Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015344.1 Kokia drynarioides strain JFW-HI SEQ_130391, whole genome shotgun sequence
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: 296268
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 363 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:8704 original size:7 final size:7
Alignment explanation
Indices: 8692--8717 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8682 ACTATAAATA
8692 GAAGAAT
1 GAAGAAT
8699 GAAGAAT
1 GAAGAAT
8706 GAAGAAT
1 GAAGAAT
8713 GAAGA
1 GAAGA
8718 GATCATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.12
Consensus pattern (7 bp):
GAAGAAT
Found at i:9448 original size:13 final size:14
Alignment explanation
Indices: 9419--9448 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9409 TTCAGTACAT
9419 TGACATTTAACCTC
1 TGACATTTAACCTC
9433 TGACATTTAA-CTC
1 TGACATTTAACCTC
9446 TGA
1 TGA
9449 TTGCGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:14752 original size:28 final size:28
Alignment explanation
Indices: 14684--14754 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
14674 TCAACGGTCA
*
14684 TCGATTCGGTCAAAGTCAACGGTTCAGT
1 TCGATTCGGTCAAAGTCAACAGTTCAGT
* * * *
14712 TCGGTTTGATCAAATTCAACAGTTCAGT
1 TCGATTCGGTCAAAGTCAACAGTTCAGT
14740 TCGATTCGGTCAAAG
1 TCGATTCGGTCAAAG
14755 CAAGCGGATC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (28 bp):
TCGATTCGGTCAAAGTCAACAGTTCAGT
Found at i:15622 original size:29 final size:30
Alignment explanation
Indices: 15557--15622 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
15547 ATATCCATTG
* * *
15557 GTCCCCAAATTCACAATTTGACTTAATTAA
1 GTCCCTAAATTCACAAGTTGACTCAATTAA
15587 GTCCCTAAATTCACAAGTT-ACTCAATTTAA
1 GTCCCTAAATTCACAAGTTGACTCAA-TTAA
15617 -TCCCTA
1 GTCCCTA
15623 TATTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (30 bp):
GTCCCTAAATTCACAAGTTGACTCAATTAA
Found at i:15981 original size:20 final size:19
Alignment explanation
Indices: 15954--16005 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
15944 TTTGTCTTTG
15954 TTTT-AATTAGATTTAGGGT
1 TTTTAAATTAGATTTA-GGT
*
15973 TTTTAAATTAGGGTTTAGGT
1 TTTTAAATTA-GATTTAGGT
15993 TTTTAAAATTAGA
1 TTTT-AAATTAGA
16006 GTTTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTTAAATTAGATTTAGGT
Found at i:15991 original size:21 final size:21
Alignment explanation
Indices: 15958--16009 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15948 TCTTTGTTTT
15958 AATTAGA-TTTAGGGTTTTT-A
1 AATTAGAGTTTA-GGTTTTTAA
*
15978 AATTAGGGTTTAGGTTTTTAA
1 AATTAGAGTTTAGGTTTTTAA
15999 AATTAGAGTTT
1 AATTAGAGTTT
16010 TAATATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
AATTAGAGTTTAGGTTTTTAA
Found at i:16791 original size:18 final size:18
Alignment explanation
Indices: 16749--16791 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16739 AAGTTGTGGA
*
16749 AATTAAGGTGACGATTGG
1 AATTGAGGTGACGATTGG
* * *
16767 TACTGAGGTGGCGATTGG
1 AATTGAGGTGACGATTGG
16785 AATTGAG
1 AATTGAG
16792 TTGAGCTCCC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.37, T:0.28
Consensus pattern (18 bp):
AATTGAGGTGACGATTGG
Found at i:18589 original size:9 final size:9
Alignment explanation
Indices: 18524--18602 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
18514 AAAATTAATT
*
18524 AAATTATAA
1 AAATAATAA
18533 AAATAATATA
1 AAATAATA-A
18543 AAATAATTAA
1 AAATAA-TAA
* * *
18553 ATATTATTA
1 AAATAATAA
*
18562 AAA-AATAGTT
1 AAATAATA--A
*
18572 AAATTATAA
1 AAATAATAA
18581 AAATAATAA
1 AAATAATAA
*
18590 AAATAAAAA
1 AAATAATAA
18599 AAAT
1 AAAT
18603 TAAAATTAAC
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
8 2 0.04
9 31 0.58
10 15 0.28
11 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (9 bp):
AAATAATAA
Found at i:18598 original size:16 final size:16
Alignment explanation
Indices: 18511--18608 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 16
18501 TAAACAATAT
*
18511 TAAAAAATTAATTAAAT
1 TAAAAAA-TAATTAAAA
18528 TATAAAAATAATATAAAA
1 TA-AAAAATAAT-TAAAA
* *
18546 TAATTAAAT-ATT--AT
1 TAA-AAAATAATTAAAA
* *
18560 TAAAAAATAGTTAAAT
1 TAAAAAATAATTAAAA
*
18576 TATAAAAATAATAAAAA
1 TA-AAAAATAATTAAAA
18593 TAAAAAA-AATTAAAA
1 TAAAAAATAATTAAAA
18608 T
1 T
18609 TAACTCTTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
13 4 0.06
14 6 0.09
15 8 0.12
16 10 0.15
17 22 0.34
18 15 0.23
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (16 bp):
TAAAAAATAATTAAAA
Found at i:18746 original size:9 final size:9
Alignment explanation
Indices: 18719--18754 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
18709 AAAAAAATTA
18719 GAGAATTTT
1 GAGAATTTT
*
18728 AAGAATTTT
1 GAGAATTTT
18737 GAGAATTTT
1 GAGAATTTT
*
18746 GAGAGTTTT
1 GAGAATTTT
18755 TAGAGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
GAGAATTTT
Found at i:18776 original size:11 final size:12
Alignment explanation
Indices: 18753--18786 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18743 TTTGAGAGTT
18753 TTTAGAGAGAAA
1 TTTAGAGAGAAA
18765 TTTAGAGA-AAA
1 TTTAGAGAGAAA
*
18776 TTGAGAGAGAA
1 TTTAGAGAGAA
18787 TAGTGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (12 bp):
TTTAGAGAGAAA
Found at i:19827 original size:24 final size:24
Alignment explanation
Indices: 19783--19828 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19773 GGGGAAACTT
*
19783 AATCCTTCGAATTCATTCTTGTAG
1 AATCCTTCGAATTCATACTTGTAG
*
19807 AATCCTT-GATTTGCATACTTGT
1 AATCCTTCGAATT-CATACTTGT
19829 GAAATGCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (24 bp):
AATCCTTCGAATTCATACTTGTAG
Found at i:23776 original size:18 final size:17
Alignment explanation
Indices: 23753--23823 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
23743 CAATTTCATA
23753 TTTTATCTTTAAAATAAT
1 TTTTAT-TTTAAAATAAT
**
23771 TTTTATTAAAAAATCATAT
1 TTTTATTTTAAAAT-A-AT
* *
23790 TTTTATATTTAATATATT
1 TTTTAT-TTTAAAATAAT
*
23808 TTTTAATTTCAAAATA
1 TTTT-ATTTTAAAATA
23824 CATAAGTGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 6 0.15
18 19 0.46
19 11 0.27
20 5 0.12
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATTTTAAAATAAT
Found at i:26005 original size:12 final size:12
Alignment explanation
Indices: 25988--26021 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
25978 AGTCTAATGC
*
25988 CCTCTTCCTCGG
1 CCTCTTCCTCGA
26000 CCTCTTCCTCGA
1 CCTCTTCCTCGA
26012 CCTCTTCCTC
1 CCTCTTCCTC
26022 TGAAACTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.53, G:0.09, T:0.35
Consensus pattern (12 bp):
CCTCTTCCTCGA
Found at i:32835 original size:30 final size:30
Alignment explanation
Indices: 32722--32844 Score: 115
Period size: 30 Copynumber: 4.1 Consensus size: 30
32712 AAAACTAAAA
* * * *
32722 TTTTGGAATGTTTGAGGGTTAAAATGCAA-
1 TTTTTGAAAGTTTAAGGGTTAAAATGTAAT
*
32751 TCTTTGTAAAGTTTAAGGGTTAAAATGTAAT
1 TTTTTG-AAAGTTTAAGGGTTAAAATGTAAT
* * *
32782 TTTTAGAAAGTTTAAGGGATAAAATTTGAAT
1 TTTTTGAAAGTTTAAGGGTTAAAATGT-AAT
* **
32813 TTTTTGAAAGTTT-TGGGTTAAAACATAAT
1 TTTTTGAAAGTTTAAGGGTTAAAATGTAAT
32842 TTT
1 TTT
32845 AAATAAAACA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
29 10 0.13
30 48 0.62
31 19 0.25
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (30 bp):
TTTTTGAAAGTTTAAGGGTTAAAATGTAAT
Found at i:40895 original size:14 final size:13
Alignment explanation
Indices: 40863--40901 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
40853 AATCAAAACA
*
40863 AATAAAATGAAAT
1 AATAAAAAGAAAT
40876 AATAAAAAGAAAT
1 AATAAAAAGAAAT
40889 AACT-AAAAGAAAT
1 AA-TAAAAAGAAAT
40902 CAAATCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (13 bp):
AATAAAAAGAAAT
Found at i:51882 original size:21 final size:22
Alignment explanation
Indices: 51856--51902 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
51846 ATTACCAAAG
51856 ACACAAAAT-CCAAA-TCCATTT
1 ACACAAAATACCAAACT-CATTT
51877 ACACAAAATACCCAAACTCATTT
1 ACACAAAATA-CCAAACTCATTT
51900 ACA
1 ACA
51903 TTACACACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.39
23 13 0.57
24 1 0.04
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
ACACAAAATACCAAACTCATTT
Found at i:52829 original size:11 final size:11
Alignment explanation
Indices: 52813--52837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52803 AGAAATGATT
52813 TTTTTAAATGG
1 TTTTTAAATGG
52824 TTTTTAAATGG
1 TTTTTAAATGG
52835 TTT
1 TTT
52838 AAATAGGAAA
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTTAAATGG
Found at i:53195 original size:31 final size:28
Alignment explanation
Indices: 53153--53245 Score: 98
Period size: 31 Copynumber: 3.1 Consensus size: 28
53143 GTTTTATTTT
53153 AAAATTATATTTTAGCCCTCAAACTTTCA
1 AAAATTATATTTTA-CCCTCAAACTTTCA
*
53182 AAAATTTCATATTTTA-CCTCCAAAACTTGCTA
1 AAAA-TT-ATATTTTACCCT-C-AAACTTTC-A
* *
53214 AAAATTACATTTGACCCTCAAACTTTCA
1 AAAATTATATTTTACCCTCAAACTTTCA
53242 AAAA
1 AAAA
53246 ATTGCATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
28 5 0.09
29 14 0.26
30 10 0.19
31 20 0.37
32 5 0.09
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTATATTTTACCCTCAAACTTTCA
Found at i:53246 original size:29 final size:30
Alignment explanation
Indices: 53153--53334 Score: 151
Period size: 29 Copynumber: 6.1 Consensus size: 30
53143 GTTTTATTTT
*
53153 AAAATTATATTTT-AGCCCTCAAACTTTC-A
1 AAAATTACATTTTGA-CCCTCAAACTTTCTA
* * *
53182 AAAATTTCATATTTTA-CCTCCAAAACTTGCTA
1 AAAATTACAT-TTTGACCCT-C-AAACTTTCTA
*
53214 AAAATTACA-TTTGACCCTCAAACTTTCAA
1 AAAATTACATTTTGACCCTCAAACTTTCTA
* * * *
53243 AAAATTGCATTTTAACCCAT-AAACTTTTTG
1 AAAATTACATTTTGACCC-TCAAACTTTCTA
* **
53273 AAAATTGCATTTTGA-CCTTTAACTTTCTA
1 AAAATTACATTTTGACCCTCAAACTTTCTA
* *
53302 AAAATTGCATTTTGACCCTCAAACATTCTA
1 AAAATTACATTTTGACCCTCAAACTTTCTA
53332 AAA
1 AAA
53335 TTTTAGTTTT
Statistics
Matches: 124, Mismatches: 19, Indels: 19
0.77 0.12 0.12
Matches are distributed among these distances:
28 1 0.01
29 51 0.41
30 51 0.41
31 12 0.10
32 9 0.07
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTCAAACTTTCTA
Found at i:53278 original size:59 final size:56
Alignment explanation
Indices: 53149--53319 Score: 155
Period size: 59 Copynumber: 2.9 Consensus size: 56
53139 CCTTGTTTTA
* * * *
53149 TTTTAAAATTATATTTTAGCCCTCAAACTTTCAAAAATTTCATATTTTACCTCCAAAACT
1 TTTTAAAATTACATTTGA-CCCTCAAACTTTCAAAAATTGC--ATTTTAAC-CCAAAACT
* *
53209 TGCTAAAAATTACATTTGACCCTCAAACTTTCAAAAAATTGCATTTTAACCCATAAACT
1 T-TTTAAAATTACATTTGACCCTCAAACTTTC-AAAAATTGCATTTTAACCCA-AAACT
* ** *
53268 TTTTGAAAATTGCATTTTGA-CCTTTAACTTTCTAAAAATTGCATTTTGACCC
1 TTTT-AAAATTACA-TTTGACCCTCAAACTTTC-AAAAATTGCATTTTAACCC
53320 TCAAACATTC
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
58 4 0.04
59 49 0.53
60 19 0.20
61 21 0.23
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (56 bp):
TTTTAAAATTACATTTGACCCTCAAACTTTCAAAAATTGCATTTTAACCCAAAACT
Found at i:53336 original size:29 final size:30
Alignment explanation
Indices: 53168--53334 Score: 164
Period size: 30 Copynumber: 5.6 Consensus size: 30
53158 TATATTTTAG
* *
53168 CCCTCAAACTTTC-AAAAATTTCATATTTTA
1 CCCTCAAACTTTCTAAAAATTGCAT-TTTGA
* *
53198 -CCTCCAAAACTTGCTAAAAATTACA-TTTGA
1 CCCT-C-AAACTTTCTAAAAATTGCATTTTGA
* *
53228 CCCTCAAACTTTCAAAAAATTGCATTTTAA
1 CCCTCAAACTTTCTAAAAATTGCATTTTGA
* *
53258 CCCAT-AAACTTTTTGAAAATTGCATTTTGA
1 CCC-TCAAACTTTCTAAAAATTGCATTTTGA
**
53288 -CCTTTAACTTTCTAAAAATTGCATTTTGA
1 CCCTCAAACTTTCTAAAAATTGCATTTTGA
*
53317 CCCTCAAACATTCTAAAA
1 CCCTCAAACTTTCTAAAA
53335 TTTTAGTTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
28 1 0.01
29 43 0.38
30 48 0.43
31 11 0.10
32 9 0.08
