AAAAAATTTC
* * *
60157586 TTTTTTTTTGTCAGAGTCAGATATCAGTATACAAAAAATAAAAAAAATTTTGGGTATTGGCCTAT
1 TTTTTTTTGGTCAGAATCAGATATCAGTATACAAAAAATAAAAAAAAATTTGGGTATTGGCCTAT
*
60157651 CAATGGCTGGCACCCAGTACAATTAA
66 CAATGGCCGGCACCCAGTACAATTAA
*
60157677 TTTTTTTTGGGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAATTTGGGTGTTGGC
1 TTTTTTTT-GGTCAGAATCAGATATCAGTATAC--AAAAAAT-AAAAAAAAATTTGGGTATTGGC
*
60157742 CTGTCAATGGCCGGCACCCAGTACAATT
62 CTATCAATGGCCGGCACCCAGTACAATT
60157770 TAAAAAAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
91 8 0.10
92 22 0.27
94 7 0.08
95 46 0.55
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (91 bp):
TTTTTTTTGGTCAGAATCAGATATCAGTATACAAAAAATAAAAAAAAATTTGGGTATTGGCCTAT
CAATGGCCGGCACCCAGTACAATTAA
Found at i:60158048 original size:104 final size:104
Alignment explanation
Indices: 60157850--60158148 Score: 420
Period size: 104 Copynumber: 2.9 Consensus size: 104
60157840 ATTGTCTAAA
60157850 GTATACTGATATCTGATTCTGACACGAAAAAATAAGAGTTTTTTTTTTAAATTGTACTGGGTGCC
1 GTATACTGATATCTGATTCTGACACGAAAAAA-AA-AG-TTTTTTTTTAAATTGTACTGGGTGCC
*
60157915 GGCCATTGACAAGCCAGCACCC-AATTTTTTTTTATATTTTTC
63 GGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAT-TTTTTC
**
60157957 GTATACTGATATCTGATTCTGACACGAAAAAAAAAGAATTTTTTTAAATTGTACTGGGTGCCGGC
1 GTATACTGATATCTGATTCTGACACGAAAAAAAAAGTTTTTTTTTAAATTGTACTGGGTGCCGGC
*
60158022 CATTGACAGGCCTA-CACCTAAATTTTTTTTTATTTTTTC
66 CATTGACAGGCC-AGCACCCAAATTTTTTTTTATTTTTTC
* * *
60158061 GTATACTGATATCTGACTCTGACAC-------AAA-TTTTTTTTTAAATTGTACTGGGTGTCAGC
1 GTATACTGATATCTGATTCTGACACGAAAAAAAAAGTTTTTTTTTAAATTGTACTGGGTGCCGGC
60158118 CATTGACAGGCCAGCACCCAAATTTTTTTTT
66 CATTGACAGGCCAGCACCCAAATTTTTTTTT
60158149 TCGTTTTTCT
Statistics
Matches: 179, Mismatches: 10, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
95 1 0.01
96 53 0.30
97 3 0.02
104 72 0.40
105 16 0.09
106 2 0.01
107 32 0.18
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (104 bp):
GTATACTGATATCTGATTCTGACACGAAAAAAAAAGTTTTTTTTTAAATTGTACTGGGTGCCGGC
CATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTC
Found at i:60158163 original size:17 final size:17
Alignment explanation
Indices: 60158141--60158174 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60158131 GCACCCAAAT
*
60158141 TTTTTTTTTCGTTTTTC
1 TTTTTTTTTCCTTTTTC
60158158 TTTTTTTTTCCTTTTTC
1 TTTTTTTTTCCTTTTTC
60158175 GTATATCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTCCTTTTTC
Found at i:60158260 original size:24 final size:24
Alignment explanation
Indices: 60158228--60158275 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60158218 GCCATTGACA
60158228 GGCCAAAACCCAAAAAATTAATTT
1 GGCCAAAACCCAAAAAATTAATTT
60158252 GGCCAAAACCCAAAAAATTAATTT
1 GGCCAAAACCCAAAAAATTAATTT
60158276 TTTAAGTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (24 bp):
GGCCAAAACCCAAAAAATTAATTT
Found at i:60158795 original size:23 final size:23
Alignment explanation
Indices: 60158768--60158812 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60158758 AGACATGAAA
*
60158768 ATGAA-AATTGATTTAATTGATAG
1 ATGAATAA-TGATTGAATTGATAG
*
60158791 ATGAATCATGATTGAATTGATA
1 ATGAATAATGATTGAATTGATA
60158813 TATTGTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGAATAATGATTGAATTGATAG
Found at i:60160625 original size:26 final size:26
Alignment explanation
Indices: 60160578--60160627 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
60160568 AAAAAACATG
* *
60160578 TATATAAAATTATAATAAATTAAAAA
1 TATATAAAATCATAAGAAATTAAAAA
* *
60160604 TATATAAAATCATTAGATATTAAA
1 TATATAAAATCATAAGAAATTAAA
60160628 TTAATATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TATATAAAATCATAAGAAATTAAAAA
Found at i:60166070 original size:23 final size:22
Alignment explanation
Indices: 60166019--60166070 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
60166009 CCTCGTCTTT
*
60166019 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
60166041 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
60166064 TTCTTTT
1 TTCTTTT
60166071 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:60166085 original size:18 final size:18
Alignment explanation
Indices: 60166064--60166102 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60166054 TTTCTTCAAC
* *
60166064 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
60166082 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
60166100 TTC
1 TTC
60166103 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:60168473 original size:12 final size:13
Alignment explanation
Indices: 60168456--60168484 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
60168446 TTAAACTAAG
60168456 TAAATAAAT-AAA
1 TAAATAAATAAAA
60168468 TAAATAAATAAAA
1 TAAATAAATAAAA
60168481 TAAA
1 TAAA
60168485 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:60170393 original size:19 final size:19
Alignment explanation
Indices: 60170371--60170424 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
60170361 TAATATGTGC
60170371 TAATATAGTTTAAA-TTTAA
1 TAATATA-TTTAAATTTTAA
60170390 TAATATATATTTAATATTTTAA
1 T-A-ATATATTTAA-ATTTTAA
60170412 TAATATATTTAAA
1 TAATATATTTAAA
60170425 AATTTCCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.06
20 16 0.52
21 7 0.23
22 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATATATTTAAATTTTAA
Found at i:60170479 original size:2 final size:2
Alignment explanation
Indices: 60170472--60170496 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60170462 ATAAACATAG
60170472 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
60170497 ATAAATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:60180647 original size:6 final size:6
Alignment explanation
Indices: 60180638--60180677 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
60180628 TGGGCCAGAT
* * *
60180638 GCTGAA GCTGAA GCTGCA GCTGCA GCTGGA GCTGAA GCTG
1 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTG
60180678 GAGATGGAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (6 bp):
GCTGAA
Found at i:60180678 original size:12 final size:12
Alignment explanation
Indices: 60180638--60180692 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
60180628 TGGGCCAGAT
*
60180638 GCTGAAGCTGAA
1 GCTGGAGCTGAA
* *
60180650 GCTGCAGCTGCA
1 GCTGGAGCTGAA
60180662 GCTGGAGCTGAA
1 GCTGGAGCTGAA
* *
60180674 GCTGGAGATGGA
1 GCTGGAGCTGAA
60180686 GCTGGAG
1 GCTGGAG
60180693 AAGCGCCAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.42, T:0.16
Consensus pattern (12 bp):
GCTGGAGCTGAA
Found at i:60180685 original size:18 final size:18
Alignment explanation
Indices: 60180649--60180689 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
60180639 CTGAAGCTGA
* *
60180649 AGCTGCAGCTGCAGCTGG
1 AGCTGAAGCTGCAGATGG
*
60180667 AGCTGAAGCTGGAGATGG
1 AGCTGAAGCTGCAGATGG
60180685 AGCTG
1 AGCTG
60180690 GAGAAGCGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.17
Consensus pattern (18 bp):
AGCTGAAGCTGCAGATGG
Found at i:60184964 original size:6 final size:6
Alignment explanation
Indices: 60184912--60184971 Score: 59
Period size: 6 Copynumber: 10.2 Consensus size: 6
60184902 TGGGGCAGCT
* * * * * *
60184912 GCTGAA GCTGAA GCTGAA GCTGCA CCTGGA GCTGAA GCTGGA GCTGGA
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
60184960 GCTGGA GC-GGA G
1 GCTGGA GCTGGA G
60184972 TCAGCAGCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
5 4 0.08
6 44 0.92
ACGTcount: A:0.23, C:0.20, G:0.42, T:0.15
Consensus pattern (6 bp):
GCTGGA
Found at i:60184964 original size:12 final size:12
Alignment explanation
Indices: 60184912--60184967 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
60184902 TGGGGCAGCT
*
60184912 GCTGAAGCTGAA
1 GCTGGAGCTGAA
* *
60184924 GCTGAAGCTGCA
1 GCTGGAGCTGAA
*
60184936 CCTGGAGCTGAA
1 GCTGGAGCTGAA
*
60184948 GCTGGAGCTGGA
1 GCTGGAGCTGAA
60184960 GCTGGAGC
1 GCTGGAGC
60184968 GGAGTCAGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.39, T:0.16
Consensus pattern (12 bp):
GCTGGAGCTGAA
Found at i:60186442 original size:22 final size:22
