Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 180 of 328
Found at i:53496867 original size:30 final size:31
Alignment explanation
Indices: 53496833--53496899 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
53496823 ATGAAACTGA
* *
53496833 ATTAATGGCAGGTGACCAAAATAAAAAT-TT
1 ATTAAAGGCAAGTGACCAAAATAAAAATATT
** *
53496863 ATTAAAGTTAAGTGACTAAAATAAAAATAATT
1 ATTAAAGGCAAGTGACCAAAATAAAAAT-ATT
53496895 ATTAA
1 ATTAA
53496900 CGGTAGTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 23 0.77
32 7 0.23
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (31 bp):
ATTAAAGGCAAGTGACCAAAATAAAAATATT
Found at i:53497376 original size:24 final size:24
Alignment explanation
Indices: 53497328--53497377 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
53497318 TAAAATTTTC
*
53497328 AATATTTTAAAATACAATTAGTTA
1 AATATTTTAAAATACAATTAATTA
53497352 AATATGTTTAAAA-A-AATTAAATTA
1 AATAT-TTTAAAATACAATT-AATTA
53497376 AA
1 AA
53497378 ATAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AATATTTTAAAATACAATTAATTA
Found at i:53497500 original size:11 final size:11
Alignment explanation
Indices: 53497473--53497506 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
53497463 ATAAGTCTAA
53497473 ATGTTTAAAA-
1 ATGTTTAAAAT
*
53497483 GTGTTTAAAAT
1 ATGTTTAAAAT
53497494 ATGTTTAAAAT
1 ATGTTTAAAAT
53497505 AT
1 AT
53497507 ATTATAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
ATGTTTAAAAT
Found at i:53498832 original size:31 final size:31
Alignment explanation
Indices: 53498795--53498854 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
53498785 TTTAATTTAA
53498795 TCAATTTTAGTTCCTT-TACTTTGTGAATTGG
1 TCAATTTTAG-TCCTTATACTTTGTGAATTGG
*
53498826 TCAATTTTAGTCCTTATACTTTTTGAATT
1 TCAATTTTAGTCCTTATACTTTGTGAATT
53498855 TTGAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.53
Consensus pattern (31 bp):
TCAATTTTAGTCCTTATACTTTGTGAATTGG
Found at i:53498863 original size:31 final size:30
Alignment explanation
Indices: 53498797--53498868 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
53498787 TAATTTAATC
*
53498797 AATTTTAGTTCCTTTACTTTGTGAATTGGTC
1 AATTTTAG-TCCTTTACTTTGTGAATTGGTA
* *
53498828 AATTTTAGTCCTTATACTTTTTGAATT-TTGA
1 AATTTTAGTCCTT-TACTTTGTGAATTGGT-A
53498859 AATTTTAGTC
1 AATTTTAGTC
53498869 TTGTTCCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.53
Consensus pattern (30 bp):
AATTTTAGTCCTTTACTTTGTGAATTGGTA
Found at i:53501639 original size:28 final size:30
Alignment explanation
Indices: 53501608--53501663 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
53501598 GCTTAAGTGA
53501608 TCAA-TTTAGT-TTTTATATTTT-AATTTAG
1 TCAATTTTAGTATTTTAT-TTTTGAATTTAG
53501636 TCAATTTTAGTATTTTATTTTTGAATTT
1 TCAATTTTAGTATTTTATTTTTGAATTT
53501664 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 11 0.44
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (30 bp):
TCAATTTTAGTATTTTATTTTTGAATTTAG
Found at i:53501670 original size:29 final size:29
Alignment explanation
Indices: 53501612--53501673 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
53501602 AAGTGATCAA
*
53501612 TTTAGTTTTTATATTTTAATTTAGTCAAT
1 TTTAGTTTTTATATTTTAATTTAGTAAAT
*
53501641 TTTAGTATTTTAT-TTTTGAATTT-TTAAAT
1 TTTAGT-TTTTATATTTT-AATTTAGTAAAT
53501670 TTTA
1 TTTA
53501674 ATCTTTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (29 bp):
TTTAGTTTTTATATTTTAATTTAGTAAAT
Found at i:53505919 original size:20 final size:20
Alignment explanation
Indices: 53505894--53505942 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
53505884 CCATTTTTGA
53505894 GAAATTGATGAATTAAGCTT
1 GAAATTGATGAATTAAGCTT
53505914 GAAATTGATGAATTAAGCTT
1 GAAATTGATGAATTAAGCTT
53505934 GAAATTGAT
1 GAAATTGAT
53505943 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:53507876 original size:19 final size:19
Alignment explanation
Indices: 53507839--53507877 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
53507829 TAGTACGAAA
*
53507839 AACCAAATTAAAATTAATT
1 AACCAAATTAAAATAAATT
*
53507858 AACCAAATTAACATAAATT
1 AACCAAATTAAAATAAATT
53507877 A
1 A
53507878 TCTAAACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AACCAAATTAAAATAAATT
Found at i:53510550 original size:40 final size:40
Alignment explanation
Indices: 53510491--53510658 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
53510481 CATTTGAATG
* * *
53510491 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
53510531 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
53510571 ATATCCGGGCTAAGACTCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
53510611 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
53510651 ATATCCGG
1 ATATCCGG
53510659 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:53510933 original size:19 final size:19
Alignment explanation
Indices: 53510909--53510946 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
53510899 TAATAAAGTG
53510909 ATTCATTTAGTTATGTAAA
1 ATTCATTTAGTTATGTAAA
53510928 ATTCATTTAGTTATGTAAA
1 ATTCATTTAGTTATGTAAA
53510947 CGTAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
ATTCATTTAGTTATGTAAA
Found at i:53516437 original size:29 final size:29
Alignment explanation
Indices: 53516404--53516561 Score: 241
Period size: 29 Copynumber: 5.6 Consensus size: 29
53516394 GTGACGAGAT
53516404 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
53516433 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
53516462 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53516491 TGGCACTAAGTGT--GTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
53516518 TGGCACTAAGTGTGCAAGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
53516546 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
53516562 AGTTCGGAGG
Statistics
Matches: 119, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
27 26 0.22
28 14 0.12
29 79 0.66
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:53523202 original size:16 final size:16
Alignment explanation
Indices: 53523181--53523216 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
53523171 AAATAATGTT
* *
53523181 AGAAAAAGAAGAAAAA
1 AGAAAAAAAAAAAAAA
53523197 AGAAAAAAAAAAAAAA
1 AGAAAAAAAAAAAAAA
53523213 AGAA
1 AGAA
53523217 TGCTCATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAAAAA
Found at i:53523639 original size:29 final size:29
Alignment explanation
Indices: 53523606--53523794 Score: 308
Period size: 29 Copynumber: 6.6 Consensus size: 29
53523596 GTGACGAGAT
53523606 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
53523635 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
53523664 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53523693 TGGAACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53523722 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
53523751 TGGCACTAAGTGTGCAAGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
53523779 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
53523795 AGTTCGGAGG
Statistics
Matches: 150, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 14 0.09
29 136 0.91
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:53530571 original size:19 final size:19
Alignment explanation
Indices: 53530549--53530592 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
53530539 AAATAATCTA
* *
53530549 ACACGATTCCACTACTCAG
1 ACACAATTCCACTAATCAG
53530568 ACACAATTCCACTAATCAG
1 ACACAATTCCACTAATCAG
*
53530587 ATACAA
1 ACACAA
53530593 CCATCGAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (19 bp):
ACACAATTCCACTAATCAG
Found at i:53537080 original size:19 final size:18
Alignment explanation
Indices: 53537029--53537080 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
53537019 ATCAAGGATC
*
53537029 AATTTGAAACAAAACAGAA
1 AATTTGGAA-AAAACAGAA
* *
53537048 AATTTTAGAGAAAACATGAA
1 AA-TTTGGAAAAAACA-GAA
53537068 AATTTGGAAAAAA
1 AATTTGGAAAAAA
53537081 AAATGGTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGGAAAAAACAGAA
Found at i:53537081 original size:20 final size:18
Alignment explanation
Indices: 53537029--53537081 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
53537019 ATCAAGGATC
53537029 AATTTGAAACAAAACAGAA
1 AATTTGAAA-AAAACAGAA
* *
53537048 AATTTTAGAGAAAACATGAA
1 AATTTGA-AAAAAACA-GAA
53537068 AATTTGGAAAAAAA
1 AATTT-GAAAAAAA
53537082 AATGGTCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 12 0.44
20 14 0.52
21 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGAAAAAAACAGAA
Found at i:53544021 original size:21 final size:21
