Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 12 of 145
Found at i:4005704 original size:9 final size:9
Alignment explanation
Indices: 4005690--4005729 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
4005680 GTAGGGATTC
4005690 AATTCGGTT
1 AATTCGGTT
*
4005699 AATTCGGGT
1 AATTCGGTT
4005708 AATTCGGTT
1 AATTCGGTT
4005717 AATTCGGTT
1 AATTCGGTT
4005726 AATT
1 AATT
4005730 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4007875 original size:38 final size:38
Alignment explanation
Indices: 4007821--4007931 Score: 134
Period size: 38 Copynumber: 2.9 Consensus size: 38
4007811 TCTACAAAGG
* *
4007821 ACATGATAAGCATGTCTACTGTTAATGATGAATTGAGAT
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGA-AT
* *
4007860 -CATGTTAAACTTGTCTACTGTTAATGATGAATTGATT
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAT
* * * *
4007897 ACATGTTACACATGTCTACTGCTAGTGTTGAATTG
1 ACATGTTAAACATGTCTACTGTTAATGATGAATTG
4007932 TTCCATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 61 0.98
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (38 bp):
ACATGTTAAACATGTCTACTGTTAATGATGAATTGAAT
Found at i:4008058 original size:44 final size:42
Alignment explanation
Indices: 4008000--4008138 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 42
4007990 AGATTGGCAA
* *
4008000 TTTATCTGCAAATTTTGTTTTCAATCCACAACCTAGTGGCAGAT
1 TTTATCTACGAATTTTGTTTTC-ATCCACAACC-AGTGGCAGAT
* *
4008044 TTTATCTATGAATTTTGTTGTGCATCCACAACCCAGTGGCAGAT
1 TTTATCTACGAATTTTGTT-TTCATCCACAA-CCAGTGGCAGAT
* *
4008088 TTTATCTACGAATTTTGTTGTGT-ATCCACAGTCCAGTGGCAAAT
1 TTTATCTACGAATTTTGTT-T-TCATCCACA-ACCAGTGGCAGAT
4008132 TTTATCT
1 TTTATCT
4008139 GCAAAATTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
44 79 0.95
45 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTATCTACGAATTTTGTTTTCATCCACAACCAGTGGCAGAT
Found at i:4028594 original size:53 final size:53
Alignment explanation
Indices: 4028527--4028687 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 53
4028517 ATATTCTTAT
* *
4028527 TTATATAATATATTTGAAAATAATAACATATTTATTACCCCCAATTACGACTGAA
1 TTAT-TAA-ATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
* *
4028582 TTCTTAAATATTT-AAATATAATAATATATTTTATTACCCCAAATTACGACTCAA
1 TTATTAAATATTTGAAA-ATAATAATATA-TTTATTACCCCCAATTACGACTCAA
* *
4028636 TTATTAAATATTTGAATATAATAATATATTTATTA-ACCCAATTACGACTCAA
1 TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
4028688 GGATCACAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
52 18 0.19
53 23 0.24
54 49 0.52
55 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (53 bp):
TTATTAAATATTTGAAAATAATAATATATTTATTACCCCCAATTACGACTCAA
Found at i:4034202 original size:16 final size:16
Alignment explanation
Indices: 4034181--4034214 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4034171 AATATACTAG
4034181 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
4034197 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
4034213 TT
1 TT
4034215 AATTAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:4035701 original size:15 final size:15
Alignment explanation
Indices: 4035648--4035702 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
4035638 TCCACCACCG
*
4035648 GGATATCCTCCACAA
1 GGATATCCTCCTCAA
4035663 GGATA---TCCTCAA
1 GGATATCCTCCTCAA
*
4035675 GGTTATCCTCCTCAA
1 GGATATCCTCCTCAA
4035690 GGATATCCTCCTC
1 GGATATCCTCCTC
4035703 CTTACGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.29
15 24 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
GGATATCCTCCTCAA
Found at i:4036802 original size:20 final size:21
Alignment explanation
Indices: 4036777--4036827 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4036767 AAAGGAATAT
4036777 TTAAATTATTTATTTT-ATTA
1 TTAAATTATTTATTTTAATTA
* *
4036797 TTAAATTAATTATTTTAATTT
1 TTAAATTATTTATTTTAATTA
*
4036818 TTATATTATT
1 TTAAATTATT
4036828 AAGAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATTATTTATTTTAATTA
Found at i:4042010 original size:15 final size:16
Alignment explanation
Indices: 4041974--4042011 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4041964 GAGCAGTTGC
4041974 AGAAGCAGAAGCTGCA
1 AGAAGCAGAAGCTGCA
*
4041990 A-TAGCAGAAGCTG-A
1 AGAAGCAGAAGCTGCA
4042004 AGAAGCAG
1 AGAAGCAG
4042012 CAAGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 16 0.84
16 1 0.05
ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08
Consensus pattern (16 bp):
AGAAGCAGAAGCTGCA
Found at i:4042057 original size:21 final size:21
Alignment explanation
Indices: 4042033--4042072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4042023 GAGGTTGCTG
*
4042033 AAGCTGATGCAGAGGCAGCGC
1 AAGCTGATGCAGAAGCAGCGC
**
4042054 AAGCTTTTGCAGAAGCAGC
1 AAGCTGATGCAGAAGCAGC
4042073 AATGAAAACT
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:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAGCTGATGCAGAAGCAGCGC
Found at i:4052790 original size:72 final size:70
Alignment explanation
Indices: 4052638--4052790 Score: 180
Period size: 70 Copynumber: 2.2 Consensus size: 70
4052628 GAACACTAGA
* * ** * *
4052638 AATAAGATGGACAGAGGACATTGTTTATGTAGAGGTTATTTTTAAGAAATAAAGTTAATGCAAGC
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGGTTATTTTTAAGAAATAAAATTAATGCAAAC
*
4052703 CCAAT
66 CCAAC
* * *
4052708 AATAAGATGGACAAAGAACATTGTTTACATAGAGGCTTCTTTTTAAGAAAATAAAATTAGTTCAA
1 AATAAGATGGACAAAGAACATTGTTTACATAGAGG-TTATTTTTAAG-AAATAAAATTAATGCAA
* *
4052773 ATCCAGC
64 ACCCAAC
4052780 AATAAGATGGA
1 AATAAGATGGA
4052791 GGTGGAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
70 31 0.45
71 10 0.14
72 28 0.41
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (70 bp):
AATAAGATGGACAAAGAACATTGTTTACATAGAGGTTATTTTTAAGAAATAAAATTAATGCAAAC
CCAAC
Found at i:4061944 original size:20 final size:20
Alignment explanation
Indices: 4061919--4061998 Score: 151
Period size: 20 Copynumber: 4.0 Consensus size: 20
4061909 ACTCCTGATA
4061919 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
4061939 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
4061959 GTGTGTAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
*
4061979 GTGTATAAGTTTTATACACG
1 GTGTGTAAGTTTTATACACG
4061999 AAGAGTAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (20 bp):
GTGTGTAAGTTTTATACACG
Found at i:4063099 original size:39 final size:38
Alignment explanation
Indices: 4063009--4063084 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
4062999 CGAATATAAT
* *
4063009 AAATATATT-TTTTATTTTTTATTTTTAAAATACTTTTA
1 AAAT-TATTATTTTATTTTTTATTTTTAAAACAATTTTA
*
4063047 AAATTATTTTTTTATTTTTTTATTTTTAAAACAATTTT
1 AAATTATTATTTTA-TTTTTTATTTTTAAAACAATTTT
4063085 TTAATGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 4 0.12
38 9 0.26
39 21 0.62
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
AAATTATTATTTTATTTTTTATTTTTAAAACAATTTTA
Found at i:4063421 original size:18 final size:20
Alignment explanation
Indices: 4063398--4063443 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
4063388 GTATTATTGT
*
4063398 ATAAATTAT-CGAT-AATAC
1 ATAAATTATACCATCAATAC
4063416 ATAAATTATACCATCAATAC
1 ATAAATTATACCATCAATAC
4063436 ATCAAATT
1 AT-AAATT
4063444 TAACCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 7 0.29
21 5 0.21
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATTATACCATCAATAC
Found at i:4067308 original size:2 final size:2
Alignment explanation
Indices: 4067266--4067292 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4067256 CATGGCATGC
4067266 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4067293 GTTATATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4073450 original size:21 final size:22
Alignment explanation
Indices: 4073424--4073469 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
4073414 AAACTGTTAC
* *
4073424 TTTTTTATTGTTTTCTTGCT-G
1 TTTTTTACTATTTTCTTGCTAG
4073445 TTTTTTACTATTTTCTTGCTAG
1 TTTTTTACTATTTTCTTGCTAG
4073467 TTT
1 TTT
4073470 CTTGTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTTACTATTTTCTTGCTAG
Found at i:4076237 original size:12 final size:12
Alignment explanation
Indices: 4076210--4076256 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
4076200 AATTTAAAGC
4076210 ATATATACATAA-
1 ATATATACA-AAT
*
4076222 ATATTTACAAAT
1 ATATATACAAAT
*
4076234 ATATATACAAGT
1 ATATATACAAAT
4076246 ATAGTATACAA
1 ATA-TATACAA
4076257 GTAAACTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 2 0.07
12 21 0.70
13 7 0.23
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (12 bp):
ATATATACAAAT
Found at i:4077285 original size:5 final size:5
Alignment explanation
Indices: 4077271--4077312 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
4077261 AATAAAACGC
* *
4077271 AAAAG AAAAT AAAAT -ATAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
4077313 ATGCAAGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4078417 original size:50 final size:50
Alignment explanation
Indices: 4078355--4078600 Score: 156
Period size: 50 Copynumber: 4.9 Consensus size: 50
4078345 GATCTGTAAT
* * *
4078355 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCTTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACAAGATCCGCCGTCTTAG
* * ** ** * *
4078405 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCACCGT-TGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACAAGATCCGCCGTCT-TAG
* * * * * *
4078455 CTTCAATCTTTTAAATTGCAATGTCAGGAAAACTAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACAAGATCCGCCGTCTTAG
* * * * * ** * *
4078505 CTTCAATCTATTCCATTGCACTG-CTAAGGAAGTAAGATCCACCGT-TGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACAAGATCCGCCGTCT-TAG
* * * * * *
4078555 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTC
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACAAGATCCGCCGTC
4078601 NNNNNNNNNN
Statistics
Matches: 142, Mismatches: 48, Indels: 11
0.71 0.24 0.05