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
CCCTCAAACTTTCTAAAAATTGCATTTTGA
Found at i:60084 original size:44 final size:42
Alignment explanation
Indices: 60014--60226 Score: 201
Period size: 44 Copynumber: 4.9 Consensus size: 42
60004 TACACCACCG
* * *
60014 TCCAATATTTTACCCCTAAGTCAAGAGAAGCAGATTAAATAATA
1 TCCAATCTTTTACCCCTAA-TCAAGAGAGGCAGATTAAA-AACA
* * * *
60058 TCTAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGACCA
1 TCCAATCTTTTACCCCTAA-TCAAGAGAGGCAGATT-AAAAACA
* * * * **
60102 TCCAATCTTTTACCCCTAATCCATAGTGGCAGATTGAAGCCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAAACA
* * * **
60144 TCCAATCTTTTACCTCTAATCAAGAGAGGCAGAATGAAGCCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAAACA
60186 TAACCTAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAA
1 T--CC-AATCTTTTACCCCTAATCAAGAGAGGCAGATTAAA
60227 GCTATAGTTC
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.29
43 13 0.09
44 54 0.38
45 34 0.24
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAAACA
Found at i:60197 original size:87 final size:86
Alignment explanation
Indices: 60014--60228 Score: 254
Period size: 87 Copynumber: 2.5 Consensus size: 86
60004 TACACCACCG
* * *** *
60014 TCCAATATTTTACCCCTAAGTCAAGAGAAGCAGATTAAATAATATCTAATCTTTTACCCCTAAGT
1 TCCAATCTTTTACCCCTAA-TCAAGAGAGGCAGATTAAA-GCCATCCAATCTTTTACCCCTAAGT
* *
60079 CAAGAGGGGCAGATTGAAGACCA
64 CAAGAGAGGCAGAATGAAGACCA
* * * * *
60102 TCCAATCTTTTACCCCTAATCCATAGTGGCAGATTGAAGCCATCCAATCTTTTACCTCTAA-TCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAGCCATCCAATCTTTTACCCCTAAGTCA
60166 AGAGAGGCAGAATGAAG-CCA
66 AGAGAGGCAGAATGAAGACCA
60186 TAACCTAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAGC
1 T--CC-AATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAGC
60229 TATAGTTCAA
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
84 4 0.04
85 18 0.17
86 20 0.19
87 47 0.44
88 18 0.17
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.26
Consensus pattern (86 bp):
TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAGCCATCCAATCTTTTACCCCTAAGTCA
AGAGAGGCAGAATGAAGACCA
Found at i:60208 original size:45 final size:42
Alignment explanation
Indices: 60014--60849 Score: 327
Period size: 45 Copynumber: 19.9 Consensus size: 42
60004 TACACCACCG
* * * ***
60014 TCCAATATTTTACCCCTAAGTCAAGAGAAGCAGATTAAATAATA
1 TCCAATCTTTTACCCCTAA-TCAAGAGAGGCAGATTGAA-GCCA
* *
60058 TCTAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGACCA
1 TCCAATCTTTTACCCCTAA-TCAAGAGAGGCAGATTGAAG-CCA
* * *
60102 TCCAATCTTTTACCCCTAATCCATAGTGGCAGATTGAAGCCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* *
60144 TCCAATCTTTTACCTCTAATCAAGAGAGGCAGAATGAAGCCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* *
60186 TAACCTAATCTTTTACCCCTAATCAAGAGAGGCAGATTAAAGCTATA
1 T--CC-AATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGC--CA
* ** * *
60233 GTTCAATCTCATACCCC-GATC-ATAG-GGCAGATTGAAG-CA
1 -TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* * *
60272 TCCAATC-TTTA-CCTTAATC-AGAG-GGTAGCTTGAAGGCACA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAA-GC-CA
* * * * *
60312 -CCAAT-TTCTTA-CCCTGACCATG-G-GACAGATTAAAGACACA
1 TCCAATCTT-TTACCCCTAATCAAGAGAGGCAGATTGAAG-C-CA
** * *
60352 -CCAATCTCATACCCC-GATCATG-G-GGCAGATTGAAG-CA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* *
60389 TCCAATCTTTTA-CCCTAATC-AGAG-GGTAGATTGAAGACA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* ** * ** * **
60428 TACTAATCTCATACCCC-GATC-TTAG-GGCGGATTGAA-TTA
1 T-CCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
* * * * *
60467 TTCAATCTTTTATCCTTAAGTTC-AGAGAGACAGATTGAAGTTATCA
1 TCCAATCTTTTACCCCTAA--TCAAGAGAGGCAGATTGAAG---CCA
* *
60513 TCCAATCTTTTACCCCTATTCAAGAGGGGCAGATTGAAGCCACCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAG---CCA
* *
60558 TCCAATCTTTTACCTCTAATCAAGAGAGGTAGATTGAAGACACA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAG-C-CA
* * * * * *
60602 -CCGATCTCTTA-CCCTGATCATGAGA--AAGATTGAAAAAGTCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTG---AAGCCA
* * * * *
60643 TCCAATCTCTTACCCC-GATC-A-TGAGGCAAATTGAAAAAGTCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTG---AAGCCA
* * * * * *
60685 TCCAATCTCTTACCCC-GACCATG-G-GGCATATTAAAGACATCA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAG-C--CA
* * *
60727 TCCAATC---TA-CCATGATC-ATAG-GGCAGATTGAAGCCATTA
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCC---A
*
60766 TCCAATCTTTTACCCTTAATCAAGAG-GAGCAGATTGAAGCCACCA
1 TCCAATCTTTTACCCCTAATCAAGAGAG-GCAGATTGAAG---CCA
*
60811 TCCAATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAG
1 TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAG
60850 ACACACTGAT
Statistics
Matches: 615, Mismatches: 117, Indels: 119
0.72 0.14 0.14
Matches are distributed among these distances:
36 3 0.00
37 23 0.04
38 43 0.07
39 41 0.07
40 76 0.12
41 14 0.02
42 137 0.22
43 44 0.07
44 66 0.11
45 145 0.24
46 19 0.03
47 1 0.00
48 3 0.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
TCCAATCTTTTACCCCTAATCAAGAGAGGCAGATTGAAGCCA
Found at i:60402 original size:78 final size:78
Alignment explanation
Indices: 60312--60622 Score: 185
Period size: 78 Copynumber: 3.8 Consensus size: 78
60302 TGAAGGCACA
* *
60312 CCAAT-TTCTTACCCTGACCATG-GGACAGATTAAAGACACACCAATCTCATACCCCGATCATGG
1 CCAATCTT-TTACCCTAACCA-GAGGACAGATTAAAGACACACCAATCTCATACCCCGATCATAG
60375 GGCAGATTGAAGCAT
64 GGCAGATTGAAGCAT
* ** * * * *
60390 CCAATCTTTTACCCTAATCAGAGGGTAGATTGAAGACATACTAATCTCATACCCCGATCTTAGGG
1 CCAATCTTTTACCCTAACCAGAGGACAGATTAAAGACACACCAATCTCATACCCCGATCATAGGG
* **
60455 CGGATTGAATTAT
66 CAGATTGAAGCAT
* * * * ** ** *
60468 TCAATCTTTTATCCTTAAGTTCAGAGAGACAGATTGAAGTTATCATCCAATCTTTTACCCCTATT
1 CCAATCTTTTA-CCCTAA--CCAGAG-GACAGATTAAAGACA-CA-CCAATCTCATACCCCGA-T
*
60533 CAAGAGGGGCAGATTGAAGCCACCAT
59 C-ATA-GGGCAGATTGAAG----CAT
* ** * * * *
60559 CCAATCTTTTACCTCTAATCAAGAGAGGTAGATTGAAGACACACCGATCTCTTACCCTGATCAT
1 CCAATCTTTTACC-CTAA-CCAGAG-GACAGATTAAAGACACACCAATCTCATACCCCGATCAT
60623 GAGAAAGATT
Statistics
Matches: 176, Mismatches: 41, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
77 1 0.01
78 71 0.40
79 7 0.04
81 6 0.03
82 11 0.06
83 1 0.01
84 13 0.07
85 2 0.01
86 2 0.01
87 13 0.07
88 13 0.07
89 2 0.01
90 19 0.11
91 15 0.09
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (78 bp):
CCAATCTTTTACCCTAACCAGAGGACAGATTAAAGACACACCAATCTCATACCCCGATCATAGGG
CAGATTGAAGCAT
Found at i:60443 original size:40 final size:39
Alignment explanation
Indices: 60085--60463 Score: 169
Period size: 40 Copynumber: 9.3 Consensus size: 39
60075 AAGTCAAGAG
** * *
60085 GGGCAGATTGAAGACCAT-CCAATCTTTTACCCCTAATCCATA
1 GGGCAGATTGAAG--CATACCAATCTCATA-CCCTGAT-CAGA
** *
60127 GTGGCAGATTGAAGCCAT-CCAATCTTTTACCTCTAATCAAGA
1 G-GGCAGATTGAAG-CATACCAATCTCATACC-CTGATC-AGA
* ** *
60169 GAGGCAGAATGAAGCCATAACCTAATCTTTTACCCCTAATCAAGA
1 G-GGCAGATTGAAG-CAT-ACC-AATCTCATA-CCCTGATC-AGA
* * * *
60214 GAGGCAGATTAAAGCTATAGTTCAATCTCATACCCCGATCATA
1 G-GGCAGATTGAAGC-ATA--CCAATCTCATACCCTGATCAGA
* * *
60257 GGGCAGATTGAAGCAT-CCAATCT-TTACCTTAATCAGA
1 GGGCAGATTGAAGCATACCAATCTCATACCCTGATCAGA
* * * * * *
60294 GGGTAGCTTGAAGGCACACCAATTTCTTACCCTGACCATG-
1 GGGCAGATTGAA-GCATACCAATCTCATACCCTGATCA-GA
* * * *
60334 GGACAGATTAAAGACACACCAATCTCATACCCCGATCATG-
1 GGGCAGATTGAAG-CATACCAATCTCATACCCTGATCA-GA
** *
60374 GGGCAGATTGAAGCAT-CCAATCTTTTACCCTAATCAGA
1 GGGCAGATTGAAGCATACCAATCTCATACCCTGATCAGA
* * * **
60412 GGGTAGATTGAAGACATACTAATCTCATACCCCGATCTTA
1 GGGCAGATTGAAG-CATACCAATCTCATACCCTGATCAGA
*
60452 GGGCGGATTGAA
1 GGGCAGATTGAA
60464 TTATTCAATC
Statistics
Matches: 269, Mismatches: 50, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
37 20 0.07
38 37 0.14
39 12 0.04
40 75 0.28
41 6 0.02
42 51 0.19
43 15 0.06
44 10 0.04
45 40 0.15
46 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
GGGCAGATTGAAGCATACCAATCTCATACCCTGATCAGA
Found at i:60728 original size:42 final size:42
Alignment explanation
Indices: 60312--60995 Score: 236
Period size: 42 Copynumber: 16.4 Consensus size: 42
60302 TGAAGGCACA
* * * *
60312 CCAATTTCTTACCCTGACCATGGGACAGATTAAAGACA-CA-
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
* *
60352 CCAATCTCATACCCCGATCATGGGGCAGATT---GA-AGCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
* ** * *
60390 CCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGACAT-A-
1 CCAATCTCTTACCCCGATCATG-GGGCAGATTAAAGACATCAT
* * * * * *
60430 CTAATCTCATACCCCGATCTTAGGGCGGATT---GA-ATTAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
* * ** * * * **
60468 TCAATCTTTTATCCTTAAGTTCA-GAGAGACAGATTGAAGTTATCAT
1 CCAATCTCTTA-CC--CCGATCATG-G-GGCAGATTAAAGACATCAT
* * * * * *
60514 CCAATCTTTTACCCCTATTCAAGAGGGGCAGATTGAAGCCACCAT
1 CCAATCTCTTACCCCGA-TC-A-TGGGGCAGATTAAAGACATCAT
* ** * * *
60559 CCAATCTTTTACCTCTAATCAAGAGAGGTAGATTGAAGACA-CA-
1 CCAATCTCTTACC-CCGATCATG-G-GGCAGATTAAAGACATCAT
* * * **
60602 CCGATCTCTTACCCTGATCATGAGAAAGATTGAAA-A-AGTCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATT-AAAGACA-TCAT
* *
60644 CCAATCTCTTACCCCGATCATGAGGCAAATTGAAA-A-AGTCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATT-AAAGACA-TCAT
* *
60686 CCAATCTCTTACCCCGACCATGGGGCATATTAAAGACATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
** * * * *
60728 CCAA--TC-TACCATGATCATAGGGCAGATTGAAGCCATTAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
* ** * * * *
60767 CCAATCTTTTACCCTTAATCAAGAGGAGCAGATTGAAGCCACCAT
1 CCAATCTCTTACCC-CGATCATG-GG-GCAGATTAAAGACATCAT
* ** * *
60812 CCAATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACA-CA-
1 CCAATCTCTTACC-CCGATCATG-G-GGCAGATTAAAGACATCAT
** * * * *
60855 CTGATATCTTACCCTGATCATGAGGTAGATTGAAA-A-AGTCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATT-AAAGACA-TCAT
* * * * *
60897 CCAATCTCTTACCCCAACCATGGGGCAAATTGAAGATATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
* *
60939 TCAATCTCTTACCCCGATCATGGGGCAGATTAAAGCCA-CTAT
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATC-AT
*
60981 CCAATCTTTTACCCC
1 CCAATCTCTTACCCC
60996 TAAATCAAGA
Statistics
Matches: 491, Mismatches: 106, Indels: 92
0.71 0.15 0.13
Matches are distributed among these distances:
36 3 0.01
37 8 0.02
38 31 0.06
39 33 0.07
40 64 0.13
41 22 0.04
42 172 0.35
43 29 0.06
44 10 0.02
45 99 0.20
46 19 0.04
47 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCAT
Found at i:60800 original size:253 final size:253
Alignment explanation
Indices: 60497--60987 Score: 779
Period size: 253 Copynumber: 1.9 Consensus size: 253
60487 TTCAGAGAGA
** * *
60497 CAGATTGAAGTTATCATCCAATCTTTTACCCCTATTCAAGAGGGGCAGATTGAAGCCACCATCCA
1 CAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGGAGCAGATTGAAGCCACCATCCA
* *
60562 ATCTTTTACCTCTAATCAAGAGAGGTAGATTGAAGACACACCGATCTCTTACCCTGATCATGAGA
66 ATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACACACCGATATCTTACCCTGATCATGAGA
* *
60627 AAGATTGAAAAAGTCATCCAATCTCTTACCCCGATCATGAGGCAAATTGAA-AAAGTCATCCAAT
131 AAGATTGAAAAAGTCATCCAATCTCTTACCCCAACCATGAGGCAAATTGAAGAAA-TCATCCAAT
*
60691 CTCTTACCCCGACCATGGGGCATATTAAAGACA-TCATCCAATCTACCATGATCATAGGG
195 CTCTTACCCCGACCATGGGGCAGATTAAAGACACT-ATCCAATCTACCATGATCATAGGG
* *
60750 CAGATTGAAGCCATTATCCAATCTTTTACCCTTAATCAAGAGGAGCAGATTGAAGCCACCATCCA
1 CAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGGAGCAGATTGAAGCCACCATCCA
* *
60815 ATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACACACTGATATCTTACCCTGATCATGAGG
66 ATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACACACCGATATCTTACCCTGATCATGAGA
* * * *
