Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 143 of 230
Found at i:42071290 original size:12 final size:12
Alignment explanation
Indices: 42071265--42071303 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
42071255 ACTCGCTTCT
* *
42071265 TTACTTACTCAC
1 TTACTTGCTTAC
*
42071277 TTACTTGTTTAC
1 TTACTTGCTTAC
42071289 TTACTTGCTTAC
1 TTACTTGCTTAC
42071301 TTA
1 TTA
42071304 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:42071625 original size:50 final size:50
Alignment explanation
Indices: 42071552--42071742 Score: 195
Period size: 50 Copynumber: 3.8 Consensus size: 50
42071542 TTTTCTGTAC
* **
42071552 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCCCATATCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCCCATATCGG
* * ** * *
42071602 TGCCCATGCCATGTCCCAAATATGGTCTTACGGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCCCATATCGG
* * * ** *
42071652 TGCCTACGCCATGTCCCAGACATGGTCTTACAT-GAGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAG-GACCTCCCATATCGG
* * * *
42071702 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTC
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTC
42071743 ATTCCCTTAA
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 119 0.98
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCCCATATCGG
Found at i:42082282 original size:37 final size:37
Alignment explanation
Indices: 42082241--42082316 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
42082231 AACATAAAAG
*
42082241 AAATTAAACAAATGAAAGGTAAGAAATAAAATAAGGA
1 AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
* *
42082278 AAATTAAATAAATGAAAAGTAAGAAATCAAATAAGGA
1 AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
42082315 AA
1 AA
42082317 TATGTATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (37 bp):
AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
Found at i:42084658 original size:25 final size:25
Alignment explanation
Indices: 42084619--42084713 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
42084609 TCCTTTACAT
* *
42084619 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATTG
*
42084644 GTATGCTCACTCGAGCTGT-AGATTG
1 GTATGCTCACACGAGCTGTGA-ATTG
* * *
42084669 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCACACGAGCTGTGAATTG
42084694 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACGAGCTGTG
42084714 GGTCGGAACG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 57 0.97
26 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATTG
Found at i:42087422 original size:12 final size:11
Alignment explanation
Indices: 42087397--42087434 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
42087387 GAACAAGATG
42087397 AATTTTA-ATT
1 AATTTTATATT
42087407 AATTTTATAGTT
1 AATTTTATA-TT
42087419 AATTTT-TATT
1 AATTTTATATT
42087429 AATTTT
1 AATTTT
42087435 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:42088837 original size:46 final size:46
Alignment explanation
Indices: 42088770--42088864 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
42088760 CCAGAGAAGG
*
42088770 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACGGAGCAA
1 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACAGAGCAA
42088816 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACAGAGCAA
1 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACAGAGCAA
42088862 ACC
1 ACC
42088865 TTGCTCAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.15
Consensus pattern (46 bp):
ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACAGAGCAA
Found at i:42095374 original size:26 final size:26
Alignment explanation
Indices: 42095337--42095633 Score: 407
Period size: 26 Copynumber: 11.5 Consensus size: 26
42095327 CACGGTGTTG
42095337 ACCAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
42095363 ACCAAAAGACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
* *
42095389 ACCGAAATACCCTCAATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
42095415 ACCAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
42095441 AACAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*** *
42095467 ATTGAAATACCCTCGATAGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
42095493 ACCAAAATACCCTCGATAGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