Matches are distributed among these distances:
49 2 0.01
50 139 0.98
51 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACAAGATCCGCCGTCTTAG
Found at i:4078493 original size:100 final size:100
Alignment explanation
Indices: 4078371--4078600 Score: 336
Period size: 100 Copynumber: 2.3 Consensus size: 100
4078361 TTTGTTCAAC
* * * *
4078371 TGCAATGTCGGGGAAACCAGATCCGCCGTCTTAGCTTCAATCTGTTCCACCGCACCG-TCAGGGA
1 TGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCGCT-AAGGA
4078435 AGTAAGATCCACCGTTGTGGCTTCAATCTTTTAAAT
65 AGTAAGATCCACCGTTGTGGCTTCAATCTTTTAAAT
* * ** *
4078471 TGCAATGTCAGGAAAACTAGATCCGCCGTCGTAGCTTCAATCTATTCCATTGCACTGCTAAGGAA
1 TGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCGCTAAGGAA
*
4078536 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCACCGTTGTGGCTTCAATCTTTTAAAT
* *
4078571 TGCAATATCAGGGAAACCAGATCCGTCGTC
1 TGCAATGTCAGGGAAACCAGATCCGCCGTC
4078601 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
100 114 0.99
101 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACCGCACCGCTAAGGAA
GTAAGATCCACCGTTGTGGCTTCAATCTTTTAAAT
Found at i:4081187 original size:25 final size:25
Alignment explanation
Indices: 4081136--4081204 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
4081126 ATGAACAAAT
*
4081136 AGCACTAAAGTGCT-AT-A-CAGAG
1 AGCACTAATGTGCTAATAATCAGAG
4081158 AGCACTAATGTGCTAATAATCAGAG
1 AGCACTAATGTGCTAATAATCAGAG
4081183 AGCACTAATGTGCTAATAATCA
1 AGCACTAATGTGCTAATAATCA
4081205 AATAGCGCGC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
22 13 0.30
23 2 0.05
24 1 0.02
25 27 0.63
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (25 bp):
AGCACTAATGTGCTAATAATCAGAG
Found at i:4082057 original size:13 final size:13
Alignment explanation
Indices: 4082041--4082065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4082031 TAGTTAATGT
4082041 AATATAATAATAC
1 AATATAATAATAC
4082054 AATATAATAATA
1 AATATAATAATA
4082066 TTTTAATCTA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAATAATAC
Found at i:4083431 original size:17 final size:17
Alignment explanation
Indices: 4083409--4083447 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4083399 CTTTTGCCAA
*
4083409 TTCTTTTTGTAAAGGCT
1 TTCTTTTTGCAAAGGCT
4083426 TTCTTTTTGCAAAGGCT
1 TTCTTTTTGCAAAGGCT
4083443 TTCTT
1 TTCTT
4083448 CCCTTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (17 bp):
TTCTTTTTGCAAAGGCT
Found at i:4083522 original size:61 final size:61
Alignment explanation
Indices: 4083427--4083585 Score: 309
Period size: 61 Copynumber: 2.6 Consensus size: 61
4083417 GTAAAGGCTT
4083427 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
*
4083488 TCTTTTTGCAAAGACTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
4083549 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAG
1 TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAG
4083586 CAAGCATCCT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 96 1.00
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (61 bp):
TCTTTTTGCAAAGGCTTTCTTCCCTTTCCTTCTCCAGTTTTTTAATTACACGTTGGCGCTC
Found at i:4097735 original size:106 final size:106
Alignment explanation
Indices: 4097550--4097761 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
4097540 AAAACCTATC
4097550 AGAGGTGATGTAACAACAATTAACTTAGACAAGGAAGCACCGGAACTAAGTAGATATAGAAAACA
1 AGAGGTGATGTAACAACAATTAACTTAGACAAGGAAGCACCGGAACTAAGTAGATATAGAAAACA
4097615 ATATAACAAGAGTGGTTTAATACTTGCAATTTCCTCGATAA
66 ATATAACAAGAGTGGTTTAATACTTGCAATTTCCTCGATAA
4097656 AGAGGTGATGTAACAACAATTAACTTAGACAAGGAAGCACCGGAACTAAGTAGATATAGAAAACA
1 AGAGGTGATGTAACAACAATTAACTTAGACAAGGAAGCACCGGAACTAAGTAGATATAGAAAACA
4097721 ATATAACAAGAGTGGTTTAATACTTGCAATTTCCTCGATAA
66 ATATAACAAGAGTGGTTTAATACTTGCAATTTCCTCGATAA
4097762 GATCAACACC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (106 bp):
AGAGGTGATGTAACAACAATTAACTTAGACAAGGAAGCACCGGAACTAAGTAGATATAGAAAACA
ATATAACAAGAGTGGTTTAATACTTGCAATTTCCTCGATAA
Found at i:4099420 original size:22 final size:23
Alignment explanation
Indices: 4099380--4099426 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4099370 AATTGGGTAA
4099380 AAAAAACCCTAACTATCAAATTG
1 AAAAAACCCTAACTATCAAATTG
* *
4099403 AAAAAACCC-AAGTCTCAAATTG
1 AAAAAACCCTAACTATCAAATTG
4099425 AA
1 AA
4099427 CATTGAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAAACCCTAACTATCAAATTG
Found at i:4100279 original size:16 final size:16
Alignment explanation
Indices: 4100255--4100289 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4100245 CTAAAATTTC
4100255 ATTTGTTTTTAAAATT
1 ATTTGTTTTTAAAATT
* *
4100271 ATTTTTTTTTTAAATT
1 ATTTGTTTTTAAAATT
4100287 ATT
1 ATT
4100290 CTTTACTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTGTTTTTAAAATT
Found at i:4101866 original size:9 final size:9
Alignment explanation
Indices: 4101848--4101882 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
4101838 TTTTTTTTTT
4101848 AAATTTAAA
1 AAATTTAAA
*
4101857 AAA-TTCAA
1 AAATTTAAA
4101865 AAATTTAAA
1 AAATTTAAA
4101874 AAATTTAAA
1 AAATTTAAA
4101883 TATTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATTTAAA
Found at i:4101870 original size:17 final size:17
Alignment explanation
Indices: 4101848--4101891 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4101838 TTTTTTTTTT
4101848 AAATTTAAAAAATTCAA
1 AAATTTAAAAAATTCAA
*
4101865 AAATTTAAAAAATTTAA
1 AAATTTAAAAAATTCAA
*
4101882 ATA-TTAAAAA
1 AAATTTAAAAA
4101892 GTATAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAATTCAA
Found at i:4101898 original size:16 final size:15
Alignment explanation
Indices: 4101847--4101898 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
4101837 CTTTTTTTTT
4101847 TAAATTTAAAAAATTCA
1 TAAATTTAAAAAA-T-A
* *
4101864 AAAATTTAAAAAATT
1 TAAATTTAAAAAATA
*
4101879 TAAATATTAAAAAGTA
1 TAAAT-TTAAAAAATA
4101895 TAAA
1 TAAA
4101899 AAGTACCCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 13 0.45
17 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAATTTAAAAAATA
Found at i:4102484 original size:18 final size:19
Alignment explanation
Indices: 4102461--4102502 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4102451 AGATTTCAAG
*
4102461 TTATTCGAATTAA-TCGAA
1 TTATTCGAATCAACTCGAA
*
4102479 TTATTCGAGTCAACTCGAA
1 TTATTCGAATCAACTCGAA
4102498 TTATT
1 TTATT
4102503 TTTTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATTCGAATCAACTCGAA
Found at i:4125874 original size:50 final size:50
Alignment explanation
Indices: 4125815--4126176 Score: 303
Period size: 50 Copynumber: 7.2 Consensus size: 50
4125805 ATTGCAATTA
*
4125815 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * *
4125865 AAAAGATTGAAGCCACGACGGCGGATCTTACTTCCTTAGCAGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * * *** * * * * **
4125915 AACAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * *
4125965 AAAAGATTAAAGCCACAATGGCGGATCTTACTTCCTTAACAGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * * *** * * * * **
4126015 AACAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * * * *
4126065 AAAAGATTGATGCCACAACGACGGATCTTACTTCCCTGACGGTGCGGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
* * * * * ** *
4126115 AATAGATTGAAGCTACGACGGCAGATC-TAGTTTCCCCGACATTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTAACAGTGCAGTGG
*
4126165 AATAGATTGAAG
1 AAAAGATTGAAG
4126177 ATTACAGATC
Statistics
Matches: 238, Mismatches: 73, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
49 2 0.01
50 236 0.99
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACAGTGCAGTGG
Found at i:4125978 original size:100 final size:100
Alignment explanation
Indices: 4125865--4126160 Score: 432
Period size: 100 Copynumber: 3.0 Consensus size: 100
4125855 AGTGCAGTGG
*
4125865 AAAAGATTGAAGCCACGACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
4125930 CAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
66 CAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
* * *
4125965 AAAAGATTAAAGCCACAATGGCGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
4126030 CAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
66 CAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
* * * * * *
4126065 AAAAGATTGATGCCACAACGACGGATCTTACTTCCCT-GACGGTGCGGTGGAATAGATTGAAGCT
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCT
* ** * * *
4126129 ACGACGGCAGATCTAGTTTCCCCGACATTGCA
65 ACAACGGTGGATCTGGTTTCCCTGATATTGCA
4126161 GTGGAATAGA
Statistics
Matches: 176, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 176 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
CAACGGTGGATCTGGTTTCCCTGATATTGCAATTA
Found at i:4126091 original size:150 final size:150
Alignment explanation
Indices: 4125785--4126092 Score: 402
Period size: 150 Copynumber: 2.1 Consensus size: 150
4125775 NNNNNNNNNN
* *
4125785 ACGGATTTGGTGTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCC
1 ACGGATCTGGTGTCCCTGATATTGCAATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCC
* * * * *
4125850 TTAACAGTGCAGTGGAAAAGATTGAAGCCACGACGGCGGATCTTACTTCCTTAGCAGTGCAGTGG
66 TTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTCCTGAGCAGTGCAATGA
* *
4125915 AACAGATTGAAGCTACAACG
131 AAAAGATTGAAGCCACAACG
** * *
4125935 GTGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTAAAGCCACAATGGCGGATCTTACTTCC
1 ACGGATCTGGTGTCCCTGATATTGCAATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCC
* * * ** * * *
4126000 TTAACAGTGCAGTGGAACAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGA-TATTGCAATT
66 TTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTT-CCTGAGCAGTGCAATG
*
4126064 AAAAAGATTGATGCCACAACG
130 AAAAAGATTGAAGCCACAACG
4126085 ACGGATCT
1 ACGGATCT
4126093 TACTTCCCTG
Statistics
Matches: 133, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
150 129 0.97
151 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (150 bp):