60880 TAGATTGAAAAAGTCATCCAATCTCTTACCCCAACCATGGGGCAAATTGAAGATATCATTCAATC
131 AAGATTGAAAAAGTCATCCAATCTCTTACCCCAACCATGAGGCAAATTGAAGAAATCATCCAATC
* *
60945 TCTTACCCCGATCATGGGGCAGATTAAAGCCACTATCCAATCT
196 TCTTACCCCGACCATGGGGCAGATTAAAGACACTATCCAATCT
60988 TTTACCCCTA
Statistics
Matches: 217, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
253 214 0.99
254 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (253 bp):
CAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGGAGCAGATTGAAGCCACCATCCA
ATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACACACCGATATCTTACCCTGATCATGAGA
AAGATTGAAAAAGTCATCCAATCTCTTACCCCAACCATGAGGCAAATTGAAGAAATCATCCAATC
TCTTACCCCGACCATGGGGCAGATTAAAGACACTATCCAATCTACCATGATCATAGGG
Found at i:62701 original size:19 final size:19
Alignment explanation
Indices: 62679--62730 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
62669 CATTTTTTCT
62679 ATTTTTTAATTTATTTTAA
1 ATTTTTTAATTTATTTTAA
** *
62698 ATTTGCCT-AGTTATTTTAA
1 ATTT-TTTAATTTATTTTAA
62717 ATGTTTTTAATTTA
1 AT-TTTTTAATTTA
62731 GTCTCTAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTTTTTAATTTATTTTAA
Found at i:65031 original size:46 final size:46
Alignment explanation
Indices: 64967--65238 Score: 269
Period size: 46 Copynumber: 5.8 Consensus size: 46
64957 TTTTACCTTT
* * * * * *
64967 TTAAATGTTAATATGATTTATGCTTAAATATTACTGTGATTTTTTC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* * *
65013 TTTAATATTAATGCGATTTATGCTTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* *
65059 TTAAATATTAATGTGATTTGTG-TTAAATATTAATATGATTTATAC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* * * * *
65104 TTAAATGTTAATATGATTTATACTTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
65150 TTAAATATTAATGTCATTAATGTGATTTATG-TTAAATATTAATATGATTTATGC
1 -T---TA--AA--T-ATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
* * **
65204 TTAAATGTTAATCTGATTTATATTTAAATATTAAT
1 TTAAATATTAATGTGATTTATGCTTAAATATTAAT
65239 GTGACTAAAT
Statistics
Matches: 186, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
45 52 0.28
46 89 0.48
47 1 0.01
48 2 0.01
50 4 0.02
52 2 0.01
53 1 0.01
54 22 0.12
55 13 0.07
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.49
Consensus pattern (46 bp):
TTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTATGC
Found at i:65123 original size:91 final size:92
Alignment explanation
Indices: 64966--65238 Score: 296
Period size: 100 Copynumber: 2.9 Consensus size: 92
64956 TTTTTACCTT
* * * * * * * * **
64966 TTTAAATGTTAATATGATTTATGCTTAAATATTACTGTGATTTTTTCTTTAATATTAATGCGATT
1 TTTAAATATTAATGTGATTTATG-TTAAATATTAATATGATTTATACTTAAATGTTAATATGATT
* *
65031 TATGCTTAAATGTTAATATGATTTATGC
65 TATACTTAAATATTAATATGATTTATGC
*
65059 -TTAAATATTAATGTGATTTGTGTTAAATATTAATATGATTTATACTTAAATGTTAATATGATTT
1 TTTAAATATTAATGTGATTTATGTTAAATATTAATATGATTTATACTTAAATGTTAATATGATTT
* *
65123 ATACTTAAATATTAATGTGATTTGTGC
66 ATACTTAAATATTAATATGATTTATGC
*
65150 TTAAATATTAATGTCATTAATGTGATTTATGTTAAATATTAATATGATTTATGCTTAAATGTTAA
1 TT---TA--AA--T-ATTAATGTGATTTATGTTAAATATTAATATGATTTATACTTAAATGTTAA
* *
65215 TCTGATTTATATTTAAATATTAAT
58 TATGATTTATACTTAAATATTAAT
65239 GTGACTAAAT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
91 57 0.38
92 20 0.13
95 2 0.01
97 2 0.01
99 1 0.01
100 70 0.46
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.49
Consensus pattern (92 bp):
TTTAAATATTAATGTGATTTATGTTAAATATTAATATGATTTATACTTAAATGTTAATATGATTT
ATACTTAAATATTAATATGATTTATGC
Found at i:65162 original size:23 final size:23
Alignment explanation
Indices: 64967--65163 Score: 243
Period size: 23 Copynumber: 8.6 Consensus size: 23
64957 TTTTACCTTT
* *
64967 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* * *
64990 TTAAATATTACTGTGATTTTTTC
1 TTAAATATTAATGTGATTTATGC
* *
65013 TTTAATATTAATGCGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
65036 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
65059 TTAAATATTAATGTGATTTGTG-
1 TTAAATATTAATGTGATTTATGC
* *
65081 TTAAATATTAATATGATTTATAC
1 TTAAATATTAATGTGATTTATGC
* * *
65104 TTAAATGTTAATATGATTTATAC
1 TTAAATATTAATGTGATTTATGC
*
65127 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
65150 TTAAATATTAATGT
1 TTAAATATTAATGT
65164 CATTAATGTG
Statistics
Matches: 148, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
22 19 0.13
23 129 0.87
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:65188 original size:31 final size:32
Alignment explanation
Indices: 65133--65192 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
65123 ATACTTAAAT
*
65133 ATTAATGTGATTTGTGCTTAAATATTAATGTC
1 ATTAATGTGATTTATGCTTAAATATTAATGTC
65165 ATTAATGTGATTTATG-TTAAATATTAAT
1 ATTAATGTGATTTATGCTTAAATATTAAT
65193 ATGATTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (32 bp):
ATTAATGTGATTTATGCTTAAATATTAATGTC
Found at i:65190 original size:22 final size:22
Alignment explanation
Indices: 65165--65242 Score: 102
Period size: 23 Copynumber: 3.5 Consensus size: 22
65155 TATTAATGTC
65165 ATTAATGTGATTTATGTTAAAT
1 ATTAATGTGATTTATGTTAAAT
*
65187 ATTAATATGATTTATGCTTAAAT
1 ATTAATGTGATTTATG-TTAAAT
* * *
65210 GTTAATCTGATTTATATTTAAAT
1 ATTAATGTGATTTAT-GTTAAAT
65233 ATTAATGTGA
1 ATTAATGTGA
65243 CTAAATGTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 15 0.31
23 33 0.69
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.49
Consensus pattern (22 bp):
ATTAATGTGATTTATGTTAAAT
Found at i:65198 original size:54 final size:55
Alignment explanation
Indices: 65111--65215 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
65101 TACTTAAATG
* *
65111 TTAATATGATTTATACTTAAATATTAATGTGATTTGTGCTTAAATATTAATGTCA
1 TTAATATGATTTATACTTAAATATTAATATGATTTATGCTTAAATATTAATGTCA
* * *
65166 TTAATGTGATTTAT-GTTAAATATTAATATGATTTATGCTTAAATGTTAAT
1 TTAATATGATTTATACTTAAATATTAATATGATTTATGCTTAAATATTAAT
65216 CTGATTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 32 0.71
55 13 0.29
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (55 bp):
TTAATATGATTTATACTTAAATATTAATATGATTTATGCTTAAATATTAATGTCA
Found at i:65215 original size:77 final size:78
Alignment explanation
Indices: 65087--65254 Score: 221
Period size: 77 Copynumber: 2.2 Consensus size: 78
65077 TGTGTTAAAT
* * * * *
65087 ATTAATATGATTTATACTTAAATGTTAATATGATTTATACTTAAATATTAATGTGATTTGTGCTT
1 ATTAATGTGATTTATACTTAAATATTAATATGATTTATACTTAAATATTAATCTGATTTATACTT
65152 AAATATTAATGTC
66 AAATATTAATGTC
* * * *
65165 ATTAATGTGATTTAT-GTTAAATATTAATATGATTTATGCTTAAATGTTAATCTGATTTATATTT
1 ATTAATGTGATTTATACTTAAATATTAATATGATTTATACTTAAATATTAATCTGATTTATACTT
*
65229 AAATATTAATGTG
66 AAATATTAATGTC
*
65242 ACTAAATGTGATT
1 A-TTAATGTGATT
65255 AATATGCGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 54 0.69
78 24 0.31
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (78 bp):
ATTAATGTGATTTATACTTAAATATTAATATGATTTATACTTAAATATTAATCTGATTTATACTT
AAATATTAATGTC
Found at i:65336 original size:39 final size:39
Alignment explanation
Indices: 65247--65338 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
65237 ATGTGACTAA
* *
65247 ATGTGATTAATATGCGATCTGATAAATGTTGAAATATTC
1 ATGTGATTAATATGCGATATGATAAATGCTGAAATATTC
* * *
65286 ATATAATTAATATGTGATATGATAAATGCTGAAATATTC
1 ATGTGATTAATATGCGATATGATAAATGCTGAAATATTC
*
65325 ATGTGACTAATATG
1 ATGTGATTAATATG
65339 ATTAAATGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (39 bp):
ATGTGATTAATATGCGATATGATAAATGCTGAAATATTC
Found at i:79255 original size:23 final size:24
Alignment explanation
Indices: 79224--79273 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
79214 CCATGAATTG
79224 TTTATGGTTGTCGAATTTGGAGAT
1 TTTATGGTTGTCGAATTTGGAGAT
* *
79248 TTTA-GGTTGTTGAATTTGGGGAT
1 TTTATGGTTGTCGAATTTGGAGAT
79271 TTT
1 TTT
79274 GAATTTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (24 bp):
TTTATGGTTGTCGAATTTGGAGAT
Found at i:79275 original size:15 final size:15
Alignment explanation
Indices: 79257--79336 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 15
79247 TTTTAGGTTG
79257 TTGAATTTGGGGATT
1 TTGAATTTGGGGATT
79272 TTGAATTTGGGTAAGAGTT
1 TTGAATTTGGG---GA-TT
79291 TTG-ATTTGGGGATTT
1 TTGAATTTGGGGA-TT
* *
79306 TTG--TTTAGGGTTT
1 TTGAATTTGGGGATT
* *
79319 TTGATTTTGGAGATT
1 TTGAATTTGGGGATT
79334 TTG
1 TTG
79337 GGTTAGTGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
13 5 0.09
14 6 0.11
15 28 0.53
18 9 0.17
19 5 0.09
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.51
Consensus pattern (15 bp):
TTGAATTTGGGGATT
Found at i:79320 original size:14 final size:15
Alignment explanation
Indices: 79289--79335 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
79279 TGGGTAAGAG
*
79289 TTTTGATTTGGGGAT
1 TTTTGATTTAGGGAT
79304 TTTTG-TTTAGGG-T
1 TTTTGATTTAGGGAT
*
79317 TTTTGATTTTGGAGAT
1 TTTTGATTTAGG-GAT
79333 TTT
1 TTT
79336 GGGTTAGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 6 0.22
16 4 0.15
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.60
Consensus pattern (15 bp):
TTTTGATTTAGGGAT
Found at i:79970 original size:17 final size:18
Alignment explanation
Indices: 79948--79987 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
79938 TCATTAAAAT
79948 TTTTAACTAT-TTTTTAA
1 TTTTAACTATGTTTTTAA
*
79965 TTTTAATTATGTTTTTAA
1 TTTTAACTATGTTTTTAA
*
79983 GTTTA
1 TTTTA
79988 TTTTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTAACTATGTTTTTAA
Found at i:83582 original size:18 final size:19
Alignment explanation
Indices: 83559--83604 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
83549 TCAAACATCT
*
83559 TGTCTTCTTTG-TTTTTTA
1 TGTCTTCTTTGCTCTTTTA
*
83577 TGTCTT-TCTGCTCTTTTA
1 TGTCTTCTTTGCTCTTTTA
*
83595 AGTCTTCTTT
1 TGTCTTCTTT
83605 TGGCTAAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 3 0.14
18 17 0.77
19 2 0.09
ACGTcount: A:0.07, C:0.17, G:0.11, T:0.65
Consensus pattern (19 bp):
TGTCTTCTTTGCTCTTTTA
Found at i:88274 original size:45 final size:45
Alignment explanation
Indices: 88196--88895 Score: 436
Period size: 45 Copynumber: 16.3 Consensus size: 45
88186 AGATGGTAGT
* * *
88196 TTCAATCTGTCCATCTTGATTTACGGGTAAAAGATTGGATGATGGC
1 TTCAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGATGATGGC
* * * * * * * *
88242 TTCAATCTACCACTCTTAACTACGAGTAAAAGATTGGATGGTGAC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* *
88287 TTTAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGGTGGC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* * *
88332 TTCAATCTGCCCCTCTTGATT-AGGAATAAAAGACTGGATGGTGGC
1 TTCAATCTGCCCCTCTTGATTAAGG-GTAAAAGATTGGATGATGGC
* * * *
88377 TTCAATTTGCACCTCTTGACTAAAGGGTAAAAGCTTGGAT-AGTGGC
1 TTCAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGATGA-TGGC
* * * * *
88423 TTCAATTTTCCCTTCTTGATTAAGGGTAAAAGATTGTATGATGAC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* **
88468 TTCAATCTACCCCTCTTGATTTAAGGGTAAAAGATTGGATCG-TCAC
1 TTCAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGAT-GATGGC
* ** * * *
88514 TTCAATATGCCTTTCTTGATTAGGGGTAAAAGATTTGATGGTGGC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
*
88559 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT-G--GATGGC
1 TTCAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGATGATGGC
* ** * * *
88602 TTCAATCT-ACCC-AATAATT-AGGGTAAAAGATTAGAT-A-GTC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
** * *
88642 TTCAATCTG-CCCAATAG-TT-AGGGTAAAAGATTGGATG--GTC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* *
88682 TTCAATCTG--CCTTTTGGTT-AGGGTAAAAGATT-G--GATGGC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* * * ** * * * * * *