42095519 ACTAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
** *
42095545 ACTGAAATACCCTCGATGGATAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
* *
42095571 ATCGAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
***
42095597 ATTGAAATACCCT-GATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
**
42095622 ACTGAAATACCC
1 ACCAAAATACCC
42095634 CTAGATGGAA
Statistics
Matches: 248, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
25 23 0.09
26 225 0.91
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (26 bp):
ACCAAAATACCCTCGATGGGTAAATT
Found at i:42095466 original size:78 final size:78
Alignment explanation
Indices: 42095337--42095633 Score: 454
Period size: 78 Copynumber: 3.8 Consensus size: 78
42095327 CACGGTGTTG
* * *
42095337 ACCAAAATACCCTCGATGGGTAAATTACCAAAAGACCCTCGATGGGTAAATTACCGAAATACCCT
1 ACCAAAATACCCTCGATGGGTAAATTAACAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
*
42095402 CAATGGGTAAATT
66 CGATGGGTAAATT
*
42095415 ACCAAAATACCCTCGATGGGTAAATTAACAAAATACCCTCGATGGGTAAATTATTGAAATACCCT
1 ACCAAAATACCCTCGATGGGTAAATTAACAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
*
42095480 CGATAGGTAAATT
66 CGATGGGTAAATT
*
42095493 ACCAAAATACCCTCGATAGGTAAATT-ACTAAAATACCCTCGATGGGTAAATTACTGAAATACCC
1 ACCAAAATACCCTCGATGGGTAAATTAAC-AAAATACCCTCGATGGGTAAATTACTGAAATACCC
*
42095557 TCGATGGATAAATT
65 TCGATGGGTAAATT
* * ***
42095571 ATCGAAATACCCTCGATGGGTAAATTATTGAAATACCCT-GATGGGTAAATTACTGAAATACCC
1 ACCAAAATACCCTCGATGGGTAAATTAACAAAATACCCTCGATGGGTAAATTACTGAAATACCC
42095634 CTAGATGGAA
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
77 26 0.13
78 175 0.87
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (78 bp):
ACCAAAATACCCTCGATGGGTAAATTAACAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
CGATGGGTAAATT
Found at i:42095855 original size:27 final size:27
Alignment explanation
Indices: 42095817--42095881 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
42095807 ATGGAAGAAG
* *
42095817 TACTGTTTCTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTATGCCACATA
42095843 TTACTGTTACTGGTGGCTATGCCACATA
1 -TACTGTTACTGGTGGCTATGCCACATA
42095871 TACTG-TACTGG
1 TACTGTTACTGG
42095882 CAGCTCGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATA
Found at i:42096103 original size:28 final size:28
Alignment explanation
Indices: 42096026--42096104 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
42096016 CATATTTGCA
* * *
42096026 CCATACTGATATTGTAACGTGCTTAGGC
1 CCATACTGATATTGTAAAGGGCTAAGGC
* * * **
42096054 CCATATTGTTATTATATTGGGCTAAGGC
1 CCATACTGATATTGTAAAGGGCTAAGGC
*
42096082 CCATACTGATATTGGAAAGGGCT
1 CCATACTGATATTGTAAAGGGCT
42096105 CGGACCCAGT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (28 bp):
CCATACTGATATTGTAAAGGGCTAAGGC
Found at i:42097100 original size:6 final size:6
Alignment explanation
Indices: 42097084--42097132 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
42097074 TTGACCTCTC
*
42097084 CTTTTT ATTTTT CTTTTT CTTTTT CTTCTCTT -TTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTT-T-TT CTTTTT CTTTTT CTTTTT
42097133 TTCTATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 2 0.05
6 31 0.82
7 3 0.08
8 2 0.05
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:42097120 original size:25 final size:24
Alignment explanation
Indices: 42097091--42097141 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
42097081 CTCCTTTTTA
*
42097091 TTTTTCTTTTTCTTTTTCTTCTCTT
1 TTTTTCTTTTTCTTTTT-TTCTATT
42097116 TTTTTCTTTTTCTTTTTTTCTATT
1 TTTTTCTTTTTCTTTTTTTCTATT
42097140 TT
1 TT
42097142 GATTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTTTTCTATT
Found at i:42097125 original size:8 final size:8
Alignment explanation
Indices: 42097122--42097212 Score: 83
Period size: 9 Copynumber: 10.6 Consensus size: 8
42097112 TCTTTTTTTC
*
42097122 TTTTTCTT
1 TTTTTATT
* *
42097130 TTTTTCTA
1 TTTTTATT
*
42097138 TTTTGATT
1 TTTTTATT
42097146 TTTTTGATT
1 TTTTT-ATT
*
42097155 TTTTGATT
1 TTTTTATT
42097163 TTTTTGATT
1 TTTTT-ATT
42097172 TTTTTGATT
1 TTTTT-ATT
42097181 TTTTTGATT
1 TTTTT-ATT
42097190 TTTTTGATTT
1 TTTTT-A-TT
42097200 TTTTTATT
1 TTTTTATT
42097208 TTTTT
1 TTTTT