ACGGATCTGGTGTCCCTGATATTGCAATTAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCC
TTAACAGTGCAGTGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTCCTGAGCAGTGCAATGA
AAAAGATTGAAGCCACAACG
Found at i:4126122 original size:150 final size:150
Alignment explanation
Indices: 4125797--4126142 Score: 343
Period size: 150 Copynumber: 2.3 Consensus size: 150
4125787 GGATTTGGTG
* * *
4125797 TCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG
1 TCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG
* * * * * *
4125862 TGGAAAAGATTGAAGCCACGACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAG
66 TGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTCCTGAGCAGTGCAATGAAAAAGATTGAAG
* ** **
4125927 CTACAACGGTGGATCTGGTT
131 CCACAACGACGGATCTGACT
* * * * *
4125947 TCCCTGATATTGCAATTAAAAAGATTAAAGCCACAATGGCGGATCTTACTTCCTTAACAGTGCAG
1 TCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG
* * * ** * * * *
4126012 TGGAACAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGA-TATTGCAATTAAAAAGATTGAT
66 TGGAAAAGATTGAAGCCACAACGGCGGATCTGACTT-CCTGAGCAGTGCAATGAAAAAGATTGAA
*
4126076 GCCACAACGACGGATCTTACT
130 GCCACAACGACGGATCTGACT
* ** * * * * *
4126097 TCCCTGACGGTGCGGTGGAATAGATTGAAGCTACGACGGCAGATCT
1 TCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCT
4126143 AGTTTCCCCG
Statistics
Matches: 159, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
150 155 0.97
151 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (150 bp):
TCCCTGACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG
TGGAAAAGATTGAAGCCACAACGGCGGATCTGACTTCCTGAGCAGTGCAATGAAAAAGATTGAAG
CCACAACGACGGATCTGACT
Found at i:4130259 original size:8 final size:8
Alignment explanation
Indices: 4130236--4130332 Score: 97
Period size: 8 Copynumber: 11.9 Consensus size: 8
4130226 AATAAATAAG
4130236 TATTATAT
1 TATTATAT
4130244 TAATTATAT
1 T-ATTATAT
*
4130253 TATTATAA
1 TATTATAT
4130261 TATTA-AT
1 TATTATAT
*
4130268 TATAATAT
1 TATTATAT
*
4130276 TATAATAT
1 TATTATAT
**
4130284 TACAATAT
1 TATTATAT
*
4130292 TAATTATAA
1 T-ATTATAT
*
4130301 TATTATAA
1 TATTATAT
4130309 TATTATAT
1 TATTATAT
4130317 TAATTATAT
1 T-ATTATAT
4130326 TATTATA
1 TATTATA
4130333 ACAAAAGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
7 5 0.06
8 51 0.66
9 21 0.27
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTATAT
Found at i:4130265 original size:20 final size:20
Alignment explanation
Indices: 4130240--4130333 Score: 98
Period size: 20 Copynumber: 5.0 Consensus size: 20
4130230 AATAAGTATT
4130240 ATATTAATTATATTATTATA
1 ATATTAATTATATTATTATA
*
4130260 ATATTAATTATAATATTATA
1 ATATTAATTATATTATTATA
4130280 ATATTACA--ATATTAATTATA
1 ATATTA-ATTATATT-ATTATA
4130300 ATATT-A-TA-A-TA-T-T-
1 ATATTAATTATATTATTATA
4130313 ATATTAATTATATTATTATA
1 ATATTAATTATATTATTATA
4130333 A
1 A
4130334 CAAAAGAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
13 5 0.08
14 2 0.03
15 3 0.05
16 2 0.03
17 3 0.05
18 3 0.05
19 6 0.10
20 37 0.60
21 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATTATATTATTATA
Found at i:4130284 original size:28 final size:28
Alignment explanation
Indices: 4130237--4130333 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
4130227 ATAAATAAGT
* *
4130237 ATTATATTAATTATATTATTATAATATTA
1 ATTATAAT-ATTATAATATTATAATATTA
*
4130266 ATTATAATATTATAATATTACAATATTA
1 ATTATAATATTATAATATTATAATATTA
4130294 ATTATAATATTATAATA-T-T-ATATTA
1 ATTATAATATTATAATATTATAATATTA
*
4130319 ATTATATTATTATAA
1 ATTATAATATTATAA
4130334 CAAAAGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
25 20 0.32
27 1 0.02
28 35 0.56
29 7 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTATAATATTATAATATTATAATATTA
Found at i:4130741 original size:15 final size:15
Alignment explanation
Indices: 4130721--4130750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4130711 TGAATATCGA
4130721 TATTGAATTAAATGT
1 TATTGAATTAAATGT
*
4130736 TATTGAATTATATGT
1 TATTGAATTAAATGT
4130751 GAATTGAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
TATTGAATTAAATGT
Found at i:4134015 original size:3 final size:3
Alignment explanation
Indices: 4134007--4134055 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4133997 TATAAACTAG
4134007 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4134055 T
1 T
4134056 GTCTAAATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4135738 original size:24 final size:26
Alignment explanation
Indices: 4135680--4135740 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
4135670 AACGTAATGA
4135680 TTCAAAT-ATTATAATAGAATAATTTT
1 TTCAAATCATTATAATAGAATAA-TTT
4135706 TTCTGAAATCATTATAATAGAAT-A-TT
1 TTC--AAATCATTATAATAGAATAATTT
4135732 TTCAAATCA
1 TTCAAATCA
4135741 AAATTAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 6 0.19
26 8 0.25
28 5 0.16
29 13 0.41
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (26 bp):
TTCAAATCATTATAATAGAATAATTT
Found at i:4145076 original size:15 final size:15
Alignment explanation
Indices: 4145056--4145084 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4145046 CTTAACATTG
4145056 TATTAAAAAGAACAT
1 TATTAAAAAGAACAT
4145071 TATTAAAAAGAACA
1 TATTAAAAAGAACA
4145085 GATATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
TATTAAAAAGAACAT
Found at i:4158966 original size:17 final size:16
Alignment explanation
Indices: 4158942--4158978 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4158932 TTTTACCCAT
4158942 TTTA-TTTTCATAATTA
1 TTTATTTTTCAT-ATTA
4158958 TTTATTTTTCATATTA
1 TTTATTTTTCATATTA
4158974 TTTAT
1 TTTAT
4158979 ATAAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTTTCATATTA
Found at i:4161654 original size:3 final size:3
Alignment explanation
Indices: 4161640--4161716 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
4161630 CAAACATTTA
* * * * *
4161640 TAT TAT TCAT TAT TAA TAT TAT TAA TGT TAT TGT TAT TAT CAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4161686 TAT TGT TAT CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T
4161717 TTTAAAAATA
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
2 2 0.04
3 49 0.89
4 4 0.07
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4161907 original size:260 final size:261
Alignment explanation
Indices: 4161444--4161973 Score: 1037
Period size: 260 Copynumber: 2.0 Consensus size: 261
4161434 TTTTATTTTT
4161444 ATTATT-TTATTTTTAAAAAAATATTTTTTAATATTTTATTTATTTATTTCTAATCAAACTTTTA
1 ATTATTATTATTTTT-AAAAAATATTTTTTAATATTTTATTTATTTATTTCTAATCAAACTTTTA
4161508 TTAGTTTTCATTTATTTACTTACTTATTATTTCTTTTTTAATTGGCTTTTTTTTTTATTTCTATC
65 TTAGTTTTCATTTATTTACTTACTTATTATTTCTTTTTTAATTGGCTTTTTTTTTTATTTCTATC
4161573 CTTATTATTGTTATTTTTGTTTCATTATTTATTTATTTATTACTTTTTATATACTTTCAAACATT
130 CTTATTATTGTTATTTTTGTTTCATTATTTATTTATTTATTACTTTTTATATACTTTCAAACATT
4161638 TATATTATTCATTATTAATATTATTAATGTTATTGTTATTATCATTATTATTGTTATCATTTTCA
195 TATATTATTCATTATTAATATTATTAATGTTATTGTTATTATCATTATTATTGTTATCATTTTCA
4161703 TC
260 TC
4161705 ATTATTATTATTTTT-AAAAATATTTTTTAATATTTTATTTATTTATTTCTAATCAAACTTTTAT
1 ATTATTATTATTTTTAAAAAATATTTTTTAATATTTTATTTATTTATTTCTAATCAAACTTTTAT
4161769 TAGTTTTCATTTATTTACTTACTTATTATTTCTTTTTTAATTGGCTTTTTTTTTTATTTCTATCC
66 TAGTTTTCATTTATTTACTTACTTATTATTTCTTTTTTAATTGGCTTTTTTTTTTATTTCTATCC
4161834 TTATTATTGTTATTTTTGTTTCATTATTTATTTATTTATTACTTTTTATATACTTTCAAACATTT
131 TTATTATTGTTATTTTTGTTTCATTATTTATTTATTTATTACTTTTTATATACTTTCAAACATTT
4161899 ATATTATTCATTATTAATATTATTAATGTTATTGTTATTATCATTATTATTGTTATCATTTTCAT
196 ATATTATTCATTATTAATATTATTAATGTTATTGTTATTATCATTATTATTGTTATCATTTTCAT
4161964 C
261 C
4161965 ATTATTATT
1 ATTATTATT
4161974 GTTTATGCAT
Statistics
Matches: 268, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
260 254 0.95
261 6 0.02
262 8 0.03
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (261 bp):
ATTATTATTATTTTTAAAAAATATTTTTTAATATTTTATTTATTTATTTCTAATCAAACTTTTAT
TAGTTTTCATTTATTTACTTACTTATTATTTCTTTTTTAATTGGCTTTTTTTTTTATTTCTATCC
TTATTATTGTTATTTTTGTTTCATTATTTATTTATTTATTACTTTTTATATACTTTCAAACATTT
ATATTATTCATTATTAATATTATTAATGTTATTGTTATTATCATTATTATTGTTATCATTTTCAT
C
Found at i:4161914 original size:3 final size:3
Alignment explanation
Indices: 4161900--4161973 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
4161890 CAAACATTTA
* * * * *
4161900 TAT TAT TCAT TAT TAA TAT TAT TAA TGT TAT TGT TAT TAT CAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4161946 TAT TGT TAT CAT T-T TCAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
4161974 GTTTATGCAT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
2 2 0.04
3 46 0.88
4 4 0.08
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:4171884 original size:14 final size:14
Alignment explanation
Indices: 4171865--4171893 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4171855 GTCTTTGGTT
4171865 GGCTTACAGTTATC
1 GGCTTACAGTTATC
4171879 GGCTTACAGTTATC
1 GGCTTACAGTTATC
4171893 G
1 G
4171894 ACTTTGAATA
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:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (14 bp):
GGCTTACAGTTATC
Found at i:4188502 original size:14 final size:15
Alignment explanation
Indices: 4188466--4188518 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
4188456 TAGAATTTCA
*
4188466 AAAGTTTAAAAATAT
1 AAAGATTAAAAATAT
*
4188481 AAAGATTAAAAATTT
1 AAAGATTAAAAATAT
*
4188496 CAA-ATT-AAAATAT
1 AAAGATTAAAAATAT
*
4188509 AAAGGTTAAA
1 AAAGATTAAA
4188519 TTCACAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 8 0.27
14 5 0.17
15 17 0.57
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (15 bp):
AAAGATTAAAAATAT
Found at i:4189693 original size:23 final size:21
Alignment explanation
Indices: 4189656--4189702 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
4189646 AAATTAGCAC
4189656 AATTTTTTAAATTAAATT-AT
1 AATTTTTTAAATTAAATTAAT
*
4189676 AATTATTTTAAAACTTAATTTAAT
1 AATT-TTTT-AAA-TTAAATTAAT
4189700 AAT
1 AAT