88721 TTTAATCTG-CCC-CATG-GTCGGGGTTAGATATTTGATGGTGTC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* *
88763 TTCAATCTG-CCATC-TGGTT-AGGGTAAAAGATT-G--GATGGC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* * ** * * *
88802 TTCAATCTG-CCC-CATG-GTCGGGGTAAGAGATTGGATGGTGTC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
* *
88844 TTCAATATG-CCCTC-TGGTT-AGGGTAAAAGATT-G--GATGGC
1 TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
88883 TTCAATCTGCCCC
1 TTCAATCTGCCCC
88896 ATGGTCGAGG
Statistics
Matches: 524, Mismatches: 97, Indels: 72
0.76 0.14 0.10
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 78 0.15
40 68 0.13
41 6 0.01
42 56 0.11
43 17 0.03
44 4 0.01
45 187 0.36
46 100 0.19
47 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGATGGC
Found at i:88440 original size:91 final size:90
Alignment explanation
Indices: 88196--88719 Score: 490
Period size: 91 Copynumber: 6.0 Consensus size: 90
88186 AGATGGTAGT
* * * * * *
88196 TTCAATCTGTCCATCTTGATTTACGGGTAAAAGATTGGATGATGGCTTCAATCTACCAC-TCTTA
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATG-TGGCTTCAATCTGCC-CTTCTTG
* *
88260 ACTACGAGTAAAAGATTGGATGGTGAC
64 ATTAGGAGTAAAAGATTGGATGGTGAC
* *
88287 TTTAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGA
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAT-GTGGCTTCAATCTGCCCTTCTTGA
* * *
88351 TTAGGAATAAAAGACTGGATGGTGGC
65 TTAGGAGTAAAAGATTGGATGGTGAC
* * * * * *
88377 TTCAATTTGCACCTCTTGACTAAAGGGTAAAAGCTTGGATAGTGGCTTCAATTTTCCCTTCTTGA
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAT-GTGGCTTCAATCTGCCCTTCTTGA
* *
88442 TTAAGG-GTAAAAGATTGTATGATGAC
65 TT-AGGAGTAAAAGATTGGATGGTGAC
* * ** * *
88468 TTCAATCTACCCCTCTTGATTTAAGGGTAAAAGATTGGATCGTCACTTCAATATGCCTTTCTTGA
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAT-GTGGCTTCAATCTGCCCTTCTTGA
* * *
88533 TTAGGGGTAAAAGATTTGATGGTGGC
65 TTAGGAGTAAAAGATTGGATGGTGAC
* * ** *
88559 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA--TGGCTTCAATCTACCC--AATAAT
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGTGGCTTCAATCTGCCCTTCTTGAT
* *
88620 TAGG-GTAAAAGATTAGATAGT--C
66 TAGGAGTAAAAGATTGGATGGTGAC
** * * *
88642 TTCAATCTG-CCC-AAT-AGTT-AGGGTAAAAGATTGGATG-GTCTTCAATCTG-CCTT-TTGGT
1 TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGTGGCTTCAATCTGCCCTTCTTGAT
88700 TAGG-GTAAAAGATTGGATGG
66 TAGGAGTAAAAGATTGGATGG
88720 CTTTAATCTG
Statistics
Matches: 359, Mismatches: 65, Indels: 29
0.79 0.14 0.06
Matches are distributed among these distances:
79 17 0.05
80 33 0.09
81 1 0.00
82 3 0.01
83 10 0.03
85 15 0.04
86 7 0.02
88 11 0.03
89 1 0.00
90 78 0.22
91 180 0.50
92 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (90 bp):
TTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGTGGCTTCAATCTGCCCTTCTTGAT
TAGGAGTAAAAGATTGGATGGTGAC
Found at i:88440 original size:136 final size:135
Alignment explanation
Indices: 88187--88881 Score: 481
Period size: 136 Copynumber: 5.4 Consensus size: 135
88177 GCTTTTGTGA
* * * * * * *
88187 GATGGTAGTTTCAATCTGTCCATCTTGATTTACGGGTAAAAGATTGGATGATGGCTTCAATCTAC
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTTA-GGGTAAAAGATTGGATGGTGGCTTCAATATGC
* * * * *
88252 CACTCTTAACTACGAGTAAAAGATTGGATGGTGACTTTAATCTGCCCCTCTTGATTAAGGGTAAA
65 CACTCTTGACTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGATTAAGGGTAAA
88317 AGATTG
130 AGATTG
* * *
88323 GATGGTGGCTTCAATCTGCCCCTCTTGA-TTAGGAATAAAAGACTGGATGGTGGCTTCAATTTG-
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTTAGG-GTAAAAGATTGGATGGTGGCTTCAATATGC
* * * * *
88386 CACCTCTTGACTAAAGGGTAAAAGCTTGGATAGTGGCTTCAATTTTCCCTTCTTGATTAAGGGTA
65 CA-CTCTTGACT-AAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGATTAAGGGTA
88451 AAAGATTG
128 AAAGATTG
* * * * * **
88459 TATGATGACTTCAATCTACCCCTCTTGATTTAAGGGTAAAAGATTGGATCGTCACTTCAATATGC
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTT-AGGGTAAAAGATTGGATGGTGGCTTCAATATGC
** * * * *
88524 CTTTCTTGATTAGGGGTAAAAGATTTGATGGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAA
65 CACTCTTGACTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGA-TTAAGGGTAA
88589 AAGATTG
129 AAGATTG
* ** * * * *
88596 GA---TGGCTTCAATCT-ACCC-AAT-AATTAGGGTAAAAGATTAGATAGT--CTTCAATCTGCC
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTTAGGGTAAAAGATTGGATGGTGGCTTCAATATGCC
** * * * *
88653 -C-AAT-AGTTAGGGTAAAAGATTGGATGGT--CTTCAATCTG--CCTTTTGGTT-AGGGTAAAA
66 ACTCTTGACTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGATTAAGGGTAAAA
88710 GATTG
131 GATTG
* * * ** * * * * * *
88715 GA---TGGCTTTAATCTG-CCC-CATG-GTCGGGGTTAGATATTTGATGGTGTCTTCAATCTGCC
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTTAGGGTAAAAGATTGGATGGTGGCTTCAATATGCC
* * * * ** *
88774 A-TC-TG-GTTAGGGTAAAAGATTGGA---TGGCTTCAATCTG-CCC-CATG-GTCGGGGTAAGA
66 ACTCTTGACTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGATTAAGGGTAAAA
88830 GATTG
131 GATTG
* * *
88835 GATGGTGTCTTCAATATG-CCCTC-TG-GTTAGGGTAAAAGATTGGATGG
1 GATGGTGGCTTCAATCTGCCCCTCTTGATTTAGGGTAAAAGATTGGATGG
88882 CTTCAATCTG
Statistics
Matches: 453, Mismatches: 84, Indels: 57
0.76 0.14 0.10
Matches are distributed among these distances:
118 1 0.00
119 47 0.10
120 28 0.06
121 40 0.09
123 41 0.09
124 1 0.00
125 20 0.04
126 1 0.00
128 11 0.02
130 18 0.04
131 3 0.01
132 1 0.00
133 3 0.01
134 15 0.03
135 35 0.08
136 135 0.30
137 49 0.11
138 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (135 bp):
GATGGTGGCTTCAATCTGCCCCTCTTGATTTAGGGTAAAAGATTGGATGGTGGCTTCAATATGCC
ACTCTTGACTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGATTAAGGGTAAAA
GATTG
Found at i:88633 original size:39 final size:39
Alignment explanation
Indices: 88583--88920 Score: 320
Period size: 39 Copynumber: 8.5 Consensus size: 39
88573 CTTGACTTAG
* **
88583 GGGTAAAAGATTGGATGGCTTCAATCTACCCAATAATTA
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCAATGGTTA
* * *
88622 GGGTAAAAGATTAGATAGTCTTCAATCTGCCCAATAGTTA
1 GGGTAAAAGATTGGAT-GGCTTCAATCTGCCCAATGGTTA
***
88662 GGGTAAAAGATTGGATGGTCTTCAATCTGCCTTTTGGTTA
1 GGGTAAAAGATTGGATGG-CTTCAATCTGCCCAATGGTTA
* * **
88702 GGGTAAAAGATTGGATGGCTTTAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCAATGGTTA
* * * * *
88741 GGGTTAGATATTTGATGGTGTCTTCAATCTG-CCATCTGGTTA
1 GGGTAAAAGATTGGAT-G-G-CTTCAATCTGCCCA-ATGGTTA
* **
88783 GGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCAATGGTTA
* * **
88822 GGGTAAGAGATTGGATGGTGTCTTCAATATGCCCTCTGGTTA
1 GGGTAAAAGATTGGAT-G-G-CTTCAATCTGCCCAATGGTTA
* *
88864 GGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGG-TC
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCCAATGGTTA
*
88902 GAGGTAAGAGATTGGATGG
1 G-GGTAAAAGATTGGATGG
88921 GATGATGTAA
Statistics
Matches: 243, Mismatches: 45, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.01
39 103 0.42
40 76 0.31
41 6 0.02
42 56 0.23
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGCTTCAATCTGCCCAATGGTTA
Found at i:88645 original size:40 final size:39
Alignment explanation
Indices: 88583--88728 Score: 166
Period size: 40 Copynumber: 3.7 Consensus size: 39
88573 CTTGACTTAG
*
88583 GGGTAAAAGATTGGATGGCTTCAATCTACCCAATAATTA
1 GGGTAAAAGATTGGATGTCTTCAATCTACCCAATAATTA
* * *
88622 GGGTAAAAGATTAGATAGTCTTCAATCTGCCCAATAGTTA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTACCCAATAATTA
* *** **
88662 GGGTAAAAGATTGGATGGTCTTCAATCTGCCTTTTGGTTA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTACCCAATAATTA
* *
88702 GGGTAAAAGATTGGATGGCTTTAATCT
1 GGGTAAAAGATTGGATGTCTTCAATCT
88729 GCCCCATGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 24 0.26
40 70 0.74
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGTCTTCAATCTACCCAATAATTA
Found at i:88781 original size:81 final size:81
Alignment explanation
Indices: 88619--88920 Score: 437
Period size: 81 Copynumber: 3.7 Consensus size: 81
88609 TACCCAATAA
* * * * ** *
88619 TTAGGGTAAAAGATTAGATAGTCTTCAATCTGCCCAATAGTTAGGGTAAAAGATTGGAT-G-GTC
1 TTAGGGTAAAAGATTGGAT-GGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTC
* *
88682 TTCAATCTGCCTTTTGG
65 TTCAATCTGCCATCTGG
* * * *
88699 TTAGGGTAAAAGATTGGATGGCTTTAATCTGCCCCATGGTCGGGGTTAGATATTTGATGGTGTCT
1 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
88764 TCAATCTGCCATCTGG
66 TCAATCTGCCATCTGG
88780 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
1 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
* *
88845 TCAATATGCCCTCTGG
66 TCAATCTGCCATCTGG
*
88861 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGG
1 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGG
88921 GATGATGTAA
Statistics
Matches: 200, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
79 29 0.14
80 19 0.09
81 152 0.76
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (81 bp):
TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
TCAATCTGCCATCTGG
Found at i:89899 original size:15 final size:18
Alignment explanation
Indices: 89879--89928 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
89869 TCTCGACCTC
89879 TCTTTT-TTT-CTTTT-T
1 TCTTTTCTTTACTTTTCT
89894 TCTTTTCTTTACTTTTCT
1 TCTTTTCTTTACTTTTCT
*
89912 TCTCTTTCTTTCCTTTT
1 TCT-TTTCTTTACTTTT
89929 GTTGGGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 6 0.20
16 3 0.10
17 5 0.17
18 4 0.13
19 12 0.40
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTTTCTTTACTTTTCT
Found at i:91763 original size:23 final size:20
Alignment explanation
Indices: 91722--91765 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 20
91712 CATTTAATTG
91722 TATTTATTCATTCATATTTT
1 TATTTATTCATTCATATTTT
91742 TATTTATTTACATGTCATATTTT
1 TATTTA-TT-CAT-TCATATTTT
91765 T
1 T
91766 GTACCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 3 0.14
23 10 0.48
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTATTCATTCATATTTT
Found at i:99248 original size:21 final size:22
Alignment explanation
Indices: 99224--99298 Score: 84
Period size: 21 Copynumber: 3.5 Consensus size: 22
99214 AAAAATAAAT
*
99224 AAAAAGAAAAGAAACAAA-AAG
1 AAAAAGAAAAGAAAAAAAGAAG
**
99245 AAAATA-AAAAGAGAGTAAAGAAG
1 AAAA-AGAAAAGA-AAAAAAGAAG
99268 AAAAAGAAAA-AAAAAAAGAAG
1 AAAAAGAAAAGAAAAAAAGAAG
99289 AAAAAGAAAA
1 AAAAAGAAAA
99299 AGAATGGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 28 0.61
22 7 0.15
23 11 0.24
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAAGAAAAAAAGAAG
Found at i:99249 original size:30 final size:29
Alignment explanation
Indices: 99215--99297 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
99205 TAGAAAAATA
99215 AAAATAAATAAAAAGAAAAGAAACAAAAAG
1 AAAATAAA-AAAAAGAAAAGAAACAAAAAG
* * *
99245 AAAATAAAAAGAGAGTAAAG-AAGAAAAAG
1 AAAATAAAAA-AAAGAAAAGAAACAAAAAG
*
99274 AAAAAAAAAAAGAAGAAAAAGAAA
1 AAAATAAAAAA-AAG-AAAAGAAA
99298 AAGAATGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 1 0.02
29 21 0.49
30 19 0.44
31 2 0.05
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (29 bp):
AAAATAAAAAAAAGAAAAGAAACAAAAAG
Found at i:99291 original size:15 final size:14
Alignment explanation
Indices: 99208--99299 Score: 67
Period size: 15 Copynumber: 6.1 Consensus size: 14
99198 CTCAAACTAG
*
99208 AAAAATAAAAATAAA
1 AAAAAGAAAAA-AAA
*
99223 TAAAAAGAAAAGAAAC
1 -AAAAAGAAAA-AAAA
99239 AAAAAGAAAATAAAA
1 AAAAAGAAAA-AAAA
* * * * *
99254 AGAGAGTAAAGAAG
1 AAAAAGAAAAAAAA
99268 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
99282 AAAGAAGAAAAAGAAA
1 AAA-AAGAAAAA-AAA
99298 AA
1 AA
99300 GAATGGGCCA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
14 14 0.24
15 28 0.47
16 16 0.27