42097213 CTAGTCTGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
8 30 0.41
9 36 0.49
10 7 0.10
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:42097148 original size:7 final size:8
Alignment explanation
Indices: 42097138--42097202 Score: 85
Period size: 9 Copynumber: 7.5 Consensus size: 8
42097128 TTTTTTTCTA
42097138 TTTTGATTT
1 TTTTGA-TT
42097147 TTTTGATT
1 TTTTGATT
42097155 TTTTGATTT
1 TTTTGA-TT
42097164 TTTTGATTT
1 TTTTGA-TT
42097173 TTTTGATTT
1 TTTTGA-TT
42097182 TTTTGATTT
1 TTTTGA-TT
42097191 TTTTGATT
1 TTTTGATT
42097199 TTTT
1 TTTT
42097203 TTATTTTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.25
9 41 0.75
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTTGATT
Found at i:42097165 original size:18 final size:18
Alignment explanation
Indices: 42097138--42097212 Score: 134
Period size: 18 Copynumber: 4.2 Consensus size: 18
42097128 TTTTTTTCTA
42097138 TTTTGATTTTTTTGA-TT
1 TTTTGATTTTTTTGATTT
42097155 TTTTGATTTTTTTGATTT
1 TTTTGATTTTTTTGATTT
42097173 TTTTGATTTTTTTGATTT
1 TTTTGATTTTTTTGATTT
*
42097191 TTTTGATTTTTTTTATTT
1 TTTTGATTTTTTTGATTT
42097209 TTTT
1 TTTT
42097213 CTAGTCTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
17 15 0.27
18 41 0.73
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTGATTTTTTTGATTT
Found at i:42097949 original size:17 final size:18
Alignment explanation
Indices: 42097917--42097953 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42097907 TCTGCACAGT
42097917 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
42097935 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
42097952 AT
1 AT
42097954 AAACGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:42100864 original size:16 final size:16
Alignment explanation
Indices: 42100843--42100873 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42100833 TTTGGTTCGC
42100843 TGTAATGGAAGAGAGG
1 TGTAATGGAAGAGAGG
*
42100859 TGTAATGGAATAGAG
1 TGTAATGGAAGAGAG
42100874 CTATAATAGT
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:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (16 bp):
TGTAATGGAAGAGAGG
Found at i:42101150 original size:17 final size:18
Alignment explanation
Indices: 42101107--42101142 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
42101097 CATAATTATT
42101107 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
42101125 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
42101143 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAATTTAATAAAA
Found at i:42101172 original size:55 final size:54
Alignment explanation
Indices: 42101061--42101193 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 54
42101051 AATAAGATTA
* * *
42101061 TTAATAAAAATAATAAATATTTTAATCATATTTTAACATAATTATTATATATAAT
1 TTAATAAAAATAAT-AATAATTTAATAAAATTTTAACATAATTATTATATATAAT
* *
42101116 TTAATAAAAAT-AT-ATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAAT
1 TTAATAAAAATAATAATAATTTAATAAAATT-TTAACATAATTATT-ATATAT-AAT
*
42101171 TTACTAAAATCATAATATATAAT
1 TTAATAAAA--ATAATA-ATAAT
42101194 AATATAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
52 13 0.20
53 13 0.20
54 7 0.11
55 22 0.34
57 2 0.03
58 2 0.03
60 5 0.08
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (54 bp):
TTAATAAAAATAATAATAATTTAATAAAATTTTAACATAATTATTATATATAAT
Found at i:42101449 original size:20 final size:20
Alignment explanation
Indices: 42101424--42101486 Score: 126
Period size: 20 Copynumber: 3.1 Consensus size: 20
42101414 TAAAATATTT
42101424 TTTATGTCATTAATAATTAA
1 TTTATGTCATTAATAATTAA
42101444 TTTATGTCATTAATAATTAA
1 TTTATGTCATTAATAATTAA
42101464 TTTATGTCATTAATAATTAA
1 TTTATGTCATTAATAATTAA
42101484 TTT
1 TTT
42101487 TTATAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTATGTCATTAATAATTAA
Found at i:42101715 original size:26 final size:26
Alignment explanation
Indices: 42101686--42101768 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
42101676 AATCAAACAA
42101686 TTTAAGTAATATAAAATAAAATATTG
1 TTTAAGTAATATAAAATAAAATATTG
* * ** * *
42101712 TTTAATTATAATTTTTAATCAAATA--A
1 TTTAA--GTAATATAAAATAAAATATTG
* *
42101738 TTTAAGTAATATAATATAAAACATTG
1 TTTAAGTAATATAAAATAAAATATTG
42101764 TTTAA
1 TTTAA
42101769 TTATGATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 11 0.28