4189703 ATGATAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 3 0.14
23 6 0.27
24 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAATTAAATTAAT
Found at i:4191454 original size:31 final size:30
Alignment explanation
Indices: 4191417--4191497 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
4191407 TACAAGCTAG
4191417 TGACTTAAATAGAAACTTTTAAATAGTTAAA
1 TGACTTAAAT-GAAACTTTTAAATAGTTAAA
* * *
4191448 TGACTTAAATGAAAATTTTTGAATAGTTTAA
1 TGACTTAAATG-AAACTTTTAAATAGTTAAA
*
4191479 TGAC-TAAATTGTAACTTTT
1 TGACTTAAA-TGAAACTTTT
4191498 TTAATTAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 11 0.26
31 32 0.74
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (30 bp):
TGACTTAAATGAAACTTTTAAATAGTTAAA
Found at i:4194137 original size:20 final size:20
Alignment explanation
Indices: 4194092--4194140 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4194082 TTTTCAACAA
*
4194092 AAAAAATTTAGAATAATTTT
1 AAAAAATTTAAAATAATTTT
*
4194112 TAAAAATTTAAAAT-ATTTAT
1 AAAAAATTTAAAATAATTT-T
4194132 AAAAAATTT
1 AAAAAATTT
4194141 CATAGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAAATTTAAAATAATTTT
Found at i:4194202 original size:21 final size:20
Alignment explanation
Indices: 4194176--4194223 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
4194166 AAAGAATATA
*
4194176 TAAAAAAATTAATTTTTTTT
1 TAAAAAAAATAATTTTTTTT
4194196 TATAAAAAAATAATTTTTTTT
1 TA-AAAAAAATAATTTTTTTT
4194217 TAAAAAA
1 TAAAAAA
4194224 TTTGAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAAAAAATAATTTTTTTT
Found at i:4194347 original size:16 final size:16
Alignment explanation
Indices: 4194326--4194356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4194316 CTTTGAAAGA
4194326 ATTTCAAATATATATT
1 ATTTCAAATATATATT
*
4194342 ATTTCAAATTTATAT
1 ATTTCAAATATATAT
4194357 GCTCTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTCAAATATATATT
Found at i:4194849 original size:24 final size:23
Alignment explanation
Indices: 4194816--4194868 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
4194806 TTCTTAAAAA
* *
4194816 TAAAAGTAGATGGAATACATTCT
1 TAAAAGTAGAGGGAATAAATTCT
*
4194839 TAAAATGTAGAGGGACTAAATTCT
1 TAAAA-GTAGAGGGAATAAATTCT
4194863 TAAAAG
1 TAAAAG
4194869 AATAAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (23 bp):
TAAAAGTAGAGGGAATAAATTCT
Found at i:4195271 original size:15 final size:17
Alignment explanation
Indices: 4195231--4195269 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4195221 ATAAAAATTA
4195231 TAAAAATTATATATTTT
1 TAAAAATTATATATTTT
*
4195248 TAATAAATT-TATTTTTT
1 TAA-AAATTATATATTTT
4195265 TAAAA
1 TAAAA
4195270 TTAATTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.65
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAAAATTATATATTTT
Found at i:4198983 original size:36 final size:35
Alignment explanation
Indices: 4198906--4198988 Score: 148
Period size: 35 Copynumber: 2.3 Consensus size: 35
4198896 AAATATATCC
4198906 TTAATTTTAAATATTTTATTTTTTCTAAACAAAAA
1 TTAATTTTAAATATTTTATTTTTTCTAAACAAAAA
*
4198941 TTAATTTTAAATATTTTATTTTTTCTAAACAATAA
1 TTAATTTTAAATATTTTATTTTTTCTAAACAAAAA
4198976 TTAAATTTTAAAT
1 TT-AATTTTAAAT
4198989 GTAAAGTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (35 bp):
TTAATTTTAAATATTTTATTTTTTCTAAACAAAAA
Found at i:4202836 original size:21 final size:20
Alignment explanation
Indices: 4202797--4202837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4202787 CATTTTTTTC
4202797 TTCTTTTTTACTGTCTTGTT
1 TTCTTTTTTACTGTCTTGTT
* *
4202817 TTCTTTATTTTCTTTCTTGTT
1 TTCTTT-TTTACTGTCTTGTT
4202838 CTTTAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.73
Consensus pattern (20 bp):
TTCTTTTTTACTGTCTTGTT
Found at i:4203332 original size:26 final size:28
Alignment explanation
Indices: 4203303--4203362 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
4203293 TTAGATTATA
4203303 TATTAG-T-CTGTTAATATTGTTATTGT
1 TATTAGCTGCTGTTAATATTGTTATTGT
* * *
4203329 TATTAAGCTGCTGTTATTTTTGTTTTTGT
1 TATT-AGCTGCTGTTAATATTGTTATTGT
4203358 TATTA
1 TATTA
4203363 TATTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.14
27 2 0.07
28 2 0.07
29 20 0.71
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (28 bp):
TATTAGCTGCTGTTAATATTGTTATTGT
Found at i:4205435 original size:7 final size:7
Alignment explanation
Indices: 4205423--4205461 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
4205413 TAGGGTGTAG
4205423 TAAAAAA
1 TAAAAAA
4205430 TAAAAAA
1 TAAAAAA
4205437 TAAAAAA
1 TAAAAAA
*
4205444 TATAAATA
1 TA-AAAAA
4205452 TAAATAAA
1 TAAA-AAA
4205460 TA
1 TA
4205462 TAATACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 18 0.64
8 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAAAAA
Found at i:4205442 original size:14 final size:15
Alignment explanation
Indices: 4205423--4205464 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
4205413 TAGGGTGTAG
4205423 TAAAAAATA-AAAAA
1 TAAAAAATATAAAAA
*
4205437 TAAAAAATATAAATA
1 TAAAAAATATAAAAA
4205452 TAAATAAATATAA
1 TAAA-AAATATAA
4205465 TACTTGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 8 0.32
16 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:4205448 original size:16 final size:16
Alignment explanation
Indices: 4205424--4205464 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
4205414 AGGGTGTAGT
4205424 AAAAA-ATAAAAAATA
1 AAAAATATAAAAAATA
*
4205439 AAAAATAT-AAATATA
1 AAAAATATAAAAAATA
4205454 AATAAATATAA
1 AA-AAATATAA
4205465 TACTTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.59
16 8 0.36
17 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATATAAAAAATA
Found at i:4206325 original size:16 final size:16
Alignment explanation
Indices: 4206303--4206346 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4206293 CATATTATTT
*
4206303 TTAATTATTTTTATA-
1 TTAATTATTTTAATAG
4206318 TTATATTATTTTAATAG
1 TTA-ATTATTTTAATAG
4206335 TTAATTATTTTA
1 TTAATTATTTTA
4206347 TACAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTAATTATTTTAATAG
Found at i:4218043 original size:26 final size:26
Alignment explanation
Indices: 4218003--4218052 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4217993 CGATTAATAA
*
4218003 TTTTTTGAAAGTTCGGTTCGGTTATT
1 TTTTTTGAAAGTTCGATTCGGTTATT
* * *
4218029 TTTTTTTAAATTTCGATTTGGTTA
1 TTTTTTGAAAGTTCGATTCGGTTA
4218053 ACAGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.58
Consensus pattern (26 bp):
TTTTTTGAAAGTTCGATTCGGTTATT
Found at i:4222421 original size:16 final size:16
Alignment explanation
Indices: 4222400--4222431 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4222390 TTCAATCATA
4222400 ATTAAAACATGAAGAT
1 ATTAAAACATGAAGAT
*
4222416 ATTAAAATATGAAGAT
1 ATTAAAACATGAAGAT
4222432 GAACCACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.28
Consensus pattern (16 bp):
ATTAAAACATGAAGAT
Found at i:4231499 original size:27 final size:24
Alignment explanation
Indices: 4231439--4231501 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 24
4231429 TATAAATAAT
4231439 TATATTAAAAGTTTGTAAAAATTA
1 TATATTAAAAGTTTGTAAAAATTA
*
4231463 TATCAGATTAAAATTTCATGTATAAAATTA
1 TAT---ATTAAAAGTT--TGTA-AAAATTA
4231493 TATATTAAA
1 TATATTAAA
4231502 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 3 0.09
27 15 0.47
29 4 0.12
30 10 0.31
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (24 bp):
TATATTAAAAGTTTGTAAAAATTA
Found at i:4231525 original size:19 final size:19
Alignment explanation
Indices: 4231483--4231527 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
4231473 AAATTTCATG
*
4231483 TATAAAATTATATATTAAA
1 TATAAAATTATATATAAAA
4231502 T-TAAAATT-TATATAAAA
1 TATAAAATTATATATAAAA
4231519 TTATAAAAT
1 -TATAAAAT
4231528 AATGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAATTATATATAAAA
Found at i:4238313 original size:31 final size:31
Alignment explanation
Indices: 4238278--4238342 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
4238268 AATAGCTCAA
*
4238278 TGACTTAAATAAAAACTTTTGTATAGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
* *
4238309 TGACTTAAATGAAAACTTTTGAATGGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
4238340 TGA
1 TGA
4238343 TCAAATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTTAG
Found at i:4242879 original size:23 final size:23
Alignment explanation
Indices: 4242833--4242880 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4242823 ATGAGTTTAT
* *
4242833 TTTTTTGTTTAAATTTAATTTAA
1 TTTTTTGTTTAAAATTAATCTAA
4242856 TTTTTT-TTTAAAATTAGATCTAA
1 TTTTTTGTTTAAAATTA-ATCTAA
4242879 TT
1 TT
4242881 CGATCCGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTGTTTAAAATTAATCTAA
Found at i:4256864 original size:6 final size:6
Alignment explanation
Indices: 4256853--4256887 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4256843 TGGGCTTTTT
4256853 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
4256888 GGTGGGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:4258303 original size:212 final size:214
Alignment explanation
Indices: 4257516--4258570 Score: 1460
Period size: 212 Copynumber: 4.9 Consensus size: 214
4257506 CTGTGAGCCT
* * ** * **
4257516 TGAGATAAAACCCGAAGCAGAATTAAGACACATCAGTATATATCCATTTGTATATCTCA-ATATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATATCCATAT-T-ATATATA
** *
4257580 TATATAACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCGGCCACCTTATCTGTAAAAT
64 TATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
* * *
4257645 GTGATCATTTTGGCAAATATTCCATATTTAAGAACTTTCCTGGACAATTTTCTGAAACTATGACC
128 GTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACC
*
4257710 CATCAAGGCTCTTGGCAGAATCG
192 CATCAAGGCTCTTAGCAGAATCG
* * **
4257733 TGAGATAAAACCTGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATAT--ATATCCATAT-T--ATAT
* *
4257798 ATATATATACATACGCATGTGTAGTTAGAATATTTGGACAAGTTGTCCTCTACCTTATCTGTAAA