17 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.13, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:99293 original size:39 final size:37
Alignment explanation
Indices: 99223--99295 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
99213 TAAAAATAAA
* *
99223 TAAAAAGAAAAGAAACAAAAAGAAAATAAAAAGAGAG
1 TAAAAAGAAAAGAAACAAAAAAAAAAGAAAAAGAGAG
99260 TAAAGAAGAAAAAGAAA-AAAAAAAAGAAGAAAAAGA
1 TAAA-AAG-AAAAGAAACAAAAAAAA-AAGAAAAAGA
99296 AAAAGAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 4 0.13
38 10 0.32
39 17 0.55
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (37 bp):
TAAAAAGAAAAGAAACAAAAAAAAAAGAAAAAGAGAG
Found at i:100376 original size:49 final size:49
Alignment explanation
Indices: 100310--100683 Score: 230
Period size: 49 Copynumber: 7.8 Consensus size: 49
100300 TTGAAGAGGA
* * ** * *
100310 ATAGGTTGAAGTAGCAACGGCAAACCTAACATCCTAAAATTGAAAAGGG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
* ** * *
100359 ATAGGTTGAAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
* ** *
100408 ATAGATTGAAGTCACAATAGCGGATCTAACACCCT-AAATCGAAAAGGG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
* * ** ** * * *
100456 AAAGATTGAAGTCGTAACGGTAGATATTACACCTTAAAA-CTGAAGA-GG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATC-GAAAAGGG
** * *
100504 ---GA---AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
* ** * *
100547 ATAGATTGAAGTCACAATAGCGGATCTAACACCCT-AAATCGAAAAGGA
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
* * ** * * * *
100595 AAAGATTGAAGTCGTAACGGTAGATCTTACACCTTAAAA-CTGAAGAGGG
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATC-GAAAAGGG
* * * * * *
100644 ATAGGTTGAAGCCACAACAGCGGACTTAACACCCAAAAAT
1 ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAAT
100684 ATTTTATTTT
Statistics
Matches: 243, Mismatches: 69, Indels: 25
0.72 0.20 0.07
Matches are distributed among these distances:
42 29 0.12
43 3 0.01
45 2 0.01
46 2 0.01
48 76 0.31
49 131 0.54
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (49 bp):
ATAGATTGAAGTCGCAACGGCGGACCTAACACCCTAAAATCGAAAAGGG
Found at i:100488 original size:48 final size:48
Alignment explanation
Indices: 100436--100654 Score: 130
Period size: 48 Copynumber: 4.6 Consensus size: 48
100426 AGCGGATCTA
*
100436 ACACCCTAAATCGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATT
1 ACACCCTAAAACGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATT
* * * * **
100484 ACACCTTAAAACTGAAGAGGGAAAG-TCGCAA--CG--ATGG-ACCTA--
1 ACACCCTAAAAC-GAAAAGGGAAAGATTG-AAGTCGTAACGGTAGATATT
* * ** ** ** * *
100526 ACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGATCTA
1 ACACCCT-AAAACGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATT
* * *
100575 ACACCCTAAATCGAAAAGGAAAAGATTGAAGTCGTAACGGTAGATCTT
1 ACACCCTAAAACGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATT
* * * *
100623 ACACCTTAAAACTGAAGAGGGATAGGTTGAAG
1 ACACCCTAAAAC-GAAAAGGGAAAGATTGAAG
100655 CCACAACAGC
Statistics
Matches: 126, Mismatches: 33, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
42 19 0.15
43 7 0.06
44 4 0.03
45 3 0.02
46 3 0.02
47 3 0.02
48 52 0.41
49 35 0.28
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (48 bp):
ACACCCTAAAACGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATT
Found at i:100572 original size:139 final size:139
Alignment explanation
Indices: 100367--100644 Score: 538
Period size: 139 Copynumber: 2.0 Consensus size: 139
100357 GGATAGGTTG
100367 AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGA
1 AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGA
*
100432 TCTAACACCCTAAATCGAAAAGGGAAAGATTGAAGTCGTAACGGTAGATATTACACCTTAAAACT
66 TCTAACACCCTAAATCGAAAAGGAAAAGATTGAAGTCGTAACGGTAGATATTACACCTTAAAACT
100497 GAAGAGGGA
131 GAAGAGGGA
100506 AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGA
1 AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGA
*
100571 TCTAACACCCTAAATCGAAAAGGAAAAGATTGAAGTCGTAACGGTAGATCTTACACCTTAAAACT
66 TCTAACACCCTAAATCGAAAAGGAAAAGATTGAAGTCGTAACGGTAGATATTACACCTTAAAACT
100636 GAAGAGGGA
131 GAAGAGGGA
100645 TAGGTTGAAG
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 137 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (139 bp):
AAGTCGCAACGATGGACCTAACACCCTAAAAACGAAGAGGGATAGATTGAAGTCACAATAGCGGA
TCTAACACCCTAAATCGAAAAGGAAAAGATTGAAGTCGTAACGGTAGATATTACACCTTAAAACT
GAAGAGGGA
Found at i:102283 original size:17 final size:16
Alignment explanation
Indices: 102245--102284 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
102235 TCTAAAATAG
102245 ATAAAAAAAAATTATT
1 ATAAAAAAAAATTATT
*
102261 AAAAAATAAAAATTATT
1 ATAAAA-AAAAATTATT
*
102278 TTAAAAA
1 ATAAAAA
102285 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAAAAAATTATT
Found at i:102902 original size:23 final size:23
Alignment explanation
Indices: 102843--102902 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
102833 AAACACGATA
* * *
102843 AAAATTTAGAGAATTTTAGAGAG
1 AAAATTGAGAGAAATTTAAAGAG
* * *
102866 AAATTTGTGTGAAATTTAAAGAG
1 AAAATTGAGAGAAATTTAAAGAG
102889 AAAATTGAGAGAAA
1 AAAATTGAGAGAAA
102903 ATGAGTGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAATTGAGAGAAATTTAAAGAG
Found at i:103621 original size:21 final size:21
Alignment explanation
Indices: 103597--103637 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103587 GCATTACAAG
* *
103597 AATAATTATATTTATAAATTC
1 AATAATTAAATCTATAAATTC
103618 AATAATTAAATCTATAAATT
1 AATAATTAAATCTATAAATT
103638 ATTAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATTAAATCTATAAATTC
Found at i:104231 original size:13 final size:13
Alignment explanation
Indices: 104213--104237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104203 TATGATATAT
104213 TAAATAAAATAAG
1 TAAATAAAATAAG
104226 TAAATAAAATAA
1 TAAATAAAATAA
104238 ATTAACATGT
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAG
Found at i:104398 original size:21 final size:21
Alignment explanation
Indices: 104374--104414 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104364 TTTTAAATAT
*
104374 ATATTTTAT-ATTAAGATTTAC
1 ATATCTTATAATTAA-ATTTAC
104395 ATATCTTATAATTAAATTTA
1 ATATCTTATAATTAAATTTA
104415 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATCTTATAATTAAATTTAC
Found at i:106400 original size:29 final size:29
Alignment explanation
Indices: 106362--106532 Score: 163
Period size: 29 Copynumber: 5.9 Consensus size: 29
106352 CCAAATTCAA
*
106362 AATTTTGGGAAGTTTGAGGGTCAAATATG
1 AATTTTGGGAAGTTTGAGGGTCAAATTTG
*
106391 AATTTTGGGAAGTTT-AGGGTCTAAATTTA
1 AATTTTGGGAAGTTTGAGGGTC-AAATTTG
*
106420 AATTTTTAGGAAGTTTGAGGGT-AAATTTTG
1 AA-TTTTGGGAAGTTTGAGGGTCAAA-TTTG
* **
106450 AATTTTTGGGAAGTTCG-GGGTCAAATCCG
1 AA-TTTTGGGAAGTTTGAGGGTCAAATTTG
*
106479 AATTTTGGGAAGCTTG-GAGGTCAAATTT-
1 AATTTTGGGAAGTTTGAG-GGTCAAATTTG
* **
106507 AAATTTGGGAAAGTTCAAGGGTCAAA
1 AATTTTGGG-AAGTTTGAGGGTCAAA
106533 ACTTAATTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
28 27 0.23
29 52 0.44
30 34 0.29
31 5 0.04
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (29 bp):
AATTTTGGGAAGTTTGAGGGTCAAATTTG
Found at i:106434 original size:30 final size:31
Alignment explanation
Indices: 106333--106512 Score: 137
Period size: 29 Copynumber: 6.1 Consensus size: 31
106323 AAAAATGAAA
* * * * * *
106333 TTTTGGAAAGTTTGGGGGGCCAAATTCAAAA
1 TTTTGGGAAGTTTGAGGGTCTAAATTTAAAT
* *
106364 TTTTGGGAAGTTTGAGGGTC-AAATATGAA-
1 TTTTGGGAAGTTTGAGGGTCTAAATTTAAAT
106393 TTTTGGGAAGTTT-AGGGTCTAAATTTAAAT
1 TTTTGGGAAGTTTGAGGGTCTAAATTTAAAT
* *
106423 TTTTAGGAAGTTTGAGGG--TAAATTTTGAAT
1 TTTTGGGAAGTTTGAGGGTCTAAA-TTTAAAT
* ***
106453 TTTTGGGAAGTTCG-GGGTC-AAATCCGAA-
1 TTTTGGGAAGTTTGAGGGTCTAAATTTAAAT
*
106481 TTTTGGGAAGCTTG-GAGGTC-AAATTTAAAT
1 TTTTGGGAAGTTTGAG-GGTCTAAATTTAAAT
106511 TT
1 TT
106513 GGGAAAGTTC
Statistics
Matches: 122, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
28 19 0.16
29 41 0.34
30 41 0.34
31 21 0.17
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.37
Consensus pattern (31 bp):
TTTTGGGAAGTTTGAGGGTCTAAATTTAAAT
Found at i:106436 original size:59 final size:60
Alignment explanation
Indices: 106320--106464 Score: 168
Period size: 59 Copynumber: 2.4 Consensus size: 60
106310 GAAAAACAAT
* * * *
106320 GTCAAAAATGAAATTTTGGAAAGTTTGGGGGGCCAAATTCAAAATTTTGGGAAGTTTGAGG
1 GTCAAATATG-AATTTTGGGAAGTTTGAGGGGCCAAATTCAAAATTTTAGGAAGTTTGAGG
* * * *
106381 GTCAAATATGAATTTTGGGAAGTTT-AGGGTCTAAATTTAAATTTTTAGGAAGTTTGAGG
1 GTCAAATATGAATTTTGGGAAGTTTGAGGGGCCAAATTCAAAATTTTAGGAAGTTTGAGG
*
106440 GT-AAATTTTGAATTTTTGGGAAGTT
1 GTCAAA-TATGAA-TTTTGGGAAGTT
106465 CGGGGTCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 3 0.04
59 35 0.48
60 26 0.36
61 9 0.12
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (60 bp):
GTCAAATATGAATTTTGGGAAGTTTGAGGGGCCAAATTCAAAATTTTAGGAAGTTTGAGG
Found at i:106483 original size:59 final size:59
Alignment explanation
Indices: 106354--106529 Score: 155
Period size: 59 Copynumber: 3.0 Consensus size: 59
106344 TTGGGGGGCC
* * * *
106354 AAATTCAAAATTTTGGGAAGTTTGAGGGTCAAATATGAATTTTGGGAAGTTTAGGGTCT
1 AAATCCAAATTTTTAGGAAGTTTGAGGGTCAAATATGAATTTTGGGAAGTTCAGGGTCT
** * *
106413 AAATTTAAATTTTTAGGAAGTTTGAGGGT-AAATTTTGAATTTTTGGGAAGTTCGGGGTC-
1 AAATCCAAATTTTTAGGAAGTTTGAGGGTCAAA-TATGAA-TTTTGGGAAGTTCAGGGTCT
* * * * *
106472 AAATCCGAA-TTTTGGGAAGCTTG-GAGGTCAAAT-TTAAATTTGGGAAAGTTCAAGGGTC
1 AAATCCAAATTTTTAGGAAGTTTGAG-GGTCAAATATGAATTTTGGG-AAGTTC-AGGGTC
106530 AAAACTTAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
56 6 0.06
57 10 0.10
58 24 0.25
59 40 0.41
60 17 0.18
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (59 bp):
AAATCCAAATTTTTAGGAAGTTTGAGGGTCAAATATGAATTTTGGGAAGTTCAGGGTCT
Found at i:108877 original size:125 final size:124
Alignment explanation
Indices: 108335--109030 Score: 851
Period size: 124 Copynumber: 5.6 Consensus size: 124
108325 TTCGCTTCAT
* * * * * * *
108335 CTTCTCTATATTTCATCAAGAAGGTGACCGCTTGATTA-TTTGATCCACTTCTCTGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
* * *
108399 GGGAAGATGGGGATTTGAAGTTTCACTCACATTGGGCTTCACTTCATTATTTTGGT-TCA
66 AGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGTTTTGGTCT-A
* * *
108458 CTTCTCTGTATCTCATCAGGAAAATGACCGCTTCATCATTTTGATTCACTTT-TTTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCA-TTTCTCTGTATCTCAT
* * * * * *
108522 CAGGAAGATGGGGGTTTGAAGTTTTACTCACATTAAGCTTCGCTTTATTGTTCTGGTCTA
65 CAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGTTTTGGTCTA
** * * * * * *
108582 CTTCTCAATATCTCATCAAGCATATGATCGCTTTATCATTTTGATCCACTTT-TCTGCATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCA-TTTCTCTGTATCTCAT
* * * *
108646 CAGGAAGATAGGGATTTGAAGTTTCACTCGCATTGAGCTTCAATTCATTATTTTGGTCTA
65 CAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGTTTTGGTCTA
* * *
108706 CTTCTTTGTATCTCATCAGAAAGATGATCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
* * ***
108771 AAGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTTACAAAAATTGTTTTGGTCTA
66 AGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCAC-TTCATTGTTTTGGTCTA
* *
108831 CTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTAATC
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
* * *
108896 AAGAACATGGGGATTTGAAGTTTCACTCACAATTGAGCTTCGCTTCATTGTTTTGGTCTA
66 AGGAAGATGGGGATTTGAAGTTTCACTCAC-ATTGAGCTTCACTTCATTGTTTTGGTCTA
* * * * * * **
108956 CTTCTCTGTATCTCCTCAGGAAGATGTCTGCTTCATTATTGTGATCCACTTCTCTACATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
109021 AGGAAGATGG
66 AGGAAGATGG
109031 CTTCAATCTA
Statistics
Matches: 489, Mismatches: 78, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