26 15 0.38
28 13 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (26 bp):
TTTAAGTAATATAAAATAAAATATTG
Found at i:42101727 original size:52 final size:52
Alignment explanation
Indices: 42101614--42101805 Score: 295
Period size: 52 Copynumber: 3.8 Consensus size: 52
42101604 TTTTGTAGTG
*
42101614 TTAATTATAATTTTTAATCAAACAA--T-A-TAA-ATAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
* *
42101661 TTAATTCTAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAATATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
* *
42101713 TTAATTATAATTTTTAATCAAATAATTTAAGTAATATAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
*
42101765 TTAATTATGATTTTTAATCAAACAATTTAAGTAATATAAAA
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAA
42101806 CATTGTTTGA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
47 24 0.18
49 1 0.01
50 1 0.01
51 3 0.02
52 101 0.78
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (52 bp):
TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
Found at i:42101924 original size:18 final size:18
Alignment explanation
Indices: 42101901--42101935 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42101891 TTTAAATGAT
42101901 ACATATCAAAAAATAAAA
1 ACATATCAAAAAATAAAA
* *
42101919 ACATATCGAAAATTAAA
1 ACATATCAAAAAATAAA
42101936 TATAACCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (18 bp):
ACATATCAAAAAATAAAA
Found at i:42114061 original size:89 final size:89
Alignment explanation
Indices: 42113898--42114332 Score: 503
Period size: 89 Copynumber: 4.9 Consensus size: 89
42113888 AATAGATTAA
* * * *
42113898 AGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAATACACCAACCTCATCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
* * * *
42113963 CCTTGAGTTTGCAGTGGAGTAGAC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* * * * * * * ** *
42113987 AGAAGATAACATATCTTGCCTTCCTATGCCGGTAGCGAAGCAGATCGAAGGCACCAGCCTGACCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
*
42114052 CCCTAAGTTTGCAGCGAAGCAGAC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* *
42114076 TA-AAGATAGGAGATCTTGTCTTCCTATACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACC
1 -AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACC
* *
42114140 TCTCTAAGTTTACAGCGGAGCAGAC
65 TCCCTAAGTTTGCAGCGGAGCAGAC
* * * *
42114165 TGAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCGCCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
* * * *
42114230 TCCTGAGTTTGCAACGGAGCAGGC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* * * * * * *
42114254 TGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGTGAAGCAGATTGAAAACACCAGTCTTACCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
*
42114319 CTCTAAGTTTGCAG
66 CCCTAAGTTTGCAG
42114333 TAGAGTAGGT
Statistics
Matches: 292, Mismatches: 52, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
89 291 1.00
90 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
AGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
CCCTAAGTTTGCAGCGGAGCAGAC
Found at i:42114251 original size:44 final size:44
Alignment explanation
Indices: 42114107--42114251 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
42114097 TCCTATACTG
* * *
42114107 GCAGCGAAGCAGATCGAAAACACCAGCCTCACC-TCTCTAAGTTT
1 GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTC-CTGAGTTT
* * * * * * * *
42114151 ACAGCGGAGCAGA-CTGAATATAGCAGATCTTGTCTTCCTGTA-TTG
1 GCAGCGGAGCAGATC-GAAAACACCAG-CCTCGCCTTCCTG-AGTTT
*
42114196 GCAGCGAAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
1 GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
*
42114240 GCAACGGAGCAG
1 GCAGCGGAGCAG
42114252 GCTGAAGATA
Statistics
Matches: 73, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 2 0.03
44 41 0.56
45 26 0.36
46 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (44 bp):
GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
Found at i:42114296 original size:45 final size:45
Alignment explanation
Indices: 42114152--42114296 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 45
42114142 TCTAAGTTTA
* * * *
42114152 CAGCGGAGCAGACTGAATATAGCAGATCTTGTCTTCCTGTATTGG
1 CAGCGAAGCAGGCTGAAAATAACAGATCTTGTCTTCCTGTATTGG
* * * * * * *