61 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
*
4257863 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTG-AACTATGAC
126 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGAC
*
4257927 CCATCAAGGCTCTTAGCAGAATGG
191 CCATCAAGGCTCTTAGCAGAATCG
* * * * **
4257951 TGAGATAAAACCCGAAGCAGAATTGCGACACTTCGATATGTATCCA-AT-TGTATATCTCA-ATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATAT--ATATATCCATAT-T-ATATA
* *
4258013 TATATATACATAGGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTACCTTATCTGTAAAA
62 TATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAA
*
4258078 TGTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACC
127 TGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACC
* * *
4258143 CATCAAGACTGTTAGCAGAGTCG
192 CATCAAGGCTCTTAGCAGAATCG
* * *
4258166 TGAGATAGAACCCGAAGCAGAGTTGAGACACATCAATATATATATATATCCAT-TTGT-TATATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATATCCATATTATATATATA
*
4258229 TATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATCTACCTTATCTGTAAAATGTG
66 TATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATGTG
*
4258294 ATCATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATTTTCTGAAACTATGACCCATC
131 ATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCCATC
*
4258359 AAGGCTCTTAGCAGAGTCG
196 AAGGCTCTTAGCAGAATCG
* *
4258378 TGAGATAAAACCCAAAGCAGAATTGAGCCACATCAATATATATATATATCCATTTGTATATCTCA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATATCC------ATAT-T--
*
4258443 ATATATATATATACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCTACCTTATCTG
57 ATATATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTG
*
4258507 TAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCTGAAACT
122 TAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
4258571 TTTTTTTTCC
Statistics
Matches: 760, Mismatches: 57, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
212 195 0.26
213 2 0.00
214 119 0.16
215 70 0.09
216 9 0.01
217 42 0.06
218 71 0.09
219 38 0.05
220 82 0.11
221 10 0.01
222 91 0.12
223 31 0.04
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (214 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATATCCATATTATATATATA
TATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATGTG
ATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCCATC
AAGGCTCTTAGCAGAATCG
Found at i:4259169 original size:59 final size:59
Alignment explanation
Indices: 4259090--4259211 Score: 208
Period size: 59 Copynumber: 2.1 Consensus size: 59
4259080 CTCACTTTTG
*
4259090 AATTAAAAGAGATTAAATTACTTCAAATTTTTTAGAGGATTCAATATGCTCAATTTCAA
1 AATTAAAAGAGATTAAATTACTTCAAATTTTTTAGAAGATTCAATATGCTCAATTTCAA
* * *
4259149 AATTAAAAGGGATTAAATTACTTTAATTTTTTTAGAAGATTCAATATGCTCAATTTCAA
1 AATTAAAAGAGATTAAATTACTTCAAATTTTTTAGAAGATTCAATATGCTCAATTTCAA
4259208 AATT
1 AATT
4259212 GAGAGAGACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (59 bp):
AATTAAAAGAGATTAAATTACTTCAAATTTTTTAGAAGATTCAATATGCTCAATTTCAA
Found at i:4261017 original size:3 final size:3
Alignment explanation
Indices: 4261009--4261034 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4260999 TGATTTCTTT
4261009 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
4261035 TTTAGTTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4263533 original size:89 final size:91
Alignment explanation
Indices: 4263432--4263623 Score: 280
Period size: 93 Copynumber: 2.1 Consensus size: 91
4263422 TAAATAATAA
* * * *
4263432 AATTGCACATCCTATTTGATATTTTTGAGC-AAAAGAAA-AGAAAAGAATAATGACCTTGAATAC
1 AATTGCACATCCTATATGATATTTTTGAGCAAAAAAAAAGAGAAAAGAATAATAACCTTAAATAC
*
4263495 ATGGTATTAGAGCGACTTATGATTGC
66 ATGGTATTAGAGCGACCTATGATTGC
* *
4263521 AATTGCATATCCTATATGATATTTTTTAGCAAAAAAAAAAAGAGAAAAGAATAATAACCTTAAAT
1 AATTGCACATCCTATATGATATTTTTGAGC--AAAAAAAAAGAGAAAAGAATAATAACCTTAAAT
4263586 ACATGGTATTAGAGCGACCTATGATTGC
64 ACATGGTATTAGAGCGACCTATGATTGC
*
4263614 AATTCCACAT
1 AATTGCACAT
4263624 TGACTTCCCA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 27 0.30
92 7 0.08
93 56 0.62
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (91 bp):
AATTGCACATCCTATATGATATTTTTGAGCAAAAAAAAAGAGAAAAGAATAATAACCTTAAATAC
ATGGTATTAGAGCGACCTATGATTGC
Found at i:4267576 original size:18 final size:17
Alignment explanation
Indices: 4267549--4267585 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
4267539 TTTTTTTATT
4267549 TTAAAAAATATTTAAAA
1 TTAAAAAATATTTAAAA
*
4267566 TTAATAAAATATTTATAA
1 TTAA-AAAATATTTAAAA
4267584 TT
1 TT
4267586 TTCAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAAAATATTTAAAA
Found at i:4277986 original size:32 final size:33
Alignment explanation
Indices: 4277934--4278006 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
4277924 TTTAATAAAC
4277934 ATTAAAAAATATTTTAAAAATAAAAAATAAAAA
1 ATTAAAAAATATTTTAAAAATAAAAAATAAAAA
* * * *
4277967 ATTTAAAAGTATTTT-AAAATTAAAAATTAAAA
1 ATTAAAAAATATTTTAAAAATAAAAAATAAAAA
4277999 ATTAAAAA
1 ATTAAAAA
4278007 TTAAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (33 bp):
ATTAAAAAATATTTTAAAAATAAAAAATAAAAA
Found at i:4277992 original size:7 final size:7
Alignment explanation
Indices: 4277947--4278014 Score: 73
Period size: 7 Copynumber: 9.1 Consensus size: 7
4277937 AAAAAATATT
4277947 TTAAAAA
1 TTAAAAA
*
4277954 TAAAAAA
1 TTAAAAA
*
4277961 TAAAAAA
1 TTAAAAA
4277968 TTTAAAAGTA
1 -TTAAAA--A
*
4277978 TTTTAAAA
1 -TTAAAAA
4277986 TTAAAAA
1 TTAAAAA
4277993 TTAAAAA
1 TTAAAAA
4278000 TTAAAAA
1 TTAAAAA
4278007 TTAAAAA
1 TTAAAAA
4278014 T
1 T
4278015 ATATATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
7 41 0.76
8 6 0.11
10 7 0.13
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:4279120 original size:20 final size:20
Alignment explanation
Indices: 4279083--4279121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4279073 GAGGTTTAGG
*
4279083 GTTTAAGGTTTATAGTTTGA
1 GTTTAAGGTTTAGAGTTTGA
*
4279103 GTTTAAGGTTTAGGGTTTG
1 GTTTAAGGTTTAGAGTTTG
4279122 GGATTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
GTTTAAGGTTTAGAGTTTGA
Found at i:4281381 original size:30 final size:30
Alignment explanation
Indices: 4281346--4281478 Score: 160
Period size: 30 Copynumber: 4.4 Consensus size: 30
4281336 CCCCCAGTTT
* * *
4281346 CAACTCCTCCACCCAG-TTCTCCTCCTCCTG
1 CAACTCCACCA-CCAGCTTCTCCACCTCCCG
* * *
4281376 CAACTCCACCACCTGCTTCTCCTCCTCCTG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
*
4281406 CAACTCCACCTCCAGCTTCTCCACCTCCCG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
* *
4281436 CCACTCCTCCACCAGCTTCTCCACCTCCCG
1 CAACTCCACCACCAGCTTCTCCACCTCCCG
*
4281466 CCACTCCACCACC
1 CAACTCCACCACC
4281479 TGCAACCCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 89 0.97
ACGTcount: A:0.15, C:0.57, G:0.06, T:0.22
Consensus pattern (30 bp):
CAACTCCACCACCAGCTTCTCCACCTCCCG
Found at i:4281382 original size:15 final size:15
Alignment explanation
Indices: 4281364--4281502 Score: 89
Period size: 15 Copynumber: 9.3 Consensus size: 15
4281354 CCACCCAGTT
*
4281364 CTCCTCCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
4281379 CTCCACCACCTGCTT
1 CTCCACCTCCTGCAA
*
4281394 CTCCTCCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
4281409 CTCCACCTCCAGCTT
1 CTCCACCTCCTGCAA
* *
4281424 CTCCACCTCCCGCCA
1 CTCCACCTCCTGCAA
* * * **
4281439 CTCCTCCACCAGCTT
1 CTCCACCTCCTGCAA
* *
4281454 CTCCACCTCCCGCCA
1 CTCCACCTCCTGCAA
*
4281469 CTCCACCACCTGCAA
1 CTCCACCTCCTGCAA
* * *
4281484 CCCCACCGCCAGCAA
1 CTCCACCTCCTGCAA
4281499 CTCC
1 CTCC
4281503 TCCTGCTGCT
Statistics
Matches: 92, Mismatches: 32, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 92 1.00
ACGTcount: A:0.16, C:0.58, G:0.07, T:0.19
Consensus pattern (15 bp):
CTCCACCTCCTGCAA
Found at i:4281418 original size:45 final size:45
Alignment explanation
Indices: 4281364--4281502 Score: 116
Period size: 45 Copynumber: 3.1 Consensus size: 45
4281354 CCACCCAGTT
* * ** * *
4281364 CTCCTCCTCCTGCAACTCCACCACCTGCTTCTCCTCCTCCTGCAA
1 CTCCACCTCCAGCAACTCCACCACCTGCCACTCCTCCACCAGCAA
** * * **
4281409 CTCCACCTCCAGCTTCTCCACCTCCCGCCACTCCTCCACCAGCTT
1 CTCCACCTCCAGCAACTCCACCACCTGCCACTCCTCCACCAGCAA
* * * * * *
4281454 CTCCACCTCCCGCCACTCCACCACCTGCAACCCCACCGCCAGCAA
1 CTCCACCTCCAGCAACTCCACCACCTGCCACTCCTCCACCAGCAA
4281499 CTCC
1 CTCC
4281503 TCCTGCTGCT
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.16, C:0.58, G:0.07, T:0.19
Consensus pattern (45 bp):
CTCCACCTCCAGCAACTCCACCACCTGCCACTCCTCCACCAGCAA
Found at i:4281502 original size:30 final size:30
Alignment explanation
Indices: 4281468--4281526 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
4281458 ACCTCCCGCC
*
4281468 ACTCCACCACCTGCAACCCCACCGCCAGCA
1 ACTCCACCACCTGCAACCCCACCACCAGCA
* ** *
4281498 ACTCCTCCTGCTGCTACCCCACCACCAGC
1 ACTCCACCACCTGCAACCCCACCACCAGC
4281527 TCCATTGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.56, G:0.10, T:0.12
Consensus pattern (30 bp):
ACTCCACCACCTGCAACCCCACCACCAGCA
Found at i:4289699 original size:20 final size:21
Alignment explanation
Indices: 4289674--4289712 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4289664 TTTCAACTAC
*
4289674 AATTTAA-TTCCAAAACCAAA
1 AATTTAATTTACAAAACCAAA
4289694 AATTTAATTTACAAAACCA
1 AATTTAATTTACAAAACCA
4289713 TGAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AATTTAATTTACAAAACCAAA
Found at i:4293393 original size:13 final size:13
Alignment explanation
Indices: 4293375--4293400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4293365 TTGTCCTAGT
4293375 GATTAAATTAAAA
1 GATTAAATTAAAA
4293388 GATTAAATTAAAA
1 GATTAAATTAAAA
4293401 ATAAGCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATTAAATTAAAA
Found at i:4293548 original size:43 final size:42
Alignment explanation
Indices: 4293500--4293791 Score: 146
Period size: 43 Copynumber: 6.8 Consensus size: 42
4293490 GCGCCACTAA
*