Alignment explanation
Indices: 53543995--53544054 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
53543985 AATACATCAG
*
53543995 AAATATTAAAAAATTTAAAAT
1 AAATATTAAAAAATTGAAAAT
53544016 AAATATTTTCAAACAAATTGAAAAT
1 AAATA--TT-AAA-AAATTGAAAAT
*
53544041 AAATTTTAAAAAAT
1 AAATATTAAAAAAT
53544055 ATGTATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 9 0.27
22 3 0.09
23 4 0.12
24 3 0.09
25 14 0.42
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATTAAAAAATTGAAAAT
Found at i:53548136 original size:14 final size:16
Alignment explanation
Indices: 53548117--53548153 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
53548107 TTGAAAAGGG
53548117 TTATTA-GA-TTAATA
1 TTATTACGAGTTAATA
53548131 TTATTACTGAGTTAATA
1 TTATTAC-GAGTTAATA
53548148 TTATTA
1 TTATTA
53548154 TGGGACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (16 bp):
TTATTACGAGTTAATA
Found at i:53555984 original size:13 final size:13
Alignment explanation
Indices: 53555966--53556021 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
53555956 TAGATTTTTC
53555966 CTAAATATTATCA
1 CTAAATATTATCA
53555979 CTAAATA--ATC-
1 CTAAATATTATCA
53555989 CTAAATATTATCA
1 CTAAATATTATCA
* * *
53556002 CTGATTATTTTCA
1 CTAAATATTATCA
53556015 CTAAATA
1 CTAAATA
53556022 ATTCAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.20
11 3 0.09
12 3 0.09
13 22 0.63
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:53560284 original size:40 final size:41
Alignment explanation
Indices: 53560210--53560288 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 41
53560200 CAGGGTTTTT
*
53560210 ACACGGCCTGACACTCGCTTGTGTCTATAGCCCGTGTCTCTC
1 ACACGGCCTGACAC-CGCTCGTGTCTATAGCCCGTGTCTCTC
53560252 ACACGGCCATGACA-CGCTCGTGTCT-TAGCCCGTGTCT
1 ACACGGCC-TGACACCGCTCGTGTCTATAGCCCGTGTCT
53560289 AAAAACCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 12 0.34
41 10 0.29
42 8 0.23
43 5 0.14
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.27
Consensus pattern (41 bp):
ACACGGCCTGACACCGCTCGTGTCTATAGCCCGTGTCTCTC
Found at i:53561379 original size:48 final size:50
Alignment explanation
Indices: 53561264--53561434 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 50
53561254 TATAATGTTG
* *
53561264 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCTGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATATCTGTACCA
* *
53561314 ATGCCATGTCCCAGACATGGTCTTATA-TTGACACCTC-TATA-C-GTACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-C-CCTCATATATCTGTACCA
* * * *
53561362 ATGCCATGTCCTAGACATGGTCTTACACTA--ACACAT-T-TC-GTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATATCTGTA-CCA
53561408 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
53561435 GGCTTACATC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
44 10 0.10
45 20 0.19
46 6 0.06
48 30 0.29
49 4 0.04
50 31 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATATCTGTACCA
Found at i:53561462 original size:46 final size:46
Alignment explanation
Indices: 53561407--53561574 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
53561397 TTTCGTAGCC
53561407 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCT
* * * * *
53561453 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCT
* * * *
53561499 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAGT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCT
* *
53561547 GATGCGTGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
53561575 AGCACACTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 53 0.52
47 24 0.24
48 23 0.23
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCT
Found at i:53561530 original size:94 final size:92
Alignment explanation
Indices: 53561407--53561577 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
53561397 TTTCGTAGCC
*
53561407 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCTGATGCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATACT-GAGGCCGATGCATGTCCCAAACA
53561470 TGTCTTACACTAGCTCTCGTCTCAATGCT
64 TGTCTTACACTAGCTCTCGTCTCAATGCT
* * * * * *
53561499 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAGTGTGGCCGATGCGTGTCCTAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATACTGAGGCCGATGCATGTCCCAAACA
53561564 TGTCTTACACTAGC
64 TGTCTTACACTAGC
53561578 ACACTAATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 49 0.72
95 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGAGGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCGTCTCAATGCT
Found at i:53569825 original size:22 final size:21
Alignment explanation
Indices: 53569794--53569850 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 21
53569784 TGATTTTTCC
53569794 TAAATATTATCACTAAAT-AATT
1 TAAATATTAT-A-TAAATAAATT
*
53569816 TAAATTTTATATAAATCAAATT
1 TAAATATTATATAAAT-AAATT
53569838 TAAACTAATTATA
1 TAAA-T-ATTATA
53569851 GAGCTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 17 0.59
23 1 0.03
24 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTATATAAATAAATT
Found at i:53570572 original size:24 final size:24
Alignment explanation
Indices: 53570545--53570590 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
53570535 ACCTTCTTAT
* *
53570545 TCCCTACGTTTTATTCTATTTGAG
1 TCCCTACATTTCATTCTATTTGAG
53570569 TCCCTACATTTCATTCTATTTG
1 TCCCTACATTTCATTCTATTTG
53570591 GGCGCCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (24 bp):
TCCCTACATTTCATTCTATTTGAG
Found at i:53574715 original size:1 final size:1
Alignment explanation
Indices: 53574709--53574733 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
53574699 CTTCAGCTGT
53574709 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
53574734 GCATATCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:53576861 original size:15 final size:15
Alignment explanation
Indices: 53576841--53576900 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
53576831 TAATGGTAAT
53576841 AAATATTTAATATTA
1 AAATATTTAATATTA
*
53576856 AAATA-TTAAAATTGA
1 AAATATTTAATATT-A
* * *
53576871 ATATTTTTAATAATA
1 AAATATTTAATATTA
* *
53576886 AATTATTTATTATTA
1 AAATATTTAATATTA
53576901 TATGATTAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
14 7 0.21
15 20 0.61
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AAATATTTAATATTA
Found at i:53577165 original size:19 final size:19
Alignment explanation
Indices: 53577118--53577166 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
53577108 GAAAAAAATT
53577118 TATTTTCTGTTGACCTGTAAG
1 TATTTTCTGTTGACC--TAAG
53577139 TCATTTTCTGTTGACC-AAG
1 T-ATTTTCTGTTGACCTAAG
53577158 CTATTTTCT
1 -TATTTTCT
53577167 ATTAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 10 0.38
20 1 0.04
21 1 0.04
22 14 0.54
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (19 bp):
TATTTTCTGTTGACCTAAG
Found at i:53577605 original size:23 final size:24
Alignment explanation
Indices: 53577579--53577623 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
53577569 TCTAAAAATA
53577579 AATTTAAAAAT-AAAAAATAATTT
1 AATTTAAAAATAAAAAAATAATTT
* *
53577602 AATTTTAAAGTAAAAAAATAAT
1 AATTTAAAAATAAAAAAATAAT
53577624 GAATACGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTAAAAATAAAAAAATAATTT
Found at i:53578638 original size:13 final size:13
Alignment explanation
Indices: 53578622--53578646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53578612 TTTTTTACAA
53578622 TACTTTTCAAAAG
1 TACTTTTCAAAAG
53578635 TACTTTTCAAAA
1 TACTTTTCAAAA
53578647 ACAATATTAA
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
TACTTTTCAAAAG
Found at i:53580047 original size:8 final size:8
Alignment explanation
Indices: 53580028--53580059 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
53580018 TGACTGCCTA
53580028 ATCTGT-T
1 ATCTGTAT
53580035 ATCTGTAT
1 ATCTGTAT
53580043 ATCTG-AT
1 ATCTGTAT
53580050 ATCTGTAT
1 ATCTGTAT
53580058 AT
1 AT
53580060 AAGCATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.57
8 10 0.43
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (8 bp):
ATCTGTAT
Found at i:53580052 original size:15 final size:15
Alignment explanation
Indices: 53580028--53580059 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53580018 TGACTGCCTA
*
53580028 ATCTGTTATCTGTAT
1 ATCTGATATCTGTAT
53580043 ATCTGATATCTGTAT
1 ATCTGATATCTGTAT
53580058 AT
1 AT
53580060 AAGCATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
ATCTGATATCTGTAT
Found at i:53583630 original size:24 final size:23
Alignment explanation
Indices: 53583603--53583689 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