42114197 CAGCGAAGCA-GATCGAAAACACCAG-CCTCGCCTTCCTG-AGTTTG
1 CAGCGAAGCAGGCT-GAAAATAACAGATCTTGTCTTCCTGTA-TTGG
* * *
42114241 CAACGGAGCAGGCTGAAGATAACAGATCTTGTCTTCCTGTATTGG
1 CAGCGAAGCAGGCTGAAAATAACAGATCTTGTCTTCCTGTATTGG
*
42114286 CAGTGAAGCAG
1 CAGCGAAGCAG
42114297 ATTGAAAACA
Statistics
Matches: 72, Mismatches: 23, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
43 1 0.01
44 30 0.42
45 40 0.56
46 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (45 bp):
CAGCGAAGCAGGCTGAAAATAACAGATCTTGTCTTCCTGTATTGG
Found at i:42116439 original size:12 final size:12
Alignment explanation
Indices: 42116424--42116466 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
42116414 TTATGGTTAA
*
42116424 TATTTTCACTAT
1 TATTTTCAATAT
* *
42116436 TATTTTTATTAT
1 TATTTTCAATAT
42116448 TATTTTCAATAT
1 TATTTTCAATAT
42116460 ATATTTT
1 -TATTTT
42116467 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTTCAATAT
Found at i:42119362 original size:21 final size:21
Alignment explanation
Indices: 42119338--42119385 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
42119328 CGACTGTGGC
* *
42119338 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
42119359 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
42119380 GGAGGA
1 GGAGGA
42119386 GACAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:42120810 original size:10 final size:9
Alignment explanation
Indices: 42120782--42120820 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
42120772 ATTAGTCTTG
42120782 ATTTTAAAA
1 ATTTTAAAA
42120791 ATTTTAAAA
1 ATTTTAAAA
*
42120800 ATTATTTAAA
1 ATT-TTAAAA
42120810 ATTTTATAAA
1 ATTTTA-AAA
42120820 A
1 A
42120821 AATATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:42128544 original size:37 final size:38
Alignment explanation
Indices: 42128495--42128566 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
42128485 TATAATTCAT
*
42128495 AAAAATTCAAAAATA-TTAATAAAAATATTTAAAAATTA
1 AAAAATTCAAAAA-AGTTAATAAAAACATTTAAAAATTA
* *
42128533 AAAAATT-AAAAAAGTTCATAATAACATTTAAAAA
1 AAAAATTCAAAAAAGTTAATAAAAACATTTAAAAA
42128567 AATTTTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 1 0.03
37 22 0.73
38 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (38 bp):
AAAAATTCAAAAAAGTTAATAAAAACATTTAAAAATTA
Found at i:42131282 original size:21 final size:21
Alignment explanation
Indices: 42131258--42131305 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
42131248 CGACTGTGGC
* *
42131258 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
42131279 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
42131300 GGAGGA
1 GGAGGA
42131306 GACAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:42140448 original size:37 final size:38
Alignment explanation
Indices: 42140399--42140470 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
42140389 TATAATTCAT
*
42140399 AAAAATTCAAAAATA-TTAATAAAAATATTTAAAAATTA
1 AAAAATTCAAAAA-AGTTAATAAAAACATTTAAAAATTA
* *
42140437 AAAAATT-AAAAAAGTTCATAATAACATTTAAAAA
1 AAAAATTCAAAAAAGTTAATAAAAACATTTAAAAA
42140471 AATTTTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 1 0.03
37 22 0.73
38 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (38 bp):
AAAAATTCAAAAAAGTTAATAAAAACATTTAAAAATTA
Found at i:42143191 original size:21 final size:21
Alignment explanation
Indices: 42143167--42143214 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
42143157 CGACTGTGGC
* *
42143167 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
42143188 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
42143209 GGAGGA
1 GGAGGA
42143215 GACAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:42166547 original size:13 final size:13
Alignment explanation
Indices: 42166529--42166553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42166519 TATTTTAATA
42166529 TTATTTTGTGTGT
1 TTATTTTGTGTGT
42166542 TTATTTTGTGTG
1 TTATTTTGTGTG
42166554 AAATTTTCGT
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:42168456 original size:41 final size:41
Alignment explanation
Indices: 42168340--42168445 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
42168330 AATGAGATAA
* *
42168340 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
*
