Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 13 of 27
Found at i:1735714 original size:67 final size:66
Alignment explanation
Indices: 1735641--1735891 Score: 325
Period size: 67 Copynumber: 3.8 Consensus size: 66
1735631 CTTAAAAGGG
*
1735641 TGCCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAA
1 TGCCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG-AAAAAA
1735706 GA
65 GA
* * * *
1735708 TGCCACTAAGTCGTGGACTTTGAAG--AAAAGATTCCACTTAGTCGTGGACTTTGAAGAAAAAAG
1 TGCCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAAAG
1735771 A
66 A
* * *
1735772 TGCCA-TTGAGTCGTGGACTTGGAAGAAAAAAAGATGCCACTAAGTCGTGGACTTTGAAG--AAA
1 TGCCACTT-AGTCGTGGACTTTGAAG-AAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAA
1735834 AGA
64 AGA
* * * *
1735837 TTCCACTGAGTCGTGAACTTTG-GGAAAAAAGATGCCACTGAGTCGTGGACTTGGA
1 TGCCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGA
1735892 GAAGGGAGAT
Statistics
Matches: 163, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
63 30 0.18
64 30 0.18
65 49 0.30
66 1 0.01
67 53 0.33
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (66 bp):
TGCCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAAAG
A
Found at i:1735765 original size:98 final size:98
Alignment explanation
Indices: 1735643--1735891 Score: 455
Period size: 98 Copynumber: 2.6 Consensus size: 98
1735633 TAAAAGGGTG
1735643 CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAAGA
1 CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAAGA
1735708 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATT
66 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATT
1735741 CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAAGA
1 CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAAGA
1735806 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATT
66 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATT
* * * *
1735839 CCACTGAGTCGTGAACTTTG-GGAAAAAAGATGCCACTGAGTCGTGGACTTGGA
1 CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGA
1735892 GAAGGGAGAT
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
97 31 0.21
98 116 0.79
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (98 bp):
CCACTTAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTGGAAGAAAAAAAGA
TGCCACTAAGTCGTGGACTTTGAAGAAAAGATT
Found at i:1737110 original size:16 final size:15
Alignment explanation
Indices: 1737077--1737123 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
1737067 TTTGCACTCT
*
1737077 TTTTTTTTTGTTTTTTG
1 TTTTTTTTTG--TGTTG
1737094 TTTATTTTTTGTGTTG
1 TTT-TTTTTTGTGTTG
1737110 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
1737124 TGTACTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 7 0.25
17 3 0.11
18 7 0.25
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTGTGTTG
Found at i:1744105 original size:13 final size:13
Alignment explanation
Indices: 1744087--1744114 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1744077 ATACAAAGAT
1744087 CAATGTATCGATA
1 CAATGTATCGATA
1744100 CAATGTATCGATA
1 CAATGTATCGATA
1744113 CA
1 CA
1744115 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1744106 original size:33 final size:33
Alignment explanation
Indices: 1744069--1744134 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1744059 AAATTCCCAG
1744069 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
1744102 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
1744135 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:1744220 original size:31 final size:32
Alignment explanation
Indices: 1744153--1744229 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
1744143 GCAGTAGCTT
*
1744153 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
1744185 TGTATCGATACATTGTATTGATACAACA-TTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1744216 TGTATCGATACATT
1 TGTATCGATACATT
1744230 TACTGTTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 17 0.40
32 26 0.60
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:1747579 original size:20 final size:20
Alignment explanation
Indices: 1747554--1747607 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1747544 GTTAGAAGCA
*
1747554 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1747574 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1747594 ATGTATCGATACAA
1 ATGTATCGATACAA
1747608 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1747657 original size:43 final size:43
Alignment explanation
Indices: 1747593--1747693 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
1747583 TACAATGTAC
*
1747593 CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTT
1 CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTT
*
1747636 CATGTATCAATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTT
1 CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTT
1747679 CATGTATCGATACAA
1 CATGTATCGATACAA
1747694 TTGTCCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTT
Found at i:1747723 original size:19 final size:19
Alignment explanation
Indices: 1747679--1747751 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1747669 CTGCCAGTTT
**
1747679 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1747699 CATGTATAGATACAATGAA
1 CATGTATCGATACAATGAA
1747718 CATGTATCGATACAATGCATA
1 CATGTATCGATACAATG-A-A
1747739 -ATGTATCGATACA
1 CATGTATCGATACA
1747752 TTTGGGTGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1748934 original size:13 final size:13
Alignment explanation
Indices: 1748916--1748940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1748906 CAATTATTCA
1748916 TGTATCGATACAT
1 TGTATCGATACAT
1748929 TGTATCGATACA
1 TGTATCGATACA
1748941 ATGTGCCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1762559 original size:17 final size:17
Alignment explanation
Indices: 1762538--1762578 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
1762528 CGTCCTCCAC
1762538 CAAAAAAAAAACAAACAA
1 CAAAAAAAAAAC-AACAA
*
1762556 -AAAAAAACAACAACAA
1 CAAAAAAAAAACAACAA
1762572 CAAAAAA
1 CAAAAAA
1762579 GGGTCGGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAACAACAA
Found at i:1762560 original size:16 final size:16
Alignment explanation
Indices: 1762539--1762578 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
1762529 GTCCTCCACC
1762539 AAAAAAAA-AACAAACA
1 AAAAAAAACAAC-AACA
1762555 AAAAAAAACAACAACA
1 AAAAAAAACAACAACA
1762571 ACAAAAAA
1 A-AAAAAA
1762579 GGGTCGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAACAACA
Found at i:1764046 original size:28 final size:28
Alignment explanation
Indices: 1763971--1764110 Score: 217
Period size: 28 Copynumber: 5.0 Consensus size: 28
1763961 TTCTCCTCAC
* *
1763971 CCTTCAAAAGCCCACAAGTTAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
1763999 CTTTTCTAAAGCCCACAAGTCAGTGGCAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAA
1764028 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
1764056 CCTTCAAAAGCCCACAAATCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
1764084 CCTTCAAAAGCCCACAAGTCCGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA
1764111 TCTTTTTCCT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 78 0.76
29 24 0.24
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:1764177 original size:34 final size:34
Alignment explanation
Indices: 1764090--1764282 Score: 155
Period size: 34 Copynumber: 5.8 Consensus size: 34
1764080 GCAACCTTCA
* * * *
1764090 AAAGCCCACAAGTCCGTGGCATCTTTTTCCTTTT
1 AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
* *
1764124 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
* *
1764157 AAAGCCCGCAACTCTATGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
* * * * *
1764190 -AAGTCCACGACTCCGTGGCACCCTTTTCCCTTTT
1 AAAGCCCACAACTCCATGGCA-CCTTTTTCTTTTT
* * * *
1764224 -AAGCCCACACCTCCGTGGCATCCCTTTTTC-CTAT
1 AAAGCCCACAACTCCATGGCA--CCTTTTTCTTTTT
*
1764258 -AAGTCCACAACTCCATGGCACCTTT
1 AAAGCCCACAACTCCATGGCACCTTT
1764283 AAGCCCAATA
Statistics
Matches: 131, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
32 20 0.15
33 41 0.31
34 62 0.47
35 8 0.06
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
Found at i:1764197 original size:66 final size:66
Alignment explanation
Indices: 1764091--1764282 Score: 199
Period size: 66 Copynumber: 2.9 Consensus size: 66
1764081 CAACCTTCAA
* * * * * * *
1764091 AAGCCCACAAGTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCCATGGCACCCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTT
1764156 T
66 T
* * *
1764157 AAAGCCCGCAACTCTATGGCA-CCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCT
1 -AAGCCCACAACTCCATGGCACCCTTTTCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCCT
1764221 TTT
64 TTT
* * * * *
1764224 AAGCCCACACCTCCGTGGCATCCCTTTT-TCCTATAAGTCCACAACTCCATGGCACCTTT
1 AAGCCCACAACTCCATGGCA-CCCTTTTCT-TTTTAAGTCCACAACTCCGTGGCACCTTT
1764283 AAGCCCAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
66 45 0.43
67 33 0.32
68 26 0.25
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (66 bp):
AAGCCCACAACTCCATGGCACCCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTT
T
Found at i:1764276 original size:100 final size:99
Alignment explanation
Indices: 1764102--1764282 Score: 240
Period size: 100 Copynumber: 1.8 Consensus size: 99
1764092 AGCCCACAAG
* * * * * *
1764102 TCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCGCA
1 TCCGTGGCACCTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTATAAAGCCCACA
*
1764167 ACTCTATGGCACCTTTTCTTTTTAAGTCCACGAC
66 ACTCCATGGCACCTTTTCTTTTTAAGTCCACGAC
* *
1764201 TCCGTGGCACCCTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTTC-CTAT-AAGTCC
1 TCCGTGGCA-CCTTTTCCCTTTTAAGCCCACAACTCCGTGGCA--CCTTTTTCTCTATAAAGCCC
1764264 ACAACTCCATGGCACCTTT
63 ACAACTCCATGGCACCTTT
1764283 AAGCCCAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
99 9 0.13
100 51 0.73
101 2 0.03
102 8 0.11
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.35
Consensus pattern (99 bp):
TCCGTGGCACCTTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTATAAAGCCCACA
ACTCCATGGCACCTTTTCTTTTTAAGTCCACGAC
Found at i:1764444 original size:49 final size:49
Alignment explanation
Indices: 1764279--1764714 Score: 441
Period size: 49 Copynumber: 8.8 Consensus size: 49
1764269 TCCATGGCAC
* *
1764279 CTTTAAGCCCAATATCGCTGGCCTT-ATATCAGCACATTGGCA--TTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGA-ATCAGCACATTGGCACCTTCAT
* * * *
1764326 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC--CTTCAT
* * *
1764378 CTCTGAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
1764427 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * **
1764476 CTTTAAGATCGATGTCATTGGCCTTGAATCAGCACATTGGCACCTTAACCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CAT
* *
1764528 CTTTAAGACCAATGTCCCTGGCCTTGAATTAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* ** * * * * *
1764577 CTTTAAGTCCAATAACGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * ** *
1764626 CATTCCTAAGCCCAATGTTGCTGGCCTTGTCTCAGCACATTGGCA--TTCTT
1 C-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * ** *
1764676 CTTCAAGTCTGATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1764715 TCATTCTTCG
Statistics
Matches: 328, Mismatches: 49, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
47 65 0.20
48 1 0.00
49 141 0.43
50 5 0.02
51 1 0.00
52 115 0.35
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:1764460 original size:101 final size:98
Alignment explanation
Indices: 1764279--1764714 Score: 441
Period size: 101 Copynumber: 4.4 Consensus size: 98
1764269 TCCATGGCAC
* * * *
1764279 CTTTAAGCCCAATATCGCTGGCCTT-ATATCAGCACATTGGCA--TTCATCTTTAAGTCCAATAT
1 CTTTAAGACCAATATCGTTGGCCTTGA-ATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
* *
1764341 CGCTGGCCTTGAATCAGCATATTGGCGCCTTCTTCAT
65 CGCTGGCCTTGAATCAGCACATTGGC-AC--CTTCAT
* * *
1764378 CTCTGAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTC
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTC
*