4293500 CTTTAGCGGCGTTTTAGGAAAAAAGGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGTTTTA-GCAAAAAGGCCGCTAAAGACCCTGAT
* * * * **
4293543 CTTTAGCGGCGCTTCTAGCACAAACGCCGCTGAAGAATAC-GA-
1 CTTTAGCGGCG-TTTTAGCAAAAAGGCCGCTAAAG-ACCCTGAT
* * *
4293585 CTTTTAGCGGCGCTTTA-CTAGAAGCGCCGCTAAAGACCCTGAT
1 C-TTTAGCGGCGTTTTAGCAAAAAG-GCCGCTAAAGACCCTGAT
** * * * * *
4293628 CTTTAGCGGCG-CCTCGACAACAAACGCCACTAAAGAACCTAAT
1 CTTTAGCGGCGTTTTAG-CAA-AAAGGCCGCTAAAGACCCTGAT
* * * * *
4293671 CTTTAGCGGCACTTTCA-CTACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGC-GTTTTAGC-AAAAAGGCCGCTAAAGACCCTGAT
* * * * * *
4293714 CTTTAGTGGCGCCTTTT-CCACAAATGCCGCAAAAGACCCTAAT
1 CTTTAGCGGCG--TTTTAGCAAAAAGGCCGCTAAAGACCCTGAT
* * * *
4293757 CTTTAGCGGCGCTTTGACCAAAAATGCCACTAAAG
1 CTTTAGCGGCG-TTTTAGCAAAAAGGCCGCTAAAG
4293792 GCCAAACACC
Statistics
Matches: 186, Mismatches: 47, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
41 6 0.03
42 29 0.16
43 138 0.74
44 13 0.07
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTAGCAAAAAGGCCGCTAAAGACCCTGAT
Found at i:4293615 original size:85 final size:86
Alignment explanation
Indices: 4293525--4293727 Score: 259
Period size: 85 Copynumber: 2.4 Consensus size: 86
4293515 AGGAAAAAAG
* * * * *
4293525 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGC-ACAAACGCCGCTGAAGAATACGACT-T
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGA-CAACAAACGCCACTAAAGAA-ACGAATCT
* * *
4293588 TTAGCGGCGCTTT-ACTAGAAGC
64 TTAGCGGCACTTTCACTACAAAC
* *
4293610 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGACAACAAACGCCACTAAAGAACCTAATCTTT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGACAACAAACGCCACTAAAGAAACGAATCTTT
4293675 AGCGGCACTTTCACTACAAAC
66 AGCGGCACTTTCACTACAAAC
* *
4293696 GCCGCTAAAGACCATGATCTTTAGTGGCGCCT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCT
4293728 TTTCCACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
84 4 0.04
85 62 0.60
86 37 0.36
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (86 bp):
GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGACAACAAACGCCACTAAAGAAACGAATCTTT
AGCGGCACTTTCACTACAAAC
Found at i:4293725 original size:86 final size:84
Alignment explanation
Indices: 4293525--4293771 Score: 289
Period size: 86 Copynumber: 2.9 Consensus size: 84
4293515 AGGAAAAAAG
* * * * *
4293525 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAAACGCCGCTGAAGAATACGACT-TT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCTA-CACAAACGCCGCTAAAGAA-CCTAATCTT
* *
4293589 TAGCGGCGCTTTACTAGAAGC
64 TAGCGGCGCTTTACTACAAAC
* *
4293610 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGACAACAAACGCCACTAAAGAACCTAATCTTT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCTAC-ACAAACGCCGCTAAAGAACCTAATCTTT
*
4293675 AGCGGCACTTTCACTACAAAC
65 AGCGGCGCTTT-ACTACAAAC
* * * * * * *
4293696 GCCGCTAAAGACCATGATCTTTAGTGGCGCCTTTTCCACAAATGCCGCAAAAGACCCTAATCTTT
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCC-TCTACACAAACGCCGCTAAAGAACCTAATCTTT
4293761 AGCGGCGCTTT
65 AGCGGCGCTTT
4293772 GACCAAAAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
84 4 0.03
85 62 0.45
86 70 0.51
87 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (84 bp):
GCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCTACACAAACGCCGCTAAAGAACCTAATCTTTA
GCGGCGCTTTACTACAAAC
Found at i:4293790 original size:86 final size:85
Alignment explanation
Indices: 4293496--4293791 Score: 256
Period size: 86 Copynumber: 3.5 Consensus size: 85
4293486 GAATGCGCCA
* ** * * * *
4293496 CTAA-CTTTAGCGGCGTTTTAGGAAAAAAGGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTA
1 CTAATCTTTAGCGGCGCTTTA-CTAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTCGA
* ** *
4293560 GC-ACAAACGCCGCTGAAGAATA
65 -CAACAAACGCCACAAAAGAA-C
* * * * *
4293582 CGACT-TTTAGCGGCGCTTTACTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCCTCGAC
1 CTAATCTTTAGCGGCGCTTTACTAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTCGAC
*
4293646 AACAAACGCCACTAAAGAAC
66 AACAAACGCCACAAAAGAAC
* * * ***
4293666 CTAATCTTTAGCGGCACTTTCACTACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCCTTTT
1 CTAATCTTTAGCGGCGCTTT-ACTAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTCGA
* * * *
4293731 CCACAAATGCCGCAAAAGACC
65 CAACAAACGCCACAAAAGAAC
* * *
4293752 CTAATCTTTAGCGGCGCTTTGACCAAAAATGCCACTAAAG
1 CTAATCTTTAGCGGCGCTTT-ACTAAAAACGCCGCTAAAG
4293792 GCCAAACACC
Statistics
Matches: 172, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
84 4 0.02
85 65 0.38
86 103 0.60
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (85 bp):
CTAATCTTTAGCGGCGCTTTACTAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTCGAC
AACAAACGCCACAAAAGAAC
Found at i:4294171 original size:21 final size:21
Alignment explanation
Indices: 4294141--4294217 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4294131 TTTGACGCTG
*
4294141 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* **
4294162 CTCTATTTCCCTCGCTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
*
4294183 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
4294204 CTGTACTTCTCTCG
1 CTCTACTTCCCTCG
4294218 TTGCCGTCTC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.06, C:0.43, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:4302389 original size:17 final size:19
Alignment explanation
Indices: 4302355--4302394 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4302345 ATAAAACTAA
4302355 TTAATCTGAGCTTAAA-CC
1 TTAATCTGAGCTTAAACCC
*
4302373 TTAATCTGATC-TAAACCC
1 TTAATCTGAGCTTAAACCC
4302391 TTAA
1 TTAA
4302395 ATCACTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (19 bp):
TTAATCTGAGCTTAAACCC
Found at i:4302441 original size:15 final size:15
Alignment explanation
Indices: 4302408--4302446 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4302398 ACTAACTCTT
4302408 AACCCTAAA-CCACA
1 AACCCTAAACCCACA
* *
4302422 AACCCCAAACCCATA
1 AACCCTAAACCCACA
4302437 AACCCTAAAC
1 AACCCTAAAC
4302447 ATTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.49, C:0.44, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCTAAACCCACA
Found at i:4302582 original size:93 final size:88
Alignment explanation
Indices: 4302439--4302683 Score: 355
Period size: 93 Copynumber: 2.7 Consensus size: 88
4302429 AACCCATAAA
* * * * *
4302439 CCCTAAACATTATTTAATATGTAAATTATAAAACACTAATCAATCTAAATCCTAAACCCTAATTG
1 CCCTAAACATTATTTAATATATAAATTA-AAAAAACTAATTAATCTAAATCCTAAACCCTAACTC
4302504 GACCCCGAATCACTAACCCCAAAC
65 GACCCCGAATCACTAACCCCAAAC
4302528 CCCTAAACATTATTTATTAATATATATAAATTAAAAAAACTAATTAATCTAAATCCTAAACCCTA
1 CCCTAAACATTA--T-TT-A-ATATATAAATTAAAAAAACTAATTAATCTAAATCCTAAACCCTA
*
4302593 ACTCGACCCCGAATCACTAACCCCTAAC
61 ACTCGACCCCGAATCACTAACCCCAAAC
* *
4302621 CCCTAAACATTATTTAATATATCAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAAC
1 CCCTAAACATTATTTAATATATAAATTAAAAAA-ACTAATTAATCTAAATCCTAAACCCTAAC
4302684 CCTAAATCCC
Statistics
Matches: 142, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
88 16 0.11
89 41 0.29
90 2 0.01
91 2 0.01
92 2 0.01
93 68 0.48
94 11 0.08
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.27
Consensus pattern (88 bp):
CCCTAAACATTATTTAATATATAAATTAAAAAAACTAATTAATCTAAATCCTAAACCCTAACTCG
ACCCCGAATCACTAACCCCAAAC
Found at i:4302682 original size:14 final size:14
Alignment explanation
Indices: 4302665--4302705 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
4302655 ACTAATTAAT
4302665 CTAAACCCTAAACC
1 CTAAACCCTAAACC
4302679 CT-AACCCTAAATCC
1 CTAAACCCTAAA-CC
*
4302693 CTAACCCCTAAAC
1 CTAAACCCTAAAC
4302706 AATATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 8 0.33
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAACCCTAAACC
Found at i:4302686 original size:6 final size:7
Alignment explanation
Indices: 4302665--4302705 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4302655 ACTAATTAAT
4302665 CTAAACC
1 CTAAACC
4302672 CTAAACC
1 CTAAACC
4302679 CT-AACC
1 CTAAACC
4302685 CTAAATCC
1 CTAAA-CC
*
4302693 CTAACCC
1 CTAAACC
4302700 CTAAAC
1 CTAAAC
4302706 AATATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:4303418 original size:113 final size:112
Alignment explanation
Indices: 4303220--4303930 Score: 1041
Period size: 113 Copynumber: 6.3 Consensus size: 112
4303210 AGATAAAATG
* *
4303220 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACTTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGC-TTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACAGAAAC
4303285 GCCGCTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
64 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
4303333 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCTTTACAGAAACG
1 TTTTTGCGGCGCTTTTA-AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* *
4303398 CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGTCGTTGGGCTTAGGC
65 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
4303446 TTTTTGCGGCACTTTTAAAAAAACGCTGCTAAACACCTGAGCATTAGCGGCGCTTTTCAGAAACG
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* * *
4303511 CTGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTTGGCTTAGGC
65 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
4303559 TTTTTGCGGCGCTTTTAACAAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATAACAGAAAT
1 TTTTTGCGGCGCTTTTAA-AAAACGCCGCT-AAAGACCTGAGCATTAGCGGCGCTTTACAGAAAC
* *
4303624 GCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
64 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
4303673 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCATTACAAAAATG
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* *
4303738 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGC
65 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
4303786 TTTTTGCGGCGCTTTTAAAAAACCGCCGCTAAAGACCTG-GAATTAGCGGCGCTTTATAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAA-CGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