42168381 TTCAGACTTTACGTCTAGCAGGCTTGACGCCAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
* *
42168422 TTCGGACTTTACGTCTAGCGGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
42168446 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
Found at i:42181493 original size:38 final size:39
Alignment explanation
Indices: 42181448--42181672 Score: 135
Period size: 39 Copynumber: 5.7 Consensus size: 39
42181438 TAATTATTAT
42181448 TAAAATATAATTTAATAAAATTATTAATAT-TAAATATTCT-
1 TAAAATATAATTTAATAAAATTATTAATATAT-AATA--CTA
* * * *
42181488 TAATAT-TAAATTACTAAAATCA-TAATATATAATACTA
1 TAAAATATAATTTAATAAAATTATTAATATATAATACTA
* *
42181525 TAAAATATAATTTAACATAATTATTATTAA-ATATAATTTAATA
1 TAAAATATAATTT-A-ATAA-AATTATTAATATATAA--TACTA
* * * *
42181568 AAAATATATAATTTAATAAAA-AATTTAATAT-TAAATATTT
1 TAAA-ATATAATTTAATAAAATTA-TTAATATAT-AATACTA
*** * *
42181608 TCTTATATGAATTTACTAAAATCA-TAATATATAATACTA
1 TAAAATAT-AATTTAATAAAATTATTAATATATAATACTA
42181647 TAAAATATAATTTAA-AATAATTATTA
1 TAAAATATAATTTAATAA-AATTATTA
42181673 TTAAATATAA
Statistics
Matches: 139, Mismatches: 28, Indels: 37
0.68 0.14 0.18
Matches are distributed among these distances:
36 2 0.01
37 7 0.05
38 25 0.18
39 37 0.27
40 24 0.17
41 16 0.12
42 11 0.08
43 8 0.06
44 9 0.06
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (39 bp):
TAAAATATAATTTAATAAAATTATTAATATATAATACTA
Found at i:42181513 original size:22 final size:21
Alignment explanation
Indices: 42181488--42181539 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
42181478 TAAATATTCT
*
42181488 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
42181510 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
42181532 TAAT-TTAA
1 TAATATTAA
42181540 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:42181601 original size:18 final size:17
Alignment explanation
Indices: 42181553--42181601 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
42181543 AATTATTATT
42181553 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
42181570 AATATATAATTTAATAAA
1 AA-ATATAATTTAATAAA
*
42181588 AAATTTAATATTAA
1 AAATATAAT-TTAA
42181602 ATATTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:42181650 original size:122 final size:121
Alignment explanation
Indices: 42181452--42181706 Score: 433
Period size: 122 Copynumber: 2.1 Consensus size: 121
42181442 TATTATTAAA
* *
42181452 ATATAATTTAATAAAATTATTAATATTAAATATTCTTAATATTAAATTACTAAAATCATAATATA
1 ATATAATTTAATAAAAATATTAATATTAAATATTCTTAATATGAAATTACTAAAATCATAATATA
*
42181517 TAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAAT
66 TAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
42181573 ATATAATTTAATAAAAA-ATTTAATATTAAATATTTTCTT-ATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAAATA-TTAATATTAAATA--TTCTTAATATGAAATTACTAAAATCATAAT
42181636 ATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
63 ATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
42181695 ATATAATTTAAT
1 ATATAATTTAAT
42181707 CTAAAGTTTG
Statistics
Matches: 127, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
120 1 0.01
121 29 0.23
122 92 0.72
123 5 0.04
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (121 bp):
ATATAATTTAATAAAAATATTAATATTAAATATTCTTAATATGAAATTACTAAAATCATAATATA
TAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:42181939 original size:25 final size:25
Alignment explanation
Indices: 42181884--42181940 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
42181874 AGTATACAAT
*
42181884 TAAAATATTATAAATAAAATAATAG
1 TAAAATATTATAAATAAAATAACAG
*
42181909 TAAAATA-TATAAGATAAATTAACA-
1 TAAAATATTATAA-ATAAAATAACAG
42181933 TATAAATA
1 TA-AAATA
42181941 ATTCAGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (25 bp):
TAAAATATTATAAATAAAATAACAG
Found at i:42191992 original size:20 final size:20
Alignment explanation
Indices: 42191959--42192002 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
42191949 GTATTTAACC
*
42191959 ATTT-AATTTTTTTATTTAT
1 ATTTAAATTTATTTATTTAT
42191978 ATTTAAATTTATTTATTTAT
1 ATTTAAATTTATTTATTTAT
42191998 -TTTAA
1 ATTTAA
42192003 TTTCACACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTAAATTTATTTATTTAT
Found at i:42192005 original size:24 final size:25
Alignment explanation