1764443 GTTGGCCTTGAATCAGCACATTGGCACCTTCAT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
1764476 CTTTAAGATCGATGTCATTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGACCAAT
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGACCAAT
* *
1764541 GTCCCTGGCCTTGAATTAGCACATTGGCACCTTCAT
63 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * * * * *
1764577 CTTTAAGTCCAATAACGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAAT
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGACCAAT
* ** *
1764642 GTTGCTGGCCTTGTCTCAGCACATTGGCA--TTCTT
63 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * ** * * *
1764676 CTTCAAGTCTGATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTG
1764715 TCATTCTTCG
Statistics
Matches: 285, Mismatches: 43, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
98 49 0.17
99 72 0.25
100 2 0.01
101 162 0.57
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (98 bp):
CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:1764550 original size:150 final size:148
Alignment explanation
Indices: 1764279--1764619 Score: 452
Period size: 150 Copynumber: 2.3 Consensus size: 148
1764269 TCCATGGCAC
* * *
1764279 CTTTAAGCCCAATATCGCTGGCCTT-ATATCAGCACATTGGCATTCATCTTTAAGTCCAATATCG
1 CTTTAAGACCAATATCGTTGGCCTTGA-ATCAGCACATTGGCATTCATCTTTAAGTCCAATATCA
* * *** * **
1764343 CTGGCCTTGAATCAGCATATTGGCGCCTTCTTCATCTCTGAGACCAATGTCGTTGGCCTTGAATC
65 CTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTCTAAGACCAATGTCCCTGGCCTTGAATC
1764408 AGCACATTGGCACCTTCAT
130 AGCACATTGGCACCTTCAT
* * *
1764427 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGAT-CGATGT
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCA--TTCATCTTTAAG-TCCAATAT
* *
1764491 CATTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGACCAATGTCCCTGGCCTTGAA
63 CACTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTCTAAGACCAATGTCCCTGGCCTTGAA
*
1764556 TTAGCACATTGGCACCTTCAT
128 TCAGCACATTGGCACCTTCAT
* * *
1764577 CTTTAAGTCCAATAACGTTGGCCTTGAATCAGCATATTGGCAT
1 CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCAT
1764620 CTTTAACATT
Statistics
Matches: 168, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
148 38 0.23
149 1 0.01
150 128 0.76
151 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (148 bp):
CTTTAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCATTCATCTTTAAGTCCAATATCAC
TGGCCTTGAATCAGCACATTGGCACCTTAACCATCTCTAAGACCAATGTCCCTGGCCTTGAATCA
GCACATTGGCACCTTCAT
Found at i:1765784 original size:13 final size:13
Alignment explanation
Indices: 1765766--1765791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1765756 TACACCAAGT
1765766 ATGTATCGATACA
1 ATGTATCGATACA
1765779 ATGTATCGATACA
1 ATGTATCGATACA
1765792 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1765786 original size:32 final size:33
Alignment explanation
Indices: 1765748--1765811 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1765738 TAGCCAAACT
* **
1765748 TGTATCGCTACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1765780 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1765812 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1771395 original size:20 final size:20
Alignment explanation
Indices: 1771370--1771439 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1771360 GTAAAAAGAT
*
1771370 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
* *
1771390 AGAATGTATCGATACAGTCAT
1 AGAATGTATCGATACA-TTAA
*
1771411 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
1771430 AAAATGTATC
1 AGAATGTATC
1771440 CATATATCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.88
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:1772473 original size:28 final size:28
Alignment explanation
Indices: 1772383--1772938 Score: 361
Period size: 28 Copynumber: 19.3 Consensus size: 28
1772373 ACCAACTTAC
* *
1772383 GTGGGCTTTAGAGAAGGTTGCCACTAACTTGT
1 GTGGGCTTTA-A-AAGGGTGCCACTGAC-T-T
* *
1772415 GTGGGCTTTAGAAGGGTTGCCACTAACTT
1 GTGGGCTTTAAAAGGG-TGCCACTGACTT
* * *
1772444 GTGGGCTTTAAAAAGATGCCACTGATTT
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
** *
1772472 GTGGGCTTCGAAAGGGTGCCA-TTAGCTT
1 GTGGGCTTTAAAAGGGTGCCACTGA-CTT
*
1772500 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
* * * *
1772528 ATGGGCTTTGAGAGAGGTTGCCACCGACTTGT
1 GTGGGCTTT-A-AAAGGGTGCCACTGAC-T-T
* * *
1772560 GTGGGCTTT-AAGGGGTTACCACCGACTT
1 GTGGGCTTTAAAAGGG-TGCCACTGACTT
* * **
1772588 GTGGGCTTTGAGAGAGGTTGCCACAAACTT
1 GTGGGCTTT-A-AAAGGGTGCCACTGACTT
* *
1772618 GTGTGGGTTTGAAAGGGTGCCACTGACTT
1 GTG-GGCTTTAAAAGGGTGCCACTGACTT
*
1772647 GTGGGCTTTTTAAA-GGTGCCACTGACTCT
1 GTGGGC-TTTAAAAGGGTGCCACTGACT-T
** * * *
1772676 -TGGGCTTTGGAAGGGTGGCACTAACTC
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
* * *
1772703 GTGGGCTTTGAGAA-TGTGCCACTGACTC
1 GTGGGCTTT-AAAAGGGTGCCACTGACTT
* *
1772731 GTGGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
** * *
1772759 GTGGGCTTTCGGAAGGATGCCACTAACTT
1 GTGGGCTTT-AAAAGGGTGCCACTGACTT
1772788 GTGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
* ** * *
1772816 GTGGGCTTTGAAAA-AGTGTTACTGGCTG
1 GTGGGCTTT-AAAAGGGTGCCACTGACTT
* * * *
1772844 GTGGGTTTTTGAAAGGATGCCACTCG-CTC
1 GTGGG-CTTTAAAAGGGTGCCACT-GACTT
** * * * *
1772873 GTGGGCTTTGGAAGGATGTCACTCACTC
1 GTGGGCTTTAAAAGGGTGCCACTGACTT
*
1772901 GTGGGCTTTAAAAGAGGTGCCACTAACTT
1 GTGGGCTTTAAAAG-GGTGCCACTGACTT
*
1772930 GTGAGCTTT
1 GTGGGCTTT
1772939 GATTAGAGTC
Statistics
Matches: 417, Mismatches: 82, Indels: 53
0.76 0.15 0.10
Matches are distributed among these distances:
27 9 0.02
28 220 0.53
29 110 0.26
30 40 0.10
31 19 0.05
32 19 0.05
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (28 bp):
GTGGGCTTTAAAAGGGTGCCACTGACTT
Found at i:1772813 original size:85 final size:84
Alignment explanation
Indices: 1772383--1772939 Score: 415
Period size: 85 Copynumber: 6.5 Consensus size: 84
1772373 ACCAACTTAC
* * * *
1772383 GTGGGCTTTAGAGAAGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGTTGCCACTAACTTGTGG
1 GTGGGCTTT-GA-AAGGATGCCACTGAC-T-TGTGGGCTTTGGAA-GGATGCCACTAACTTGTGG
* * *
1772448 GCTTTAAAAAGATGCCACTGATTT
61 GCTTTAAAAGGGTGCCACTGACTT
* * * * * * *
1772472 GTGGGCTTCGAAAGGGTGCCA-TTAGCTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTGA-CTTGTGGGCTTTGGAAGGATGCCACTAACTTGTGGGCTT
* * *
1772536 TGAGAGAGGTTGCCACCGACTTGT
65 T-A-AAAGGGTGCCACTGAC-T-T
* * * * * *
1772560 GTGGGCTTT-AAGGGGTTACCACCGACTTGTGGGCTTTGAGAGAGGTTGCCACAAACTTGTGTGG
1 GTGGGCTTTGAA-AGGATGCCACTGACTTGTGGGCTTTG-GA-AGGATGCCACTAACTTGTG-GG
* *
1772624 GTTTGAAAGGGTGCCACTGACTT
62 CTTTAAAAGGGTGCCACTGACTT
* * * *
1772647 GTGGGCTTTTTAAAGG-TGCCACTGACTCT-TGGGCTTTGGAAGGGTGGCACTAACTCGTGGGCT
1 GTGGGC-TTTGAAAGGATGCCACTGACT-TGTGGGCTTTGGAAGGATGCCACTAACTTGTGGGCT
* * *
1772710 TTGAGAA-TGTGCCACTGACTC
64 TT-AAAAGGGTGCCACTGACTT
1772731 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTCGGAAGGATGCCACTAACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GGAAGGATGCCACTAACTTGTGGGCTT
1772796 TAAAAGGGTGCCACTGACTT
65 TAAAAGGGTGCCACTGACTT
* ** * * * * ** *
1772816 GTGGGCTTTGAAA-AAGTGTTACTGGCTGGTGGGTTTTTGAAAGGATGCCACTCGCTCGTGGGCT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGG-CTTTGGAAGGATGCCACTAACTTGTGGGCT
** * * * *
1772880 TTGGAAGGATGTCACTCACTC
64 TTAAAAGGGTGCCACTGACTT
* * * *
1772901 GTGGGCTTTAAAAGAGGTGCCACTAACTTGTGAGCTTTG
1 GTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTG
1772940 ATTAGAGTCG
Statistics
Matches: 372, Mismatches: 74, Indels: 48
0.75 0.15 0.10
Matches are distributed among these distances:
83 9 0.02
84 67 0.18
85 146 0.39
86 30 0.08
87 38 0.10
88 37 0.10
89 25 0.07
90 15 0.04
91 5 0.01
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (84 bp):
GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGGAAGGATGCCACTAACTTGTGGGCTTT
AAAAGGGTGCCACTGACTT
Found at i:1772971 original size:14 final size:14
Alignment explanation
Indices: 1772952--1773025 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 14
1772942 TAGAGTCGCA
1772952 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
1772966 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
*
1772979 -TGACAAACA-TTC
1 TTGACAAAAATTTC
* *
1772991 TCGAC-AAAAGTTC
1 TTGACAAAAATTTC
* *
1773004 TTGACGATAATTTC
1 TTGACAAAAATTTC
1773018 TTGACAAA
1 TTGACAAA
1773026 TGGTGAATTG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
12 10 0.22
13 19 0.41
14 17 0.37
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:1772982 original size:26 final size:26
Alignment explanation
Indices: 1772952--1773025 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
1772942 TAGAGTCGCA
1772952 TTGACAAAAATTTCTTGACAAAGTT-
1 TTGACAAAAATTTCTTGACAAAGTTC
* *
1772977 TCTGACAAACA-TTCTCGACAAAAGTTC
1 T-TGACAAAAATTTCTTGAC-AAAGTTC
* *
1773004 TTGACGATAATTTCTTGACAAA
1 TTGACAAAAATTTCTTGACAAA
1773026 TGGTGAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 8 0.21
26 23 0.59
27 8 0.21
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (26 bp):
TTGACAAAAATTTCTTGACAAAGTTC
Found at i:1774236 original size:11 final size:11
Alignment explanation
Indices: 1774222--1774246 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1774212 TATTTTTTTA
1774222 TTTTTTTGTTT
1 TTTTTTTGTTT
1774233 TTTTTTTGTTT
1 TTTTTTTGTTT
1774244 TTT
1 TTT
1774247 GGGTACAAAG
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1781300 original size:266 final size:266
Alignment explanation
Indices: 1780932--1781462 Score: 1008
Period size: 266 Copynumber: 2.0 Consensus size: 266
1780922 CTGAACTTTG
*
1780932 TGGGGGGATGACAAGGTTGGACACCAAAGATAGTGATTCCGCATCAACAGCTCCGAACTTGTCAT
1 TGGGGGGACGACAAGGTTGGACACCAAAGATAGTGATTCCGCATCAACAGCTCCGAACTTGTCAT
1780997 TCCATTCGATAGCTTGAAGGCGCTTCTCCAATAGCTGGTACTTGCTTATTTCCTCAGTCGTCGAT
66 TCCATTCGATAGCTTGAAGGCGCTTCTCCAATAGCTGGTACTTGCTTATTTCCTCAGTCGTCGAT
*
1781062 GTGGTCTTTTGACTCTCTTCTTTTTCATGATTCTCATATTTGATAGTTATGGGGTCGGTTGGTGA
131 GTGGTCTTTTGACTCTCTTCTTTTTCATGATTCTCATATTTGATAGTTATAGGGTCGGTTGGTGA
*
1781127 GGCTCCTGCACCTACCCCTTGAGAGCCAAGAATAAATTGATTCGTCGCCATGGGGTTCAAGTAGA
196 GGCTCCTACACCTACCCCTTGAGAGCCAAGAATAAATTGATTCGTCGCCATGGGGTTCAAGTAGA
1781192 TCACCA
261 TCACCA
1781198 TGGGGGGACGACAAGGTTGGACACCAAAGATAGTGATTCCGCATCAACAGCTCCGAACTTGTCAT
1 TGGGGGGACGACAAGGTTGGACACCAAAGATAGTGATTCCGCATCAACAGCTCCGAACTTGTCAT
1781263 TCCATTCGATAGCTTGAAGGCGCTTCTCCAATAGCTGGTACTTGCTTATTTCCTCAGTCGTCGAT
66 TCCATTCGATAGCTTGAAGGCGCTTCTCCAATAGCTGGTACTTGCTTATTTCCTCAGTCGTCGAT
* * *
1781328 GTGGTCTTTTGACTCTCTTTTTTTTCGTGATTCTCATGTTTGATAGTTATAGGGTCGGTTGGTGA
131 GTGGTCTTTTGACTCTCTTCTTTTTCATGATTCTCATATTTGATAGTTATAGGGTCGGTTGGTGA
1781393 GGCTCCTACACCTACCCCTTGAGAGCCAAGAATAAATTGATTCGTCGCCATGGGGTTCAAGTAGA
196 GGCTCCTACACCTACCCCTTGAGAGCCAAGAATAAATTGATTCGTCGCCATGGGGTTCAAGTAGA
1781458 TCACC
261 TCACC
1781463 GAACTCACAG
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 259 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (266 bp):
TGGGGGGACGACAAGGTTGGACACCAAAGATAGTGATTCCGCATCAACAGCTCCGAACTTGTCAT
TCCATTCGATAGCTTGAAGGCGCTTCTCCAATAGCTGGTACTTGCTTATTTCCTCAGTCGTCGAT
GTGGTCTTTTGACTCTCTTCTTTTTCATGATTCTCATATTTGATAGTTATAGGGTCGGTTGGTGA
GGCTCCTACACCTACCCCTTGAGAGCCAAGAATAAATTGATTCGTCGCCATGGGGTTCAAGTAGA
TCACCA
Found at i:1794061 original size:20 final size:20
Alignment explanation
Indices: 1794036--1794101 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
1794026 GGTAAAAAGA
1794036 AAGAATGTATCGATACATTG
1 AAGAATGTATCGATACATTG
*
1794056 AAGAATGTATCGATACATTC
1 AAGAATGTATCGATACATTG
*
1794076 ATA-CATGTATCGATACATTG
1 A-AGAATGTATCGATACATTG
1794096 AAGAAT
1 AAGAAT
1794102 ATACATTCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
AAGAATGTATCGATACATTG
Found at i:1794718 original size:3 final size:3
Alignment explanation
Indices: 1794710--1794750 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1794700 CGAGCCAACT
* * *
1794710 TCA TCA TCA TCA TTA TCA TCA TCT TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1794751 TTTGATGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:1794727 original size:9 final size:9