Alignment explanation
Indices: 60186417--60186462 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
60186407 TAAAATCAAA
*
60186417 ATATTTATTAAAATAATAAATT
1 ATATTAATTAAAATAATAAATT
* * *
60186439 ATATTAATTATATTAATAATTT
1 ATATTAATTAAAATAATAAATT
60186461 AT
1 AT
60186463 TATATGACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTAAAATAATAAATT
Found at i:60190553 original size:6 final size:6
Alignment explanation
Indices: 60190530--60190566 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
60190520 CTCAAAATCA
*
60190530 ATACAT ATATATT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACA-T ATACAT ATACAT ATACAT ATACAT
60190567 TAAATATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (6 bp):
ATACAT
Found at i:60191646 original size:41 final size:41
Alignment explanation
Indices: 60191601--60191733 Score: 203
Period size: 41 Copynumber: 3.2 Consensus size: 41
60191591 ACTGGCACTT
*
60191601 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
60191642 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
** * * *
60191683 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
60191724 AGCCTGCTAG
1 AGCCTGCTAG
60191734 GCACCGAGCC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:60194663 original size:6 final size:6
Alignment explanation
Indices: 60194654--60194683 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
60194644 GGCAGCTGCC
60194654 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT
1 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT
60194684 CCACCTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
GAAGCT
Found at i:60194709 original size:18 final size:18
Alignment explanation
Indices: 60194656--60194711 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
60194646 CAGCTGCCGA
* *
60194656 AGCTGAAGCTGAAGCTGA
1 AGCTGAAGCCGAAGCTGG
* *
60194674 AGCTGAAGCTC-CACCTGG
1 AGCTGAAGC-CGAAGCTGG
*
60194692 AGCTGAAGCCGGAGCTGG
1 AGCTGAAGCCGAAGCTGG
60194710 AG
1 AG
60194712 ATGGAGCGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.27, C:0.23, G:0.36, T:0.14
Consensus pattern (18 bp):
AGCTGAAGCCGAAGCTGG
Found at i:60204693 original size:5 final size:5
Alignment explanation
Indices: 60204683--60204715 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
60204673 TTTCGGAGAA
*
60204683 AAAAG AAAAG AAAAG AAAAG AACAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
60204716 TGGTGAATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:60207471 original size:114 final size:115
Alignment explanation
Indices: 60207230--60207475 Score: 401
Period size: 114 Copynumber: 2.1 Consensus size: 115
60207220 AATCAGCATA
60207230 TATATATGTATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAA
1 TATATATG-ATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAA
*
60207295 TTAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
65 TTAGTTAAGTATGAATGCTATATATATGCATAAATGAAGTTCGAATATATG
* * *
60207346 TAAATAT-ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATAT-AATTTGAAA
1 TATATATGATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAA-TTGAAA
60207409 TTAGTTAAGTATGAATGCTATATATATGCATAAATGAAGTTCG-A-ATATG
65 TTAGTTAAGTATGAATGCTATATATATGCATAAATGAAGTTCGAATATATG
60207458 TATATATGAATATGTATA
1 TATATATG-ATATGTATA
60207476 AGATCTTGAG
Statistics
Matches: 122, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
112 11 0.09
113 3 0.02
114 102 0.84
116 6 0.05
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.41
Consensus pattern (115 bp):
TATATATGATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAAT
TAGTTAAGTATGAATGCTATATATATGCATAAATGAAGTTCGAATATATG
Found at i:60207992 original size:41 final size:41
Alignment explanation
Indices: 60207941--60208083 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 41
60207931 CGGACTTTAC
*
60207941 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
60207982 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
**
60208023 ACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
60208064 G-CTTAGCAGGTTAAGTGCCG
1 GTC-TAGCAGGCTAAGTGCCG
60208084 ATGAATATGT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 93 0.99
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:60210465 original size:73 final size:73
Alignment explanation
Indices: 60210313--60210456 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 73
60210303 TCTCGGATTT
* ** *
60210313 AAAAAATGGATCATGCCTAGTAAGTTAGGACACAATCTTTTCTTAATTCCTGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACAATCGCTTCTTAATTCCTGAGATCATTTAAAA
60210378 CTTGAGAG
66 CTTGAGAG
*
60210386 AAAAAAGGGATCATG-CTCAGTAAGTTAGGACACGATCGCTTCTTAATTCCTGAGATCATTTAAA
1 AAAAAAGGGATCATGCCT-AGTAAGTTAGGACACAATCGCTTCTTAATTCCTGAGATCATTTAAA
60210450 ACTTGAG
65 ACTTGAG
60210457 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 2 0.03
73 63 0.97
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCTAGTAAGTTAGGACACAATCGCTTCTTAATTCCTGAGATCATTTAAAA
CTTGAGAG
Found at i:60211030 original size:25 final size:24
Alignment explanation
Indices: 60210951--60211050 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 24
60210941 AAACATAAAA
*
60210951 ATATATATAT-ACAA-GTATGTAT
1 ATATATATATGAAAACGTATGTAT
* *
60210973 GTATATATAT-AAATA--AAT-TAT
1 ATATATATATGAAA-ACGTATGTAT
***
60210994 AATATATATATGTGTACGTATGTAT
1 -ATATATATATGAAAACGTATGTAT
*
60211019 ATATATATTATGAAAATGTATGTAT
1 ATATATA-TATGAAAACGTATGTAT
60211044 ATATATA
1 ATATATA
60211051 ACTAAATTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.05
22 23 0.39
23 1 0.02
24 9 0.15
25 23 0.39
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (24 bp):
ATATATATATGAAAACGTATGTAT
Found at i:60216199 original size:30 final size:31
Alignment explanation
Indices: 60216160--60216217 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
60216150 ATTTCTTAAG
* *
60216160 TTGAGCATTCATCCGGTATAATTTGATACTT
1 TTGAGCATTCATCCAGTACAATTTGATACTT
*
60216191 TTGA-CATTCATCCAGTACAGTTTGATA
1 TTGAGCATTCATCCAGTACAATTTGATA
60216218 TCCAAATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (31 bp):
TTGAGCATTCATCCAGTACAATTTGATACTT
Found at i:60225155 original size:15 final size:13
Alignment explanation
Indices: 60225127--60225176 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
60225117 AATCAGCTTG
60225127 AATTAAAAAAATT
1 AATTAAAAAAATT
60225140 AATATAAAATAAATT
1 AAT-TAAAA-AAATT
*
60225155 AATTAAACAAAAAGT
1 AATT-AA-AAAAATT
60225170 AATTAAA
1 AATTAAA
60225177 TGTTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.12
14 8 0.25
15 18 0.56
16 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (13 bp):
AATTAAAAAAATT
Found at i:60226878 original size:30 final size:30
Alignment explanation
Indices: 60226844--60226903 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
60226834 TCTCCCCAAG
60226844 GACATATCAATATTAAACAAAGAGAAAGCA
1 GACATATCAATATTAAACAAAGAGAAAGCA
60226874 GACATATCAATATTAAACAAAGAGAAAGCA
1 GACATATCAATATTAAACAAAGAGAAAGCA
60226904 ATGTAAATAT
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:0.13, G:0.13, T:0.17
Consensus pattern (30 bp):
GACATATCAATATTAAACAAAGAGAAAGCA
Found at i:60228476 original size:23 final size:23
Alignment explanation
Indices: 60228430--60228476 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
60228420 TACATTAATC
*
60228430 ATATTAATATTTTGTAATTTTAA
1 ATATTAATATTTTGTAATTATAA
60228453 ATATTAATATTTT-TATATTATAA
1 ATATTAATATTTTGTA-ATTATAA
60228476 A
1 A
60228477 AAATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATTAATATTTTGTAATTATAA
Found at i:60239028 original size:15 final size:15
Alignment explanation
Indices: 60238997--60239037 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
60238987 TGATCACACA
60238997 ATAAAAATAAAATAT
1 ATAAAAATAAAATAT
60239012 ATAAATAATTAAAATAT
1 ATAAA-AA-TAAAATAT
*
60239029 ATTAAAATA
1 ATAAAAATA
60239038 CTTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAAATAAAATAT
Found at i:60246907 original size:108 final size:108
Alignment explanation