53583593 TTATTAACAT
*
53583603 TGTTCTTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTA-A
*
53583627 TGTTCATGAACATGTTCATTTAA
1 TGTTCATGAACATGTTCAATTAA
* * *
53583650 TATTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCAATTAA
* *
53583673 -GTTAAATGAACTTGTTC
1 TGTT-CATGAACATGTTC
53583690 GTGAATATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 2 0.04
23 30 0.58
24 20 0.38
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:53586587 original size:60 final size:60
Alignment explanation
Indices: 53586520--53586643 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
53586510 AACTGTGTTA
*
53586520 ATATGGGCAAGACCCAATATA-TCTCA-ACTTGTAATAGGGCTATGGCCCAGATTGATACTG
1 ATATGGGCAAGACCCAATATACTCTCATA-TTGTAA-AGGGCTATGGCCCAGATTAATACTG
* * * * *
53586580 ATATGGGCTAGGCCCAATATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGACCCAATATACTCTCATATTGTAAAGGGCTATGGCCCAGATTAATACTG
53586640 ATAT
1 ATAT
53586644 AGGCTAAGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 45 0.80
61 10 0.18
62 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (60 bp):
ATATGGGCAAGACCCAATATACTCTCATATTGTAAAGGGCTATGGCCCAGATTAATACTG
Found at i:53589022 original size:25 final size:24
Alignment explanation
Indices: 53588994--53589043 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
53588984 GAATTCTTCC
53588994 TTCTCTTCTCCTCTCTTCTTC-TATT
1 TTCTCTTCTCCT-TCTT-TTCTTATT
*
53589019 TTCTTTTCTCCTTCTTTTCTTATT
1 TTCTCTTCTCCTTCTTTTCTTATT
53589043 T
1 T
53589044 AGCCAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.13
24 9 0.39
25 11 0.48
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCTCTTCTCCTTCTTTTCTTATT
Found at i:53593907 original size:14 final size:14
Alignment explanation
Indices: 53593888--53593915 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53593878 TTTGGAAGTG
53593888 TATATATATACATA
1 TATATATATACATA
53593902 TATATATATACATA
1 TATATATATACATA
53593916 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:53594446 original size:27 final size:28
Alignment explanation
Indices: 53594390--53594459 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
53594380 AAATTGGTAC
53594390 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53594418 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53594445 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53594460 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53597736 original size:20 final size:21
Alignment explanation
Indices: 53597691--53597736 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
53597681 ACTGTTTTGT
53597691 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
53597711 -ACGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
53597730 TATGGGC
1 TATGGGC
53597737 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:53597796 original size:60 final size:60
Alignment explanation
Indices: 53597729--53597865 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 60
53597719 AACTGTGTTA
*
53597729 ATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTATGGCCCAGATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCTCATA-TTGTAA-AGGGCTATGGCCCAGATTAATACTG
* * * * *
53597789 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGGCTATGGCCCAGATTAATACTG
53597849 ATATGGGCTAAGGCCCA
1 ATATGGGC-AAGGCCCA
53597866 GTTAACTCTG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 49 0.73
61 17 0.25
62 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
ATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGGCTATGGCCCAGATTAATACTG
Found at i:53597856 original size:28 final size:28
Alignment explanation
Indices: 53597765--53597870 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 28
53597755 ACTTGTAATA
* *
53597765 GGGCTATGGCCCAGATTGATACTGATAT
1 GGGCTATGGCCCAGATTAATATTGATAT
* *
53597793 GGGCTA-GGCCCAGTATACTCTGATATTG-TAAG
1 GGGCTATGGCCCAG---A-T-TAATATTGAT-AT
53597825 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTATGGCCCAGATTAATATTGATAT
*
53597853 GGGCTAAGGCCCAG-TTAA
1 GGGCTATGGCCCAGATTAA
53597871 CTCTGATTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
27 11 0.17
28 27 0.42
29 2 0.03
30 2 0.03
31 2 0.03
32 14 0.22
33 7 0.11
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (28 bp):
GGGCTATGGCCCAGATTAATATTGATAT
Found at i:53604126 original size:16 final size:16
Alignment explanation
Indices: 53604105--53604136 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53604095 AATTAATTTA
53604105 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
53604121 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
53604137 CAACCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:53609604 original size:38 final size:38
Alignment explanation
Indices: 53609552--53609728 Score: 180
Period size: 38 Copynumber: 4.7 Consensus size: 38
53609542 TGAATTATAT
53609552 TGTTATTCTA-GCTTTGTGCCTAGCAGGCTTAGTGCC-A
1 TGTTATTC-AGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* *
53609589 GTGTTATTCGGGCTTTGTGCCTAGCAGGCTTAATGCCGA
1 -TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * *
53609628 CGTTAATCAGGCTTTGTGCCTACCAGGCTTAGTGTCGA
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * * * *
53609666 TGTTACTCAAGCTTTTTTCCTAGC-GGTCTTAGTGTCGG
1 TGTTATTCAGGCTTTGTGCCTAGCAGG-CTTAGTGCCGA
* *
53609704 TGTTATTCAGGATTTGTACCTAGCA
1 TGTTATTCAGGCTTTGTGCCTAGCA
53609729 AATTTATTGC
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
37 2 0.02
38 112 0.97
39 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
Found at i:53614539 original size:39 final size:39
Alignment explanation
Indices: 53614495--53614607 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 39
53614485 TATGGTAACC
** * *
53614495 CGCACAAAGGCCTT-GGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
53614534 TGCACAATTGCTTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53614573 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
53614608 TCGAACATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 60 0.95
40 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53620057 original size:78 final size:79
Alignment explanation
Indices: 53619924--53620132 Score: 269
Period size: 78 Copynumber: 2.6 Consensus size: 79
53619914 ACCCCGAATT
* * * * * *
53619924 CAATCACCAACACAAAGCCTACGGGA-CTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGG
1 CAAT-ACCAGCACGAAGCCTGC-GGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGG
53619988 ACCTTAAGTCCAGATA
64 ACCTTAAGTCCAGATA
* * * *
53620004 TAGTACCAGCACGAAGCCTGCGGATC-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGAC
1 CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGAC
*
53620068 CTTAAGTCCGGATA
66 CTTAAGTCCAGATA
* *
53620082 CAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCA
1 CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCA
53620133 TATAGCCTGT
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 71 0.65
79 37 0.34
80 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (79 bp):
CAATACCAGCACGAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGAC
CTTAAGTCCAGATA
Found at i:53620127 original size:40 final size:40
Alignment explanation
Indices: 53619938--53620161 Score: 233
Period size: 39 Copynumber: 5.7 Consensus size: 40
53619928 CACCAACACA
* * * *
53619938 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * * * *
53619978 AAGCCTGC-GGACCTTAAGTCCAGATATAGTACCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* *
53620017 AAGCCTGC-GGA-TCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGGACT-TTAAGCCCGGATATAATTCCAGCACG
* * *
53620056 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* *
53620095 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCA-T
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* *
53620134 ATAGCCTGTGGGTCTTTAAGCCCGGATA
1 A-AGCCTGCGGGACTTTAAGCCCGGATA
53620162 CACATCAAAT
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 106 0.65
40 57 0.35
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (40 bp):
AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
Found at i:53634565 original size:36 final size:36
Alignment explanation
Indices: 53634524--53634595 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
53634514 CGAATAGTTT
53634524 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
53634560 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
53634596 CACGTCGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (36 bp):
GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
Found at i:53635271 original size:27 final size:28
Alignment explanation
Indices: 53635227--53635309 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
53635217 TTTAGATGGT
* *
53635227 GCCACAAAGGCATTCCTT-TTCAGAGATA
1 GCCAAAAAGGC-TTCCTTATCCAGAGATA
* * * *
53635255 GCTATAAAGGTTTCCTTATCCAGAGATT
1 GCCAAAAAGGCTTCCTTATCCAGAGATA
53635283 GCCAAAAAGGCTTCCTTA-CCTAGAGAT
1 GCCAAAAAGGCTTCCTTATCC-AGAGAT
53635310 TACCACAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 8 0.18
28 37 0.82
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (28 bp):
GCCAAAAAGGCTTCCTTATCCAGAGATA
Found at i:53635310 original size:28 final size:28
Alignment explanation
Indices: 53635260--53635321 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
53635250 AGATAGCTAT
* *
53635260 AAAGGTTTCCTTATCCAGAGATTGCCAA
1 AAAGGCTTCCTTATCCAGAGATTACCAA
*
53635288 AAAGGCTTCCTTA-CCTAGAGATTACCAC
1 AAAGGCTTCCTTATCC-AGAGATTACCAA
53635316 AAAGGC
1 AAAGGC
53635322 ATCATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (28 bp):
AAAGGCTTCCTTATCCAGAGATTACCAA
Found at i:53635481 original size:28 final size:29
Alignment explanation
Indices: 53635405--53635550 Score: 90
Period size: 29 Copynumber: 5.1 Consensus size: 29
53635395 TCATCACGAG
* *
53635405 GGCTTACCCTTCTAGAGTTTTGCCACAAA
1 GGCTTACCTTTCCAGAGTTTTGCCACAAA
* * *
53635434 GG-TTGTCCTTT-AACA-TGTTTGCCACAAA
1 GGCTT-ACCTTTCCAGAGT-TTTGCCACAAA
* *
53635462 GGCTTACCTTTCCAGAGTTTTTCCATAAA
1 GGCTTACCTTTCCAGAGTTTTGCCACAAA
* * *
53635491 GGCGTT---TGTTCTAGAGGTTCT-CGACAAA
1 GGC-TTACCT-TTCCAGA-GTTTTGCCACAAA
* *
53635519 GGCTTACATTTCCAGAGTTTTGCTACAAA
1 GGCTTACCTTTCCAGAGTTTTGCCACAAA
53635548 GGC
1 GGC
53635551 GTTCATTTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.04
28 40 0.45
29 41 0.46
30 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (29 bp):
GGCTTACCTTTCCAGAGTTTTGCCACAAA
Found at i:53639722 original size:13 final size:11
Alignment explanation
Indices: 53639697--53639736 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
53639687 TTATTTATAA
53639697 TAAAATATTAT
1 TAAAATATTAT
53639708 TAAAATATCTCAT
1 TAAAATAT-T-AT
*
53639721 TAAAATATTAA
1 TAAAATATTAT
53639732 TAAAA
1 TAAAA
53639737 CAATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 2 0.08
13 10 0.38
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:53642541 original size:21 final size:22
Alignment explanation
Indices: 53642504--53642544 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
53642494 GTTGGGCGTG
*
53642504 TAGGCCACGGGCGTGTGGGCTT
1 TAGGCCACGGCCGTGTGGGCTT
53642526 TAGGCCA-GGCCGTGTGGGC
1 TAGGCCACGGCCGTGTGGGC
53642545 CATACGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.10, C:0.24, G:0.46, T:0.20
Consensus pattern (22 bp):
TAGGCCACGGCCGTGTGGGCTT
Found at i:53644378 original size:39 final size:39
Alignment explanation
Indices: 53644260--53644442 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
53644250 TCGTTCAAAC
* * ** * **
53644260 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * * *
53644300 GCCTTCGAGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCG-GGCTTAGCCCGGATATCATAACTCGCACAATT
*
53644340 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
53644379 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
53644418 GCCTTCGGGCTTAGCTCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
53644443 CTCGAACATT
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 88 0.72
40 33 0.27
41 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:53646299 original size:2 final size:2
Alignment explanation
Indices: 53646294--53646323 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
53646284 TATATATATA
53646294 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
53646324 ATTTCAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:53650046 original size:47 final size:47
Alignment explanation
Indices: 53649974--53650235 Score: 234
Period size: 47 Copynumber: 5.6 Consensus size: 47
53649964 GTAAGGTGCT
* *
53649974 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCGAAGCC
* * *
53650021 GATGCCATATCCCAGACATGATCTTACACTGACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTCGAAGCC
* * ** *
53650069 GATG-CATGTCCCAGACATGTGTTACACTGGCTTATGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAAGCC
* * * **
53650115 GATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC-AATGTT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAA-GCC
* * ** *
53650161 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCGAAGCC
53650209 GATG-CATGTCCCA-ACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
53650236 AGCCAACAAT
Statistics
Matches: 180, Mismatches: 26, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
45 11 0.06
46 65 0.36
47 73 0.41
48 30 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAAGCC
Found at i:53650170 original size:93 final size:93
Alignment explanation
Indices: 53649971--53650238 Score: 280
Period size: 93 Copynumber: 2.9 Consensus size: 93
53649961 TGGGTAAGGT
* * * * *
53649971 GCTGATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGATGCCATATCCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-TTCTCGAGGTCGATG-CATGTCCCA
*
53650035 GACATGATCTTACACT-GACTATCATCTCGTA
64 GACATG-TCTTACACTAG-CTATCATCTCATA
* * *
53650066 GCCGATG-CATGTCCCAGACAT-GTGTTACACTGGCTTATGTCTCGAGGCCGATGCATGTCCCAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAT-TCTCGAGGTCGATGCATGTCCCAG
* *
53650129 ACATGTCTTACACTAGCTCTCGTCTCA-A
65 ACATGTCTTACACTAGCTATCATCTCATA
* ** *
53650157 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCATGTCCC
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATTCTCGAGGTCGATGCATGTCCC
53650221 A-ACATGTCTTACACTAGC
63 AGACATGTCTTACACTAGC
53650239 CAACAATAAC
Statistics
Matches: 147, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
91 1 0.01
92 22 0.15
93 64 0.44
94 50 0.34
95 8 0.05
96 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATTCTCGAGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCTATCATCTCATA
Found at i:53651818 original size:19 final size:19
Alignment explanation
Indices: 53651796--53651834 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
53651786 TCGTTTTCCC
53651796 TAAACGCGAACGATTTTCT
1 TAAACGCGAACGATTTTCT
* *
53651815 TAAACGTGAATGATTTTCT
1 TAAACGCGAACGATTTTCT
53651834 T
1 T
53651835 TAAATATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TAAACGCGAACGATTTTCT
Found at i:53653123 original size:21 final size:21
Alignment explanation
Indices: 53653097--53653143 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
53653087 ATTGAACTCC
53653097 CATTATTTTATATATACATTT
1 CATTATTTTATATATACATTT
53653118 CATTATTTTATATATACATTT
1 CATTATTTTATATATACATTT
53653139 -ATTAT
1 CATTAT
53653144 ATAACAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (21 bp):
CATTATTTTATATATACATTT
Found at i:53658730 original size:20 final size:21
Alignment explanation
Indices: 53658687--53658732 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
53658677 ACTGTTTTGT
53658687 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
53658707 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
53658726 TATGGGC
1 TATGGGC
53658733 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:53660359 original size:41 final size:40
Alignment explanation
Indices: 53660314--53660396 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
53660304 TTTCATAGCT
**
53660314 GAAGCTATTTCAATCTCACACACTAAGTGCCACATATATTC
1 GAAGCTATTTCAAGAT-ACACACTAAGTGCCACATATATTC
* *
53660355 GAAGCTATTTCGAGATGCACACTAAGTGCCACATATATTC
1 GAAGCTATTTCAAGATACACACTAAGTGCCACATATATTC
53660395 GA
1 GA
53660397 TTCATCGTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
40 25 0.66
41 13 0.34
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (40 bp):
GAAGCTATTTCAAGATACACACTAAGTGCCACATATATTC
Found at i:53674435 original size:40 final size:40
Alignment explanation
Indices: 53674348--53674571 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
53674338 TATTCGGATG
*
53674348 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
*
53674389 ATATCCGGGCTAAGTCCCGAAGGCATTTGCT-CTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG-TGCTAGTGACT
*
53674429 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
53674470 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
53674510 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