123 34 0.07
124 261 0.53
125 184 0.38
126 10 0.02
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (124 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATCATTTTGATCCATTTCTCTGTATCTCATC
AGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGTTTTGGTCTA
Found at i:109008 original size:48 final size:48
Alignment explanation
Indices: 108937--109029 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
108927 ATTGAGCTTC
* * * * ** *
108937 GCTTCATTGTTTTGGTCTACTTCTCTGTATCTCCTCAGGAAGATGTCT
1 GCTTCATTATTGTGATCCACTTCTCTACATCTCATCAGGAAGATGTCT
108985 GCTTCATTATTGTGATCCACTTCTCTACATCTCATCAGGAAGATG
1 GCTTCATTATTGTGATCCACTTCTCTACATCTCATCAGGAAGATG
109030 GCTTCAATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (48 bp):
GCTTCATTATTGTGATCCACTTCTCTACATCTCATCAGGAAGATGTCT
Found at i:109211 original size:90 final size:90
Alignment explanation
Indices: 109103--109313 Score: 226
Period size: 90 Copynumber: 2.3 Consensus size: 90
109093 TGATTCGAGG
* * * *
109103 TAAATGATTGAAATATGACTTCCATCTGCCCTTATTGATTAGGGATAAAAGATTGAAATATGGCT
1 TAAAAGATAGAAATATGACTTCAATCTGCCCTTATTAATTAGGGATAAAAGATTGAAATATGGCT
*
109168 TCAATTTGTCCCT-CTTGACTAGGGG
66 TCAATTTG-CCCTCCTTGACTAGGGA
* * * * * * * * * *
109193 TAGAAGATAGGAATATGACTTTAATCTACCCTTTTTAATTCGGGGTAAATGATTGGAATGTGGCT
1 TAAAAGATAGAAATATGACTTCAATCTGCCCTTATTAATTAGGGATAAAAGATTGAAATATGGCT
* *
109258 TCCATTTGCCCTCCTTGATTAGGGA
66 TCAATTTGCCCTCCTTGACTAGGGA
* * *
109283 TAAAAGATTGAAAGATGACTTCAATTTGCCC
1 TAAAAGATAGAAATATGACTTCAATCTGCCC
109314 CATGGTCGGG
Statistics
Matches: 96, Mismatches: 24, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
89 4 0.04
90 92 0.96
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (90 bp):
TAAAAGATAGAAATATGACTTCAATCTGCCCTTATTAATTAGGGATAAAAGATTGAAATATGGCT
TCAATTTGCCCTCCTTGACTAGGGA
Found at i:109251 original size:45 final size:43
Alignment explanation
Indices: 109022--109307 Score: 176
Period size: 45 Copynumber: 6.4 Consensus size: 43
109012 CATCTCATCA
* * * *
109022 GGAAGATGGCTTCAATCTACCCCTCTTGACTAGGGGTAGAAGATA
1 GGAATATGACTTCAATCTA-CCCTCTTGATTAGGGGTA-AAGATT
* * * * *
109067 GGAATGTGGCTTTAATCTATCCCTCTTGATTCGAGGTAAATGATT
1 GGAATATGACTTCAATCTA-CCCTCTTGATTAGGGGTAAA-GATT
* * * * *
109112 GAAATATGACTTCCATCTGCCCTTATTGATTAGGGATAAAAGATT
1 GGAATATGACTTCAATCTACCC-TCTTGATTAGGGGT-AAAGATT
* * * * * *
109157 GAAATATGGCTTCAATTTGTCCCTCTTGACTAGGGGTAGAAGATA
1 GGAATATGACTTCAATCT-ACCCTCTTGATTAGGGGTA-AAGATT
* * * *
109202 GGAATATGACTTTAATCTACCCTTTTTAATTCGGGGTAAATGATT
1 GGAATATGACTTCAATCTACCC-TCTTGATTAGGGGTAAA-GATT
* * * * * *
109247 GGAATGTGGCTTCCATTTGCCCTCCTTGATTAGGGATAAAAGATT
1 GGAATATGACTTCAATCTACCCT-CTTGATTAGGGGT-AAAGATT
* *
109292 GAAAGATGACTTCAAT
1 GGAATATGACTTCAAT
109308 TTGCCCCATG
Statistics
Matches: 181, Mismatches: 51, Indels: 18
0.72 0.20 0.07
Matches are distributed among these distances:
44 12 0.07
45 160 0.88
46 9 0.05
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
GGAATATGACTTCAATCTACCCTCTTGATTAGGGGTAAAGATT
Found at i:109269 original size:135 final size:135
Alignment explanation
Indices: 109024--109314 Score: 422
Period size: 135 Copynumber: 2.2 Consensus size: 135
109014 TCTCATCAGG
* * * *
109024 AAGATGGCTTCAATCTACCCCTCTTGACTAGGGGTAGAAGATAGGAATGTGGCTTTAATCTATCC
1 AAGATGGCTTCAATTTGCCCCTCTTGACTAGGGGTAGAAGATAGGAATATGACTTTAATCTATCC
* *
109089 CTCTTGATTCGAGGTAAATGATTGAAATATGACTTCCATCTGCCCTTATTGATTAGGGATAAAAG
66 CTCTTAATTCGAGGTAAATGATTGAAATATGACTTCCATCTGCCCTCATTGATTAGGGATAAAAG
109154 ATTGA
131 ATTGA
* *
109159 AATATGGCTTCAATTTGTCCCTCTTGACTAGGGGTAGAAGATAGGAATATGACTTTAATCTA-CC
1 AAGATGGCTTCAATTTGCCCCTCTTGACTAGGGGTAGAAGATAGGAATATGACTTTAATCTATCC
* * * * * * *
109223 CTTTTTAATTCGGGGTAAATGATTGGAATGTGGCTTCCATTTGCCCTCCTTGATTAGGGATAAAA
66 C-TCTTAATTCGAGGTAAATGATTGAAATATGACTTCCATCTGCCCTCATTGATTAGGGATAAAA
109288 GATTGA
130 GATTGA
*
109294 AAGATGACTTCAATTTGCCCC
1 AAGATGGCTTCAATTTGCCCC
109315 ATGGTCGGGG
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
134 3 0.02
135 134 0.98
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (135 bp):
AAGATGGCTTCAATTTGCCCCTCTTGACTAGGGGTAGAAGATAGGAATATGACTTTAATCTATCC
CTCTTAATTCGAGGTAAATGATTGAAATATGACTTCCATCTGCCCTCATTGATTAGGGATAAAAG
ATTGA
Found at i:109312 original size:45 final size:44
Alignment explanation
Indices: 109087--109313 Score: 186
Period size: 45 Copynumber: 5.1 Consensus size: 44
109077 TTTAATCTAT
* * * *
109087 CCCTCTTGATTCGAGG-TAAATGATTGAAATATGACTTCCATCTG
1 CCCTCTTGATTAG-GGATAAAAGATTGAAATATGACTTCAATTTG
* *
109131 CCCTTATTGATTAGGGATAAAAGATTGAAATATGGCTTCAATTTG
1 CCC-TCTTGATTAGGGATAAAAGATTGAAATATGACTTCAATTTG
* * * * * * * *
109176 TCCCTCTTGACTAGGGGTAGAAGATAGGAATATGACTTTAATCTA
1 -CCCTCTTGATTAGGGATAAAAGATTGAAATATGACTTCAATTTG
* * * * * * * * *
109221 CCCTTTTTAATTCGGGGTAAATGATTGGAATGTGGCTTCCATTTG
1 CCC-TCTTGATTAGGGATAAAAGATTGAAATATGACTTCAATTTG
*
109266 CCCTCCTTGATTAGGGATAAAAGATTGAAAGATGACTTCAATTTG
1 CCCT-CTTGATTAGGGATAAAAGATTGAAATATGACTTCAATTTG
109311 CCC
1 CCC
109314 CATGGTCGGG
Statistics
Matches: 139, Mismatches: 39, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
44 9 0.06
45 127 0.91
46 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (44 bp):
CCCTCTTGATTAGGGATAAAAGATTGAAATATGACTTCAATTTG
Found at i:109750 original size:49 final size:49
Alignment explanation
Indices: 109697--109805 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
109687 TCATCTTTTG
* * *
109697 GGTATAAGATTTA-CTATTGTGGCTTCAATCTTTCCCTTGACATCGCTAA
1 GGTATAAGATTTATC-ATTGTGGCTTCAACCTTTCCCATAACATCGCTAA
* * * * *
109746 GGTATAAGGTTTATCGTTGTGGCTTTAACCTTTCCCATAACATCTCTAT
1 GGTATAAGATTTATCATTGTGGCTTCAACCTTTCCCATAACATCGCTAA
*
109795 GGTATATGATT
1 GGTATAAGATT
109806 CGCCATTGCG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
49 48 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (49 bp):
GGTATAAGATTTATCATTGTGGCTTCAACCTTTCCCATAACATCGCTAA
Found at i:109825 original size:98 final size:98
Alignment explanation
Indices: 109589--109830 Score: 231
Period size: 98 Copynumber: 2.5 Consensus size: 98
109579 CTGCTTTTCT
* ** *
109589 ACATCTTCA-GGGTATAAGAGTCGCCATTGCGACTTTTATCTTTCCCTTCACATCTCAAGGACAT
1 ACATCTT-ATGGGTATAAGATTCGCCATTGCGACTTAAATCTTTCCCTTCACATCGCAAGGACAT
* *
109653 AAGGTTCGTCGTTGTGGCTTCAACATTTCCCTCT
65 AAGGTTCATCGTTGTGGCTTCAACATTTCCCTCA
* * ** * * * * * *
109687 TCATCTTTTGGGTATAAGATTTACTATTGTGGCTTCAATCTTTCCCTTGACATCGCTAAGG-TAT
1 ACATCTTATGGGTATAAGATTCGCCATTGCGACTTAAATCTTTCCCTTCACATCGC-AAGGACAT
* * *
109751 AAGGTTTATCGTTGTGGCTTTAACCTTTCCCAT-A
65 AAGGTTCATCGTTGTGGCTTCAACATTTCCC-TCA
*
109785 ACATCTCTAT-GGTATATGATTCGCCATTGCGACTTAAATCTCTTCC
1 ACATCT-TATGGGTATAAGATTCGCCATTGCGACTTAAATCT-TTCC
109831 TCCACATTCT
Statistics
Matches: 112, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
98 101 0.90
99 11 0.10
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (98 bp):
ACATCTTATGGGTATAAGATTCGCCATTGCGACTTAAATCTTTCCCTTCACATCGCAAGGACATA
AGGTTCATCGTTGTGGCTTCAACATTTCCCTCA
Found at i:110735 original size:7 final size:7
Alignment explanation
Indices: 110720--110778 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
110710 TCTCTTGACC
*
110720 TCTCCTT
1 TCTCTTT
110727 TCTCTTT
1 TCTCTTT
110734 TCT-TCTT
1 TCTCT-TT
110741 T-TCTTT
1 TCTCTTT
110747 TCTCTTT
1 TCTCTTT
*
110754 TTTCTTT
1 TCTCTTT
110761 T-TCCTTT
1 TCT-CTTT
110768 T-TCTTT
1 TCTCTTT
110774 TCTCT
1 TCTCT
110779 CTCCTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 11 0.24
7 34 0.76
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TCTCTTT
Found at i:110747 original size:13 final size:13
Alignment explanation
Indices: 110724--110776 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
110714 TTGACCTCTC
110724 CTTTCTCTTTTCTT
1 CTTT-TCTTTTCTT
110738 CTTTTCTTTTCTCT
1 CTTTTCTTTTCT-T
* *
110752 TTTTTCTTTT-TC
1 CTTTTCTTTTCTT
110764 CTTTTTCTTTTCT
1 C-TTTTCTTTTCT
110777 CTCTCCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 18 0.55
14 15 0.45
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
CTTTTCTTTTCTT
Found at i:110750 original size:20 final size:22
Alignment explanation
Indices: 110725--110776 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
110715 TGACCTCTCC
110725 TTTCTCTTTTCTTC-TTTT-CT
1 TTTCTCTTTTCTTCTTTTTCCT
110745 TTTCTCTTTT-TTCTTTTTCCT
1 TTTCTCTTTTCTTCTTTTTCCT
110766 TTT-TCTTTTCT
1 TTTCTCTTTTCT
110777 CTCTCCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.10
20 20 0.69
21 6 0.21
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTCTTTTCTTCTTTTTCCT
Found at i:110778 original size:27 final size:29
Alignment explanation
Indices: 110725--110778 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
110715 TGACCTCTCC
*
110725 TTTCTCTTTTCTTCTTTTCTTTTCTCTTT
1 TTTCTCTTTTCCTCTTTTCTTTTCTCTTT
110754 TTTCT-TTTTCCT-TTTTCTTTTCTCT
1 TTTCTCTTTTCCTCTTTTCTTTTCTCT
110779 CTCCTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
28 6 0.25
29 5 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTCTCTTTTCCTCTTTTCTTTTCTCTTT
Found at i:110792 original size:18 final size:18
Alignment explanation
Indices: 110751--110792 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
110741 TTCTTTTCTC
* *
110751 TTTTTTCTTTTTCCTTTT
1 TTTTTTCTCTCTCCTTTT
*
110769 TCTTTTCTCTCTCCTTTT
1 TTTTTTCTCTCTCCTTTT
110787 TTTTTT
1 TTTTTT
110793 GGGTAAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCTCTCTCCTTTT
Found at i:111741 original size:8 final size:8
Alignment explanation
Indices: 111724--111775 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
111714 CGACTCTTTC
111724 TTTTTC-T
1 TTTTTCTT
111731 TTTTTCTT
1 TTTTTCTT
*
111739 TTTTTATT
1 TTTTTCTT
111747 TTTTTCTT
1 TTTTTCTT
*
111755 TCTTT-TT
1 TTTTTCTT
**
111762 TTCGTCTT
1 TTTTTCTT
111770 TTTTTC
1 TTTTTC
111776 ACCTCTTTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
7 10 0.29
8 25 0.71
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:111763 original size:13 final size:12
Alignment explanation
Indices: 111724--111774 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 12
111714 CGACTCTTTC
111724 TTTTTCTTTTTT
1 TTTTTCTTTTTT
* *
111736 CTTTT-TTTATT
1 TTTTTCTTTTTT
111747 TTTTTCTTTCTTT
1 TTTTTCTTT-TTT
111760 TTTTCGTCTTTTTT
1 TTTT--TCTTTTTT
111774 T
1 T
111775 CACCTCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 9 0.29
12 7 0.23
13 6 0.19
14 4 0.13
15 5 0.16
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:111771 original size:20 final size:19
Alignment explanation
Indices: 111730--111775 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
111720 TTTCTTTTTC
* *
111730 TTTTTTCTTTTTTTATTTT
1 TTTTTTCTTTTTTTAGTCT
*
111749 TTTCTTTCTTTTTTTCGTCT
1 TTT-TTTCTTTTTTTAGTCT
111769 TTTTTTC
1 TTTTTTC
111776 ACCTCTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTCTTTTTTTAGTCT
Found at i:115781 original size:30 final size:30
Alignment explanation
Indices: 115740--115911 Score: 177
Period size: 30 Copynumber: 5.8 Consensus size: 30
115730 AAAAATGAAG
* *
115740 TTTTGGAAAGTTTAGGGGCCAAATTCAAAT
1 TTTTGGGAAGTTTAGGGGCTAAATTCAAAT
* * *
115770 TTTTGGGAAGTTTGGGGGTTAAATTTAAAT
1 TTTTGGGAAGTTTAGGGGCTAAATTCAAAT
* * *
115800 TTTTAGGAAATTTAGGGGTTAAATTCAAA-
1 TTTTGGGAAGTTTAGGGGCTAAATTCAAAT
*
115829 TTTTGGGAAGTTTATGGGCTAAATTCAAAT
1 TTTTGGGAAGTTTAGGGGCTAAATTCAAAT
* * * * *
115859 TTTTGAGAAGTTTAAGGGTTATATTTGAAAT
1 TTTTGGGAAGTTTAGGGGCTA-AATTCAAAT
* *
115890 TTTT-GAAAGTTTAGGGGTTAAA
1 TTTTGGGAAGTTTAGGGGCTAAA
115912 ACTTAATTTT
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
29 26 0.22
30 81 0.69