Indices: 60246713--60246928 Score: 396
Period size: 108 Copynumber: 2.0 Consensus size: 108
60246703 AAAGTGATAA
*
60246713 ATTATTGAAATCACACACAATAAAATACACACTTAGCACGGTATAATAAGTTAAACCTAACCAAT
1 ATTATTGAAATCACACACAATAAAATACACACTTAGCACCGTATAATAAGTTAAACCTAACCAAT
*
60246778 CAGTGGAAGCAAATTGCGTGTTTGCTCCTGGATAGCAGTTTCT
66 CAGTGGAAGCAAATTGCGTGTTTGCTCCTGGATAGCAGCTTCT
*
60246821 ATTATTGAAGTCACACACAATAAAATACACACTTAGCACCGTATAATAAGTTAAACCTAACCAAT
1 ATTATTGAAATCACACACAATAAAATACACACTTAGCACCGTATAATAAGTTAAACCTAACCAAT
*
60246886 CAGTGGAAGCAAATTGGGTGTTTGCTCCTGGATAGCAGCTTCT
66 CAGTGGAAGCAAATTGCGTGTTTGCTCCTGGATAGCAGCTTCT
60246929 TCATATTCAA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (108 bp):
ATTATTGAAATCACACACAATAAAATACACACTTAGCACCGTATAATAAGTTAAACCTAACCAAT
CAGTGGAAGCAAATTGCGTGTTTGCTCCTGGATAGCAGCTTCT
Found at i:60253154 original size:10 final size:10
Alignment explanation
Indices: 60253139--60253177 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
60253129 AATAATATAT
60253139 ATTATAAATA
1 ATTATAAATA
*
60253149 ATTATAGATA
1 ATTATAAATA
*
60253159 ATTTTAAATA
1 ATTATAAATA
60253169 ATATATAAA
1 AT-TATAAA
60253178 GAAAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
ATTATAAATA
Found at i:60253203 original size:11 final size:11
Alignment explanation
Indices: 60253187--60253211 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60253177 AGAAAATTAA
60253187 AATTTTAAAAT
1 AATTTTAAAAT
60253198 AATTTTAAAAT
1 AATTTTAAAAT
60253209 AAT
1 AAT
60253212 AATTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:60253611 original size:17 final size:17
Alignment explanation
Indices: 60253577--60253611 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60253567 CTTCACCTGC
*
60253577 AAGGAAACAAACAGCAA
1 AAGGAAACAAAAAGCAA
*
60253594 AAGGAAACAAAAATCAA
1 AAGGAAACAAAAAGCAA
60253611 A
1 A
60253612 GATCACAGAT
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:0.69, C:0.14, G:0.14, T:0.03
Consensus pattern (17 bp):
AAGGAAACAAAAAGCAA
Found at i:60255991 original size:22 final size:22
Alignment explanation
Indices: 60255949--60255994 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
60255939 GTTTCGACAA
**
60255949 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAATAATT
60255971 TTTTAATTTAAC-TCGAATAATT
1 TTTTAATTTAACAT-GAATAATT
60255993 TT
1 TT
60255995 ACTCAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:60257054 original size:11 final size:11
Alignment explanation
Indices: 60257038--60257068 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60257028 ATACCCATAC
60257038 CCCATACCTTG
1 CCCATACCTTG
*
60257049 CCCATACCTTT
1 CCCATACCTTG
60257060 CCCATACCT
1 CCCATACCT
60257069 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:60257641 original size:18 final size:18
Alignment explanation
Indices: 60257618--60257670 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
60257608 CGTTTACGGT
60257618 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
60257636 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
60257654 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
60257671 TAGTTGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:60261738 original size:11 final size:11
Alignment explanation
Indices: 60261722--60261752 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60261712 ATACCCATAC
60261722 CCCATACCTTG
1 CCCATACCTTG
*
60261733 CCCATACCTTT
1 CCCATACCTTG
60261744 CCCATACCT
1 CCCATACCT
60261753 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:60274054 original size:28 final size:27
Alignment explanation
Indices: 60274000--60274054 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
60273990 AATTTAAAAA
* *
60274000 TTTAAAAAAAACATTATAAAAACTATT
1 TTTAAAAAAAAAATCATAAAAACTATT
* *
60274027 TTTAAAAATAAAAATCATTAAAATTATT
1 TTTAAAAA-AAAAATCATAAAAACTATT
60274055 AAAAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (27 bp):
TTTAAAAAAAAAATCATAAAAACTATT
Found at i:60282536 original size:103 final size:104
Alignment explanation
Indices: 60282357--60282620 Score: 415
Period size: 103 Copynumber: 2.5 Consensus size: 104
60282347 ACCGTTATTT
* * * *
60282357 GTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
** *
60282422 TCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATACG
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
60282460 GTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGGA
60282524 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
* **
60282564 GTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
60282621 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
Found at i:60282982 original size:30 final size:29
Alignment explanation
Indices: 60282948--60283012 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
60282938 TAATCCACCA
60282948 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
60282978 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
60283008 CCCAA
1 CCCAA
60283013 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:60282986 original size:31 final size:30
Alignment explanation
Indices: 60282955--60283012 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60282945 CCACCCAACT
60282955 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
60282985 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
60283013 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:60291818 original size:47 final size:46
Alignment explanation
Indices: 60291767--60291933 Score: 161
Period size: 44 Copynumber: 3.7 Consensus size: 46
60291757 TCATATAAGA
* *
60291767 ATATTTATTCTTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATAT-ATTATTAAATT
* *
60291814 ATATTTAATATTAATTA-TTT-T-AAATTATATATATTCATATAAGA--
1 ATATTTATTATTAATAATTTTATGAAATTATATATATT-AT-TAA-ATT
* *
60291858 ATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATT
1 ATATTTATTATTAATAATTTTATGAAATTATATA-TATTATTAAATT
* *
60291905 ATATTTA--A-TAATAATTATATTAAATTATA
1 ATATTTATTATTAATAATTTTATGAAATTATA
60291934 CAAATTCATA
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
43 3 0.03
44 45 0.45
45 9 0.09
46 8 0.08
47 31 0.31
48 4 0.04
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (46 bp):
ATATTTATTATTAATAATTTTATGAAATTATATATATTATTAAATT
Found at i:60291862 original size:44 final size:44
Alignment explanation
Indices: 60291755--60291977 Score: 150
Period size: 47 Copynumber: 4.9 Consensus size: 44
60291745 ATTTTAGTAA
* * **
60291755 ATTCATATAAGAATATTTATTCTTAAGAATTTTATGAAATTATATAT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATAT
60291802 CATT-AT-TAA-ATTATATTTAATATTAATTATTTTAAATTATATAT
1 -ATTCATATAAGA--ATATTTAATATTAATTATTTTAAATTATATAT
* * *
60291846 ATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATT
1 ATTCATATAAGAATATTTAATATTAATTA-TTT-T-AAATTATATA-T
** * * * *
60291894 ATT-ACTA-AATTATATTTAATAATAATTATATTAAATTATACAA
1 ATTCA-TATAAGAATATTTAATATTAATTATTTTAAATTATATAT
* *
60291937 ATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATT
1 ATTCATATAAGAATATTTA--A-TATTAATTATTTTAAATT
60291978 TTATTAAATC
Statistics
Matches: 140, Mismatches: 20, Indels: 31
0.73 0.10 0.16
Matches are distributed among these distances:
43 8 0.06
44 45 0.32
45 9 0.06
46 11 0.08
47 58 0.41
48 9 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (44 bp):
ATTCATATAAGAATATTTAATATTAATTATTTTAAATTATATAT
Found at i:60291977 original size:91 final size:90
Alignment explanation
Indices: 60291753--60291967 Score: 322
Period size: 91 Copynumber: 2.4 Consensus size: 90
60291743 TGATTTTAGT
* * *
60291753 AAATTCATATAAGAATATTTATTCTTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAATATTTATT-ATAATAATTTTATGAAATTATATATCATTACTAAATTATAT
* * *
60291818 TTAATATTAATTATTTTAAATTATAT
65 TTAATAATAATTATATTAAATTATAC
* *
60291844 ATATTCATATAAGAATATTTATTATCAATAATTTTATGAAATTATATATTATTACTAAATTATAT
1 AAATTCATATAAGAATATTTATTAT-AATAATTTTATGAAATTATATATCATTACTAAATTATAT
60291909 TTAATAATAATTATATTAAATTATAC
65 TTAATAATAATTATATTAAATTATAC
*
60291935 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAATATTTATTA-TAATAATT