53674550 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
53674572 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.08
40 91 0.55
41 62 0.37
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:53674482 original size:81 final size:81
Alignment explanation
Indices: 53674347--53674571 Score: 323
Period size: 81 Copynumber: 2.8 Consensus size: 81
53674337 TTATTCGGAT
53674347 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
53674412 CATTTGCT-CTAGTGAC
66 CATTTG-TGCGAGTGAC
53674428 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
53674493 CATTTGTGCGAGTTAC
66 CATTTGTGCGAGTGAC
* * * * * * *
53674509 TATATCCGGGCTAAGTCCCAAAGGCA-TTTGTGCGATTTG-CTATATCC-GGTTAAATCCCGAAG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTA-GTGACTATATCCGGGCTAAGTCCCGAAG
53674571 G
65 G
53674572 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 14 0.11
80 17 0.13
81 102 0.77
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (81 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCGAGTGAC
Found at i:53679130 original size:24 final size:24
Alignment explanation
Indices: 53679059--53679130 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
53679049 TGAAAGAGTG
* * *
53679059 TCCCGTTATTAGCCCTCTCGAGCT
1 TCCCGTTAATAGCTCTTTCGAGCT
* * *
53679083 TCCCGTTATATGGTTCTTGCGAGCT
1 TCCCGTTA-ATAGCTCTTTCGAGCT
*
53679108 TCCCGTTAATAGCTCTTTAGAGC
1 TCCCGTTAATAGCTCTTTCGAGC
53679131 ATCTTGATTG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.36
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTTCGAGCT
Found at i:53679219 original size:26 final size:27
Alignment explanation
Indices: 53679188--53679256 Score: 90
Period size: 26 Copynumber: 2.6 Consensus size: 27
53679178 CTTATTAGCA
53679188 TCCCGA-TATATGGCTCTTTC-TGAGCT
1 TCCCGATTA-ATGGCTCTTTCGTGAGCT
*
53679214 TCCCGATTAAAGGCTC-TTCGTGAGCT
1 TCCCGATTAATGGCTCTTTCGTGAGCT
*
53679240 TCCTGATTAATGGCTCT
1 TCCCGATTAATGGCTCT
53679257 CTAAAGCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 32 0.86
27 2 0.05
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.36
Consensus pattern (27 bp):
TCCCGATTAATGGCTCTTTCGTGAGCT
Found at i:53682778 original size:14 final size:15
Alignment explanation
Indices: 53682751--53682783 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
53682741 CTTTGTTTTC
53682751 TTTGTTTTTGCTTTA
1 TTTGTTTTTGCTTTA
53682766 TTTGTTTTT-CTTTA
1 TTTGTTTTTGCTTTA
53682780 TTTG
1 TTTG
53682784 ATTGGGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTGTTTTTGCTTTA
Found at i:53684706 original size:39 final size:39
Alignment explanation
Indices: 53684644--53684718 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
53684634 CATGTTACAT
*
53684644 ATATAATCACCTAACATACAAGCATATATCACAATATTC
1 ATATAATCACATAACATACAAGCATATATCACAATATTC
* ** * *
53684683 ATATAATCACATAGCATTTAAGCATATGTCATAATA
1 ATATAATCACATAACATACAAGCATATATCACAATA
53684719 CTTGAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCACAATATTC
Found at i:53688189 original size:33 final size:33
Alignment explanation
Indices: 53688152--53688217 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
53688142 GCCATTTCCA
*
53688152 AAGTACTTTTACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
53688185 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
53688218 CAACTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (33 bp):
AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
Found at i:53692864 original size:16 final size:15
Alignment explanation
Indices: 53692837--53692876 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
53692827 TTTTTAATGT
*
53692837 ATTAGTAAATGTTAA
1 ATTAGTAAATGTAAA
53692852 ATTAGTGAAATGTAAA
1 ATTAGT-AAATGTAAA
*
53692868 ATAAGTAAA
1 ATTAGTAAA
53692877 GATTAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
ATTAGTAAATGTAAA
Found at i:53693845 original size:23 final size:23
Alignment explanation
Indices: 53693795--53693931 Score: 120
Period size: 23 Copynumber: 5.8 Consensus size: 23
53693785 CCGATATATT
*
53693795 AGCTCA-TAAGAGCTTACTATTTTC
1 AGCTCAGT-AGAGCTTACT-GTTTC
*
53693819 AGCTCATTAGAGCTTACTGTTTC
1 AGCTCAGTAGAGCTTACTGTTTC
*
53693842 AGCTC-GTATGAGCTTACCG-TTC
1 AGCTCAGTA-GAGCTTACTGTTTC
* *
53693864 AGCTC-GATAGAGCTTGCCGTTTC
1 AGCTCAG-TAGAGCTTACTGTTTC
*
53693887 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAGTAGAGCTTACTGTT--TC
*
53693912 AGCTCAGGAAGAGCTTACTG
1 AGCTCA-GTAGAGCTTACTG
53693932 ATCATGGCTC
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
22 20 0.21
23 40 0.42
24 16 0.17
25 9 0.09
26 11 0.11
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (23 bp):
AGCTCAGTAGAGCTTACTGTTTC
Found at i:53693875 original size:45 final size:45
Alignment explanation
Indices: 53693816--53693909 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
53693806 GCTTACTATT
* *
53693816 TTCAGCTCATTAGAGCTTACTGTTTCAGCTC-GTATGAGCTTACCG
1 TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATA-GAGCTTACCG
* *
53693861 TTCAGCTCGA-TAGAGCTTGCCGTTTCAGCTCAATAGAGCTTACTG
1 TTCAGCTC-ATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
53693906 TTCA
1 TTCA
53693910 TCAGCTCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (45 bp):
TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
Found at i:53702153 original size:8 final size:8
Alignment explanation
Indices: 53702135--53702185 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
53702125 TTAAAATCAT
53702135 TAAAAATTA
1 TAAAAA-TA
53702144 TAAAAATA
1 TAAAAATA
53702152 TAGAAAATCA
1 TA-AAAAT-A
53702162 TAAAACTATA
1 TAAAA--ATA
53702172 TAAAAAT-
1 TAAAAATA
53702179 TAAAAAT
1 TAAAAAT
53702186 TTTAAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.18
8 6 0.16
9 14 0.37
10 9 0.24
11 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:53702158 original size:18 final size:18
Alignment explanation
Indices: 53702126--53702184 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
53702116 ATTTTATATT
53702126 TAAAATCAT-TAAAAATTA
1 TAAAA-CATATAAAAATTA
*
53702144 TAAAA-ATATAGAAAATCA
1 TAAAACATATA-AAAATTA
53702162 TAAAACTATATAAAAATTA
1 TAAAAC-ATATAAAAATTA
53702181 -AAAA
1 TAAAA
53702185 TTTTAAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 20 0.57
19 6 0.17
20 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAACATATAAAAATTA
Found at i:53702158 original size:28 final size:26
Alignment explanation
Indices: 53702127--53702185 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
53702117 TTTTATATTT
53702127 AAAATCATTAAAAAT-TATAAAAATATA
1 AAAATCA-TAAAAATATATAAAAAT-TA
*
53702154 GAAAATCATAAAACTATATAAAAATTA
1 -AAAATCATAAAAATATATAAAAATTA
53702181 AAAAT
1 AAAAT
53702186 TTTAAAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 16 0.55
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATCATAAAAATATATAAAAATTA
Found at i:53702675 original size:27 final size:27
Alignment explanation
Indices: 53702627--53702679 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53702617 ATATCTTTAG
53702627 ATTTTTCATAAATTTTACAATTATTTT
1 ATTTTTCATAAATTTTACAATTATTTT
* *
53702654 ATTTTTTAT-AATTTATATAATTATTT
1 ATTTTTCATAAATTT-TACAATTATTT
53702680 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTCATAAATTTTACAATTATTTT
Found at i:53702680 original size:19 final size:19
Alignment explanation
Indices: 53702658--53702699 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
53702648 TATTTTATTT
53702658 TTTATAAT-TTATATAATTA
1 TTTATAATGTTA-ATAATTA
* *
53702677 TTTATTATGTTAATAATTT
1 TTTATAATGTTAATAATTA
53702696 TTTA
1 TTTA
53702700 ATATTTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATAATGTTAATAATTA
Found at i:53702701 original size:27 final size:26
Alignment explanation
Indices: 53702627--53702695 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
53702617 ATATCTTTAG
* *
53702627 ATTTTTCATAAATTT-TACAATTATTTT
1 ATTTTTAAT-AATTTATATAATTA-TTT
*
53702654 ATTTTTTATAATTTATATAATTATTT
1 ATTTTTAATAATTTATATAATTATTT
53702680 ATTATGTTAATAATTT
1 ATT-T-TTAATAATTT
53702696 TTTAATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.31
27 16 0.44
28 9 0.25
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTTTTAATAATTTATATAATTATTT
Found at i:53702702 original size:11 final size:10
Alignment explanation
Indices: 53702686--53702737 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
53702676 ATTTATTATG
53702686 TTAATAATTTT
1 TTAAT-ATTTT
53702697 TTAATATTTT
1 TTAATATTTT
53702707 CTGTAAT-TTTT
1 -T-TAATATTTT
*
53702718 TTAATAATTT
1 TTAATATTTT