31 11 0.09
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.40
Consensus pattern (30 bp):
TTTTGGGAAGTTTAGGGGCTAAATTCAAAT
Found at i:115840 original size:89 final size:89
Alignment explanation
Indices: 115740--115911 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 89
115730 AAAAATGAAG
* **
115740 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGGGAAGTTTGGGGGTTAAATTT-AAATTTTT
1 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTTGAAATTTTT
115804 AGGAAA-TTTAGGGGTTAAATTCAAA
66 --GAAAGTTTAGGGGTTAAATTCAAA
* * * *
115829 TTTTGGGAAGTTTATGGGCTAAATTCAAATTTTTGAGAAGTTTAAGGGTTATATTTGAAATTTTT
1 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTTGAAATTTTT
115894 GAAAGTTTAGGGGTTAAA
66 GAAAGTTTAGGGGTTAAA
115912 ACTTAATTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 4 0.05
89 62 0.84
90 8 0.11
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.40
Consensus pattern (89 bp):
TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTTGAAATTTTT
GAAAGTTTAGGGGTTAAATTCAAA
Found at i:115920 original size:89 final size:87
Alignment explanation
Indices: 115740--115936 Score: 243
Period size: 89 Copynumber: 2.2 Consensus size: 87
115730 AAAAATGAAG
* **
115740 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGGGAAGTTTGGGGGTTAAATTTAAATTTTTA
1 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTTAAATTTTTA
115805 GGAAATTTAGGGGTTAAATTCAAA
66 -GAAATTTAGGGGTTAAATT-AAA
* * * *
115829 TTTTGGGAAGTTTATGGGCTAAATTCAAATTTTTGAGAAGTTTAAGGGTTATATTTGAAATTTTT
1 TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTT-AAATTTTT
*
115894 -GAAAGTTTAGGGGTTAAAACTTAAT
65 AGAAA-TTTAGGGGTT-AAA-TTAAA
* *
115919 TTTTGAAAAGTTTGGGGG
1 TTTTGGAAAGTTTAGGGG
115937 TGAAAACTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 4 0.04
89 59 0.64
90 27 0.29
91 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (87 bp):
TTTTGGAAAGTTTAGGGGCCAAATTCAAATTTTTGAGAAGTTTAAGGGTTAAATTTAAATTTTTA
GAAATTTAGGGGTTAAATTAAA
Found at i:115929 original size:30 final size:29
Alignment explanation
Indices: 115740--115937 Score: 172
Period size: 30 Copynumber: 6.7 Consensus size: 29
115730 AAAAATGAAG
**
115740 TTTTGGAAAGTTTAGGGGCCAAATTCAAAT
1 TTTTGGAAAGTTTAGGGGTTAAATT-AAAT
* *
115770 TTTTGGGAAGTTTGGGGGTTAAATTTAAAT
1 TTTTGGAAAGTTTAGGGGTTAAA-TTAAAT
115800 TTTTAGGAAA-TTTAGGGGTTAAATTCAAA-
1 TTTT-GGAAAGTTTAGGGGTTAAATT-AAAT
* * *
115829 TTTTGGGAAGTTTATGGGCTAAATTCAAAT
1 TTTTGGAAAGTTTAGGGGTTAAATT-AAAT
* *
115859 TTTT-GAGAAGTTTAAGGGTTATATTTGAAAT
1 TTTTGGA-AAGTTTAGGGGTTA-AATT-AAAT
115890 TTTT-GAAAGTTTAGGGGTTAAAACTT-AAT
1 TTTTGGAAAGTTTAGGGGTT-AAA-TTAAAT
* *
115919 TTTTGAAAAGTTTGGGGGT
1 TTTTGGAAAGTTTAGGGGT
115938 GAAAACTTAA
Statistics
Matches: 140, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.03
29 31 0.22
30 83 0.59
31 22 0.16
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (29 bp):
TTTTGGAAAGTTTAGGGGTTAAATTAAAT
Found at i:115951 original size:29 final size:29
Alignment explanation
Indices: 115887--115952 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 29
115877 TTATATTTGA
*
115887 AATTTTTGAAAGTTTAGGGGTTAAAACTT
1 AATTTTTGAAAGTTTAGGGGTGAAAACTT
*
115916 AATTTTTGAAAAGTTTGGGGGTGAAAACTT
1 AATTTTTG-AAAGTTTAGGGGTGAAAACTT
115946 AATTTTT
1 AATTTTT
115953 AAATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (29 bp):
AATTTTTGAAAGTTTAGGGGTGAAAACTT
Found at i:116836 original size:13 final size:13
Alignment explanation
Indices: 116818--116850 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
116808 CTTTCACATG
116818 GTGGTGGTGGCAA
1 GTGGTGGTGGCAA
116831 GTGGTGGTGGCAA
1 GTGGTGGTGGCAA
116844 GTGGTGG
1 GTGGTGG
116851 GTGGTTGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.58, T:0.24
Consensus pattern (13 bp):
GTGGTGGTGGCAA
Found at i:122539 original size:25 final size:24
Alignment explanation
Indices: 122485--122539 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
122475 ATTGTTATTA
* * *
122485 AATTTTAATAAGATTATGATAAAT
1 AATTTTAATAAAATAATAATAAAT
122509 ATATTTTAATAAAAATAATAATAAAT
1 A-ATTTTAAT-AAAATAATAATAAAT
122535 AATTT
1 AATTT
122540 AATCATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 12 0.46
26 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTTTAATAAAATAATAATAAAT
Found at i:122634 original size:24 final size:21
Alignment explanation
Indices: 122615--122657 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
122605 AAATATGAAT
122615 TAATAAAAAACATAATATATAA
1 TAATAAAAAA-ATAATATATAA
* *
122637 TATTATAAAAATAATATATAA
1 TAATAAAAAAATAATATATAA
122658 CCTACTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAATAAAAAAATAATATATAA
Found at i:125997 original size:22 final size:23
Alignment explanation
Indices: 125972--126024 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
125962 TTATCTTTTG
*
125972 TTTTTAGGATTTA-ATTTAAATA
1 TTTTTAGGAATTATATTTAAATA
* * * *
125994 TTTTCAAGAATTATATTTTATTA
1 TTTTTAGGAATTATATTTAAATA
126017 TTTTTAGG
1 TTTTTAGG
126025 GTTTTGGAGA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTTAGGAATTATATTTAAATA
Found at i:126756 original size:17 final size:17
Alignment explanation
Indices: 126734--126767 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
126724 AGGCTGATAC
126734 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
126751 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
126768 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:127443 original size:15 final size:15
Alignment explanation
Indices: 127425--127459 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
127415 AAAAGCAAAC
127425 CATATAAGCATAAAA
1 CATATAAGCATAAAA
127440 CATATAAGCATAAAA
1 CATATAAGCATAAAA
127455 CATAT
1 CATAT
127460 TAAAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (15 bp):
CATATAAGCATAAAA
Found at i:135241 original size:43 final size:43
Alignment explanation
Indices: 135173--135376 Score: 236
Period size: 43 Copynumber: 4.8 Consensus size: 43
135163 TTATGAGAAA
* * **
135173 AAACGCCGCTATAGAACATGGTCTTTAGCGGTGCTTATCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTATCCCAC
* * *
135216 AAACACCGCTAAAGATCATGATCTTTAGCGACGCTTACCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTATCCCAC
* *
135259 AAACGCCGCTAAAG-ACATAATCTTTAGCGACACTT-T-CCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTATCCCAC
* * * *
135299 AAACGCCACTAAAGAACATGATTTTTAACAACGCTTATCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTATCCCAC
* * *
135342 AAACGCCGCTAAA-AACTTGATCTTTAACGATGCTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTT
135377 TTTCCATAAA
Statistics
Matches: 135, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
40 17 0.13
41 16 0.12
42 37 0.27
43 65 0.48
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTATCCCAC
Found at i:135365 original size:83 final size:83
Alignment explanation
Indices: 135212--135367 Score: 222
Period size: 83 Copynumber: 1.9 Consensus size: 83
135202 GGTGCTTATC
* * * * *
135212 CCACAAACACCGCTAAAGATCATGATCTTTAGCGACGCTTACCCCACAAACGCCGCTAAAGACAT
1 CCACAAACACCACTAAAGAACATGATCTTTAACAACGCTTACCCCACAAACGCCGCTAAAAACAT
135277 AATCTTTAGCGACACTTT
66 AATCTTTAGCGACACTTT
* * * *
135295 CCACAAACGCCACTAAAGAACATGATTTTTAACAACGCTTATCCCACAAACGCCGCTAAAAACTT
1 CCACAAACACCACTAAAGAACATGATCTTTAACAACGCTTACCCCACAAACGCCGCTAAAAACAT
*
135360 GATCTTTA
66 AATCTTTA
135368 ACGATGCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (83 bp):
CCACAAACACCACTAAAGAACATGATCTTTAACAACGCTTACCCCACAAACGCCGCTAAAAACAT
AATCTTTAGCGACACTTT
Found at i:139171 original size:11 final size:11
Alignment explanation
Indices: 139155--139179 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
139145 GTCCTTAGTC
139155 AAATCACTTCG
1 AAATCACTTCG
139166 AAATCACTTCG
1 AAATCACTTCG
139177 AAA
1 AAA
139180 GTTCATAAAA
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATCACTTCG
Found at i:139303 original size:41 final size:41
Alignment explanation
Indices: 139246--139471 Score: 168
Period size: 41 Copynumber: 5.4 Consensus size: 41
139236 AGCAATTAAA
* *
139246 TGACCTTTAGCCGCGCTTCTCAAAAAGCGTCGCTATTGTTC
1 TGACCTTTAGCAGCGCTTCTCAAAAAGCGTCGCTATTGCTC
**
139287 TGACCTTTAGCAGCGCTTCTTGAAAAGCGTCGCTATTGCTC
1 TGACCTTTAGCAGCGCTTCTCAAAAAGCGTCGCTATTGCTC
* ** * ** * * *
139328 TAATATTTAGCGGTACTTCTCAAAAAGCGCCGCTATTCCTA
1 TGACCTTTAGCAGCGCTTCTCAAAAAGCGTCGCTATTGCTC
* *
139369 TGACCTTTAGCCTTTAGCAGCGTTTGTCAAAAAGCGTCGTTATTGCTC
1 TGACCTTTAG-C---AGC-GC--TTCTCAAAAAGCGTCGCTATTGCTC
* * * * *
139417 TGACCTTTAGTAGCACTT-TCCTATAAGCGCCGCTATTGCTC
1 TGACCTTTAGCAGCGCTTCT-CAAAAAGCGTCGCTATTGCTC
* *
139458 T-ATCTTTTGCAGCG
1 TGACCTTTAGCAGCG
139472 TTTATGTAAA
Statistics
Matches: 141, Mismatches: 36, Indels: 17
0.73 0.19 0.09
Matches are distributed among these distances:
40 10 0.07
41 94 0.67
42 1 0.01
43 1 0.01
44 3 0.02
45 1 0.01
46 1 0.01
48 30 0.21
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (41 bp):
TGACCTTTAGCAGCGCTTCTCAAAAAGCGTCGCTATTGCTC
Found at i:140259 original size:23 final size:22
Alignment explanation
Indices: 140233--140287 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
140223 ATTTATGATT
*
140233 TGAATATGAAATGAGAA-TTAAAA
1 TGAA-ATGAAATGA-AAGTGAAAA
*
140256 TGAAAATGATATGAAAGTGAAAA
1 TG-AAATGAAATGAAAGTGAAAA
140279 TGAAATGAA
1 TGAAATGAA
140288 TGTTATAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 8 0.30
23 17 0.63
24 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAAATGAAATGAAAGTGAAAA
Found at i:142798 original size:33 final size:37
Alignment explanation
Indices: 142761--142843 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 37
142751 TCTTGATGCA
*
142761 ATTTGTTTATA-T-T-T-GTTAGAAATTACATCTTAT
1 ATTTGTTTATATTATATGGTTAGAAATTACAACTTAT
142794 ATTTGTTTATATTAATAGATGGTTAGAAATTACAACTTAT
1 ATTTGTTTATATT-AT--ATGGTTAGAAATTACAACTTAT
142834 ATTTGTTTAT
1 ATTTGTTTAT
142844 CGCTTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 11 0.26
34 1 0.02
36 1 0.02
39 1 0.02
40 28 0.67
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.52
Consensus pattern (37 bp):
ATTTGTTTATATTATATGGTTAGAAATTACAACTTAT
Found at i:143518 original size:32 final size:33
Alignment explanation
Indices: 143482--143556 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
143472 AGTTTTTATG
*
143482 AAATATTTT-TA-AGAAATCAGTCAAATACCAGA
1 AAATATTTTATACAG-AATCAGTCAAACACCAGA
* * *
143514 AAATATTTTATACAGAATCATTTAAACATCAGA
1 AAATATTTTATACAGAATCAGTCAAACACCAGA
143547 AAATATTTTA
1 AAATATTTTA
143557 CTCAGATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 9 0.24
33 26 0.70
34 2 0.05
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (33 bp):
AAATATTTTATACAGAATCAGTCAAACACCAGA
Found at i:143574 original size:33 final size:33
Alignment explanation
Indices: 143510--143582 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
143500 AGTCAAATAC
**
143510 CAGAAAATATTTTATACAGAATCATTTAAACAT
1 CAGAAAATATTTTATACAGAATCATCCAAACAT
* *
143543 CAGAAAATATTTTACT-CAGATTTATCCAAACAT
1 CAGAAAATATTTTA-TACAGAATCATCCAAACAT
*
143576 CAAAAAA
1 CAGAAAA
143583 AATATTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.30
Consensus pattern (33 bp):
CAGAAAATATTTTATACAGAATCATCCAAACAT
Found at i:144239 original size:40 final size:40
Alignment explanation
Indices: 144167--144273 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
144157 GTTTGGAACG
* * * *
144167 AAAACACCGTAAAAGGTAAAACAACAAAGGCGTTTTCCCA
1 AAAACGCCGTAAAAGGTAAAGCAATAGAGGCGTTTTCCCA
* *
144207 TAAACGCCGTAAAAGGTAAAGCAATAGTGGCGTTTTCCCA
1 AAAACGCCGTAAAAGGTAAAGCAATAGAGGCGTTTTCCCA
* **