60291968 ATTTTAAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
90 1 0.01
91 110 0.98
92 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (90 bp):
AAATTCATATAAGAATATTTATTATAATAATTTTATGAAATTATATATCATTACTAAATTATATT
TAATAATAATTATATTAAATTATAC
Found at i:60292273 original size:120 final size:120
Alignment explanation
Indices: 60291974--60292383 Score: 745
Period size: 120 Copynumber: 3.4 Consensus size: 120
60291964 AATTATTTTA
*
60291974 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
60292039 ATAGTATCATATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATATTGATTATTAAG
60292095 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
60292160 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
60292215 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
*
60292279 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
60292335 AATTTTATTAAATTATATAATTTT-ATTAAAAT-TATTTAATAATAATTAT
1 AATTTTATTAAATCATAT-ATTTTAATTAAAATATATTTAATAATAATTAT
60292384 GTTAAAATAT
Statistics
Matches: 284, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 17 0.06
120 173 0.61
121 94 0.33
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:60292352 original size:59 final size:59
Alignment explanation
Indices: 60292048--60292352 Score: 197
Period size: 57 Copynumber: 5.1 Consensus size: 59
60292038 TATAGTATCA
60292048 TATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGA-TTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
60292108 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AA
60292166 T
59 T
*
60292167 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
60292228 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGT-TAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGAT-TATTAA-GA-ATTTTATTA-AA
60292286 T
59 T
*
60292287 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
60292348 TATAT
1 TATAT
60292353 AATTTTATTA
Statistics
Matches: 182, Mismatches: 31, Indels: 65
0.65 0.11 0.23
Matches are distributed among these distances:
56 12 0.07
57 34 0.19
58 18 0.10
59 27 0.15
60 3 0.02
61 22 0.12
62 21 0.12
63 34 0.19
64 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:60292358 original size:18 final size:19
Alignment explanation
Indices: 60292335--60292374 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
60292325 GATTATTAAG
60292335 AATTTTATT-AAATTATAT
1 AATTTTATTAAAATTATAT
*
60292353 AATTTTATTAAAATTATTT
1 AATTTTATTAAAATTATAT
60292372 AAT
1 AAT
60292375 AATAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATTAAAATTATAT
Found at i:60292614 original size:45 final size:44
Alignment explanation
Indices: 60292533--60292623 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
60292523 ACTTCTATTC
*
60292533 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
60292577 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
60292622 CA
1 CA
60292624 CCTCTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:60292623 original size:16 final size:16
Alignment explanation
Indices: 60292602--60292655 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
60292592 TTGATTTGCT
60292602 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
60292618 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
**
60292634 ATTACGTCTCTATTCC
1 ATTACACCTCTATTCC
*
60292650 AATACA
1 ATTACA
60292656 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:60295852 original size:6 final size:6
Alignment explanation
Indices: 60295814--60295860 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
60295804 AAAAATGCAC
* * *
60295814 ATTTTA ATTTTA ATTTTT -TTCTT ATTATTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTT
60295861 GCAGGGAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:60299274 original size:34 final size:35
Alignment explanation
Indices: 60299208--60299274 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
60299198 CAAACACCAG
* * *
60299208 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCAATTTACAGAAAAGT
*
60299243 AAAACATTTTCCAG-AAATCAATTTACGGAAAA
1 AAAACATTTTCCAGTAAATCAATTTACAGAAAA
60299275 CATTTTACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCAATTTACAGAAAAGT
Found at i:60309308 original size:11 final size:11
Alignment explanation
Indices: 60309292--60309316 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60309282 ATCCATGCGC
60309292 TTTATACACAA
1 TTTATACACAA
60309303 TTTATACACAA
1 TTTATACACAA
60309314 TTT
1 TTT
60309317 CCATATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTATACACAA
Found at i:60313106 original size:31 final size:31
Alignment explanation
Indices: 60313036--60313098 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
60313026 TTACAATTAT
60313036 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
*
60313067 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
60313098 T
1 T
60313099 AGGCTATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:60319148 original size:5 final size:5
Alignment explanation
Indices: 60319138--60319175 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
60319128 CAAATTAGTT
*
60319138 ATATA ATATA ATATA ATATA ACATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
60319176 GACGTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:60324945 original size:3 final size:3
Alignment explanation
Indices: 60324930--60324967 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
60324920 AACACTCAAC
*
60324930 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
60324968 GCATCCAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:60325593 original size:16 final size:18
Alignment explanation
Indices: 60325554--60325587 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60325544 TAAGTTTATA
60325554 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
60325571 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
60325588 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:60326531 original size:14 final size:13
Alignment explanation
Indices: 60326497--60326535 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
60326487 TATCCTAATT
60326497 TCTCAATTTTTTC
1 TCTCAATTTTTTC
**
60326510 TCAAAATTATTTTC
1 TCTCAATT-TTTTC
60326524 TCTCAATTTTTT
1 TCTCAATTTTTT
60326536 ATCCTAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTCAATTTTTTC
Found at i:60328745 original size:19 final size:19
Alignment explanation
Indices: 60328723--60328761 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60328713 GATATGTGTG
60328723 TTATGTGTTCGAGATTCGT
1 TTATGTGTTCGAGATTCGT
60328742 TTATGTGTTCGAGATTCGT
1 TTATGTGTTCGAGATTCGT
60328761 T
1 T
60328762 ATACACTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (19 bp):
TTATGTGTTCGAGATTCGT
Found at i:60329587 original size:41 final size:40
Alignment explanation
Indices: 60329542--60329638 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 40
60329532 TTTTTTTTAC
* **
60329542 TTTTTTATGTTTATATCCTTATTAAGTTGTTAA-TATTATA
1 TTTTTTATGTTTATATCATTATTAAGTTAATAATTATTA-A
* * * * *
60329582 ATTTTTGTTTTTGTTATTATTATTAAGTTAATAATTATTAA
1 TTTTTTATGTTT-ATATCATTATTAAGTTAATAATTATTAA
60329623 TTTTTTATGTTTATAT
1 TTTTTTATGTTTATAT
60329639 AATCAAGATG
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
40 12 0.28
41 26 0.60
42 5 0.12
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (40 bp):
TTTTTTATGTTTATATCATTATTAAGTTAATAATTATTAA
Found at i:60332621 original size:14 final size:14
Alignment explanation
Indices: 60332599--60332641 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
60332589 TAAAACTATT
60332599 AAATATATATATATA
1 AAAT-TATATATATA
*
60332614 AAATTATATATATG
1 AAATTATATATATA
* *
60332628 TAAGTATATATATA
1 AAATTATATATATA
60332642 TTTACAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AAATTATATATATA
Found at i:60332626 original size:22 final size:22
Alignment explanation
Indices: 60332576--60332626 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
60332566 AGTGTATGTC
*