Alignment explanation
Indices: 1794710--1794752 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
1794700 CGAGCCAACT
*
1794710 TCATCATCA
1 TCATCTTCA
1794719 TCAT-TATCA
1 TCATCT-TCA
1794728 TCATCTTCA
1 TCATCTTCA
1794737 TCATCTTCA
1 TCATCTTCA
1794746 TCATCTT
1 TCATCTT
1794753 TGATGGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 30 0.97
10 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATCTTCA
Found at i:1796479 original size:19 final size:19
Alignment explanation
Indices: 1796434--1796489 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1796424 CTGCTAGTTT
**
1796434 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1796454 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1796473 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1796490 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1796492 original size:13 final size:13
Alignment explanation
Indices: 1796474--1796500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1796464 TACAATGAAC
1796474 ATGTATCGATACA
1 ATGTATCGATACA
1796487 ATGTATCGATACA
1 ATGTATCGATACA
1796500 A
1 A
1796501 AGCATGATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1797964 original size:20 final size:20
Alignment explanation
Indices: 1797939--1797991 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1797929 CGTTGGGCCA
*
1797939 AATGTACCAATACAATTCAT
1 AATGTATCAATACAATTCAT
* *
1797959 AATGTATCGATACAATTTAT
1 AATGTATCAATACAATTCAT
1797979 ACATGTATCAATA
1 A-ATGTATCAATA
1797992 AAATCATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (20 bp):
AATGTATCAATACAATTCAT
Found at i:1802439 original size:13 final size:13
Alignment explanation
Indices: 1802421--1802457 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1802411 ATAGTACCCT
*
1802421 TGTATCGATATAA
1 TGTATCGATACAA
*
1802434 TGTATCAATACAA
1 TGTATCGATACAA
1802447 TGTATCGATAC
1 TGTATCGATAC
1802458 TAAGATCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1806533 original size:15 final size:15
Alignment explanation
Indices: 1806513--1806548 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1806503 CTAGTTCGAC
*
1806513 AATTTTCTTTTCAAG
1 AATTTTATTTTCAAG
*
1806528 AATTTTATTTTCAAT
1 AATTTTATTTTCAAG
1806543 AATTTT
1 AATTTT
1806549 TTATTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (15 bp):
AATTTTATTTTCAAG
Found at i:1808736 original size:33 final size:32
Alignment explanation
Indices: 1808674--1808736 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1808664 CAATTCTTTA
* * *
1808674 TGTATCGATATAATGAACATGTATTGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
1808706 TGTATCGATACAAAGCAATATGTATCGATAC
1 TGTATCGATACAAAG-AACATGTATCGATAC
1808737 TTCTGGGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:1808821 original size:20 final size:20
Alignment explanation
Indices: 1808796--1808848 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1808786 GTCAGCCTTC
*
1808796 TATGTATTGATACAAATACA
1 TATGTATCGATACAAATACA
*
1808816 TATGTATCGATACAAATACC
1 TATGTATCGATACAAATACA
1808836 TATGTATCGATAC
1 TATGTATCGATAC
1808849 TTTGATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (20 bp):
TATGTATCGATACAAATACA
Found at i:1809933 original size:825 final size:837
Alignment explanation
Indices: 1808196--1811584 Score: 4770
Period size: 865 Copynumber: 4.0 Consensus size: 837
1808186 AACCCAAGGA
* *
1808196 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAATAGGCTAGTG
1 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAGTAGGCTGGTG
* * *
1808261 TTTGTGAAAGAATAAGCACAGAACAAATACAAAAGAGCTTTTAAAGAATAAAAATAATGAGTATA
66 TTTGTGAAAGAATAAGCACAAAACAAATACAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
* *
1808326 AAAGCTATTGAAAATGAGAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
131 AAAGCTCTTGAAAATGAAAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
* * *
1808391 TGTTTAC-TATCTT-TTTCAGCTATTGGAAACTCAAATTTATAGGCTAAAATGTTTACATACTCG
196 TGTTT-CTTTTCTTCTTT-AGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCG
* *
1808454 TTGGAGGTTGAATGATTGTGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTC
259 TTAGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTC
* *
1808519 CCGTTATTATGTATTCATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTG
324 CCGTTATTATGTATTGATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTA
* * * *
1808584 GGCACAACGTATCGATACTT-T-T-TAC-TAT-GTATCGACACAAACAGTGGTAGGGTAGCTACT
389 GGCACAATGTATCGATACTTATATGTACATATCATGTCGATACAAACAGTGGTAGGGTAGCTACT
1808644 GCCAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGTATTGATACATTGT
454 GCCAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGTATTGATACATTGT
* *
1808709 ATCGATACAAAGCAATATGTATCGATACTTCTGGGCTTGTATCGATACTTTCTAGGGTTTTGACC
519 ATCGATACAAAGCAATATGTATCGATACTTCTAGGCCTGTATCGATACTTTCTAGGGTTTTGACC
1808774 TCTGTAGCTTAAGTCAGCCTTCTATGTATTGATACAAATACATATGTATCGATACAAATACCTAT
584 TCTGTAGC-T---T-A-------ATG--TT--T----ATAC------A-C-AT----ATA-CTAT
*
1808839 GTATCGATACTTTGATTTATTTTAATTTGAAAACAAATGAATTCATGCTTGAAAAACATTTATAC
616 GTATCGATACTTTGATTTATTTTAATTTGAAAACAAATGAATTAATGCTTGAAAAACATTTATAC
*
1808904 ATAACTCTAAAATATCTTTGATATTGAAGATCATTTTGAGCAAAGTTTTAGAGTATTTTGAAGTG
681 ATAACTCTAAAACATCTTTGATATTGAAGATCATTTTGAGCAAAGTTTTAGAGTATTTTGAAGTG
1808969 AATAAAACTTATTACGATTTTTCAAAGTATTTTTC-GATTTTATTCATACTTTATTATATCAAAA
746 AATAAAACTTATTACGATTTTTCAAAGTATTTTTCAG-TTTTATTCATACTTTATTATATCAAAA
1809033 CCAAGATCCTAACAATCTCCCCCAAAGT
810 CCAAGATCCTAACAATCTCCCCCAAAGT
* *
1809061 TGAATGCAACCTTATACAACTCAAGGAAATTTTACAAATGAAAATTGCCTCTAAGTAGGCTGGTG
1 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAGTAGGCTGGTG
* * *
1809126 TTTGTGAAAGAATAAGCACAAAACAAATATAAAAGAGCTTTCAAAAAATAATAATAATGAGTATA
66 TTTGTGAAAGAATAAGCACAAAACAAATACAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
1809191 AAAGCTCTTGAAAATGAAAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
131 AAAGCTCTTGAAAATGAAAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
*
1809256 TGTTTCTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATGGGCTAGAATGTTGACATACTCGTT
196 TGTTTCTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCGTT
* *
1809321 GGAGGTTGAATGATTGTGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCCC
261 AGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCCC
* * *
1809386 GTTATTATGTGTTGATACTTTTCGTAATGTATCGATACATGCATTTGAAATTTATAGCCTTTAGG
326 GTTATTATGTATTGATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
1809451 CACAATGTATCGATACTT-T-T-TAC-TAT-ATGTCGATACAAACAGTGGTAGGGTAGCTACTGC
391 CACAATGTATCGATACTTATATGTACATATCATGTCGATACAAACAGTGGTAGGGTAGCTACTGC
*
1809511 CAGTTTCATATATCGATACAATTCTTTATGTATCGATATAATGAACATGTATTGATACATTGTAT
456 CAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGTATTGATACATTGTAT
* * * * * *
1809576 CAATACAAAGCAATGTGCAGT-GATAATTCTGGGCCTGTATCAATACTTTCTAGGGTTTTGACCT
521 CGATACAAAGCAATATGTA-TCGATACTTCTAGGCCTGTATCGATACTTTCTAGGGTTTTGACCT
* *
1809640 CTGTAGCTTAA-G-TTA-AC-C-T-T-CTATGTATCGATACTTTAATTTATTTTATTTTGAAAAC
585 CTGTAGCTTAATGTTTATACACATATACTATGTATCGATACTTTGATTTATTTTAATTTGAAAAC
* *
1809698 AATTGAATTAATGCTTGAAAAACATTCATACATAACTCTAAAACATCTTTGATATTGAAGATCAT
650 AAATGAATTAATGCTTGAAAAACATTTATACATAACTCTAAAACATCTTTGATATTGAAGATCAT
* *
1809763 TTTGAGCAAAGTTTTAGAGTATTTTGAAGTGAATAGAACTTATTACGATTTTTTAAAGTATTTTT
715 TTTGAGCAAAGTTTTAGAGTATTTTGAAGTGAATAAAACTTATTACGATTTTTCAAAGTATTTTT
1809828 C-GATTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATCTCCCCCAAAGT
780 CAG-TTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATCTCCCCCAAAGT
* *
1809886 TGAATGCAACCTTATACAACTCAAGGAAATTTTACAAATGAAAATTGCCTCTAAGTAGGCTGGTG
1 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAGTAGGCTGGTG
* * *
1809951 TTTGTGAAAGAATAAACACAAAATAAATATAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
66 TTTGTGAAAGAATAAGCACAAAACAAATACAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
1810016 AAAGCTCTTGAAAAT-AAGAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGA
131 AAAGCTCTTGAAAATGAA-AAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGA
* *
1810080 TTGTTTTTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATATGCTAGAATGTTGACATACTCGT
195 TTGTTTCTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCGT
* *
1810145 TAGAGGTTGAATGACTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTATTTCCATGCATTCC
260 TAGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCC
* * * *
1810210 CGTTATTCTGTATTGATACTTTTCATAATGTACCGATACATGCAGTTGAAATTTATAACCGTTAG
325 CGTTATTATGTATTGATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAG
* *
1810275 GCACAATGTATCGATATTTTTTACTATGTATCGATACAATGTCCCATGTACCGATACAAACAGTA
390 GCACAATGTATCGATA---CTTA-TATGTA-C-AT---A--T--CATGT--CGATACAAACAGTG
* * *
1810340 GTAGGGTAGCTACTGCCAGTTTCATGTATCGAAACAATTCTTTATTTATCTATATAATGAACATG
440 GTAGGGTAGCTACTGCCAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATG
* * *
1810405 TATTGATACATTGTATCGATACAAAGCGATATGTATTGATACTTCTAGGCCTGTACCGATACTTT
505 TATTGATACATTGTATCGATACAAAGCAATATGTATCGATACTTCTAGGCCTGTATCGATACTTT
* * *
1810470 TTAGGGTTTTGACCTCTGTAGCTTAACTGAACCTTTTATGTATCGATACTTACACCTATGTATCG
570 CTAGGGTTTTGACCTCTGTAGCTTAA-TG-----TTTA--TA-C---ACATATA-CTATGTATCG
*
1810535 ATACTTTGATTTATTTTAATTTGAAAAGAAATGAATTAATGCTTGAAAAACATTTATACATAACT
622 ATACTTTGATTTATTTTAATTTGAAAACAAATGAATTAATGCTTGAAAAACATTTATACATAACT
* * * *
1810600 CTAAAACATCTTTGATACTGAAGATCATTTTAAGCAATGTTTTAGAGTATTTTTAAGTGAATAAA
687 CTAAAACATCTTTGATATTGAAGATCATTTTGAGCAAAGTTTTAGAGTATTTTGAAGTGAATAAA
* *
1810665 ACTTATTACGATTTTTCAAAGTATATTTCAGTTTTATTCATACTTTGTTATATCAAAACCAAGAT
752 ACTTATTACGATTTTTCAAAGTATTTTTCAGTTTTATTCATACTTTATTATATCAAAACCAAGAT
* *
1810730 CCTAACAATCTCCTCCGAAGT
817 CCTAACAATCTCCCCCAAAGT
* * * *
1810751 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACAAAAATTGGCTCTAAGTAGGCTCGTC
1 TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAGTAGGCTGGTG
* *
1810816 TTTGTGAAAGAATAAGCACAAAACAAATACAAAGGAGCTTTCAAAGAATAACAACAATGAGTATA
66 TTTGTGAAAGAATAAGCACAAAACAAATACAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
* * * *
1810881 AAAGCTCTTGAAAATTAGAAAAATAATAAAGCTTTGAATGATTTGATCTCTTGATGTTTCTTGAT
131 AAAGCTCTTGAAAATGAAAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
* *
1810946 TGGTT-TTTTCTTCTTCAGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCGTT
196 TGTTTCTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCGTT
*
1811010 AGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCCA
261 AGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCCC
* * * *
1811075 GTTATTATGTACTGATACTTTTCATAATGTATCGATATATGCATTTGAAATTTATAGCCATTGGG
326 GTTATTATGTATTGATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
*
1811140 CACAATGTATTGATACTTTTTACTATGTATCGATACAATGTCCCATGTATCGATACAAACAGTGG
391 CACAATGTATCGATAC---TTA-TATGTA-C-AT---A--T--CATG--TCGATACAAACAGTGG
*
1811205 TAGGGTAGCTACTGCCAGTCTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGT
441 TAGGGTAGCTACTGCCAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGT
* *
1811270 ATTGATACATTGTATCGATACAAAGCAGTATGTATCGATACTTCTAGGCCTGTATCGATATTTTC
506 ATTGATACATTGTATCGATACAAAGCAATATGTATCGATACTTCTAGGCCTGTATCGATACTTTC
* * * * *
1811335 TATGGTTTTGACCTTTGTAGCTTAA-G-TCA-AC-CTTCTACCTATGTATCGATACTTTGATTTA
571 TAGGGTTTTGACCTCTGTAGCTTAATGTTTATACACATATA-CTATGTATCGATACTTTGATTTA
* * *
1811396 TTTTAATTTGAAAACAAATGAATTAATGCTTGATAAACATTTATACAAAACTCTAAAACATGTTT
635 TTTTAATTTGAAAACAAATGAATTAATGCTTGAAAAACATTTATACATAACTCTAAAACATCTTT
* * *
1811461 GATATTGAA-AGTCACTTTGAGC-AAGCTTTTAGAGTATTTTTAAGTGAATAAAACTTATTACGG
700 GATATTGAAGA-TCATTTTGAGCAAAG-TTTTAGAGTATTTTGAAGTGAATAAAACTTATTACGA
* * *
1811524 TTTTTCAAAGTA-TTTTCAGTTTTATTCATACTTTGTTATATCAAAACTAGGATCCTAACAA
763 TTTTTCAAAGTATTTTTCAGTTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAA
1811585 AATAACATAT
Statistics
Matches: 2324, Mismatches: 146, Indels: 126
0.90 0.06 0.05
Matches are distributed among these distances:
824 2 0.00
825 602 0.26
827 1 0.00
828 2 0.00
830 1 0.00
831 1 0.00
832 3 0.00
833 1 0.00
834 1 0.00
835 1 0.00
838 1 0.00
840 1 0.00
842 2 0.00
843 5 0.00
844 1 0.00
845 154 0.07
847 51 0.02
848 154 0.07
849 1 0.00
852 2 0.00
853 5 0.00
856 3 0.00
857 1 0.00
860 1 0.00
861 2 0.00
862 2 0.00
864 377 0.16
865 939 0.40
866 7 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (837 bp):
TGAATGCAACCTTATACAACTCAAGAAAATTTTACAAACGAAAATTGCCTCTAAGTAGGCTGGTG
TTTGTGAAAGAATAAGCACAAAACAAATACAAAAGAGCTTTCAAAGAATAACAATAATGAGTATA
AAAGCTCTTGAAAATGAAAAAAATAATAAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGAT
TGTTTCTTTTCTTCTTTAGCTATTGGAAACTCAAATTTATAGGCTAGAATGTTGACATACTCGTT
AGAGGTTGAATGATTATGTTTGTAGCCATTGTTGACTTGTTTGGTGCTTGTTTCCATGCATTCCC
GTTATTATGTATTGATACTTTTCATAATGTATCGATACATGCATTTGAAATTTATAGCCGTTAGG
CACAATGTATCGATACTTATATGTACATATCATGTCGATACAAACAGTGGTAGGGTAGCTACTGC
CAGTTTCATGTATCGATACAATTCTTTATGTATCGATATAATGAACATGTATTGATACATTGTAT
CGATACAAAGCAATATGTATCGATACTTCTAGGCCTGTATCGATACTTTCTAGGGTTTTGACCTC
TGTAGCTTAATGTTTATACACATATACTATGTATCGATACTTTGATTTATTTTAATTTGAAAACA
AATGAATTAATGCTTGAAAAACATTTATACATAACTCTAAAACATCTTTGATATTGAAGATCATT
TTGAGCAAAGTTTTAGAGTATTTTGAAGTGAATAAAACTTATTACGATTTTTCAAAGTATTTTTC
AGTTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATCTCCCCCAAAGT
Found at i:1812761 original size:163 final size:161
Alignment explanation
Indices: 1812382--1812798 Score: 475
Period size: 163 Copynumber: 2.6 Consensus size: 161
1812372 GGGAATTTGA
* * ** ** *
1812382 AAGAAAAAATGAAAAACTTATGAAAATAAATTAATTTTTCAAAACTAATTTACGATGAACCAAAT
1 AAGAAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTAATATG-ATTAAGT
* * * * *
1812447 GATGTTATTTGACGAATTTTAAAAATTATAAACTAAGAAAAATCCCATCGAAAATATTTACGGAG
65 GATGATATTTGATGAATTTTAAAAATAATAAACCAAGAAAAATCCCACCGAAAATATTTACGGAG
1812512 TAGAAAACTCATTTCGAAAACAAAAACATTTC
130 TAGAAAACTCATTTCGAAAACAAAAACATTTC
* **
1812544 AAGGAAAAAATGAAAACCCCATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGAGTTAAG
1 AA-GAAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGA-TTAAG
* *
1812609 TGATGATATTTGATGAATTTTAAAAATAATAAACCGAGAAAAATCCCCCCG-AAATATTTACGGA
64 TGATGATATTTGATGAATTTTAAAAATAATAAACCAAGAAAAATCCCACCGAAAATATTTACGGA
* *
1812673 GTAGAAAACTTCGTATTTC-ATAAACAAGAGA-ATTTT
129 GTAGAAAAC-TC--ATTTCGA-AAACAA-AAACATTTC
* * * * *
1812709 AA-AAAAAATGAAAAACTTATAAAAATGAATGAATTTATGAAAACTGATTTAATGGTGATT-AGC
1 AAGAAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTAAT-ATGATTAAG-
* *
1812772 TAATAATATTTGATGAATTTTAAAAAT
64 TGATGATATTTGATGAATTTTAAAAAT
1812799 TTTAATCCAA
Statistics
Matches: 217, Mismatches: 29, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
162 27 0.12
163 167 0.77
164 4 0.02
165 17 0.08
166 2 0.01
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (161 bp):
AAGAAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTAATATGATTAAGTG
ATGATATTTGATGAATTTTAAAAATAATAAACCAAGAAAAATCCCACCGAAAATATTTACGGAGT
AGAAAACTCATTTCGAAAACAAAAACATTTC
Found at i:1812817 original size:163 final size:161
Alignment explanation
Indices: 1812452--1812931 Score: 456
Period size: 163 Copynumber: 2.9 Consensus size: 161
1812442 CAAATGATGT
* * **
1812452 TATTTGACGAATTTTAAAAATTATAAACTAAGAAAAATCCCATCGAAAATATTTACGGAGTAGAA
1 TATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCG-AAATATTTACGGAGTAGAA
* * * * *
1812517 AACTC--ATTTCGAAAACAA-AAACATTTCAAGGAAAAAATGAAAACCCCATGAAAATAAATGAA
65 AACTCGTATTTCGAAAACAAGAGA-ATTTTAA--AAAAAATGAAAAACTCATAAAAAT-AATGAA
* * *
1812579 TTTTTCAAAACTGATTTAAT-ATGAGTTAAGTGATGA
126 -TTTTCAAAACTGATTTAATGGTGAGTTAAGTAATAA
* *
1812615 TATTTGATGAATTTTAAAAATAATAAACCGAGAAAAATCCCCCCGAAATATTTACGGAGTAGAAA
1 TATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAATATTTACGGAGTAGAAA
*
1812680 ACTTCGTATTTC-ATAAACAAGAGAATTTTAAAAAAAATGAAAAACTTATAAAAATGAATGAATT
66 AC-TCGTATTTCGA-AAACAAGAGAATTTTAAAAAAAATGAAAAACTCATAAAAAT-AATGAATT
*
1812744 TATGAAAACTGATTTAATGGTGA-TT-AGCTAATAA
128 T-TCAAAACTGATTTAATGGTGAGTTAAG-TAATAA
* * ** * *** *
1812778 TATTTGATGAATTTTAAAAATTTTAATCCAATG-AAAATCCTCCCAAAAAAATTTGTAGAGAAGA
1 TATTTGATGAATTTTAAAAATTATAAACCAA-GAAAAATCC-CCCCGAAATATTTACGGAGTAGA
* * * *
1812842 AAACTCGGTATTTCGAAAATAGGAGGAATTTTAAAAGAAAATCAATAACTCATAGAACAA-AATG
64 AAACTC-GTATTTCGAAAACAAGA-GAATTTTAAAA-AAAATGAAAAACTCATA-AA-AATAATG
*
1812906 AAATTTTTAAAACTGATTTAATGGTG
124 -AATTTTCAAAACTGATTTAATGGTG
1812932 CCCAAAAAAT
Statistics
Matches: 266, Mismatches: 34, Indels: 31
0.80 0.10 0.09
Matches are distributed among these distances:
162 27 0.10
163 124 0.47
164 38 0.14
165 29 0.11
166 39 0.15
167 7 0.03
168 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.29
Consensus pattern (161 bp):
TATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAATATTTACGGAGTAGAAA
ACTCGTATTTCGAAAACAAGAGAATTTTAAAAAAAATGAAAAACTCATAAAAATAATGAATTTTC
AAAACTGATTTAATGGTGAGTTAAGTAATAA
Found at i:1813663 original size:240 final size:245
Alignment explanation
Indices: 1813198--1813698 Score: 764
Period size: 256 Copynumber: 2.0 Consensus size: 245
1813188 TCAAAATTAA
*
1813198 TTTAC-AAAATTCACAACTTGACACCTCATGGTATAAAATGCCAATACATTTTTTTTCTTGAAAA
1 TTTACGAAAATTCACAACTTGACACCTCATGGTAGAAAATGCCAATACATTTTTTTTCTTGAAAA
*
1813262 TTTGTGATTTTTAAGGGCATATATTGGCATAAGAACTGAACTAGTGTTCGTAAAAATATACGACG
66 TTTATGATTTTTAAGGGCATATATTGGCATAAGAACTGAACTAGTGTTCGTAAAAATATACGACG
*
1813327 ATTAATTTCTCGAGCTTCTCAGAAAAATCTCAAAAAATTCCTAAAAATAGAAAAATTGGCCGTGA
131 ATCAATTTCTCGAGC-TCT-------ATCTCAAAAAATTCCTAAAAATAGAAAAATT---CGTGA
* *
1813392 TATCATCTACAATAGTAGTTTTCAAAATTTGTTAAGGAATTGTTTAAAAACAAAATTTTCT
185 TATCATCTACAAAAGTAGTTTTCAAAATTTGTTAAGGAATTATTTAAAAACAAAATTTTCT
1813453 TTTACGAAAATTCACAACTT-AGCACCTCATGGTAGAAAATGCCAATACATTTTTTTTCTTGAAA
1 TTTACGAAAATTCACAACTTGA-CACCTCATGGTAGAAAATGCCAATACATTTTTTTTCTTGAAA
* * * *
1813517 ATTTATGATTTTTAAGGGTATGTATTGGCATAAGAACTGTACTAGTGTTGGTAAAAATATACGAC
65 ATTTATGATTTTTAAGGGCATATATTGGCATAAGAACTGAACTAGTGTTCGTAAAAATATACGAC
1813582 GATCAATTTCTCGAG-T-T-TCTCAAAAAATTCCTAAAAATAGAAAAATT-G-GATATCATCTAC
130 GATCAATTTCTCGAGCTCTATCTCAAAAAATTCCTAAAAATAGAAAAATTCGTGATATCATCTAC
1813642 AAAAGTAGTTTTCAAAATTTGTTAAGGAATTATTTAAAAACAAAATTTTCT
195 AAAAGTAGTTTTCAAAATTTGTTAAGGAATTATTTAAAAACAAAATTTTCT
1813693 TTTACG
1 TTTACG
1813699 GATTCATTCT
Statistics
Matches: 235, Mismatches: 9, Indels: 19
0.89 0.03 0.07
Matches are distributed among these distances:
240 67 0.29
241 1 0.00
245 30 0.13
253 1 0.00
254 1 0.00
255 6 0.03
256 129 0.55
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (245 bp):
TTTACGAAAATTCACAACTTGACACCTCATGGTAGAAAATGCCAATACATTTTTTTTCTTGAAAA
TTTATGATTTTTAAGGGCATATATTGGCATAAGAACTGAACTAGTGTTCGTAAAAATATACGACG
ATCAATTTCTCGAGCTCTATCTCAAAAAATTCCTAAAAATAGAAAAATTCGTGATATCATCTACA
AAAGTAGTTTTCAAAATTTGTTAAGGAATTATTTAAAAACAAAATTTTCT
Found at i:1818476 original size:13 final size:12
Alignment explanation
Indices: 1818446--1818513 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
1818436 TTCAACTAAA
*
1818446 AAAAAAAAAGAG
1 AAAAAAAGAGAG
*
1818458 -AAAAAAGGGAG
1 AAAAAAAGAGAG
1818469 AAAGAAAAGAGAG
1 AAA-AAAAGAGAG
*
1818482 AAAAAAATAGAG
1 AAAAAAAGAGAG
* *
1818494 ACAAAGAG-GTAG
1 AAAAAAAGAG-AG
1818506 AAAAAAAG
1 AAAAAAAG
1818514 GCTAGCTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 10 0.23
12 23 0.52
13 11 0.25
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:1818493 original size:14 final size:13
Alignment explanation
Indices: 1818443--1818494 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
1818433 AGGTTCAACT
* *
1818443 AAAAAAAAAAAAG
1 AAAAAAAAGAGAG
* *
1818456 AGAAAAAAGGGAG
1 AAAAAAAAGAGAG
*
1818469 AAAGAAAAGAGAG
1 AAAAAAAAGAGAG
1818482 AAAAAAATAGAGA
1 AAAAAAA-AGAGA
1818495 CAAAGAGGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
13 25 0.83
14 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:1823442 original size:52 final size:52
Alignment explanation
Indices: 1823294--1823422 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1823284 CGAAATATGA
1823294 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1823346 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1823398 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1823423 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1823518 original size:13 final size:13
Alignment explanation
Indices: 1823500--1823583 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
1823490 AGCTTCGTAG
1823500 CGATACATTGTAT
1 CGATACATTGTAT
1823513 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
*
1823532 CGATACATTATAT
1 CGATACATTGTAT
1823545 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
1823564 CGATACATTGTAT
1 CGATACATTGTAT
1823577 CGATACA
1 CGATACA
1823584 AATCATTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 23 0.40
14 1 0.02
15 2 0.04
16 12 0.21
17 2 0.04
18 1 0.02
19 16 0.28
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1823532 original size:19 final size:19
Alignment explanation
Indices: 1823508--1823570 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1823498 AGCGATACAT
1823508 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1823527 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
1823542 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1823559 TGTATCGATACA
1 TGTATCGATACA
1823571 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 7 0.18
15 3 0.08
16 6 0.16
17 3 0.08
19 19 0.50
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1823546 original size:32 final size:32
Alignment explanation
Indices: 1823500--1823584 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
1823490 AGCTTCGTAG
1823500 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
1823532 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1823564 CGATACATTGTATCGATACAA
1 CGATACATTGTATCGATACAA
1823585 ATCATTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1823989 original size:97 final size:96
Alignment explanation
Indices: 1823815--1824103 Score: 400
Period size: 97 Copynumber: 3.0 Consensus size: 96
1823805 AGGTGTCTAC
* * *
1823815 ACACATCATAGTTTAAATCTTATTCTCATTTAAATTGTCATCATCAGGGACATTCCAACCCTATT
1 ACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAACCC-ATT
* *
1823880 CCTCCGAGGGGATACTCTAACCCCACTTTTAA
65 CCTCTGAGGGGATACTCCAACCCCACTTTTAA
* * *
1823912 ACACATTAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGATACTCTAACTCCATT
1 ACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAAC-CCATT
* *
1823977 CCTCTGAAGGGATACTCCAACCCTACTTTTAA
65 CCTCTGAGGGGATACTCCAACCCCACTTTTAA
* *
1824009 ACACATCAAAATTTAAATCTTATTCTCACTTAAATTGTCATCAT-TGGAGACACTCCAACCCCAT
1 ACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCAGG-GACACTCCAA-CCCAT
* * *
1824073 TCCTCTGAGGGGATATTCCAATCCCATTTTT
64 TCCTCTGAGGGGATACTCCAACCCCACTTTT
1824104 CAATTAAAAA
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
96 2 0.01
97 164 0.97
98 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (96 bp):
ACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCAGGGACACTCCAACCCATTC
CTCTGAGGGGATACTCCAACCCCACTTTTAA
Found at i:1835812 original size:20 final size:20
Alignment explanation
Indices: 1835789--1835865 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 20
1835779 AAGTACCCAG
*
1835789 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
1835809 ATGTATCGTTTCATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1835829 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1835849 ATGTATCAATACATTTT
1 ATGTATCGATACATTTT
1835866 GTCTTTTTAC
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1843837 original size:52 final size:52
Alignment explanation
Indices: 1843689--1843817 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1843679 TGAAATATGA
1843689 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1843741 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1843793 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1843818 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1843852 original size:21 final size:20