144247 AAAAAGCCACAAAAGGTAAAGCAATAG
1 AAAACGCCGTAAAAGGTAAAGCAATAG
144274 CGACATTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.16
Consensus pattern (40 bp):
AAAACGCCGTAAAAGGTAAAGCAATAGAGGCGTTTTCCCA
Found at i:144331 original size:16 final size:16
Alignment explanation
Indices: 144310--144343 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
144300 AAGGTAAAGA
*
144310 ACAATAGTGGTGTTTT
1 ACAATAGCGGTGTTTT
144326 ACAATAGCGGTGTTTT
1 ACAATAGCGGTGTTTT
144342 AC
1 AC
144344 CATAAACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (16 bp):
ACAATAGCGGTGTTTT
Found at i:144400 original size:99 final size:99
Alignment explanation
Indices: 144228--144417 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 99
144218 AAAGGTAAAG
* * *
144228 CAATAGTGGCGTTTTCCCAAAAAAGCCACAAAAGGTAAAGCAATAGCGACATTTATGGGAAAAAC
1 CAATAGCGGCGTTTTACCAAAAAAGCCACAAAAGGTAAAGCAATAGCGACATTTATGGAAAAAAC
*
144293 GCCACAAAAGGTAAAGAACAATAGTGGTGTTTTA
66 GACACAAAAGGTAAAGAACAATAGTGGTGTTTTA
* * * * * *
144327 CAATAGCGGTGTTTTACCATAAACGCCACAAAAGGTAATGCAATAGTGGCATTTATGGAAAAAAC
1 CAATAGCGGCGTTTTACCAAAAAAGCCACAAAAGGTAAAGCAATAGCGACATTTATGGAAAAAAC
* * *
144392 GACGCAAAAGGTAAAGAGCATTAGTG
66 GACACAAAAGGTAAAGAACAATAGTG
144418 ACATTTTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.21
Consensus pattern (99 bp):
CAATAGCGGCGTTTTACCAAAAAAGCCACAAAAGGTAAAGCAATAGCGACATTTATGGAAAAAAC
GACACAAAAGGTAAAGAACAATAGTGGTGTTTTA
Found at i:148898 original size:22 final size:22
Alignment explanation
Indices: 148870--148916 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
148860 CTAAAGGGAA
148870 AAAGCAAAGAAAGTACTTCCAT
1 AAAGCAAAGAAAGTACTTCCAT
*
148892 AAAGCAAAGAAAGTACTTTCAT
1 AAAGCAAAGAAAGTACTTCCAT
148914 AAA
1 AAA
148917 ATTTTTCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAGCAAAGAAAGTACTTCCAT
Found at i:150683 original size:23 final size:24
Alignment explanation
Indices: 150657--150733 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 24
150647 TATAAATTGT
150657 AAATTTATTATTATAT-TTTTGAAA
1 AAATTTATTATTATATATTTTG-AA
**
150681 AATATTTATTTATCGTTATATATTTTTTA
1 AA-ATTTA-TTA---TTATATATTTTGAA
150710 AAA-TTATTATTATATATTTTGAA
1 AAATTTATTATTATATATTTTGAA
150733 A
1 A
150734 GTATTTATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
23 13 0.30
24 2 0.05
25 5 0.12
26 6 0.14
27 3 0.07
28 1 0.02
29 9 0.21
30 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTTATTATTATATATTTTGAA
Found at i:150686 original size:53 final size:52
Alignment explanation
Indices: 150629--150741 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 52
150619 TAATATATTT
* *
150629 ATATTTATTTAAATTTAATATAAATTGTAAATTTATTATTATAT-TTTTGAAAA
1 ATATTTATTTAAAGTT-ATATAAATTGTAAAATTATTATTATATATTTTG-AAA
** ** *
150682 ATATTTATTTATCGTTATATATTTTTTAAAATTATTATTATATATTTTGAAA
1 ATATTTATTTAAAGTTATATAAATTGTAAAATTATTATTATATATTTTGAAA
*
150734 GTATTTAT
1 ATATTTAT
150742 GTATTTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
52 33 0.65
53 18 0.35
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (52 bp):
ATATTTATTTAAAGTTATATAAATTGTAAAATTATTATTATATATTTTGAAA
Found at i:150693 original size:29 final size:29
Alignment explanation
Indices: 150659--150758 Score: 79
Period size: 29 Copynumber: 3.7 Consensus size: 29
150649 TAAATTGTAA
150659 ATTTATTATTATAT-TTTTGAAAAATATTT
1 ATTTATTATTATATATTTTG-AAAATATTT
** **
150688 ATTTATCGTTATATATTTT-TTAA-A---
1 ATTTATTATTATATATTTTGAAAATATTT
*
150712 A-TTATTATTATATATTTTGAAAGTATTT
1 ATTTATTATTATATATTTTGAAAATATTT
* *
150740 ATGTATTTTTATATATTTT
1 ATTTATTATTATATATTTT
150759 TTAATTTTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
23 15 0.28
24 2 0.04
25 1 0.02
27 1 0.02
28 3 0.06
29 27 0.51
30 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (29 bp):
ATTTATTATTATATATTTTGAAAATATTT
Found at i:150723 original size:52 final size:52
Alignment explanation
Indices: 150656--150762 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
150646 ATATAAATTG
* *
150656 TAAATTTATTATTATAT-TTTTGAAAAATATTTATTTATCGTTATATATTTTT
1 TAAAATTATTATTATATATTTTG-AAAATATTTATGTATCGTTATATATTTTT
* **
150708 TAAAATTATTATTATATATTTTGAAAGTATTTATGTATTTTTATATATTTTT
1 TAAAATTATTATTATATATTTTGAAAATATTTATGTATCGTTATATATTTTT
150760 TAA
1 TAA
150763 TTTTTTAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 44 0.90
53 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (52 bp):
TAAAATTATTATTATATATTTTGAAAATATTTATGTATCGTTATATATTTTT
Found at i:150741 original size:22 final size:21
Alignment explanation
Indices: 150699--150738 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
150689 TTTATCGTTA
* *
150699 TATATTTTTTAAAATTATTAT
1 TATATATTTTAAAAGTATTAT
*
150720 TATATATTTTGAAAGTATT
1 TATATATTTTAAAAGTATT
150739 TATGTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATATTTTAAAAGTATTAT
Found at i:153223 original size:13 final size:14
Alignment explanation
Indices: 153200--153228 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
153190 ATGGGAATTG
153200 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
153214 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
153228 A
1 A
153229 GTGTTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:157831 original size:2 final size:2
Alignment explanation
Indices: 157824--157849 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
157814 ATAAAAGGTT
157824 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
157850 AGTAGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:161832 original size:6 final size:6
Alignment explanation
Indices: 161824--161882 Score: 100
Period size: 6 Copynumber: 9.8 Consensus size: 6
161814 TTATTCACCA
* *
161824 AAGCCA AAGCCA AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG
1 AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG
161872 AAGCCG AAGCC
1 AAGCCG AAGCC
161883 ACTCATATCC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.37, C:0.34, G:0.29, T:0.00
Consensus pattern (6 bp):
AAGCCG
Found at i:163129 original size:31 final size:31
Alignment explanation
Indices: 163091--163238 Score: 161
Period size: 31 Copynumber: 4.8 Consensus size: 31
163081 CACAGTCCGT
* * *
163091 ATGTATGAGTTCACCATATCTATTAATTCGC
1 ATGTATGAGTTCACCATATCTATGAATCCAC
* * * * * *
163122 ATGTATGAATTCGCTATATTTGTGAATTCAC
1 ATGTATGAGTTCACCATATCTATGAATCCAC
*
163153 TTGTATGAGTTCACCATATCTATGAATCCAC
1 ATGTATGAGTTCACCATATCTATGAATCCAC
* *
163184 ATGTATAAGTTCACTATATCTATGAATCCAC
1 ATGTATGAGTTCACCATATCTATGAATCCAC
* * *
163215 ATATATGAGTCCGCCATATCTATG
1 ATGTATGAGTTCACCATATCTATG
163239 GAATTTCTAT
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (31 bp):
ATGTATGAGTTCACCATATCTATGAATCCAC
Found at i:163168 original size:62 final size:62
Alignment explanation
Indices: 163091--163238 Score: 181
Period size: 62 Copynumber: 2.4 Consensus size: 62
163081 CACAGTCCGT
* * * * * * *
163091 ATGTATGAGTTCACCATATCTATTAATTCGCATGTATGAA-TTCGCTATATTTGTGAATTCAC
1 ATGTATGAGTTCACCATATCTATGAATCCACATGTAT-AAGTTCACTATATCTATGAATCCAC
*
163153 TTGTATGAGTTCACCATATCTATGAATCCACATGTATAAGTTCACTATATCTATGAATCCAC
1 ATGTATGAGTTCACCATATCTATGAATCCACATGTATAAGTTCACTATATCTATGAATCCAC
* * *
163215 ATATATGAGTCCGCCATATCTATG
1 ATGTATGAGTTCACCATATCTATG
163239 GAATTTCTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
61 2 0.03
62 71 0.97
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (62 bp):
ATGTATGAGTTCACCATATCTATGAATCCACATGTATAAGTTCACTATATCTATGAATCCAC
Found at i:164632 original size:21 final size:21
Alignment explanation
Indices: 164608--164648 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
164598 TAATTATTTT
164608 AATTTTATATATTTT-TATAAA
1 AATTTTATA-ATTTTCTATAAA
164629 AATTTTATAATTTTCTATAA
1 AATTTTATAATTTTCTATAA
164649 TCTATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTATAATTTTCTATAAA
Found at i:171736 original size:256 final size:258
Alignment explanation
Indices: 171236--171754 Score: 880
Period size: 256 Copynumber: 2.0 Consensus size: 258
171226 TATTAATCTA
171236 ATTGTACTCTGCAATACTAGATTCTAATTATAAATAATTCAAATATGTATTATTTATAATTATAA
1 ATTGTACTCTGCAATACTAGATTCTAATTATAAATAATTCAAATATGTATTATTTATAATTATAA
*
171301 TTTTACTTGTAAATTTAAAAAATAAAAATAATACTCTTTGATAAGTTTATTTGAATAATATTTAG
66 TTTTACTTGTAAATTTAAAAAATAAAAACAATACTCTTTGATAAGTTTATTTGAATAATATTTAG
* * *
171366 GGGTAAGATCAGTTCGATTTTTCGATTTTTTAACCAAACCAATATATTCGATTTTTTCATTTTAC
131 GGGTAAGATCAGTTCGATTTTTCAATTTTTTAACCAAACCAACATATTCGATTTTTCCATTTTAC
* * *
171431 GAATAGAAACTGATTATTATCAAGTCGTACTAAATCAATTCGGTTCAAGTTTCAGGTTTTCAC
196 GAATAGAAACTGATTATTACCAAATCATACTAAATCAATTCGGTTCAAGTTTCAGGTTTTCAC
*
171494 ATTGTACTCTGCAATACTAGATTCTAATTATAAATAATTCAAATATGTATTGTTTATAATTATAA
1 ATTGTACTCTGCAATACTAGATTCTAATTATAAATAATTCAAATATGTATTATTTATAATTATAA
*
171559 TTTTACTTGTAAATTTAAAAAATAAAAACAATACTCTTTGAT-AG-TTATTTGAATAGTATTTAG
66 TTTTACTTGTAAATTTAAAAAATAAAAACAATACTCTTTGATAAGTTTATTTGAATAATATTTAG
* * * * *
171622 GGGTAAGATCGGTTCGATTTTTCAATTTTTTAATCAAACCAACGTATTTGATTTTTCCATTTTGC
131 GGGTAAGATCAGTTCGATTTTTCAATTTTTTAACCAAACCAACATATTCGATTTTTCCATTTTAC
* *
171687 GAATAGAAACTGATTATTACCAAATCATACTAAATCAATTTGGTTCAAGTTTCAGGTTTTCAT
196 GAATAGAAACTGATTATTACCAAATCATACTAAATCAATTCGGTTCAAGTTTCAGGTTTTCAC
171750 ATTGT
1 ATTGT
171755 TTTTGGACTT
Statistics
Matches: 245, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
256 138 0.56
257 2 0.01
258 105 0.43
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (258 bp):
ATTGTACTCTGCAATACTAGATTCTAATTATAAATAATTCAAATATGTATTATTTATAATTATAA
TTTTACTTGTAAATTTAAAAAATAAAAACAATACTCTTTGATAAGTTTATTTGAATAATATTTAG
GGGTAAGATCAGTTCGATTTTTCAATTTTTTAACCAAACCAACATATTCGATTTTTCCATTTTAC
GAATAGAAACTGATTATTACCAAATCATACTAAATCAATTCGGTTCAAGTTTCAGGTTTTCAC
Found at i:172142 original size:25 final size:25
Alignment explanation
Indices: 172107--172162 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
172097 TTAGAAGTTT
*
172107 TAAAAACAACAACAATA-ATAATAGA
1 TAAAAACAAC-ACAATACATAATAAA
*
172132 TAAAAAGAACACAATACATAATAAA
1 TAAAAACAACACAATACATAATAAA
172157 TAAAAA
1 TAAAAA
172163 AGAGATGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.70, C:0.11, G:0.04, T:0.16
Consensus pattern (25 bp):
TAAAAACAACACAATACATAATAAA
Found at i:181129 original size:38 final size:37
Alignment explanation
Indices: 181087--181389 Score: 300
Period size: 38 Copynumber: 8.0 Consensus size: 37
181077 GTGTCTATCG
* * *
181087 GGCTTTGTGCCTAGCAAGCTTTATGTCGGTGTTTATTA
1 GGCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTA-TA
*
181125 GGCTTCGTGCCTAACAGGCTTTATGCCGGTGTTTATA
1 GGCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
* * * * * *
181162 GAGATTCATGCCTAACAGGTTTTGTGCTGGTGTTTATCA
1 G-GCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTAT-A
* * * *
181201 GGCTTTGTGCCTAGCAGGCTTTCTGCTGGTGTTTATC
1 GGCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
* *
181238 GGACTTCGTGTCTAGCAGGCTTTATGCCGGTGTTTATC
1 GG-CTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
* * * *
181276 GAGCTTCGTGCCTGGCAGGCTATATGCCAGTGTTTATC
1 G-GCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
* * *
181314 GAGCTTCGTACCTAACAGGCTTTATGCCGATGTTTATCA
1 G-GCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTAT-A
* * * *
181353 GGTTTCGTGCCTAGAAGGCTTTGTGCCAGTGTTTATA
1 GGCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
181390 CTTGTTTGGT
Statistics
Matches: 222, Mismatches: 38, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
37 6 0.03
38 212 0.95
39 4 0.02
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (37 bp):
GGCTTCGTGCCTAGCAGGCTTTATGCCGGTGTTTATA
Done.