60332576 TATATACATATTATAAAACTAT
1 TATATATATATTATAAAACTAT
* *
60332598 TAAATATATATATATAAAATTA-
1 TATATATATAT-TATAAAACTAT
60332620 TATATAT
1 TATATAT
60332627 GTAAGTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATATATATTATAAAACTAT
Found at i:60334039 original size:24 final size:24
Alignment explanation
Indices: 60334007--60334059 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
60333997 AGAAGAACAG
*
60334007 GATGAAGATGAAGATA-ACGTTGAA
1 GATGAAGATGAAGATAGA-GGTGAA
*
60334031 GATGAAGATGGAGATAGAGGTGAA
1 GATGAAGATGAAGATAGAGGTGAA
60334055 GATGA
1 GATGA
60334060 TAATAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.36, T:0.19
Consensus pattern (24 bp):
GATGAAGATGAAGATAGAGGTGAA
Found at i:60346174 original size:15 final size:14
Alignment explanation
Indices: 60346141--60346180 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
60346131 ACTAAAAATT
60346141 TATTTTAAAATAAAA
1 TATTTTAAAA-AAAA
60346156 -ATTTTAAAAAAAA
1 TATTTTAAAAAAAA
60346169 GTATTTTAAAAA
1 -TATTTTAAAAA
60346181 TATCTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.17
14 9 0.39
15 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TATTTTAAAAAAAA
Found at i:60346519 original size:17 final size:17
Alignment explanation
Indices: 60346497--60346531 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60346487 AAGTTTGTCT
*
60346497 AACATAAATGGTAGAGC
1 AACATAAATGGCAGAGC
60346514 AACATAAATGGCAGAGC
1 AACATAAATGGCAGAGC
60346531 A
1 A
60346532 CATGGCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (17 bp):
AACATAAATGGCAGAGC
Found at i:60361953 original size:42 final size:42
Alignment explanation
Indices: 60361894--60361978 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
60361884 TTTGAGTCAC
60361894 CAAATATTGCCTCTGAACCGGTTGGGAAGGTTAATTCAAAAG
1 CAAATATTGCCTCTGAACCGGTTGGGAAGGTTAATTCAAAAG
60361936 CAAATATTGCCTCTGAACCGGTTGGGAAGGTTAATTCAAAAG
1 CAAATATTGCCTCTGAACCGGTTGGGAAGGTTAATTCAAAAG
60361978 C
1 C
60361979 GAAGATACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
CAAATATTGCCTCTGAACCGGTTGGGAAGGTTAATTCAAAAG
Found at i:60362915 original size:32 final size:33
Alignment explanation
Indices: 60362879--60362949 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
60362869 ATTTTTTAAA
* *
60362879 CGGGCCTCATTTTTTTGCCC-AA-TCCCATATTT
1 CGGGCCT-ATATTTTTACCCGAACTCCCATATTT
60362911 CGGGCCTATATTTTTACCCGAACCCTCCCATATTT
1 CGGGCCTATATTTTTACCCGAA--CTCCCATATTT
60362946 CGGG
1 CGGG
60362950 TGGGCCGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 10 0.30
32 9 0.27
35 14 0.42
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.35
Consensus pattern (33 bp):
CGGGCCTATATTTTTACCCGAACTCCCATATTT
Found at i:60369397 original size:6 final size:6
Alignment explanation
Indices: 60369386--60369416 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
60369376 TTATTTTAAT
60369386 TATTTA TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA T
60369417 TATAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:60369714 original size:15 final size:16
Alignment explanation
Indices: 60369694--60369724 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
60369684 ATATATAATT
60369694 GTCTTAGC-CGATTGA
1 GTCTTAGCTCGATTGA
60369709 GTCTTAGCTCGATTGA
1 GTCTTAGCTCGATTGA
60369725 CATGAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (16 bp):
GTCTTAGCTCGATTGA
Found at i:60376333 original size:3 final size:3
Alignment explanation
Indices: 60376325--60376354 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60376315 AGATAAAGAC
60376325 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
60376355 TGAAATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:60378083 original size:13 final size:13
Alignment explanation
Indices: 60378037--60378091 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
60378027 AATTTCTTAA
60378037 AAAATATCTTTAT
1 AAAATATCTTTAT
* * *
60378050 AAAAAATATCTACT
1 AAAATATCTTTA-T
*
60378064 TAAATATCTTTAT
1 AAAATATCTTTAT
60378077 AAAATATCTTTAT
1 AAAATATCTTTAT
60378090 AA
1 AA
60378092 GAAAAGGTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATCTTTAT
Found at i:60387857 original size:41 final size:40
Alignment explanation
Indices: 60387803--60387953 Score: 184
Period size: 41 Copynumber: 3.7 Consensus size: 40
60387793 AATATATTTA
* *
60387803 TTTTTTAATTTTAAAATATTTTTTACATACTTTTTTT-AAT
1 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTAAAT
60387843 TTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTTAAAT
1 TTTTTT-AATTTTAAAATATTTTTAAAATATTTTTTTAAAT
*
60387884 TTTTTTAATTTTAAAATA-TTTTAAAATA-TTTTTAAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAAT
*
60387922 ACTTTTTTAAATTTTTTAAAT-TTTTTAAAATA
1 --TTTTTT-AA-TTTTAAAATATTTTTAAAATA
60387954 AAAATGGGCC
Statistics
Matches: 100, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
38 9 0.09
39 10 0.10
40 31 0.31
41 32 0.32
42 18 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAAAT
Found at i:60387908 original size:50 final size:48
Alignment explanation
Indices: 60387811--60387945 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 48
60387801 TATTTTTTAA
**
60387811 TTTTAAAATATTTTTTACATACTTTTTTTAATTTTTTTAAATTTTAAAATAT
1 TTTTAAAATATTTTTTA-A-A-TTTTTTTAA-TTTTAAAAATTTTAAAATAT
60387863 TTTTAAAATATTTTTTTAAATTTTTTTAATTTTAAAATATTTTAAAATAT
1 TTTTAAAATA-TTTTTTAAATTTTTTTAATTTTAAAA-ATTTTAAAATAT
*
60387913 TTTTAAAATACTTTTTTAAATTTTTTAAATTTT
1 TTTTAAAATA-TTTTTTAAATTTTTTTAATTTT
60387946 TTAAAATAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
49 6 0.08
50 52 0.68
51 1 0.01
52 11 0.14
53 7 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (48 bp):
TTTTAAAATATTTTTTAAATTTTTTTAATTTTAAAAATTTTAAAATAT
Found at i:60387928 original size:40 final size:41
Alignment explanation
Indices: 60387801--60387953 Score: 190
Period size: 40 Copynumber: 3.8 Consensus size: 41
60387791 TAAATATATT
* *
60387801 TATTTTTT-AATTTTAAAATATTTTTTACATACTTTTTTTAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATA-TTTTTTTAA
60387842 T-TTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTTAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTTAA
* **
60387882 -ATTTTTTTAATTTTAAAATA-TTTTAAAATATTTTTAAAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTTAA
*
60387921 TACTTTTTTAAATTTTTTAAAT-TTTTTAAAATA
1 TA-TTTTTTAAA-TTTTAAAATATTTTTAAAATA
60387954 AAAATGGGCC
Statistics
Matches: 99, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
39 17 0.17
40 34 0.34
41 30 0.30
42 18 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TATTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTTAA
Found at i:60387933 original size:12 final size:11
Alignment explanation
Indices: 60387852--60387953 Score: 96
Period size: 10 Copynumber: 9.9 Consensus size: 11
60387842 TTTTTTTAAA
60387852 TTTTAAAATAT
1 TTTTAAAATAT
60387863 TTTTAAAATATT
1 TTTTAAAATA-T
*
60387875 TTTTTAAAT-T
1 TTTTAAAATAT
*
60387885 TTTT----TAA
1 TTTTAAAATAT
60387892 TTTTAAAATA-
1 TTTTAAAATAT
60387902 TTTTAAAATAT
1 TTTTAAAATAT
60387913 TTTTAAAATACT
1 TTTTAAAATA-T
*
60387925 TTTTTAAAT-T
1 TTTTAAAATAT
60387935 TTTT-AAAT-T
1 TTTTAAAATAT
60387944 TTTTAAAATA
1 TTTTAAAATA
60387954 AAAATGGGCC
Statistics
Matches: 78, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 9 0.12
10 24 0.31
11 22 0.28
12 18 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:60387945 original size:8 final size:9
Alignment explanation
Indices: 60387834--60387950 Score: 76
Period size: 9 Copynumber: 12.0 Consensus size: 9
60387824 TTTACATACT
*
60387834 TTTTTTAAT
1 TTTTTTAAA
60387843 TTTTTTAAA
1 TTTTTTAAA
*
60387852 -TTTTAAAA
1 TTTTTTAAA
60387860 TATTTTTAAAATA
1 T-TTTTT--AA-A
60387873 TTTTTTTAAA
1 -TTTTTTAAA
*
60387883 TTTTTTTAA
1 TTTTTTAAA
*
60387892 -TTTTAAAA
1 TTTTTTAAA
*
60387900 TATTTTAAAA
1 T-TTTTTAAA
60387910 TATTTTTAAAATA
1 T-TTTTT--AA-A
60387923 CTTTTTTAAA
1 -TTTTTTAAA
60387933 TTTTTTAAA
1 TTTTTTAAA
60387942 TTTTTTAAA
1 TTTTTTAAA
60387951 ATAAAAATGG
Statistics
Matches: 89, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