Alignment explanation
Indices: 1843805--1843858 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
1843795 ATTTGCCTGC
1843805 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
* *
1843825 GTGTATCGATACAATTGAGT-A
1 ATGTATCGATACAA-AGA-TCA
1843846 ATGTATCGATACA
1 ATGTATCGATACA
1843859 TTTTCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.45
21 15 0.52
22 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCA
Found at i:1843905 original size:19 final size:18
Alignment explanation
Indices: 1843881--1843978 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1843871 TAACTTACAT
1843881 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1843900 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
1843913 TGTATCGAGACAACACTTA
1 TGTATCGATACAA-ACTTA
1843932 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1843945 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1843965 TGTATCGATACAAA
1 TGTATCGATACAAA
1843979 TCGTTGAAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1843917 original size:32 final size:32
Alignment explanation
Indices: 1843876--1843976 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1843866 GGCAGTAACT
*
1843876 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1843908 TACATTGTATCGAGACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1843940 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1843973 TACA
1 TACA
1843977 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1843918 original size:13 final size:13
Alignment explanation
Indices: 1843900--1843956 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1843890 ACAAAACTTA
1843900 TGTATCGATACAT
1 TGTATCGATACAT
*
1843913 TGTATCGAGACAACACTT
1 TGTATC--GA-TACA--T
1843931 ATGTATCGATACAT
1 -TGTATCGATACAT
1843945 TGTATCGATACA
1 TGTATCGATACA
1843957 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 18 0.50
14 1 0.03
15 2 0.06
16 6 0.17
17 2 0.06
18 1 0.03
19 6 0.17
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1844737 original size:49 final size:49
Alignment explanation
Indices: 1844674--1845234 Score: 488
Period size: 49 Copynumber: 11.4 Consensus size: 49
1844664 ATATGCGGCT
* *
1844674 AGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
1844723 AACGACATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * ** ** *
1844772 AACAACATTGGACTTAAAGATGAAGATGAGAA-AAG-TGA-TAAAGATGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAG--GCC
* * *** * *
1844820 AATATGTTGATTCA-CGGCCAACGATATTGGGCTTGGAGGTGCCAATGTGCTGATTCAAGGCC
1 ---A-G-CGA--CATTGG---AC--T-TAAAG-ATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
1844882 AGCTACATTGGACTTAAAGATGGAAAAAGTGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCC
* * *
1844934 AGCGATATTGGGCTT----A-G-AGGTGCCAATGCGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
1844977 AGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
1845026 AGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
1845075 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
1845124 AGCTATATTGGACTT--A-A--AA-GTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * *
1845167 ATCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
*
1845216 AGCGATATTGGACTTAAAG
1 AGCGACATTGGACTTAAAG
1845235 GAAGATGCCA
Statistics
Matches: 409, Mismatches: 68, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
43 70 0.17
44 2 0.00
45 1 0.00
46 7 0.02
47 5 0.01
48 8 0.02
49 237 0.58
50 3 0.01
51 2 0.00
52 36 0.09
53 3 0.01
54 2 0.00
55 4 0.01
56 2 0.00
57 3 0.01
58 1 0.00
59 2 0.00
60 2 0.00
61 8 0.02
62 4 0.01
63 3 0.01
64 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
Found at i:1845159 original size:190 final size:192
Alignment explanation
Indices: 1844812--1845234 Score: 646
Period size: 190 Copynumber: 2.2 Consensus size: 192
1844802 AAAAGTGATA
* * * * *
1844812 AAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTT---G--G-AGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCT
*
1844871 GATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAAGTGCCAATATGCTGATTCAAGGCCAG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-GAAAAAGTGCCAATATGCTGATTCAAGGCCAG
* * *
1844936 CGATATTGGGCTTAGAGGTGCCAATGCGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
130 CGATATTGGACTTAAAAGTGCCAATGCGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1844999 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCT
*
1845064 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAAGA-TGCCAATATGCTGATTCAAGGCCAGC
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGTGCCAATATGCTGATTCAAGGCCAGC
* * *
1845127 TATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCATCTACATTGGACTTAAAGATG
131 GATATTGGACTTAAAAGTGCCAATGCGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1845189 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
1845235 GAAGATGCCA
Statistics
Matches: 214, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
187 36 0.17
190 127 0.59
191 4 0.02
192 1 0.00
193 46 0.21
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (192 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGTGCCAATATGCTGATTCAAGGCCAGC
GATATTGGACTTAAAAGTGCCAATGCGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:1845193 original size:92 final size:92
Alignment explanation
Indices: 1844812--1845233 Score: 601
Period size: 92 Copynumber: 4.5 Consensus size: 92
1844802 AAAAGTGATA
* * * * ** *
1844812 AAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTGGAGGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1844877 AGGCCAGCTACATTGGACTTAAAGATGG
66 AGGCCAGCTACATTGGACTTAAAGAT-G
* * * * *
1844905 AAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGAGGTGCCAATGCGCTGATT
1 -AAGA-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATT
1844970 CAAGGCCAGCTACATTGGACTTAAAGATG
64 CAAGGCCAGCTACATTGGACTTAAAGATG
* *
1844999 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-GTGCCAATGTGCT
* *
1845064 GATTCAAGGCCAGCGACATTGGACTTAAAGATA
60 GATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1845097 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
*
1845162 AGGCCATCTACATTGGACTTAAAGATG
66 AGGCCAGCTACATTGGACTTAAAGATG
1845189 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1845234 GGAAGATGCC
Statistics
Matches: 299, Mismatches: 22, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
92 123 0.41
93 4 0.01
94 5 0.02
95 83 0.28
96 1 0.00
97 1 0.00
98 82 0.27
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
AGGCCAGCTACATTGGACTTAAAGATG
Found at i:1845311 original size:32 final size:32
Alignment explanation
Indices: 1845240--1845490 Score: 357
Period size: 32 Copynumber: 7.8 Consensus size: 32
1845230 TAAAGGAAGA
*
1845240 TGCCACCAACTTGTGTGGGCTTTTGAAGAA-GGT
1 TGCCACCGACTTGTGTGGGC-TTTG-AGAAGGGT
*
1845273 TGCCACCGACTTGTGTGGGCTTTGGGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1845305 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAA-GGGT
*
1845338 TGCCACCAACTTGTGTGGGCTTT-AGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGA-AGGGT
*
1845370 TGCCACCGACTTGTGTGGGCTTT-AGAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTGAG-AAGGGT
*
1845402 TGCCACCGACTTGTGTGGGCTTTG-GAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
* *
1845433 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
1845466 TGCCACCGACTTGTGTGGGCTTTGA
1 TGCCACCGACTTGTGTGGGCTTTGA
1845491 AAAGAAAAAG
Statistics
Matches: 200, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
31 30 0.15
32 96 0.48
33 74 0.37
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
Found at i:1845339 original size:65 final size:63
Alignment explanation
Indices: 1845240--1845489 Score: 392
Period size: 65 Copynumber: 3.9 Consensus size: 63
1845230 TAAAGGAAGA
* *
1845240 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-AAGGTTGCCACCGACTTGTGTGGGCTTT-GGAAGGGT
** * *
1845305 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGA-AGGGT
*
1845370 TGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAGGGT
1845433 TGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1 TGCCACCGACTTGTGTGGGCTTTAG-AAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1845490 AAAAGAAAAA
Statistics
Matches: 171, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
63 29 0.17
64 64 0.37
65 75 0.44
66 3 0.02
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (63 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAGGGT
Found at i:1845559 original size:27 final size:27
Alignment explanation
Indices: 1845529--1845972 Score: 366
Period size: 27 Copynumber: 15.2 Consensus size: 27
1845519 CTTAGAAGGA
* * *
1845529 AAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1845556 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
1845583 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGACTT
*
1845617 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
1845644 AGAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 A-AAA-G-----G-GTGCCACGGAGTTGTGGACTT
1845679 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
1845706 AGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGACTT
*
1845740 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1845767 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
1845794 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGGGTGCCACGGAGTTGTGGACTT
*
1845828 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1845855 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*** * *
1845883 GGAGAAAAAATGCCACTGAGTCGTGGACTT
1 --A-AAAGGGTGCCACGGAGTTGTGGACTT
* *
1845913 AAAAGGGTGCCACGGAGTTTTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
1845940 AAACGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1845967 AGAAGG
1 AAAAGG
1845973 AAAAAGAGTG
Statistics
Matches: 340, Mismatches: 44, Indels: 66
0.76 0.10 0.15
Matches are distributed among these distances:
27 212 0.62
28 7 0.02
29 1 0.00
30 3 0.01
31 19 0.06
33 1 0.00
34 78 0.23
35 19 0.06
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1845571 original size:61 final size:61
Alignment explanation
Indices: 1845495--1845940 Score: 521
Period size: 61 Copynumber: 7.5 Consensus size: 61
1845485 CTTTGAAAAG
* *
1845495 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1845556 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
1845617 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1845679 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
1845740 AAAAGGGTGCCACAGAGTTGTGGACTT-------AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * * * *
1845794 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-------AAAAGGGTGCCACAGAGTTGTGGA
1 -------AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1845852 CTT
59 CTT
* * * * *
1845855 AAAAGGGTGCCACGGAGTTGTGGACTTTGGA-GAAAAA-A-TGCCACTGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
1845913 AAAAGGGTGCCACGGAGTTTTGGGCTTA
1 AAAAGGGTGCCACGGAGTTGTGGACTTA
1845941 AACGGGTGCC
Statistics
Matches: 350, Mismatches: 21, Indels: 31
0.87 0.05 0.08
Matches are distributed among these distances:
54 49 0.14
58 43 0.12
60 4 0.01
61 195 0.56
62 59 0.17
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1845768 original size:88 final size:88
Alignment explanation
Indices: 1845652--1846005 Score: 545
Period size: 88 Copynumber: 4.0 Consensus size: 88
1845642 TTAGAAAGGA
* *
1845652 AAAAGAGTGCCAC-GAAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 AAAAGGGTGCCACAG-AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
*
1845716 AGAGTGCCACGAAGTTGTGGGCTT
65 AGAGTGCCACGGAGTTGTGGGCTT
1845740 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1845805 GAGTGCCACGGAGTTGTGGGCTT
66 GAGTGCCACGGAGTTGTGGGCTT
* *
1845828 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGGA-GAAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
* * *
1845892 -A-TGCCACTGAGTCGTGGACTT
66 GAGTGCCACGGAGTTGTGGGCTT
* * * * *