53702728 TTAA-ATTTT
1 TTAATATTTT
53702737 T
1 T
53702738 GTCATTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 9 0.25
10 13 0.36
11 10 0.28
12 4 0.11
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTAATATTTT
Found at i:53702727 original size:32 final size:29
Alignment explanation
Indices: 53702686--53702744 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 29
53702676 ATTTATTATG
53702686 TTAATAATTTTTTAATATTTTCTGTAATTTTT
1 TTAATAA-TTTTTAA-ATTTT-TGTAATTTTT
*
53702718 TTAATAATTTTTAAATTTTTGTCATTT
1 TTAATAATTTTTAAATTTTTGTAATTT
53702745 ATATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 5 0.19
31 7 0.27
32 7 0.27
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TTAATAATTTTTAAATTTTTGTAATTTTT
Found at i:53702849 original size:19 final size:19
Alignment explanation
Indices: 53702825--53702880 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
53702815 TAAAAAAATA
*
53702825 TTTTATAATTTTTATGATT
1 TTTTATAATTTTAATGATT
*
53702844 TTTTAT-A--TTAATTATT
1 TTTTATAATTTTAATGATT
*
53702860 TTTTAAAATTTTAATGATT
1 TTTTATAATTTTAATGATT
53702879 TT
1 TT
53702881 AAGTATAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 12 0.40
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTAATGATT
Found at i:53704489 original size:28 final size:28
Alignment explanation
Indices: 53704457--53704514 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
53704447 ATGTAATAGT
*
53704457 TCATTTACACTTTAATATTCATATTCTC
1 TCATTTACACTTTAATATCCATATTCTC
53704485 TCATTTACACTTTAATATCCATATTCTC
1 TCATTTACACTTTAATATCCATATTCTC
53704513 TC
1 TC
53704515 TCCAATTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (28 bp):
TCATTTACACTTTAATATCCATATTCTC
Found at i:53706687 original size:19 final size:19
Alignment explanation
Indices: 53706665--53706701 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53706655 ACAATTACAA
* *
53706665 AAATTAAATAGTAATAAAT
1 AAATAAAATACTAATAAAT
53706684 AAATAAAATACTAATAAA
1 AAATAAAATACTAATAAA
53706702 ATAATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
AAATAAAATACTAATAAAT
Found at i:53712812 original size:18 final size:19
Alignment explanation
Indices: 53712786--53712826 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
53712776 TCATGTCGAA
*
53712786 ATTTTAAAAATT-TTTTAT
1 ATTTAAAAAATTATTTTAT
*
53712804 ATTTAAAAAATTATTTTTT
1 ATTTAAAAAATTATTTTAT
53712823 ATTT
1 ATTT
53712827 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAAAAAATTATTTTAT
Found at i:53713723 original size:9 final size:10
Alignment explanation
Indices: 53713685--53713725 Score: 59
Period size: 9 Copynumber: 4.2 Consensus size: 10
53713675 TTAAACTCTT
53713685 AAATATTAAA
1 AAATATTAAA
53713695 AAATATATAAA
1 AAATAT-TAAA
53713706 AAA-ATTAAA
1 AAATATTAAA
53713715 AAATA-TAAA
1 AAATATTAAA
53713724 AA
1 AA
53713726 GTTCCAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 13 0.45
10 9 0.31
11 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATATTAAA
Found at i:53718816 original size:93 final size:93
Alignment explanation
Indices: 53718701--53718871 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53718691 GCCCCTAAGT
* * *
53718701 GAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53718766 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
53718794 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53718859 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53718872 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53718868 original size:46 final size:46
Alignment explanation
Indices: 53718696--53718868 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
53718686 AACCCGCCCC
* * * *
53718696 TAAGTGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
53718742 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
53718790 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53718835 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53718869 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53722065 original size:18 final size:18
Alignment explanation
Indices: 53722039--53722077 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53722029 TTTAAATTGT
*
53722039 TGTTTTTATTATTATATG
1 TGTTATTATTATTATATG
53722057 TGTTATTATTATTATATG
1 TGTTATTATTATTATATG
53722075 TGT
1 TGT
53722078 ATGGAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
TGTTATTATTATTATATG
Found at i:53722360 original size:44 final size:44
Alignment explanation
Indices: 53722269--53722360 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
53722259 TGTTTAAGGA
* * * *
53722269 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCAACCTTGAGTCGATGAGGCACTATAAGCGTCGTACTAT
**
53722313 TACTTCAACCTTGAGTCGATGAGGCACCT-TGTGCGTCGTACTAT
1 TACTTCAACCTTGAGTCGATGAGGCA-CTATAAGCGTCGTACTAT
53722357 TACT
1 TACT
53722361 GTTACTTCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (44 bp):
TACTTCAACCTTGAGTCGATGAGGCACTATAAGCGTCGTACTAT
Found at i:53724184 original size:39 final size:39
Alignment explanation
Indices: 53724130--53724319 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
53724120 GAATATTCGA
53724130 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
53724169 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
53724208 ATGATATCC-GGCTAAGCCCGAAGGCAATTG-GCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
53724245 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* **
53724284 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
53724320 GGTTACCATA
Statistics
Matches: 139, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
37 16 0.12
38 42 0.30
39 66 0.47
40 15 0.11
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:53724262 original size:115 final size:118
Alignment explanation
Indices: 53724131--53724351 Score: 340
Period size: 115 Copynumber: 1.9 Consensus size: 118
53724121 AATATTCGAG
*
53724131 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
53724195 AATTGTGCGAGTTATGATATCC-GGCTAAG-CCCGAAGGCAATTGGCGAGTTA
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTA
*
53724246 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** * *
53724311 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCA
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCA
53724352 TTTGAACGAG
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
115 53 0.56
116 25 0.27
117 6 0.06
118 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (118 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTA
Found at i:53724266 original size:76 final size:78
Alignment explanation
Indices: 53724131--53724351 Score: 293
Period size: 76 Copynumber: 2.8 Consensus size: 78
53724121 AATATTCGAG
* *
53724131 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
* *
53724196 ATTGTGCGAGTTA
66 ATTGTGCAAATTA
53724209 TGATATCC-GGCTAAGCCCGAAGGCAATTG-GCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
*
53724272 ATTGTGCAAATTG
66 ATTGTGCAAATTA
* ** * ** * *
53724285 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
53724350 CA
64 CA
53724352 TTTGAACGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
76 50 0.40
77 27 0.21
78 20 0.16
79 19 0.15
80 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCAAATTA
Found at i:53731249 original size:39 final size:39
Alignment explanation
Indices: 53731195--53731386 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
53731185 GAATATTCGA
53731195 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
53731234 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * * *
53731273 ATGATATCCGGGCTAAGCCCGAAGGCAATTGGGTGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
53731312 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* **
53731351 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
53731387 GGTTACCATA
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 124 0.89
40 15 0.11
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:53731339 original size:117 final size:119
Alignment explanation
Indices: 53731196--53731417 Score: 349
Period size: 117 Copynumber: 1.9 Consensus size: 119
53731186 AATATTCGAG
*
53731196 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
53731260 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTGGGTGAGTTA
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGGTGAGTTA
*
53731313 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** * *
53731378 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
66 AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGC
53731418 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
117 53 0.56
118 32 0.34
119 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (119 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGGGTGAGTTA
Found at i:53738354 original size:27 final size:27
Alignment explanation
Indices: 53738323--53738414 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
53738313 CGTAAAGCTG
**
53738323 CTAATAACAGTAAACATGGCGTAGCCA
1 CTAATAACAGTAAACATGGCAAAGCCA
* *
53738350 CTAATATCAG-AATACGTGGCAAAGCCA
1 CTAATAACAGTAA-ACATGGCAAAGCCA
* *
53738377 CT-AGAACAGTAAAACGTGGCAAAGCCA
1 CTAATAACAGT-AAACATGGCAAAGCCA
*
53738404 CTAGT-ACAGTA
1 CTAATAACAGTA
53738415 CTTCCTCCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
26 8 0.15
27 43 0.81
28 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (27 bp):
CTAATAACAGTAAACATGGCAAAGCCA
Found at i:53749623 original size:79 final size:81
Alignment explanation
Indices: 53749488--53749671 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
53749478 CGAATGATGT
*
53749488 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
53749552 GTGCGAGTTACTA-ATC
66 ATGCGAGTTACTATA-A
* * **
53749568 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
53749630 TATGCGAGTTACTATAA
65 TATGCGAGTTACTATAA
*
53749647 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53749672 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATAA
Found at i:53749678 original size:40 final size:39
Alignment explanation
Indices: 53749488--53749671 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
53749478 CGAATGATGT
* * *
53749488 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
53749528 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
53749568 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53749606 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53749647 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53749672 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53749693 original size:79 final size:79
Alignment explanation
Indices: 53749488--53749694 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
53749478 CGAATGATGT
* *
53749488 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* *
53749551 TGTGCGAGTTACTAATC
63 TATGCGAGTTACTAATA
*
53749568 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
53749630 TATGCGAGTTACT-ATAA
63 TATGCGAGTTACTAAT-A
* **
53749647 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
53749695 ATTCTGAAGG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 62 0.56
80 45 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTAT
GCGAGTTACTAATA
Found at i:53762453 original size:27 final size:27
Alignment explanation
Indices: 53762420--53762486 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
53762410 AATTGTAAAA
* *
53762420 TAAATAAATAATTACTTTG-TATTTAAG
1 TAAATAAATAATTA-TTTGAAAATTAAG
*
53762447 TAAATAAATATTTATTTGAAAATTAAG
1 TAAATAAATAATTATTTGAAAATTAAG
*
53762474 TAAA-AGATAATTA
1 TAAATAAATAATTA
53762487 GTAATTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAATAAATAATTATTTGAAAATTAAG
Found at i:53763540 original size:18 final size:18
Alignment explanation
Indices: 53763514--53763552 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53763504 TTTAAATTGT
*
53763514 TGTTTTTATTATTATATG
1 TGTTATTATTATTATATG
53763532 TGTTATTATTATTATATG
1 TGTTATTATTATTATATG
53763550 TGT
1 TGT
53763553 ATGGAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
TGTTATTATTATTATATG
Found at i:53763793 original size:44 final size:44
Alignment explanation
Indices: 53763744--53763835 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
53763734 TGTTCAGGGA
* * *
53763744 TACTTCGACCTTGAGTTGATGAGACACTATAAGTGTCGTACTGT
1 TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
* * **
53763788 TACTTCAACCTTGAGTCGATGAGGCACTTTGTGTGTCATACTGT
1 TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
53763832 TACT
1 TACT
53763836 GTTACTTCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (44 bp):
TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
Found at i:53769869 original size:22 final size:19
Alignment explanation
Indices: 53769830--53769871 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
53769820 TGCAAAGTTG
53769830 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
53769849 ATAATATATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
53769871 A
1 A
53769872 ATTATCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:53773243 original size:40 final size:40
Alignment explanation
Indices: 53773091--53773281 Score: 221
Period size: 39 Copynumber: 4.8 Consensus size: 40
53773081 TGAATGTTCG
* *
53773091 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-
1 TGTGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* *
53773130 TGAAT-AAATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGT
1 TG--TGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
*
53773170 TGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGT
1 TGTGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* *
53773209 TGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGT
1 TGTGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * * *
53773249 TACT-ATAACCGGGCTATGTCCCGAAGGCTTTTG
1 T-GTGATATCCGGGCTAAGTCCCGAAGGCATTTG
53773282 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 71 0.53
40 59 0.44
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
TGTGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:53773303 original size:79 final size:77
Alignment explanation
Indices: 53773093--53773314 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 77
53773083 AATGTTCGTG
* * *
53773093 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAATAAATCCGGGCTAAGCCCGAAGGC
1 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG--TATATCCGGGTTAAGCCCGAAGGC
*
53773158 AATTGTGCGAGTTG
64 AATTGTGCGAGTTC
* *
53773172 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGT-ATATCCGGGTTAAG-CCCGAAGG
* *
53773236 CATTTGTGCGGGTTAC
63 CAATTGTGCGAGTT-C
* * ** *
53773252 T-ATAACCGGGCTATGTCCCGAAGGCTTTTGAACGAGTAGCTATATCC-GGTTAAACTCCGAAGG
1 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-G-TATATCCGGGTTAAGC-CCGAAGG
53773315 TACGTAATTC
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 31 0.26
79 63 0.52
80 24 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (77 bp):
TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGTATATCCGGGTTAAGCCCGAAGGCAA
TTGTGCGAGTTC
Found at i:53786054 original size:353 final size:353
Alignment explanation
Indices: 53785408--53786116 Score: 1418
Period size: 353 Copynumber: 2.0 Consensus size: 353
53785398 TCGATGCAAA
53785408 TTCTCCATCCCGTAATCGTTTTGGTTGGTATTAGCTTGTTGTTTTTATTCTTTATGATCGTAATA
1 TTCTCCATCCCGTAATCGTTTTGGTTGGTATTAGCTTGTTGTTTTTATTCTTTATGATCGTAATA
53785473 CCTCCTTTCTTTGGCATGCACTAGACTAGAGTTACCCATGAACTGTCTGAGATGGGGTAAATTAT
66 CCTCCTTTCTTTGGCATGCACTAGACTAGAGTTACCCATGAACTGTCTGAGATGGGGTAAATTAT
53785538 ACCTATATCTAACCACTTGATGATTTCTTTCTTTACTACGTCTTTCATGATGGATTTTAATCTTC
131 ACCTATATCTAACCACTTGATGATTTCTTTCTTTACTACGTCTTTCATGATGGATTTTAATCTTC
53785603 ATTGTCCATCAATCTTCCCTTTCTCGCCATCTTCCAAGATGATCTTGTGCATGCATACAGATGGA
196 ATTGTCCATCAATCTTCCCTTTCTCGCCATCTTCCAAGATGATCTTGTGCATGCATACAGATGGA
53785668 CAAATATTGTGAATATAGGCTATGGTCCATCCGATAGCCTTCTTGAATTATTTTAATACTTGGAT
261 CAAATATTGTGAATATAGGCTATGGTCCATCCGATAGCCTTCTTGAATTATTTTAATACTTGGAT
53785733 GAGTTTCTCTTCTTGCCCTACAATTAAT
326 GAGTTTCTCTTCTTGCCCTACAATTAAT
53785761 TTCTCCATCCCGTAATCGTTTTGGTTGGTATTAGCTTGTTGTTTTTATTCTTTATGATCGTAATA
1 TTCTCCATCCCGTAATCGTTTTGGTTGGTATTAGCTTGTTGTTTTTATTCTTTATGATCGTAATA
53785826 CCTCCTTTCTTTGGCATGCACTAGACTAGAGTTACCCATGAACTGTCTGAGATGGGGTAAATTAT
66 CCTCCTTTCTTTGGCATGCACTAGACTAGAGTTACCCATGAACTGTCTGAGATGGGGTAAATTAT
53785891 ACCTATATCTAACCACTTGATGATTTCTTTCTTTACTACGTCTTTCATGATGGATTTTAATCTTC
131 ACCTATATCTAACCACTTGATGATTTCTTTCTTTACTACGTCTTTCATGATGGATTTTAATCTTC
53785956 ATTGTCCATCAATCTTCCCTTTCTCGCCATCTTCCAAGATGATCTTGTGCATGCATACAGATGGA
196 ATTGTCCATCAATCTTCCCTTTCTCGCCATCTTCCAAGATGATCTTGTGCATGCATACAGATGGA
53786021 CAAATATTGTGAATATAGGCTATGGTCCATCCGATAGCCTTCTTGAATTATTTTAATACTTGGAT
261 CAAATATTGTGAATATAGGCTATGGTCCATCCGATAGCCTTCTTGAATTATTTTAATACTTGGAT
53786086 GAGTTTCTCTTCTTGCCCTACAATTAAT
326 GAGTTTCTCTTCTTGCCCTACAATTAAT
53786114 TTC
1 TTC
53786117 GTTGAAAAAA
Statistics
Matches: 356, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