8 13 0.15
9 34 0.38
10 20 0.22
11 4 0.04
12 4 0.04
13 12 0.13
14 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:60391857 original size:6 final size:6
Alignment explanation
Indices: 60391846--60391875 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
60391836 CTACTACACT
60391846 TAAATA TAAATA TAAATA TAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA
60391876 CATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:60392291 original size:27 final size:27
Alignment explanation
Indices: 60392254--60392355 Score: 71
Period size: 31 Copynumber: 3.6 Consensus size: 27
60392244 GGTATTTGAA
60392254 TATTTGAATTTTTTTTGTCTCAATTTGG
1 TATTT-AATTTTTTTTGTCTCAATTTGG
* *
60392282 TATTTAATTTTGATTTTATTGT-TCAATTCGA
1 TATTTAA--TT--TTTT-TTGTCTCAATTTGG
* * * *
60392313 TATATAATTTTTTTGGTCTCGATTTAG
1 TATTTAATTTTTTTTGTCTCAATTTGG
*
60392340 TATCTATATTTTTTTT
1 TATTTA-ATTTTTTTT
60392356 CTAGAGTACA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
26 3 0.05
27 16 0.28
28 13 0.23
29 4 0.07
31 17 0.30
32 4 0.07
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (27 bp):
TATTTAATTTTTTTTGTCTCAATTTGG
Found at i:60392309 original size:31 final size:34
Alignment explanation
Indices: 60392240--60392323 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 34
60392230 TTAATATATT
*
60392240 ATTTGGTATTTGAATATTTGAATTTTTTTTGTCTCA
1 ATTTGGTATTT-AAT-TTTGAATTTTTATTGTCTCA
60392276 ATTTGGTATTTAATTTTG-A-TTTTATTGT-TCA
1 ATTTGGTATTTAATTTTGAATTTTTATTGTCTCA
* * *
60392307 ATTCGATATATAATTTT
1 ATTTGGTATTTAATTTT
60392324 TTTGGTCTCG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
31 17 0.39
32 8 0.18
33 1 0.02
34 4 0.09
35 3 0.07
36 11 0.25
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (34 bp):
ATTTGGTATTTAATTTTGAATTTTTATTGTCTCA
Found at i:60392774 original size:77 final size:76
Alignment explanation
Indices: 60392668--60392817 Score: 230
Period size: 77 Copynumber: 2.0 Consensus size: 76
60392658 ACTTACATTA
* * *
60392668 TATATTGAGAATGTAATCCATAAATATATGGGTTGACTTTATGATCTTTTGTATCATTATATTAA
1 TATATTGAGAACGCAATCCATAAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATTAA
60392733 GGATAATTTAT
66 GGATAATTTAT
* *
60392744 TATATTGAGATACGCAATCTATGAAA-ATATGAGTTGATTTTATGATCTTTTGTATCATTATATT
1 TATATTGAGA-ACGCAATCCAT-AAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATT
60392808 AAGGATAATT
64 AAGGATAATT
60392818 GATTTGATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 10 0.15
77 54 0.81
78 3 0.04
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (76 bp):
TATATTGAGAACGCAATCCATAAATATATGAGTTGACTTTATGATCTTTTGTATCATTATATTAA
GGATAATTTAT
Found at i:60393614 original size:18 final size:18
Alignment explanation
Indices: 60393591--60393646 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
60393581 ACAAAATAAT
*
60393591 TCAAAATAATTTTCAATAA
1 TCAAAATAATTTT-AAAAA
60393610 T-AAAATAAATTTTAAAAA
1 TCAAAAT-AATTTTAAAAA
60393628 TCAAAAT-ATTTATAAAAA
1 TCAAAATAATTT-TAAAAA
60393646 T
1 T
60393647 TCCAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
19 12 0.36
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TCAAAATAATTTTAAAAA
Found at i:60393622 original size:19 final size:19
Alignment explanation
Indices: 60393591--60393635 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
60393581 ACAAAATAAT
*
60393591 TCAAAAT-AATTTTCAATAA
1 TCAAAATAAATTTT-AAAAA
60393610 T-AAAATAAATTTTAAAAA
1 TCAAAATAAATTTTAAAAA
60393628 TCAAAATA
1 TCAAAATA
60393636 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
TCAAAATAAATTTTAAAAA
Found at i:60393656 original size:18 final size:17
Alignment explanation
Indices: 60393616--60393659 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
60393606 ATAATAAAAT
60393616 AAATTT-TAAAAATCAA
1 AAATTTATAAAAATCAA
*
60393632 AATATTTATAAAAATTCCA
1 AA-ATTTATAAAAA-TCAA
60393651 AAATTTATA
1 AAATTTATA
60393660 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 4 0.17
18 13 0.54
19 5 0.21
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTATAAAAATCAA
Found at i:60395360 original size:79 final size:78
Alignment explanation
Indices: 60395249--60395403 Score: 193
Period size: 79 Copynumber: 2.0 Consensus size: 78
60395239 TCTACTTACC
* * *
60395249 TTATGTATTGAAAATGCAATCCATGAATATATGAGTTGACTTTATGATCATCTGTATCATTATAT
1 TTATATATTGAAAATGCAATCCACGAAAATATGAGTTGACTTTATGATCATCTGTATCATTATAT
60395314 TAAGGATAATTTA
66 TAAGGATAATTTA
* * ** ** * * *
60395327 TTATATATTGAGATATGCAATTCACGAAAATATGAGTTGGTTTTATGATTTTTTGTATCCTTTTA
1 TTATATATTGA-AAATGCAATCCACGAAAATATGAGTTGACTTTATGATCATCTGTATCATTATA
60395392 TTAAGGATAATT
65 TTAAGGATAATT
60395404 GATTTGATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 10 0.16
79 54 0.84
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (78 bp):
TTATATATTGAAAATGCAATCCACGAAAATATGAGTTGACTTTATGATCATCTGTATCATTATAT
TAAGGATAATTTA
Found at i:60396226 original size:18 final size:19
Alignment explanation
Indices: 60396188--60396241 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
60396178 AATACAAAAT
60396188 AATTCAAAATCATTT-TAAA
1 AATTCAAAAT-ATTTATAAA
60396207 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
60396226 AATTCCAAA-ATTTATA
1 AATTCAAAATATTTATA
60396242 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:60405062 original size:21 final size:21
Alignment explanation
Indices: 60405036--60405077 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60405026 TGCTGCGTGC
60405036 GTTACTTAAGAAATTCAAACA
1 GTTACTTAAGAAATTCAAACA
60405057 GTTACTTAAGAAATTCAAACA
1 GTTACTTAAGAAATTCAAACA
60405078 TTAAGGGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
GTTACTTAAGAAATTCAAACA
Found at i:60428796 original size:268 final size:268
Alignment explanation
Indices: 60428319--60428855 Score: 1056
Period size: 268 Copynumber: 2.0 Consensus size: 268
60428309 GGATCTTCGA
60428319 GTAAAAGGAGATGTGAGAGAGGTGATTAAGGAATTGACAACAATAGAAATGATGCATTTACAAAA
1 GTAAAAGGAGATGTGAGAGAGGTGATTAAGGAATTGACAACAATAGAAATGATGCATTTACAAAA
60428384 AGATGATGGAAACAATATGGAAGGAAGTGAAGATTTGATTGGACAAGATTGTGGTAAATATGATC
66 AGATGATGGAAACAATATGGAAGGAAGTGAAGATTTGATTGGACAAGATTGTGGTAAATATGATC
60428449 TTGAGGTGCTTGTAAGTATGTAGAAAGCAATATATGGTATAGAAGGATGAATCATGTTCATTTTG
131 TTGAGGTGCTTGTAAGTATGTAGAAAGCAATATATGGTATAGAAGGATGAATCATGTTCATTTTG
60428514 GCGTACCTTTGCCTTGTTTTGACAGGTGAAGGGGATCTGGTCTTGGAACCAAGGGCGGTGTTGGG
196 GCGTACCTTTGCCTTGTTTTGACAGGTGAAGGGGATCTGGTCTTGGAACCAAGGGCGGTGTTGGG
60428579 GGATGGGG
261 GGATGGGG
60428587 GTAAAAGGAGATGTGAGAGAGGTGATTAAGGAATTGACAACAATAGAAATGATGCATTTACAAAA
1 GTAAAAGGAGATGTGAGAGAGGTGATTAAGGAATTGACAACAATAGAAATGATGCATTTACAAAA
60428652 AGATGATGGAAACAATATGGAAGGAAGTGAAGATTTGATTGGACAAGATTGTGGTAAATATGATC
66 AGATGATGGAAACAATATGGAAGGAAGTGAAGATTTGATTGGACAAGATTGTGGTAAATATGATC
60428717 TTGAGGTGCTTGTAAGTATGTAGAAAGCAATATATGGTATAGAAGGATGAATCATGTTCATTTTG
131 TTGAGGTGCTTGTAAGTATGTAGAAAGCAATATATGGTATAGAAGGATGAATCATGTTCATTTTG
* *
60428782 GTGTACCTTTGCCTTGTTTTGACAGGTGAAGGGGATCTGGTCTTGGATCCAAGGGCGGTGTTGGG
196 GCGTACCTTTGCCTTGTTTTGACAGGTGAAGGGGATCTGGTCTTGGAACCAAGGGCGGTGTTGGG
60428847 GGATGGGG
261 GGATGGGG
60428855 G
1 G
60428856 CTGGTAAGGG
Statistics
Matches: 267, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 267 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (268 bp):
GTAAAAGGAGATGTGAGAGAGGTGATTAAGGAATTGACAACAATAGAAATGATGCATTTACAAAA
AGATGATGGAAACAATATGGAAGGAAGTGAAGATTTGATTGGACAAGATTGTGGTAAATATGATC
TTGAGGTGCTTGTAAGTATGTAGAAAGCAATATATGGTATAGAAGGATGAATCATGTTCATTTTG
GCGTACCTTTGCCTTGTTTTGACAGGTGAAGGGGATCTGGTCTTGGAACCAAGGGCGGTGTTGGG
GGATGGGG
Found at i:60429472 original size:17 final size:16
Alignment explanation
Indices: 60429452--60429483 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
60429442 TTAATATATA
60429452 AATTATATTATTAAATT
1 AATTATATTA-TAAATT
60429469 AATTATATTATAAAT
1 AATTATATTATAAAT
60429484 ATTATGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATATTATAAATT
Found at i:60429676 original size:17 final size:17