*
4303850 CCGCTAAAGACCCCCAAAAACTCAGAAAACGGTAG-CGTTTGGCTTAGGC
65 CCGCTAAAGA-CCCCAAAAACTCAGAAAACGGT-GCCGTTGGGCTTAGGC
*
4303899 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAA-AAACGCCGCTAA
4303931 TGCTTATTTT
Statistics
Matches: 545, Mismatches: 43, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
112 66 0.12
113 375 0.69
114 102 0.19
115 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (112 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACGC
CGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:4303718 original size:227 final size:224
Alignment explanation
Indices: 4303220--4303930 Score: 1075
Period size: 227 Copynumber: 3.1 Consensus size: 224
4303210 AGATAAAATG
* *
4303220 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACTTGAGCATTAGCGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TTCAGAAAC
4303285 GCCGCTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTT
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTT
* * * *
4303349 AGAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCTTTACAGAAACGCCGCTAAAGACCCCCA
130 A-AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAA
4303414 AAACTCAGAAAACGGTGTCGTTGGGCTTAGGC
194 AAACTCAGAAAACGGTG-CGTTGGGCTTAGGC
* * *
4303446 TTTTTGCGGCACTTTTAAAAAAACGCTGCTAAACACCTGAGCATTAGCGGCGCTTTTCAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
* * *
4303511 CTGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTTGGCTTAGGCTTTTTGCGGCGCTTTTA
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
* * * * *
4303576 ACAAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATAACAGAAATGCCGCGAAAGACCCCAA
131 A-AAAACGCCGCT-AAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAA
*
4303641 AAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
194 AAACTCAGAAAACGGTG-CGTTGGGCTTAGGC
* * * *
4303673 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCATTACAAAAATG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
* *
4303738 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTA
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
*
4303803 AAAAACCGCCGCTAAAGACCTG-GAATTAGCGGCGCTTTATAGAAACGCCGCTAAAGACCCCCAA
131 AAAAA-CGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGA-CCCCAA
*
4303867 AAACTCAGAAAACGGTAGCGTTTGGCTTAGGC
194 AAACTCAGAAAACGGT-GCGTTGGGCTTAGGC
* *
4303899 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
4303931 TGCTTATTTT
Statistics
Matches: 438, Mismatches: 41, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
225 54 0.12
226 185 0.42
227 199 0.45
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (224 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAAAA
ACTCAGAAAACGGTGCGTTGGGCTTAGGC
Found at i:4303867 original size:340 final size:339
Alignment explanation
Indices: 4303220--4303930 Score: 1117
Period size: 340 Copynumber: 2.1 Consensus size: 339
4303210 AGATAAAATG
* * *
4303220 TTTTTGCGGCGCTTTTTAAAAAACGCCGCT-AAAGACTTGAGCATTAGCGGCGCTTATTCAGAAA
1 TTTTTGCGGCGC-TTTTAAAAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATATACAGAAA
*
4303284 CGCCGCTAAAGACCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTT
65 CGCCGCGAAAGACCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTT
* * * *
4303349 AGAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCTTTACAGAAACGCCGCTAAAGACCCCCA
130 AAAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCATTACAAAAACGCCGCTAAAGACCCCAA
** *
4303414 AAACTCAGAAAACGGTGTCGTTGGGCTTAGGCTTTTTGCGGCACTTTTAAAAAAACGCTGCTAAA
195 AAACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCACTTTTAAAAAAACGCCGCTAAA
* *
4303479 CACCTGAGCATTAGCGGCGCTTTTCAGAAACGCTGCTAAAGACCCCAAAAACTCAGAAAACGGT-
260 CACCTGAGAATTAGCGGCGCTTTTCAGAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTA
4303543 GTCGTTTGGCTTAGGC
325 G-CGTTTGGCTTAGGC
4303559 TTTTTGCGGCGCTTTTAACAAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATA-ACAGAAA
1 TTTTTGCGGCGCTTTTAA-AAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATATACAGAAA
* *
4303623 TGCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTT
65 CGCCGCGAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTT
* * *
4303688 TAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCATTACAAAAATGCCGCTAAAGACCCCA
129 TAAAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCATTACAAAAACGCCGCTAAAGACCCCA
* * *
4303753 AAAACTCAGAAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTAAAAAACCGCCGCTAA
194 AAAACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCACTTTTAAAAAAACGCCGCTAA
*
4303818 AGACCTG-GAATTAGCGGCGCTTTAT-AGAAACGCCGCTAAAGACCCCCAAAAACTCAGAAAACG
259 ACACCTGAGAATTAGCGGCGCTTT-TCAGAAACGCCGCTAAAGA-CCCCAAAAACTCAGAAAACG
4303881 GTAGCGTTTGGCTTAGGC
322 GTAGCGTTTGGCTTAGGC
*
4303899 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAA-AAACGCCGCTAA
4303931 TGCTTATTTT
Statistics
Matches: 342, Mismatches: 23, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
338 6 0.02
339 75 0.22
340 260 0.76
341 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (339 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAAGACTTGAGAATTAGCGGCGCATATACAGAAAC
GCCGCGAAAGACCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
AAAAAACGCCGCTAAAGACCTGAGCATTACCGACGCATTACAAAAACGCCGCTAAAGACCCCAAA
AACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCACTTTTAAAAAAACGCCGCTAAAC
ACCTGAGAATTAGCGGCGCTTTTCAGAAACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTAG
CGTTTGGCTTAGGC
Found at i:4304999 original size:9 final size:9
Alignment explanation
Indices: 4304985--4305009 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4304975 TTTCTTATTT
4304985 TCAAGAAAA
1 TCAAGAAAA
4304994 TCAAGAAAA
1 TCAAGAAAA
4305003 TCAAGAA
1 TCAAGAA
4305010 GCCAATGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (9 bp):
TCAAGAAAA
Found at i:4307061 original size:8 final size:8
Alignment explanation
Indices: 4307048--4307072 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4307038 AATCAAATAT
4307048 TATAATTA
1 TATAATTA
4307056 TATAATTA
1 TATAATTA
4307064 TATAATTA
1 TATAATTA
4307072 T
1 T
4307073 CCTTGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATAATTA
Found at i:4307373 original size:31 final size:30
Alignment explanation
Indices: 4307334--4307408 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
4307324 TTAATAATTT
*
4307334 AAGA-TAAAATTTGAAATATGAAAAATAAAA
1 AAGATTAAAATTTGAAAAAT-AAAAATAAAA
* *
4307364 AAGATTAAAATTTTAAAAATAAAAATACAA
1 AAGATTAAAATTTGAAAAATAAAAATAAAA
4307394 AA-ATTATAAATTTGA
1 AAGATTA-AAATTTGA
4307409 CTAAAATCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.10
30 22 0.56
31 13 0.33
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (30 bp):
AAGATTAAAATTTGAAAAATAAAAATAAAA
Found at i:4318777 original size:30 final size:31
Alignment explanation
Indices: 4318724--4318809 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
4318714 AGAAAAAGCA
* *
4318724 GTTTAATT-AAAGTTTTAAAAAATTTTGAGG
1 GTTTAATTGAAACTTTTAAAAAATTTAGAGG
* *
4318754 GTTTGA-TGAGAA-TTTTTAAAAATTTAGAGG
1 GTTTAATTGA-AACTTTTAAAAAATTTAGAGG
*
4318784 GTTTAATTGAAACTTTTCAAAAATTT
1 GTTTAATTGAAACTTTTAAAAAATTT
4318810 GAAAGGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 29 0.62
31 17 0.36
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (31 bp):
GTTTAATTGAAACTTTTAAAAAATTTAGAGG
Found at i:4322174 original size:12 final size:12
Alignment explanation
Indices: 4322154--4322188 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4322144 GGGGGAGGAG
*
4322154 ACACACACACAC
1 ACACGCACACAC
*
4322166 ACACGCACACGC
1 ACACGCACACAC
4322178 ACACGCACACA
1 ACACGCACACA
4322189 GATCTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.49, G:0.09, T:0.00
Consensus pattern (12 bp):
ACACGCACACAC
Found at i:4324512 original size:16 final size:15
Alignment explanation
Indices: 4324471--4324524 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
4324461 AATAAAATTT
4324471 TATTTTTA-TTTA-A
1 TATTTTTATTTTATA
4324484 TATTTATTAATTTTATA
1 TATTT-TT-ATTTTATA
4324501 TACTTTTTATTTTATA
1 TA-TTTTTATTTTATA
*
4324517 AATTTTTA
1 TATTTTTA
4324525 AACCTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.14
14 2 0.06
15 7 0.20
16 13 0.37
17 5 0.14
18 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:4329598 original size:12 final size:12
Alignment explanation
Indices: 4329583--4329608 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4329573 AAATGCTTCT
4329583 TAAAAGCAATAC
1 TAAAAGCAATAC
4329595 TAAAAGCAATAC
1 TAAAAGCAATAC
4329607 TA
1 TA
4329609 TGTGTACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (12 bp):
TAAAAGCAATAC
Found at i:4333952 original size:22 final size:20
Alignment explanation
Indices: 4333927--4333970 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4333917 AAAATACTTC
4333927 TTTTAATACAATAATTTTATAT
1 TTTTAATAC-A-AATTTTATAT
**
4333949 TTTTTTTACAAATTTTATAT
1 TTTTAATACAAATTTTATAT
4333969 TT
1 TT
4333971 ATTTACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATACAAATTTTATAT
Found at i:4333984 original size:18 final size:20
Alignment explanation
Indices: 4333939--4333990 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4333929 TTAATACAAT
*
4333939 AATTTTATATTTTTTTTACA
1 AATTTTATATTTTATTTACA
4333959 AATTTTATA-TTTATTTAC-
1 AATTTTATATTTTATTTACA
*
4333977 ATTTTTATAATTTT
1 AATTTTAT-ATTTT
4333991 CTTACAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 12 0.43
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTTATATTTTATTTACA
Found at i:4333995 original size:19 final size:18
Alignment explanation
Indices: 4333939--4334019 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 18
4333929 TTAATACAAT
*
4333939 AATTTTATATTTTTTTTAC
1 AATTTTATA-ATTTTTTAC
4333958 AAATTTTAT-ATTTATTTAC
1 -AATTTTATAATTT-TTTAC
*
4333977 ATTTTTATAATTTTCTTAC
1 AATTTTATAATTTT-TTAC
* *