1845913 AAAAGGGTGCCACGGAGTTTTGGGCTTAAACGGGTGCCACGGAGTTATGGACTTAGAAGGAAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1845978 GAGTGCCACGGAGTTGTGGGCTTT
66 GAGTGCCACGGAGTTGTGGGC-TT
1846002 AAAA
1 AAAA
1846006 AGAAAAAGGT
Statistics
Matches: 243, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
85 68 0.28
86 7 0.03
87 7 0.03
88 154 0.63
89 7 0.03
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (88 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
GAGTGCCACGGAGTTGTGGGCTT
Found at i:1846058 original size:32 final size:31
Alignment explanation
Indices: 1846006--1846165 Score: 207
Period size: 32 Copynumber: 5.1 Consensus size: 31
1845996 GGCTTTAAAA
* *
1846006 AGAAAAAGGTGCCACAGAGTCGTGGACTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTG
*
1846037 AGACAAAAGATGGCACTGAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
1846069 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
1846101 AGACAAA-ATGCCACTGAGTCGTGGGCTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
1846131 A-AAAGAGATTGCCACTGAGTCGTGGACTTTA
1 AGAAAAAGA-TGCCACTGAGTCGTGGACTTTG
1846162 AGAA
1 AGAA
1846166 GGTATTTGAA
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
29 3 0.03
30 24 0.21
31 29 0.26
32 53 0.47
33 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:1847470 original size:25 final size:25
Alignment explanation
Indices: 1847432--1847510 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
1847422 TTGATTTGCC
*
1847432 TTTGCACTTTTTTTGTGTGTTTT-TTT
1 TTTG-ACTTGTTTTGT-TGTTTTCTTT
* *
1847458 TTTGTCTTGTTTTGTTTTTTTCTTT
1 TTTGACTTGTTTTGTTGTTTTCTTT
* *
1847483 TTTGACTTTTGTTTGTCTGTTTACTTT
1 TTTGACTTGT-TTTGT-TGTTTTCTTT
1847510 T
1 T
1847511 GACTTTTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 5 0.12
25 20 0.47
26 9 0.21
27 9 0.21
ACGTcount: A:0.04, C:0.09, G:0.14, T:0.73
Consensus pattern (25 bp):
TTTGACTTGTTTTGTTGTTTTCTTT
Found at i:1847481 original size:16 final size:16
Alignment explanation
Indices: 1847439--1847486 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
1847429 GCCTTTGCAC
*
1847439 TTTTTTTGTGTGTTTT-
1 TTTTTTTCT-TGTTTTG
1847455 TTTTTTGTCTTGTTTTG
1 TTTTTT-TCTTGTTTTG
1847472 TTTTTTTCTT-TTTTG
1 TTTTTTTCTTGTTTTG
1847487 ACTTTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.17
16 16 0.55
17 8 0.28
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTGTTTTG
Found at i:1852209 original size:13 final size:13
Alignment explanation
Indices: 1852191--1852216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1852181 TACACAAAGT
1852191 ATGTATCGATACA
1 ATGTATCGATACA
1852204 ATGTATCGATACA
1 ATGTATCGATACA
1852217 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1852214 original size:32 final size:33
Alignment explanation
Indices: 1852173--1852236 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1852163 TAGCCAAACT
*
1852173 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
1852205 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1852237 TGGGCTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1854455 original size:22 final size:21
Alignment explanation
Indices: 1854428--1854479 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1854418 TTGCAAGTTG
1854428 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
1854450 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
1854471 AAATAAAAA
1 AAATAAAAA
1854480 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:1860253 original size:19 final size:21
Alignment explanation
Indices: 1860220--1860259 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1860210 TATCTGTGTG
*
1860220 AATTACTTT-ATTAAAGGGGA
1 AATTACTTTAATAAAAGGGGA
1860240 AATTA-TTTAATAAAAGGGGA
1 AATTACTTTAATAAAAGGGGA
1860260 GAATGCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.33
Consensus pattern (21 bp):
AATTACTTTAATAAAAGGGGA
Found at i:1860949 original size:19 final size:19
Alignment explanation
Indices: 1860925--1860983 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
1860915 CAAACTTGTG
1860925 TCGATACACAAAGTATGTA
1 TCGATACACAAAGTATGTA
*
1860944 TCGAT--AC--A--ATGTG
1 TCGATACACAAAGTATGTA
1860957 TCGATACACAAAGTATGTA
1 TCGATACACAAAGTATGTA
1860976 TCGATACA
1 TCGATACA
1860984 ATGTATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.28
15 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (19 bp):
TCGATACACAAAGTATGTA
Found at i:1860960 original size:13 final size:13
Alignment explanation
Indices: 1860939--1860996 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1860929 TACACAAAGT
1860939 ATGTATCGATACA
1 ATGTATCGATACA
*
1860952 ATGTGTCGATACACAAA
1 ATGTATCGAT--AC--A
1860969 GTATGTATCGATACA
1 --ATGTATCGATACA
1860984 ATGTATCGATACA
1 ATGTATCGATACA
1860997 CCAAAAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 22 0.59
15 3 0.08
17 3 0.08
19 9 0.24
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1860962 original size:32 final size:32
Alignment explanation
Indices: 1860921--1861016 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
1860911 TAGCCAAACT
1860921 TGTGTCGATACACAAAGTATGTATCGATACAA
1 TGTGTCGATACACAAAGTATGTATCGATACAA
1860953 TGTGTCGATACACAAAGTATGTATCGATACAA
1 TGTGTCGATACACAAAGTATGTATCGATACAA
* *
1860985 TGTATCGATACACCAAA-AATTGTATCGATACA
1 TGTGTCGATACA-CAAAGTA-TGTATCGATACA
1861017 TGGGCTTGCA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 44 0.73
33 16 0.27
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (32 bp):
TGTGTCGATACACAAAGTATGTATCGATACAA
Found at i:1860989 original size:17 final size:17
Alignment explanation
Indices: 1860932--1860989 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
1860922 GTGTCGATAC
1860932 ACAAAGTATGTATCGAT
1 ACAAAGTATGTATCGAT
*
1860949 AC--A--ATGTGTCGAT
1 ACAAAGTATGTATCGAT
1860962 ACACAAAGTATGTATCGAT
1 --ACAAAGTATGTATCGAT
*
1860981 ACAATGTAT
1 ACAAAGTAT
1860990 CGATACACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
13 9 0.28
15 3 0.09
17 11 0.34
19 9 0.28
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (17 bp):
ACAAAGTATGTATCGAT
Found at i:1864507 original size:52 final size:52
Alignment explanation
Indices: 1864359--1864487 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1864349 CGAAATATGA
1864359 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
1864411 AAATTTGCCTACACGTATCGATACATTTTATAGCGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1864463 AAATTTGCCTGCATATATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1864488 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1864514 original size:13 final size:13
Alignment explanation
Indices: 1864496--1864520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1864486 CAAAGATCAG
1864496 TGTATCGATACAA
1 TGTATCGATACAA
1864509 TGTATCGATACA
1 TGTATCGATACA
1864521 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1864600 original size:32 final size:32
Alignment explanation
Indices: 1864559--1864626 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
1864549 GGCAGTAGCT
1864559 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
1864591 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
1864623 TACA
1 TACA
1864627 ACAGTTTATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:1864601 original size:13 final size:13
Alignment explanation
Indices: 1864583--1864607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1864573 ACAAAACTTA
1864583 TGTATCGATACAT
1 TGTATCGATACAT
1864596 TGTATCGATACA
1 TGTATCGATACA
1864608 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1864637 original size:20 final size:19
Alignment explanation
Indices: 1864564--1864647 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
1864554 TAGCTTACAT
*
1864564 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1864583 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1864596 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1864615 TGTATCGATACAACAGTTTA
1 TGTATCGATACAACA-CTTA
1864635 TGTATCGATACAA
1 TGTATCGATACAA
1864648 ATCATTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.43
20 16 0.29
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1874058 original size:1 final size:1
Alignment explanation
Indices: 1874052--1874135 Score: 51
Period size: 1 Copynumber: 84.0 Consensus size: 1
1874042 CCTTCATACC
* * ** * * * * *
1874052 AAAAAAAAACAAAAAAAAAAGAAAAAACCAAAAAAAATAACAAAAAAATAACAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
1874117 GGAAAAAATAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
1874136 CAGAAAGGGG
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:1874068 original size:11 final size:11
Alignment explanation
Indices: 1874052--1874137 Score: 72
Period size: 11 Copynumber: 8.0 Consensus size: 11
1874042 CCTTCATACC
1874052 AAAAAAAAAC-
1 AAAAAAAAACA
1874062 -AAAAAAAA-A
1 AAAAAAAAACA
* *
1874071 AGAAAAAACCA
1 AAAAAAAAACA
1874082 AAAAAAATAACA
1 AAAAAAA-AACA
*
1874094 AAAAAATAAC-
1 AAAAAAAAACA
1874104 AAAAAAAAACA
1 AAAAAAAAACA
* *
1874115 AAGGAAAAAATA
1 AA-AAAAAAACA
*
1874127 ACAAAAAAACA
1 AAAAAAAAACA
1874138 GAAAGGGGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
9 8 0.14
10 15 0.25
11 19 0.32
12 17 0.29
ACGTcount: A:0.84, C:0.09, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1875394 original size:28 final size:28
Alignment explanation
Indices: 1875354--1876001 Score: 689
Period size: 28 Copynumber: 22.5 Consensus size: 28
1875344 CATTCATCTC
*
1875354 TTCAAAGCACACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
1875382 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1875410 TTCAAAGCCTACAAGTCAGTAGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
* *
1875438 TTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
** *
1875466 TTCAAAGCCCACGAA-TTGGTGGCACCCT
1 TTCAAAGCCCAC-AAGTCAGTGGCACTCT
* *
1875494 TTCAAAGCCCACAAGTCAATGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
* * *
1875523 TTCAAAGCCCACGAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-TCT
1875553 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
* *
1875581 TTCAAAGCCCACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
1875609 TTCAAAGCCCACACGAGTC-GATGGCAACTCCT
1 TTCAAAGCCCACA--AGTCAG-TGGC-ACT-CT
* *
1875641 TTTAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1875669 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
1875697 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
1875725 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTC-T
*
1875757 TTCAAAGCCCACAAAGTCTGTGGCA-TCCT
1 TTCAAAGCCCAC-AAGTCAGTGGCACT-CT
1875786 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
* * *
1875814 TTCGAATCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1875842 TTCAAAGCCAATAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
*
1875871 TTCAAAGCCCACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACTC-T
* *
1875901 TTTAAAGCCCGCAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACT-CT
* *
1875929 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1875957 TTCAAAGCCCACACGAGTCGGTGGTAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-TCT
1875989 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1876002 CAAGTTAGTG
Statistics
Matches: 526, Mismatches: 63, Indels: 58
0.81 0.10 0.09
Matches are distributed among these distances:
27 5 0.01
28 314 0.60
29 68 0.13
30 79 0.15
31 18 0.03
32 41 0.08
33 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:1876013 original size:32 final size:32
Alignment explanation
Indices: 1875928--1876022 Score: 99
Period size: 32 Copynumber: 3.1 Consensus size: 32
1875918 AGTGGCATCC
* **
1875928 TTTCAAAG-CC-CACAAGTTAGTGG-CAC-CC
1 TTTCAAAGCCCACACAAGTTAGTGGTAACTTT
* **
1875956 TTTCAAAGCCCACACGAGTCGGTGGTAACTTT
1 TTTCAAAGCCCACACAAGTTAGTGGTAACTTT
*
1875988 TTTCAAAGCCCACACAAGTTAGTGGTAGCTTT
1 TTTCAAAGCCCACACAAGTTAGTGGTAACTTT
1876020 TTT
1 TTT
1876023 AAAAAAAAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 8 0.15
29 2 0.04
30 10 0.19
31 2 0.04
32 31 0.58