Alignment explanation
Indices: 60429632--60429666 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60429622 AGTTAAAATA
*
60429632 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
60429649 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
60429666 A
1 A
60429667 GAATAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:60429729 original size:28 final size:30
Alignment explanation
Indices: 60429673--60429730 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
60429663 AACAGAATAG
*
60429673 GAAAGAACGAAACAGAGAAGAAACAGGGGA
1 GAAAGAACGAAACAGAGAAGAAAAAGGGGA
60429703 GAAAGAA-G-AACA-AGAAGAAAAAAGGGGA
1 GAAAGAACGAAACAGAGAAG-AAAAAGGGGA
60429731 AATAGGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.19
28 13 0.50
29 1 0.04
30 7 0.27
ACGTcount: A:0.60, C:0.07, G:0.33, T:0.00
Consensus pattern (30 bp):
GAAAGAACGAAACAGAGAAGAAAAAGGGGA
Found at i:60430379 original size:6 final size:6
Alignment explanation
Indices: 60430362--60430404 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
60430352 ATGTGAGGTA
* * * *
60430362 AGTATT AATATT AGTATT AGTAAT AGTATT ATTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
60430405 AGATGAGCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (6 bp):
AGTATT
Found at i:60430592 original size:24 final size:27
Alignment explanation
Indices: 60430555--60430618 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
60430545 AATTACAGAT
*
60430555 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
60430579 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
60430605 TTGTGATTGAATTG
1 TAATGATTGAATTG
60430619 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:60434092 original size:26 final size:26
Alignment explanation
Indices: 60434063--60434151 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
60434053 GAATAATAAA
60434063 ATATAGAAAAAAATAATTATATTATC
1 ATATAGAAAAAAATAATTATATTATC
* * * *
60434089 ATATAGAATATATGAATACATGA-ATAATA
1 ATATAGAA-A-A-AAATA-ATTATATTATC
* *
60434118 AAATATAAAAAAATAATTATATTATC
1 ATATAGAAAAAAATAATTATATTATC
60434144 ATATAGAA
1 ATATAGAA
60434152 TATATTATAT
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 22 0.48
27 2 0.04
28 2 0.04
29 14 0.30
30 3 0.07
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (26 bp):
ATATAGAAAAAAATAATTATATTATC
Found at i:60434153 original size:55 final size:56
Alignment explanation
Indices: 60434033--60434156 Score: 232
Period size: 57 Copynumber: 2.2 Consensus size: 56
60434023 GCTGATTGAT
60434033 TATAGAATATATGAATACATGAATAATAAAATATAGAAAAAAATAATTATATTATCA
1 TATAGAATATATGAATACATGAATAATAAAATATA-AAAAAAATAATTATATTATCA
60434090 TATAGAATATATGAATACATGAATAATAAAATAT-AAAAAAATAATTATATTATCA
1 TATAGAATATATGAATACATGAATAATAAAATATAAAAAAAATAATTATATTATCA
60434145 TATAGAATATAT
1 TATAGAATATAT
60434157 TATATGAGGT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 33 0.49
57 34 0.51
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (56 bp):
TATAGAATATATGAATACATGAATAATAAAATATAAAAAAAATAATTATATTATCA
Found at i:60434176 original size:55 final size:55
Alignment explanation
Indices: 60434033--60434156 Score: 194
Period size: 55 Copynumber: 2.2 Consensus size: 55
60434023 GCTGATTGAT
*
60434033 TATAGAATATATGAATACATGAATAATAAAATATAGAAAAAAATAATTATATTATCA
1 TATAGAATATATGAATACAGGAATAA-AAAA-ATAGAAAAAAATAATTATATTATCA
* * *
60434090 TATAGAATATATGAATACATGAATAATAAAATATAAAAAAATAATTATATTATCA
1 TATAGAATATATGAATACAGGAATAAAAAAATAGAAAAAAATAATTATATTATCA
60434145 TATAGAATATAT
1 TATAGAATATAT
60434157 TATATGAGGT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 36 0.55
56 3 0.05
57 26 0.40
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (55 bp):
TATAGAATATATGAATACAGGAATAAAAAAATAGAAAAAAATAATTATATTATCA
Found at i:60436012 original size:39 final size:37
Alignment explanation
Indices: 60435969--60436041 Score: 85
Period size: 39 Copynumber: 1.9 Consensus size: 37
60435959 ATTTATTTTT
*
60435969 ATTTTTAAAAATATTTAAA-ATATAATATAAAATATTATA
1 ATTTTCAAAAATA-TTAAACATAT-ATAT-AAATATTATA
* *
60436008 ATTTTCAATATTATTAAACATATATATAAATATT
1 ATTTTCAAAAATATTAAACATATATATAAATATT
60436042 TATATTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 7 0.23
38 9 0.30
39 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTTCAAAAATATTAAACATATATATAAATATTATA
Found at i:60436050 original size:26 final size:26
Alignment explanation
Indices: 60436021--60436072 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
60436011 TTCAATATTA
*
60436021 TTAAACATATATATAAA-TATTTATAT
1 TTAAACATATA-ATAAATTATTAATAT
*
60436047 TTAAGCATATAATAAATTATTAATAT
1 TTAAACATATAATAAATTATTAATAT
60436073 AAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAAACATATAATAAATTATTAATAT
Found at i:60436188 original size:15 final size:15
Alignment explanation
Indices: 60436168--60436219 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
60436158 ATTCAATATT
60436168 AATATTTTAATAATA
1 AATATTTTAATAATA
*
60436183 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
60436202 AATATATTAATAATA
1 AATATTTTAATAATA
60436217 AAT
1 AAT
60436220 GTTTGTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:60437017 original size:30 final size:30
Alignment explanation
Indices: 60436981--60437052 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
60436971 TTTTTTAACT
* *
60436981 TTGGAAACTTTTAATTAGCATTAACAGTAA
1 TTGGAAAGTTTTAATTAGCATTAACAATAA
*
60437011 TTGGAAAGGTTTAATTAGCATTAACAATAA
1 TTGGAAAGTTTTAATTAGCATTAACAATAA
60437041 TTGGAAAGTTTT
1 TTGGAAAGTTTT
60437053 TTTTTTAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.38
Consensus pattern (30 bp):
TTGGAAAGTTTTAATTAGCATTAACAATAA
Found at i:60450317 original size:60 final size:60
Alignment explanation
Indices: 60450186--60450342 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
60450176 TTTGAGTTAT
* * * * *
60450186 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
60450249 CG-CTTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* * *
60450309 TGTCTTTTGTTACTCTATGCGCTAGATTTATCAT
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCAT
60450343 TATGTTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 67 0.83
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:60453507 original size:161 final size:161
Alignment explanation
Indices: 60453323--60453641 Score: 602
Period size: 161 Copynumber: 2.0 Consensus size: 161
60453313 TGCAGCTGGT
* *
60453323 GGGCTGTGATGTCGAAAACAGTTGTAATGCACTGAAATTGGCTAATTAGTATCTATATTTGAATA
1 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
60453388 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
66 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
60453453 TAAATGTATCAGTATCCTATGAAACTTTGGC
131 TAAATGTATCAGTATCCTATGAAACTTTGGC
60453484 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
1 GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
* *
60453549 ATAGGATTTTTGATTTTTCACTTGATTGATATAATTGGCTTGTGCGTAATAGTTACTCTAGCAAT
66 ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
60453614 TAAATGTATCAGTATCCTATGAAACTTT
131 TAAATGTATCAGTATCCTATGAAACTTT
60453642 CCATACTTTA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 154 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (161 bp):
GGGCTGTGATGCCGAAAACAGTTGTAATGCACTGAAATTAGCTAATTAGTATCTATATTTGAATA
ATAGGATTTTTGATCTTTCACTTGATTGATATAATTGGCTTGTGCATAATAGTTACTCTAGCAAT
TAAATGTATCAGTATCCTATGAAACTTTGGC
Found at i:60458561 original size:25 final size:25
Alignment explanation
Indices: 60458473--60458555 Score: 139
Period size: 25 Copynumber: 3.3 Consensus size: 25
60458463 GAACCTTAGC
* *
60458473 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTAATTATTAGCACATTA
60458498 GTGCTCTCTAATTATTAGCACATTA
1 GTGCTCTCTAATTATTAGCACATTA
*
60458523 GTGCTCTCTAATTATTAGCACGTTA
1 GTGCTCTCTAATTATTAGCACATTA
60458548 GTGCTCTC
1 GTGCTCTC
60458556 CGATTAGCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTAATTATTAGCACATTA
Found at i:60462227 original size:21 final size:21
Alignment explanation