4333996 AACTTTATAATTTTTTAT
1 AATTTTATAATTTTTTAC
4334014 AATTTT
1 AATTTT
4334020 CCTATATTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 19 0.37
19 25 0.48
20 8 0.15
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTTATAATTTTTTAC
Found at i:4334019 original size:38 final size:38
Alignment explanation
Indices: 4333937--4334064 Score: 92
Period size: 38 Copynumber: 3.4 Consensus size: 38
4333927 TTTTAATACA
* *
4333937 ATAA-TTTTATATTTTTTTTACAAATTT-TATATTTATTT
1 ATAATTTTTATAATTTTCTTACAAATTTATA-ATTT-TTT
* *
4333975 A-CATTTTTATAATTTTCTTACAACTTTATAATTTTTT
1 ATAATTTTTATAATTTTCTTACAAATTTATAATTTTTT
* *
4334012 ATAATTTTCCTAT-A-TTTCTATA-TATTTTATAA-TTTTT
1 ATAATTTT--TATAATTTTCT-TACAAATTTATAATTTTTT
*
4334049 CTAATTTTTA-AATTTT
1 ATAATTTTTATAATTTT
4334065 TCTAATTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
35 3 0.04
36 3 0.04
37 17 0.23
38 43 0.58
39 5 0.07
40 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (38 bp):
ATAATTTTTATAATTTTCTTACAAATTTATAATTTTTT
Found at i:4334048 original size:9 final size:9
Alignment explanation
Indices: 4333937--4334129 Score: 89
Period size: 9 Copynumber: 21.0 Consensus size: 9
4333927 TTTTAATACA
4333937 ATAATTTTAT
1 ATAATTTT-T
**
4333947 ATTTTTTTT
1 ATAATTTTT
* *
4333956 ACAAATTTT
1 ATAATTTTT
4333965 AT-ATTTATT
1 ATAATTT-TT
4333974 -TACATTTTT
1 ATA-ATTTTT
4333983 ATAATTTTCT
1 ATAATTTT-T
**
4333993 -TACAACTTT
1 ATA-ATTTTT
4334002 ATAATTTTTT
1 ATAA-TTTTT
4334012 ATAATTTTCCT
1 ATAATTTT--T
*
4334023 AT-ATTTCT
1 ATAATTTTT
4334031 AT-ATATTTT
1 ATAAT-TTTT
4334040 ATAATTTTT
1 ATAATTTTT
*
4334049 CTAATTTTT
1 ATAATTTTT
4334058 A-AATTTTT
1 ATAATTTTT
*
4334066 CTAATTTTTT
1 ATAA-TTTTT
*
4334076 ATTAAAATTTTA
1 A-T--AATTTTT
4334088 ATAA-TTTT
1 ATAATTTTT
*
4334096 ATAACTTTT
1 ATAATTTTT
*
4334105 ATTATTTTT
1 ATAATTTTT
4334114 AT--TTTTT
1 ATAATTTTT
*
4334121 ATCATTTTT
1 ATAATTTTT
4334130 TGTCACATGG
Statistics
Matches: 141, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
7 7 0.05
8 23 0.16
9 63 0.45
10 36 0.26
11 5 0.04
12 5 0.04
13 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:4334075 original size:18 final size:19
Alignment explanation
Indices: 4334026--4334077 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 19
4334016 TTTTCCTATA
*
4334026 TTTCTATATATTTTATAATT
1 TTTCTA-ATTTTTTATAATT
4334046 TTTCTAA-TTTTTA-AATT
1 TTTCTAATTTTTTATAATT
4334063 TTTCTAATTTTTTAT
1 TTTCTAATTTTTTAT
4334078 TAAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.38
18 11 0.38
19 1 0.03
20 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTAATTTTTTATAATT
Found at i:4335004 original size:32 final size:32
Alignment explanation
Indices: 4334968--4335142 Score: 110
Period size: 34 Copynumber: 5.2 Consensus size: 32
4334958 ATTTATTTTA
4334968 TTTATTTTAATATTTAATAATTTTATACATTT
1 TTTATTTTAATATTTAATAATTTTATACATTT
* * * *
4335000 TTTATTTATTGAAAATTT-TTATATAGTCAT-C-TTAGT
1 TTTA-TT-TT-AATATTTAATA-AT-TTTATACATT--T
4335036 TTTATTTTAATATTTAATAATTTTATACATTT
1 TTTATTTTAATATTTAATAATTTTATACATTT
* * * *
4335068 TTTATTTATTGAAAATTT-TTATATAGTCAT-C-TTAGT
1 TTTA-TT-TT-AATATTTAATA-AT-TTTATACATT--T
4335104 TTTATTTTAATATTTAATAATTTTATACATTT
1 TTTATTTTAATATTTAATAATTTTATACATTT
4335136 TTTATTT
1 TTTATTT
4335143 ATTGAAAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 40
0.66 0.10 0.25
Matches are distributed among these distances:
32 23 0.21
33 22 0.21
34 24 0.22
35 22 0.21
36 16 0.15
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (32 bp):
TTTATTTTAATATTTAATAATTTTATACATTT
Found at i:4335039 original size:36 final size:36
Alignment explanation
Indices: 4334999--4335178 Score: 136
Period size: 36 Copynumber: 5.2 Consensus size: 36
4334989 TTTATACATT
4334999 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
1 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
* * * *
4335035 TTTTA-TT-TT-AATA-TTTAATA-ATTTTATACATT--
1 TTTTATTTATTGAAAATTTTTATATA-GTCAT-C-TTAG
4335067 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
1 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
* * * *
4335103 TTTTA-TT-TT-AATA-TTTAATA-ATTTTATACATT--
1 TTTTATTTATTGAAAATTTTTATATA-GTCAT-C-TTAG
4335135 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
1 TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
4335171 TTTTATTT
1 TTTTATTT
4335179 TAATATTTAC
Statistics
Matches: 108, Mismatches: 16, Indels: 40
0.66 0.10 0.24
Matches are distributed among these distances:
31 2 0.02
32 28 0.26
33 12 0.11
34 16 0.15
35 12 0.11
36 36 0.33
37 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (36 bp):
TTTTATTTATTGAAAATTTTTATATAGTCATCTTAG
Found at i:4335050 original size:68 final size:68
Alignment explanation
Indices: 4334968--4335187 Score: 440
Period size: 68 Copynumber: 3.2 Consensus size: 68
4334958 ATTTATTTTA
4334968 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
1 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
4335033 AGT
66 AGT
4335036 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
1 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
4335101 AGT
66 AGT
4335104 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
1 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
4335169 AGT
66 AGT
4335172 TTTATTTTAATATTTA
1 TTTATTTTAATATTTA
4335188 CATTAAAGTA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 152 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (68 bp):
TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
AGT
Found at i:4335210 original size:136 final size:135
Alignment explanation
Indices: 4334968--4335213 Score: 406
Period size: 136 Copynumber: 1.8 Consensus size: 135
4334958 ATTTATTTTA
4334968 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
1 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
** * *
4335033 AGTTTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCAT
66 AGTTTTATTTTAATATTTAATAATAGTATA-ATTATATATTTATTGAAAATTTTTATATAGTCAT
4335098 CTTAGT
130 CTTAGT
4335104 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
1 TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
4335169 AGTTTTATTTTAATATTTACATTAA-AGTAGT-ATTATATATTTATT
66 AGTTTTATTTTAATATTTA-A-TAATAGTA-TAATTATATATTTATT
4335214 ATAGGTTTAT
Statistics
Matches: 103, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
136 96 0.93
137 3 0.03
138 4 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (135 bp):
TTTATTTTAATATTTAATAATTTTATACATTTTTTATTTATTGAAAATTTTTATATAGTCATCTT
AGTTTTATTTTAATATTTAATAATAGTATAATTATATATTTATTGAAAATTTTTATATAGTCATC
TTAGT
Found at i:4347750 original size:21 final size:21
Alignment explanation
Indices: 4347726--4347765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4347716 ATAGAGGTGT
*
4347726 TACATTAAAAT-TTATATTTAA
1 TACAATAAAATATT-TATTTAA
4347747 TACAATAAAATATTTATTT
1 TACAATAAAATATTTATTT
4347766 GTATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TACAATAAAATATTTATTTAA
Found at i:4348220 original size:16 final size:16
Alignment explanation
Indices: 4348199--4348232 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4348189 GAGTAAACGT
4348199 GGAAGAAAG-GAAGAAG
1 GGAAGAAAGTG-AGAAG
4348215 GGAAGAAAGTGAGAAG
1 GGAAGAAAGTGAGAAG
4348231 GG
1 GG
4348233 GCAAAGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (16 bp):
GGAAGAAAGTGAGAAG
Found at i:4357908 original size:6 final size:6
Alignment explanation
Indices: 4357897--4357928 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4357887 CAAAAGTTTT
4357897 ATATAG ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG ATATAG AT
4357929 GCAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:4358852 original size:21 final size:19
Alignment explanation
Indices: 4358809--4358856 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
4358799 TATTTAAAGG
* *
4358809 ATTTAAAATAAATATAAAT
1 ATTTAAAATAAAAATAAAA
4358828 ATTTAAAACTAAACAATAAAA
1 ATTTAAAA-TAAA-AATAAAA
4358849 ATTTAAAA
1 ATTTAAAA
4358857 GTTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAATAAAAATAAAA
Found at i:4360735 original size:16 final size:17
Alignment explanation
Indices: 4360701--4360738 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4360691 TAATTGTTTA
*
4360701 AAATTTTTAAAAAATAT
1 AAATTATTAAAAAATAT
*
4360718 AAATTATTAAAATA-AT
1 AAATTATTAAAAAATAT
4360734 AAATT
1 AAATT
4360739 TACATTTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTATTAAAAAATAT
Found at i:4370918 original size:16 final size:16
Alignment explanation
Indices: 4370897--4370940 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
4370887 TTAGTTTTTT
4370897 TTTTTAAAATTTATAA
1 TTTTTAAAATTTATAA
**
4370913 TTTTTAAAAAATATAA
1 TTTTTAAAATTTATAA
* *
4370929 ATTTTAGAATTT
1 TTTTTAAAATTT
4370941 TTATAAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTTAAAATTTATAA
Found at i:4370934 original size:25 final size:26
Alignment explanation
Indices: 4370901--4370961 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
4370891 TTTTTTTTTT
* *
4370901 TAAAATTTATAATTTTTA-AAAAATA
1 TAAATTTTAGAATTTTTATAAAAATA
* *
4370926 TAAATTTTAGAATTTTTATAAATATT
1 TAAATTTTAGAATTTTTATAAAAATA
4370952 TAGAATTTTA
1 TA-AATTTTA
4370962 AAAATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.53
26 7 0.23
27 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TAAATTTTAGAATTTTTATAAAAATA
Found at i:4370955 original size:19 final size:19
Alignment explanation
Indices: 4370924--4370985 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
4370914 TTTTAAAAAA
4370924 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
4370942 TATAAATATTTAGAA-TTT
1 TATAAATATTTAGAATTTT
*
4370960 TAAAAATTATTTTA-AATTTT
1 TATAAA-TA-TTTAGAATTTT
4370980 TA-AAAT
1 TATAAAT
4370986 TGTTTTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 16 0.41
19 14 0.36
20 9 0.23
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Done.