353 356 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (353 bp):
TTCTCCATCCCGTAATCGTTTTGGTTGGTATTAGCTTGTTGTTTTTATTCTTTATGATCGTAATA
CCTCCTTTCTTTGGCATGCACTAGACTAGAGTTACCCATGAACTGTCTGAGATGGGGTAAATTAT
ACCTATATCTAACCACTTGATGATTTCTTTCTTTACTACGTCTTTCATGATGGATTTTAATCTTC
ATTGTCCATCAATCTTCCCTTTCTCGCCATCTTCCAAGATGATCTTGTGCATGCATACAGATGGA
CAAATATTGTGAATATAGGCTATGGTCCATCCGATAGCCTTCTTGAATTATTTTAATACTTGGAT
GAGTTTCTCTTCTTGCCCTACAATTAAT
Found at i:53789767 original size:20 final size:18
Alignment explanation
Indices: 53789742--53789778 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
53789732 ACTTAACACG
53789742 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
53789762 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
53789779 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:53802730 original size:26 final size:26
Alignment explanation
Indices: 53802694--53802744 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
53802684 AAAAATTGAT
53802694 AATGGGTTAGGTAAATGTTCCATGAC
1 AATGGGTTAGGTAAATGTTCCATGAC
53802720 AATGGGTTAGGTAAATGTTCCATGA
1 AATGGGTTAGGTAAATGTTCCATGA
53802745 TGGGCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (26 bp):
AATGGGTTAGGTAAATGTTCCATGAC
Found at i:53804257 original size:26 final size:26
Alignment explanation
Indices: 53804227--53804279 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
53804217 TTGACAGTTT
53804227 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
53804253 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
53804279 T
1 T
53804280 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:53809662 original size:40 final size:39
Alignment explanation
Indices: 53809617--53809746 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
53809607 CGGAATACAA
53809617 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
53809657 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
53809697 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
53809737 CCGGATATAA
1 CCGGATATAA
53809747 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:53813121 original size:68 final size:70
Alignment explanation
Indices: 53813049--53813246 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
53813039 ACACCCTGTA
* * * *
53813049 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
53813111 ATAAAT
65 ATAAAT
*
53813117 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
53813182 ATAAAT
65 ATAAAT
*
53813188 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
53813247 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:53813160 original size:41 final size:41
Alignment explanation
Indices: 53813115--53813232 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
53813105 TGAAAGATAA
53813115 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
53813156 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53813186 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53813227 ATGTAG
1 ATGTAG
53813233 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:53813172 original size:71 final size:71
Alignment explanation
Indices: 53813083--53813246 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53813073 GAGATGTATC
53813083 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53813148 AGGACA
66 AGGACA
53813154 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53813219 AGGACA
66 AGGACA
53813225 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53813247 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53817134 original size:40 final size:40
Alignment explanation
Indices: 53817049--53817199 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
53817039 AATTGAATGA
* * * *
53817049 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
53817089 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
53817130 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
53817169 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
53817200 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:53817213 original size:40 final size:40
Alignment explanation
Indices: 53817086--53817215 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
53817076 ATGCTGGAAA
* * *
53817086 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
53817126 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
53817166 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
53817206 TTATATCCGG
1 TTATATCCGG
53817216 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:53817214 original size:80 final size:80
Alignment explanation
Indices: 53817048--53817215 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
53817038 AAATTGAATG
* *
53817048 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
53817113 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
53817128 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
53817191 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
53817208 ATATCCGG
1 ATATCCGG
53817216 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:53825104 original size:40 final size:40
Alignment explanation
Indices: 53825038--53825188 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
53825028 AAATTGAATG
* *
53825038 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
53825077 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
53825117 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
53825157 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
53825189 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:53825202 original size:40 final size:40
Alignment explanation
Indices: 53825075--53825204 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
53825065 ATGCTGGAAA
* * *
53825075 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
53825115 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
53825155 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
53825195 TTATATCCGG
1 TTATATCCGG
53825205 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:53825203 original size:80 final size:79
Alignment explanation
Indices: 53825038--53825204 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
53825028 AAATTGAATG
*
53825038 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
53825103 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
53825117 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
53825180 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
53825197 ATATCCGG
1 ATATCCGG
53825205 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:53838393 original size:20 final size:20
Alignment explanation
Indices: 53838368--53838439 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
53838358 CGGGTAAGGG
*
53838368 ACACGGGTGTGTCCCAATGC
1 ACACGGGAGTGTCCCAATGC
53838388 ACACGGGAGTGTCCCAATGC
1 ACACGGGAGTGTCCCAATGC
*
53838408 ACACGAGAGTGTCCCAATGC
1 ACACGGGAGTGTCCCAATGC
53838428 ACACGGGAGTGT
1 ACACGGGAGTGT
53838440 GCATTGCCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.17
Consensus pattern (20 bp):
ACACGGGAGTGTCCCAATGC
Found at i:53840567 original size:24 final size:24
Alignment explanation
Indices: 53840535--53840580 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
53840525 ATGAGCTGGG
53840535 AATCAGTAAGCTC-TCACGAGCTAC
1 AATCAGTAAGCTCAT-ACGAGCTAC
*
53840559 AATCGGTAAGCTCATACGAGCT
1 AATCAGTAAGCTCATACGAGCT
53840581 GTGGTGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
AATCAGTAAGCTCATACGAGCTAC
Found at i:53844001 original size:28 final size:28
Alignment explanation
Indices: 53843952--53844064 Score: 131
Period size: 28 Copynumber: 4.1 Consensus size: 28
53843942 GACTATGAGC
* *
53843952 GTGATTAGG-CTGACGGGCCATATGAAA
1 GTGATTAGGCCTGATGGGCCATATGAAT
53843979 GTGATTAGGCCTGATGGGCCATATGAAT
1 GTGATTAGGCCTGATGGGCCATATGAAT
* **
53844007 GTGATTGGGCCCCATGGGCCATATGAAT
1 GTGATTAGGCCTGATGGGCCATATGAAT
* * *
53844035 GAGATTGGGCCT-AGTGGGCCATATGCAT
1 GTGATTAGGCCTGA-TGGGCCATATGAAT
53844063 GT
1 GT
53844065 ATGTAGACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
27 10 0.13
28 65 0.87
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.26
Consensus pattern (28 bp):
GTGATTAGGCCTGATGGGCCATATGAAT
Found at i:53845333 original size:17 final size:18
Alignment explanation
Indices: 53845300--53845333 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53845290 TTCAAAGAAG
53845300 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
53845318 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
53845334 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Done.