Indices: 60462203--60462254 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
60462193 AAAGTCATAT
60462203 GTATCGATACCCTGATATAAG
1 GTATCGATACCCTGATATAAG
*
60462224 GTATCGATACCGTGATATAAG
1 GTATCGATACCCTGATATAAG
*
60462245 GTATTGATAC
1 GTATCGATAC
60462255 TTCAGTCCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (21 bp):
GTATCGATACCCTGATATAAG
Found at i:60466212 original size:66 final size:69
Alignment explanation
Indices: 60466050--60466229 Score: 235
Period size: 70 Copynumber: 2.6 Consensus size: 69
60466040 AACTTTATTC
* * *
60466050 ATTTTTTTCATAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAATACAAGCAATT
1 ATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAAACAAGC-ATT
60466115 TTTGT
65 TTTGT
* * *
60466120 ATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATATAAAAGTACAATA-AAAATAA-C-TTT
1 ATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAAACAAGCATTT
60466182 TT-T
66 TTGT
*
60466185 -TTCATTTTTCGTAAATTATAAATAAGTATATTATTGATGTAAAAA
1 ATT--TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAA
60466230 ATAAACAAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
64 2 0.02
65 1 0.01
66 43 0.43
68 1 0.01
69 5 0.05
70 47 0.47
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (69 bp):
ATTTTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAAACAAGCATTT
TTGT
Found at i:60468865 original size:19 final size:19
Alignment explanation
Indices: 60468836--60468878 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
60468826 ACTTAAATAT
*
60468836 AATTATAATTTA-ATTTAA
1 AATTATAATTTACATATAA
60468854 AATTATTAATTTACATATAA
1 AATTA-TAATTTACATATAA
60468874 AATTA
1 AATTA
60468879 ATTATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTATAATTTACATATAA
Found at i:60468876 original size:20 final size:18
Alignment explanation
Indices: 60468836--60468899 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
60468826 ACTTAAATAT
*
60468836 AATTATAATTTAATTTAA
1 AATTATAATTTAATATAA
60468854 AATTATTAATTTACATATAA
1 AATTA-TAATTTA-ATATAA
60468874 AA-T-TAATTATAATAT-A
1 AATTATAATT-TAATATAA
*
60468890 CATTATAATT
1 AATTATAATT
60468900 ACAATTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 12 0.31
19 8 0.21
20 7 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTATAATTTAATATAA
Found at i:60468910 original size:35 final size:35
Alignment explanation
Indices: 60468871--60468947 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
60468861 AATTTACATA
* *
60468871 TAAAATTAATTATAATATACATTATAATTACAATT
1 TAAAACTAATTATAATATACATAATAATTACAATT
* ** *
60468906 TAAAACTAATTATAGTATATGTAATAATTACAAAT
1 TAAAACTAATTATAATATACATAATAATTACAATT
60468941 TATAAAC
1 TA-AAAC
60468948 ATATAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 31 0.89
36 4 0.11
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (35 bp):
TAAAACTAATTATAATATACATAATAATTACAATT
Found at i:60472027 original size:22 final size:22
Alignment explanation
Indices: 60471986--60472074 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 22
60471976 TTCAATGAAA
60471986 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
60472007 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
*
60472029 CTGGAAATTGTTTTGA-TAGTCT
1 CTGGAAATTGTTTTGATTTGT-T
*
60472051 GCTAGAAATTGTTCTTGATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
60472075 AGTGAGTAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
20 7 0.13
21 3 0.06
22 12 0.23
23 23 0.43
24 5 0.09
25 3 0.06
ACGTcount: A:0.19, C:0.08, G:0.21, T:0.52
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:60472747 original size:51 final size:51
Alignment explanation
Indices: 60472652--60472756 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
60472642 CTTTTTACTA
* * ** *
60472652 ATATATAATTTATTAGTGAAAGCATACATAAAAAAATTTGATACAAATTTG
1 ATATATAATTTATTAGTGAAAGAATACATAAAAAAAGTACATACAAAGTTG
* *
60472703 ATATATAATTTATTAGTGAAAGAATACATATAAAGAGTACATACAAAGTTG
1 ATATATAATTTATTAGTGAAAGAATACATAAAAAAAGTACATACAAAGTTG
60472754 ATA
1 ATA
60472757 CTAATATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (51 bp):
ATATATAATTTATTAGTGAAAGAATACATAAAAAAAGTACATACAAAGTTG
Found at i:60473640 original size:97 final size:97
Alignment explanation
Indices: 60473465--60473643 Score: 245
Period size: 97 Copynumber: 1.8 Consensus size: 97
60473455 ATCAATAAAT
* * *
60473465 AAACTAATCAATGATCAAACCTTGAACATGCTTTATTAAACCTTCAATTTCATTATACGAAATTA
1 AAACTAATCAATGATCAAACCTTGAACATGCTTTAATAAACCTTCAATATCATTATACGAAATGA
* *
60473530 TATTTAAATTTTAAATTTAAATTTAAATGTTC
66 AATGTAAATTTTAAATTTAAATTTAAATGTTC
* *
60473562 AAACTAATCAATGTTCAAACTTTGAACATGCTTTAATAAA-CTAATCAATAT-ATTTATACGAAA
1 AAACTAATCAATGATCAAACCTTGAACATGCTTTAATAAACCT--TCAATATCA-TTATACGAAA
*
60473625 TGAAATGTAAATTTAAAAT
63 TGAAATGTAAATTTTAAAT
60473644 GTTATAAAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
96 2 0.03
97 38 0.54
98 31 0.44
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.37
Consensus pattern (97 bp):
AAACTAATCAATGATCAAACCTTGAACATGCTTTAATAAACCTTCAATATCATTATACGAAATGA
AATGTAAATTTTAAATTTAAATTTAAATGTTC
Found at i:60477035 original size:47 final size:47
Alignment explanation
Indices: 60476978--60477117 Score: 157
Period size: 47 Copynumber: 3.0 Consensus size: 47
60476968 ATATAAGAAC
60476978 ATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* ** * *
60477025 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--AA
1 ATTTATTATTAAGAATTTTATGAAATTATATATCATT-AT-TAA-ATTAT
*
60477069 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
60477116 AT
1 AT
60477118 AAATTCATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.04
44 24 0.33
45 8 0.11
46 8 0.11
47 27 0.37
48 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
ATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
Found at i:60477087 original size:44 final size:44
Alignment explanation
Indices: 60476961--60477088 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 44
60476951 ATGATTTTAG
*
60476961 TAAATTCATATAAGAACATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAA-TTT-T-AAATTATA
* * * **
60477008 TATCATT-AT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTCATATAAGA--AAATTTATTATTAAGAATTTTAAATTATA
*
60477052 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTA
60477089 TGAAATTATA
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 7 0.11
47 17 0.27
48 3 0.05
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (44 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTAAATTATA
Found at i:60477122 original size:65 final size:65
Alignment explanation
Indices: 60477042--60477182 Score: 273
Period size: 65 Copynumber: 2.2 Consensus size: 65
60477032 ATTAATTATT
60477042 TTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTA
1 TTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTA
*
60477107 TTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTA
1 TTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTA
60477172 TTAAATTATAT
1 TTAAATTATAT
60477183 TTAATAATAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (65 bp):
TTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTA
Found at i:60477165 original size:47 final size:46
Alignment explanation
Indices: 60477103--60477266 Score: 126
Period size: 47 Copynumber: 3.5 Consensus size: 46
60477093 ATTATATATC
60477103 ATTATTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATT
1 ATTA-TAAATTATATAAATTCATATAAGAAAATTTATTAT-AAGAATT
** *
60477151 -TTATGAAATTATAT--ATT-AT-T-ATTAAATTATATTTAATAATAATT
1 ATTAT-AAATTATATAAATTCATATAAGAAAATT-TA-TT-ATAAGAATT
* * * *
60477195 ATTCTAAATTATACAAATTCATATAAGAAAATTTATTAGTTATAATT
1 ATTATAAATTATATAAATTCATATAAGAAAATTTATTA-TAAGAATT
* *
60477242 ATTTTAAATTTTATTAAA-TCATATA
1 ATTATAAATTATA-TAAATTCATATA
60477267 TTTTAATTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
42 6 0.06
43 3 0.03
44 18 0.19
45 8 0.09
46 5 0.05
47 41 0.44
48 6 0.06
49 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
ATTATAAATTATATAAATTCATATAAGAAAATTTATTATAAGAATT
Done.