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTTAGTGGTAACTTT
Found at i:1876937 original size:20 final size:20
Alignment explanation
Indices: 1876914--1876990 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
1876904 AAGTACCCAG
* *
1876914 ATGTATCAATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
1876934 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1876954 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1876974 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
1876991 GTCTTTTTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1880722 original size:13 final size:12
Alignment explanation
Indices: 1880702--1880742 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
1880692 CGTCATTCTT
1880702 AAAAAAACAAAA
1 AAAAAAACAAAA
1880714 AACAAAAACAAAGA
1 AA-AAAAACAAA-A
*
1880728 AAAAACACAAAA
1 AAAAAAACAAAA
1880740 AAA
1 AAA
1880743 TGAGGGGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 17 0.65
14 3 0.12
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1881352 original size:30 final size:31
Alignment explanation
Indices: 1881316--1881374 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
1881306 CTTACAACAC
1881316 TATC-TTTCA-AGGCTAAGATAGAAACCTCCG
1 TATCTTTTCACAGGCTAAGATAG-AACCTCCG
1881346 TATCTTTTCACAGGCTAAGATAGAACCTC
1 TATCTTTTCACAGGCTAAGATAGAACCTC
1881375 TCTCCCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 4 0.15
31 11 0.41
32 12 0.44
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (31 bp):
TATCTTTTCACAGGCTAAGATAGAACCTCCG
Found at i:1882033 original size:33 final size:32
Alignment explanation
Indices: 1881970--1882034 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1881960 CAATTCGTGA
*
1881970 TGTATCGATATAATGAACATGTATCGATACAT
1 TGTATCGATATAATGAACATGTATCAATACAT
*
1882002 TGTATCGATACTAA-GCAATATGTATCAATACAT
1 TGTATCGATA-TAATG-AACATGTATCAATACAT
1882035 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATATAATGAACATGTATCAATACAT
Found at i:1883243 original size:25 final size:26
Alignment explanation
Indices: 1883182--1883243 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
1883172 CAAGAAATAG
*
1883182 TTGTCAAGAATTTATCATCAAGAACT
1 TTGTCAAGAATGTATCATCAAGAACT
* *
1883208 TTAGTCGAGAATGT-TCAT-TAGAAACT
1 TT-GTCAAGAATGTATCATCAAG-AACT
1883234 TTGTCAAGAA
1 TTGTCAAGAA
1883244 ATTTTCGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 9 0.30
26 12 0.40
27 9 0.30
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (26 bp):
TTGTCAAGAATGTATCATCAAGAACT
Found at i:1883299 original size:28 final size:28
Alignment explanation
Indices: 1883267--1883757 Score: 555
Period size: 28 Copynumber: 17.4 Consensus size: 28
1883257 GACCCTTTTA
*
1883267 CAAAGCCCAGAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* *
1883295 CAAAGGCCACAAGGCAGTGGCA-CCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCC-TTT
*
1883323 TAAAGCCCACAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
1883351 CAAAAGCCCATAAGTCAGTGGCATCCTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
1883380 CAAAGCCCAC-AGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* *
1883407 CAAAATCCCACAAGTCAATGGCATCCTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
*
1883436 CAAAAGCCCACAAGTCCGTGGCATCCTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
* ** *
1883465 CAAAGTCCGTAAATCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
1883493 CAAAGCCCACAAGTCAGAGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
1883521 CAAAATCCCACAAGTCAGTGGCATCCTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
* * *
1883550 CAAAAGCCCACAAGTCAATAGCAT-TTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
*
1883578 CAAAGCCCACAAATCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
1883606 CAAAGCCCACAAGTAAGTGGCA-CCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* *
1883633 CAAAGCCCATAAATCAGTGGCAT-CTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* * *
1883660 CAAAAGACAACAAGTTAGTGGCA-CCTTT
1 C-AAAGCCCACAAGTCAGTGGCATCCTTT
* * * *
1883688 CAAAAGCCAATAAGTCAATGGCA-CTTTTT
1 C-AAAGCCCACAAGTCAGTGGCATC-CTTT
* * *
1883717 CAAAGCCCACAAGTTAGTGGCAAACTTTTT
1 CAAAGCCCACAAGTCAGTGGC-ATC-CTTT
1883747 CAAAGCCCACA
1 CAAAGCCCACA
1883758 CAAGTTGGTG
Statistics
Matches: 397, Mismatches: 53, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
27 68 0.17
28 189 0.48
29 123 0.31
30 17 0.04
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCATCCTTT
Found at i:1883417 original size:85 final size:85
Alignment explanation
Indices: 1883268--1883757 Score: 582
Period size: 85 Copynumber: 5.8 Consensus size: 85
1883258 ACCCTTTTAC
* * * *
1883268 AAAGCCCAGAAGTCAGTGGCATCCTTTCAAAGGCCACAAGGCAGTGGCA-CCTTTTTAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCA
1883332 CAAGTCAGTGGCATCCTTTCA
65 CAAGTCAGTGGCATCCTTTCA
* *
1883353 AAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCAC-AGTCAGTGGCATCCTTTCAAAATCCCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCA
*
1883417 CAAGTCAATGGCATCCTTTCA
65 CAAGTCAGTGGCATCCTTTCA
* * ** *
1883438 AAAGCCCACAAGTCCGTGGCATCCTTTCAAAGTCCGTAAATCAGTGGCATCCTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
*
1883503 AAGTCAGAGGCATCCTTTCA
66 AAGTCAGTGGCATCCTTTCA
* * * *
1883523 AAATCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAATAGCAT-TTTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
*
1883587 CAAATCAGTGGCATCCTTTC-
65 CAAGTCAGTGGCATCCTTTCA
* * * * *
1883607 AAAGCCCACAAGTAAGTGGCA-CCTTTCAAAGCCCATAAATCAGTGGCAT-CTTTCAAAAGACAA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCA
*
1883670 CAAGTTAGTGGCA-CCTTTCA
65 CAAGTCAGTGGCATCCTTTCA
* * * * * * *
1883690 AAAGCCAATAAGTCAATGGCA-CTTTTTCAAAGCCCACAAGTTAGTGGCAAACTTTTTCAAAGCC
1 AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGC-ATC-CTTTCAAAGCC
1883754 CACA
63 CACA
1883758 CAAGTTGGTG
Statistics
Matches: 346, Mismatches: 49, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
82 28 0.08
83 41 0.12
84 53 0.15
85 179 0.52
86 41 0.12
87 4 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
AAGTCAGTGGCATCCTTTCA
Found at i:1885324 original size:24 final size:24
Alignment explanation
Indices: 1885250--1885326 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 24
1885240 AGGTTCAACT
* *
1885250 AAAAATAGAAGAAAAAGA-GT-GA
1 AAAAATAGAAAAAAAAAAGGTAGA
** * *
1885272 AAAAAGGGAGAAAGAAAAGAG-AGA
1 AAAAATAGAAAAAAAAAAG-GTAGA
*
1885296 CAAAATAGAAAAAAAAAAGGTAGA
1 AAAAATAGAAAAAAAAAAGGTAGA
1885320 AAAAATA
1 AAAAATA
1885327 AGGCTAGCTT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 12 0.31
23 1 0.03
24 26 0.67
ACGTcount: A:0.70, C:0.01, G:0.22, T:0.06
Consensus pattern (24 bp):
AAAAATAGAAAAAAAAAAGGTAGA
Found at i:1887147 original size:97 final size:97
Alignment explanation
Indices: 1886981--1887286 Score: 470
Period size: 97 Copynumber: 3.2 Consensus size: 97
1886971 TTTATTTATC
* * * *
1886981 GGGGATACTCCAACCCCGTTTTTAAACATATCAAAATTTAAATCTTATTCTCAGTTAAGTTGTCA
1 GGGGATACTCCAACCCCGTTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
* * **
1887046 TCATCGGGGATACTCCAATCCCATTCCTTTGA
66 TCATCGGGGACACTCCAACCCCATTCCTCCGA
* * *
1887078 GGGGATACTCTAACCCCGTTTTTAAACACATCAAAGTTTAAATCTTATTCTCATTTAAATTATCA
1 GGGGATACTCCAACCCCGTTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
* *
1887143 TCATCGGGGACACCCCAACCCCATCCCTCCGA
66 TCATCGGGGACACTCCAACCCCATTCCTCCGA
*
1887175 GGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
1 GGGGATACTCCAACCCCGTTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
1887240 TCATCGGGGACACTCTC-ACCCCATTCCTCCGA
66 TCATCGGGGACACTC-CAACCCCATTCCTCCGA
1887272 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1887287 TTGTTTTTCA
Statistics
Matches: 190, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
97 189 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (97 bp):
GGGGATACTCCAACCCCGTTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
TCATCGGGGACACTCCAACCCCATTCCTCCGA
Found at i:1890936 original size:34 final size:33
Alignment explanation
Indices: 1890832--1890993 Score: 181
Period size: 31 Copynumber: 4.9 Consensus size: 33
1890822 CCTTGCAACA
*
1890832 CTATCTTTTGA-AGGCTAAGATAGAA-C-CTTC
1 CTATCTTTTCACAGGCTAAGATAGAACCTCTTC
*
1890862 CTATCTTTTCACAGGCTATGATAGAACCTC-T-
1 CTATCTTTTCACAGGCTAAGATAGAACCTCTTC
*
1890893 CTATCTTTTCACAGGCTAAAATAGAACCTCTTCC
1 CTATCTTTTCACAGGCTAAGATAGAACCTCTT-C
* * *
1890927 CTATCTTTTCACAAGCTAAGATAGAGCCTTTCTCC
1 CTATCTTTTCACAGGCTAAGATAGAACC--TCTTC
* *
1890962 CTATCTTTTTCAAAGGCTAAGATAGAGCCTCT
1 CTATC-TTTTCACAGGCTAAGATAGAACCTCT
1890994 CAATCATTTC
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
30 10 0.09
31 41 0.36
32 3 0.03
33 1 0.01
34 28 0.25
35 6 0.05
36 24 0.21
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (33 bp):
CTATCTTTTCACAGGCTAAGATAGAACCTCTTC
Found at i:1890950 original size:65 final size:65
Alignment explanation
Indices: 1890832--1890993 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 65
1890822 CCTTGCAACA
* * *
1890832 CTATCTTTTGAAGGCTAAGATAGAA-C-CTTCCTATCTTTTCACAGGCTATGATAGAACC-TCT-
1 CTATCTTTTCAAGGCTAAGATAGAACCTCTTCCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
* *
1890893 CTATCTTTTCACAGGCTAAAATAGAACCTCTTCCCTATCTTTTCACAAGCTAAGATAGAGCCTTT
1 CTATCTTTTCA-AGGCTAAGATAGAACCTCTT-CCTATCTTTTCACAAGCTAAGATAGAACC-TT
1890958 CTCC
63 CT-C
*
1890962 CTATCTTTTTCAAAGGCTAAGATAGAGCCTCT
1 CTATC-TTTTC-AAGGCTAAGATAGAACCTCT
1890994 CAATCATTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
61 10 0.12
62 13 0.15
63 1 0.01
64 3 0.04
65 26 0.31
67 3 0.04
69 5 0.06
70 22 0.26
71 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (65 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTTCCTATCTTTTCACAAGCTAAGATAGAACCTTCTC
Found at i:1900006 original size:222 final size:222
Alignment explanation
Indices: 1899620--1900066 Score: 894
Period size: 222 Copynumber: 2.0 Consensus size: 222
1899610 TCTAGAAAAC
1899620 CTAGATGTATCGATACTGAGTTCTTTTTATCGATGCATAGGTACTATTTGGGGTTGTTCGTACGA
1 CTAGATGTATCGATACTGAGTTCTTTTTATCGATGCATAGGTACTATTTGGGGTTGTTCGTACGA
1899685 TACTCTCTTCATTTTCATCGATACTTTCGCCAAAATTCTCTCAAATCCCTATTTTTCAATCCTCA
66 TACTCTCTTCATTTTCATCGATACTTTCGCCAAAATTCTCTCAAATCCCTATTTTTCAATCCTCA
1899750 AAATTCCTTAATCAAAGCCTAATTTTATCAAATTCATACCAAATTCTTTCTTTTTCTACCAAAAT
131 AAATTCCTTAATCAAAGCCTAATTTTATCAAATTCATACCAAATTCTTTCTTTTTCTACCAAAAT
1899815 CATCAACAAAAGCTTATTTTATTTCAT
196 CATCAACAAAAGCTTATTTTATTTCAT
1899842 CTAGATGTATCGATACTGAGTTCTTTTTATCGATGCATAGGTACTATTTGGGGTTGTTCGTACGA
1 CTAGATGTATCGATACTGAGTTCTTTTTATCGATGCATAGGTACTATTTGGGGTTGTTCGTACGA
1899907 TACTCTCTTCATTTTCATCGATACTTTCGCCAAAATTCTCTCAAATCCCTATTTTTCAATCCTCA
66 TACTCTCTTCATTTTCATCGATACTTTCGCCAAAATTCTCTCAAATCCCTATTTTTCAATCCTCA
1899972 AAATTCCTTAATCAAAGCCTAATTTTATCAAATTCATACCAAATTCTTTCTTTTTCTACCAAAAT
131 AAATTCCTTAATCAAAGCCTAATTTTATCAAATTCATACCAAATTCTTTCTTTTTCTACCAAAAT
1900037 CATCAACAAAAGCTTATTTTATTTCAT
196 CATCAACAAAAGCTTATTTTATTTCAT
1900064 CTA
1 CTA
1900067 ATTTGTCTTT
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 225 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (222 bp):
CTAGATGTATCGATACTGAGTTCTTTTTATCGATGCATAGGTACTATTTGGGGTTGTTCGTACGA
TACTCTCTTCATTTTCATCGATACTTTCGCCAAAATTCTCTCAAATCCCTATTTTTCAATCCTCA
AAATTCCTTAATCAAAGCCTAATTTTATCAAATTCATACCAAATTCTTTCTTTTTCTACCAAAAT
CATCAACAAAAGCTTATTTTATTTCAT
Found at i:1902515 original size:13 final size:13
Alignment explanation
Indices: 1902497--1902521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1902487 ATATTGCTTA
1902497 GTATCGATACATT
1 GTATCGATACATT
1902510 GTATCGATACAT
1 GTATCGATACAT
1902522 GTTCATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1911546 original size:16 final size:16
Alignment explanation
Indices: 1911515--1911544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1911505 AGTTAAAATT
1911515 ATTTCTTTCTATTTTA
1 ATTTCTTTCTATTTTA
1911531 ATTTCTTT-TATTTT
1 ATTTCTTTCTATTTT
1911545 TATAGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTCTTTCTATTTTA
Found at i:1913472 original size:17 final size:16
Alignment explanation
Indices: 1913425--1913478 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 16
1913415 AAGATTTTTA
1913425 TTTTATTTTTTAA-ATT
1 TTTTATTTTTTAATA-T
1913441 TTTTATATTTCTTAATCAT
1 TTTTAT-TTT-TTAAT-AT
1913460 TTTTATTTTTTAATTAT
1 TTTTATTTTTTAA-TAT
1913477 TT
1 TT
1913479 AATATCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.18
17 11 0.33
18 8 0.24
19 7 0.21
20 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTTAATAT
Found at i:1919741 original size:57 final size:58
Alignment explanation
Indices: 1919645--1919760 Score: 207
Period size: 57 Copynumber: 2.0 Consensus size: 58
1919635 TTTAAGAGTT
*
1919645 TATATACAAATGAGTAGAGAAGAAAGTGTGTGAGAGAGAGAAGGAAAGAGATCGATGGA
1 TATATACAAATGAATAGAGAAGAAAG-GTGTGAGAGAGAGAAGGAAAGAGATCGATGGA
1919704 TATATACAAATGAATAGAGAAGAAA-GTGTGAGAGAGAGAAGGAAAGAGATCGATGGA
1 TATATACAAATGAATAGAGAAGAAAGGTGTGAGAGAGAGAAGGAAAGAGATCGATGGA
1919761 AACCACATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 32 0.57
59 24 0.43
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.16
Consensus pattern (58 bp):
TATATACAAATGAATAGAGAAGAAAGGTGTGAGAGAGAGAAGGAAAGAGATCGATGGA
Found at i:1922487 original size:128 final size:128
Alignment explanation
Indices: 1922259--1922511 Score: 416
Period size: 128 Copynumber: 2.0 Consensus size: 128
1922249 TTCTTGAAAT
* * * *
1922259 GATCAAGTAAATAAAGGGGAATGTTATTAAAGTCATGAGCAAGAAATAAGTGGCTCAACTTGAAA
1 GATCAAGTAAATAAAGAGGAATCTCATTAAAGTCATGAACAAGAAATAAGTGGCTCAACTTGAAA
* * *
1922324 GGATTACAAAACCCAAAGAAAACGTTTGCTTTGGCCAACAAGGTTGTCAGTTAGTTTAGGCAA
66 GGATTACAAAACCCAAAGAAAAAGTTTGCTTTGGCCAACAAGGTTATCAATTAGTTTAGGCAA
* *
1922387 GATCAAGTAACTAAAGAGGAATCTCATTAAGGTCATGAACAAGAAATAAGTGGCTCAACTTGAAA
1 GATCAAGTAAATAAAGAGGAATCTCATTAAAGTCATGAACAAGAAATAAGTGGCTCAACTTGAAA
*
1922452 GGATTACAAAACCCAGAGAAAAAGTTTGCTTTGGCCAACAAGGTTATCAATTAGTTTAGG
66 GGATTACAAAACCCAAAGAAAAAGTTTGCTTTGGCCAACAAGGTTATCAATTAGTTTAGG
1922512 AAAGTTAGAC
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (128 bp):
GATCAAGTAAATAAAGAGGAATCTCATTAAAGTCATGAACAAGAAATAAGTGGCTCAACTTGAAA
GGATTACAAAACCCAAAGAAAAAGTTTGCTTTGGCCAACAAGGTTATCAATTAGTTTAGGCAA
Found at i:1926455 original size:38 final size:38
Alignment explanation
Indices: 1926404--1926479 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1926394 TAAGGATCAA
1926404 GTCAAAATCCCTTAATATAAGGGATTCAAATTAGATAG
1 GTCAAAATCCCTTAATATAAGGGATTCAAATTAGATAG
* *
1926442 GTCAAAATCCCTTAATCTAAGGGATTTAAATTAGATAG
1 GTCAAAATCCCTTAATATAAGGGATTCAAATTAGATAG
1926480 TTACCACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (38 bp):
GTCAAAATCCCTTAATATAAGGGATTCAAATTAGATAG
Found at i:1927675 original size:24 final size:25
Alignment explanation
Indices: 1927629--1927677 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
1927619 ATTCTTGGAA
1927629 TAAGGAATTTGAAATAGGAATATTT
1 TAAGGAATTTGAAATAGGAATATTT
* *
1927654 TAAGGGATTTG-ATTAGGAATATTT
1 TAAGGAATTTGAAATAGGAATATTT
1927678 AGTTTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (25 bp):
TAAGGAATTTGAAATAGGAATATTT
Found at i:1936380 original size:58 final size:59
Alignment explanation
Indices: 1936311--1936427 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 59
1936301 AAGTTGATAC
* * **
1936311 AAATTATTAACTTTAAAATATAGCATTTTACCTCAAAAAAGGG-GGAAAAATAGGAACA
1 AAATTAATAACTTTAAAATATAGCATTCTACCTCAAAAAAGGGAAAAAAAATAGGAACA
1936369 AAATTAATAACTTTAAAATATAGCATTCTACCTCAAAAAAGGGAAAAAAAATAGGAACA
1 AAATTAATAACTTTAAAATATAGCATTCTACCTCAAAAAAGGGAAAAAAAATAGGAACA
1936428 TTCTCCCAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 41 0.76
59 13 0.24
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.24
Consensus pattern (59 bp):
AAATTAATAACTTTAAAATATAGCATTCTACCTCAAAAAAGGGAAAAAAAATAGGAACA
Found at i:1941588 original size:14 final size:14
Alignment explanation
Indices: 1941551--1941594 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1941541 AAAAAAAGGG
*
1941551 TAAAAA-TCAACTG
1 TAAAAAGTCAACTA
1941564 TAAGCAAAGTCAACTA
1 TAA--AAAGTCAACTA
1941580 TAAAAAGTCAACTA
1 TAAAAAGTCAACTA
1941594 T
1 T
1941595 TTATCCTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 3 0.11
16 9 0.33
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (14 bp):
TAAAAAGTCAACTA
Found at i:1946639 original size:2 final size:2
Alignment explanation
Indices: 1946632--1946659 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1946622 TTATCATCAA
1946632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1946660 TACCTACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1946859 original size:20 final size:20
Alignment explanation
Indices: 1946834--1946876 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1946824 GGCAAAAAGA
*
1946834 TGGGCATTCTTAACACAGTT
1 TGGGCATCCTTAACACAGTT
1946854 TGGGCATCCTTAACACAGTT
1 TGGGCATCCTTAACACAGTT
1946874 TGG
1 TGG
1946877 ATAGAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (20 bp):
TGGGCATCCTTAACACAGTT
Found at i:1950184 original size:10 final size:10
Alignment explanation
Indices: 1950165--1950220 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
1950155 TATATTTAAC
1950165 TCTTT-TTTT
1 TCTTTCTTTT
1950174 TGCTTTC-TTT
1 T-CTTTCTTTT
*
1950184 TCTTTATTTT
1 TCTTTCTTTT
*
1950194 TTTCTTCTTTT
1 TCT-TTCTTTT
1950205 TCTTTCTTTT
1 TCTTTCTTTT
1950215 CTCTTT
1 -TCTTT
1950221 TCCTTCTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 13 0.34
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:1950195 original size:21 final size:21
Alignment explanation
Indices: 1950169--1950214 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1950159 TTTAACTCTT
1950169 TTTTTTGCTT-TCTTTTCTTTA
1 TTTTTTGCTTCT-TTTTCTTTA
* *
1950190 TTTTTTTCTTCTTTTTCTTTC
1 TTTTTTGCTTCTTTTTCTTTA
1950211 TTTT
1 TTTT
1950215 CTCTTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTGCTTCTTTTTCTTTA
Found at i:1950221 original size:17 final size:17
Alignment explanation
Indices: 1950164--1950257 Score: 81
Period size: 16 Copynumber: 5.6 Consensus size: 17
1950154 TTATATTTAA
1950164 CTCTTTTT-TTTGC-TTT
1 CTCTTTTTCTTT-CTTTT
* *
1950180 CTTTTCTTTATTT-TTTT
1 CTCTT-TTTCTTTCTTTT
1950197 CTTCTTTTTCTTTCTTTT
1 C-TCTTTTTCTTTCTTTT
*
1950215 CTC-TTTTCCTTCTCTTT
1 CTCTTTTTCTTTCT-TTT
*
1950232 CTCTTTTTC-TTATTTT
1 CTCTTTTTCTTTCTTTT
1950248 CTCTTTTTCT
1 CTCTTTTTCT
1950258 CTTTCTCCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
16 25 0.38
17 24 0.37
18 16 0.25
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.74
Consensus pattern (17 bp):
CTCTTTTTCTTTCTTTT
Found at i:1950249 original size:22 final size:21
Alignment explanation
Indices: 1950170--1950263 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 21
1950160 TTAACTCTTT
* *
1950170 TTTTTGCTTTCTTT-TCTTTATT
1 TTTTT-CTTT-TTTCTCTTTCTC
1950192 TTTTTCTTCTTTT-TCTTTCT-
1 TTTTTCTT-TTTTCTCTTTCTC
*
1950212 TTTCTCTTTTCCTTCTCTTTCTC
1 TTTTTCTTTT--TTCTCTTTCTC
*
1950235 TTTTTCTTATTTTCTCTTTTTC
1 TTTTTCTT-TTTTCTCTTTCTC
*
1950257 TCTTTCT
1 TTTTTCT
1950264 CCATTTCTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
19 2 0.03
20 7 0.11
21 14 0.23
22 29 0.48
23 7 0.11
24 2 0.03
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTTTCTCTTTCTC
Found at i:1950255 original size:8 final size:8
Alignment explanation
Indices: 1950192--1950261 Score: 70
Period size: 8 Copynumber: 8.4 Consensus size: 8
1950182 TTTCTTTATT
1950192 TTTTTCTTC
1 TTTTTC-TC
*
1950201 TTTTTCTT
1 TTTTTCTC
1950209 TCTTTTCTC
1 T-TTTTCTC
*
1950218 TTTTCCTTC
1 TTTTTC-TC
*
1950227 TCTTTCTC
1 TTTTTCTC
1950235 TTTTTCT-
1 TTTTTCTC
1950242 TATTTTCTC
1 T-TTTTCTC
1950251 TTTTTCTC
1 TTTTTCTC
1950259 TTT
1 TTT
1950262 CTCCATTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 30 0.59
9 20 0.39
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTCTC
Found at i:1950255 original size:16 final size:16
Alignment explanation
Indices: 1950193--1950276 Score: 91
Period size: 17 Copynumber: 5.2 Consensus size: 16
1950183 TTCTTTATTT
1950193 TTTTCTTCTTTTTCTTTC
1 TTTTC-TCTTTTTC-TTC
*
1950211 TTTTCTCTTTTCCTTC
1 TTTTCTCTTTTTCTTC
*
1950227 TCTTTCTCTTTTTCTTA
1 T-TTTCTCTTTTTCTTC
1950244 TTTTCTCTTTTTC-TC
1 TTTTCTCTTTTTCTTC
**
1950259 -TTTCTCCATTTCTTC
1 TTTTCTCTTTTTCTTC
1950274 TTT
1 TTT
1950277 ATTTTTCCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
16 18 0.32
17 21 0.37
18 5 0.09
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTCTTTTTCTTC
Found at i:1950264 original size:6 final size:6
Alignment explanation
Indices: 1950194--1950264 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
1950184 TCTTTATTTT
* * *
1950194 TTTCTTC TTTTTC TTTCT- TTTCTC TTT-TC CTTCTC TTTCTC TTTTTC
1 TTTC-TC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC
*
1950241 TTAT-T- TTCTCTT TTTCTC TTTCTC
1 TT-TCTC TT-TCTC TTTCTC TTTCTC
1950265 CATTTCTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
5 12 0.23
6 34 0.65
7 6 0.12
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCTC
Found at i:1950270 original size:22 final size:22
Alignment explanation
Indices: 1950211--1950276 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
1950201 TTTTTCTTTC
1950211 TTTTCTCTTT-TCC--TTCTCT
1 TTTTCTCTTTCTCCATTTCTCT
* * *
1950230 TTCTCTTTTTCT-TATTTTCTCT
1 TTTTCTCTTTCTCCA-TTTCTCT
1950252 TTTTCTCTTTCTCCATTTCTTCT
1 TTTTCTCTTTCTCCATTTC-TCT
1950275 TT
1 TT
1950277 ATTTTTCCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 8 0.23
20 1 0.03
22 20 0.57
23 6 0.17
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCTCTTTCTCCATTTCTCT
Found at i:1951813 original size:33 final size:32
Alignment explanation
Indices: 1951758--1951822 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1951748 TTTGGGACAA
1951758 TATATCGATACAATTCTTCATGTATCGATACAT
1 TATATCGATACAATTC-TCATGTATCGATACAT
*
1951791 TATATCGATACAATATGC-CATGTGTCGATACA
1 TATATCGATACAAT-T-CTCATGTATCGATACA
1951823 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TATATCGATACAATTCTCATGTATCGATACAT
Found at i:1951909 original size:32 final size:33
Alignment explanation
Indices: 1951873--1951937 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1951863 ACAATCGTGC
* *
1951873 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATATATCGATACA
*
1951905 ATGTATCGATACAAAGCATAATATATCGATACA
1 ATGTATCGATACAAAGAATAATATATCGATACA
1951938 TCTGGATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATATATCGATACA
Found at i:1951910 original size:13 final size:13
Alignment explanation
Indices: 1951892--1951918 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1951882 TACAATGAAT
1951892 ATGTATCGATACA
1 ATGTATCGATACA
1951905 ATGTATCGATACA
1 ATGTATCGATACA
1951918 A
1 A
1951919 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1961264 original size:33 final size:33
Alignment explanation
Indices: 1961222--1961288 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1961212 TAAGAATTGA
*
1961222 TCACTTCACTTTCGCAGCACAT-GAGTGAGCACT
1 TCACTTCACTCTCGCAGCACATGGA-TGAGCACT
1961255 TCACTTCACTCTCGCAGCACATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGGATGAGCACT
1961288 T
1 T
1961289 TAGTGCACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGGATGAGCACT
Found at i:1962239 original size:20 final size:19
Alignment explanation
Indices: 1962190--1962250 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 19
1962180 GCTTTGAATC
1962190 GATATATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
1962210 GTTCATTGTATCGATACAT
1 GATAATTGTATCGATACAT
1962229 GCATAATTGTATCGATACAT
1 G-ATAATTGTATCGATACAT
1962249 GA
1 GA
1962251 AACTGGCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:1965393 original size:13 final size:13
Alignment explanation
Indices: 1965372--1965412 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
1965362 TCTGGAAATT
1965372 CAATGTATCGATA
1 CAATGTATCGATA
*
1965385 CATTGTATCGATA
1 CAATGTATCGATA
1965398 CAATGTATCGATA
1 CAATGTATCGATA
1965411 CA
1 CA
1965413 GGGGGATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Done.