Indices: 42191950--42191999 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
42191940 AAATAAGAAG
*
42191950 TATTTAACCATTTAATTTTTTTATTTA
1 TATTTAA--ATTTAATTTATTTATTTA
42191977 TATTTAAATTT-ATTTATTTATTT
1 TATTTAAATTTAATTTATTTATTT
42192000 TAATTTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
27 7 0.32
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTTAAATTTAATTTATTTATTTA
Found at i:42192799 original size:32 final size:31
Alignment explanation
Indices: 42192719--42192802 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
42192709 TCATTAAGCC
*
42192719 TTTAAAAGTTTTAATTAAACCTACCAAAATT
1 TTTAAAAATTTTAATTAAACCTACCAAAATT
* * *
42192750 TTTAAATATTCTCATTAAATCCT-CCAAAATTT
1 TTTAAAAATTTTAATTAAA-CCTACCAAAA-TT
42192782 TTTAAAAATTTTAATTAAACC
1 TTTAAAAATTTTAATTAAACC
42192803 CTAAACTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (31 bp):
TTTAAAAATTTTAATTAAACCTACCAAAATT
Found at i:42199581 original size:43 final size:43
Alignment explanation
Indices: 42199533--42199633 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
42199523 GCGGTTTTAA
* *
42199533 ATGTTCTTTAGCGGCACTTTTACTAATAA-CGCTGCTAAAGGTC
1 ATGTTCTTTAGCGGCACTTTTACTAA-AAGCGCCGCTAAAAGTC
* *** *
42199576 ATGTTCTTTAACGGTGTTTTTAGTAAAAGCGCCGCTAAAAGTC
1 ATGTTCTTTAGCGGCACTTTTACTAAAAGCGCCGCTAAAAGTC
42199619 ATGTTCTTTAGCGGC
1 ATGTTCTTTAGCGGC
42199634 GTTTGTGGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 2 0.04
43 46 0.96
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCACTTTTACTAAAAGCGCCGCTAAAAGTC
Found at i:42199647 original size:43 final size:43
Alignment explanation
Indices: 42199566--42199648 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
42199556 TAATAACGCT
* * * *
42199566 GCTAAAGGTCATGTTCTTTAACGGTGTTTTTAGTAAAAGCGCC
1 GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGCGCC
* *
42199609 GCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGC
1 GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGC
42199649 ACCACTAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGCGCC
Found at i:42204336 original size:25 final size:25
Alignment explanation
Indices: 42204303--42204351 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
42204293 AAGGGAATGA
* *
42204303 AGAATAATGAAAGGGAAATGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
*
42204328 AGAAAAATGAAAGAGAAGTGAAGA
1 AGAAAAATGAAAGAGAAATGAAGA
42204352 AATGAATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (25 bp):
AGAAAAATGAAAGAGAAATGAAGAG
Found at i:42205629 original size:11 final size:10
Alignment explanation
Indices: 42205611--42205644 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
42205601 TTGAGACAAT
42205611 TTAAAAATAA
1 TTAAAAATAA
42205621 TTAAGAAATAA
1 TTAA-AAATAA
42205632 TTTAAAAATAA
1 -TTAAAAATAA
42205643 TT
1 TT
42205645 GCAAGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.27
11 12 0.55
12 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:42206762 original size:52 final size:52
Alignment explanation
Indices: 42206700--42206802 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
42206690 GGTTCAGTTA
*
42206700 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTGCATTGGTTC
1 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTTC
*
42206752 CTGGTTACATTGGTTCTGCCTTATCAGGGACTTCAGTTGACTACATTGGTT
1 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTT
42206803 TGATCTTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (52 bp):
CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTTC
Found at i:42207775 original size:25 final size:24
Alignment explanation
Indices: 42207721--42207776 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
42207711 TTAATTAGTA
* *
42207721 TAAAATATTAATAATTCAATAATT
1 TAAAATATTAATAATTAAATAAAT
42207745 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATT-AATAATTAAAT-AAAT
42207771 TAAAAT
1 TAAAAT
42207777 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATATTAATAATTAAATAAAT
Found at i:42215939 original size:29 final size:31
Alignment explanation
Indices: 42215879--42215936 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 31
42215869 AAATTTGTTG
*
42215879 TTAGTTTATGTATATTAATAAAATTTGAAAT
1 TTAGTTTATGTATATTAATAAAATTTAAAAT
*
42215910 TTAGTTT-T-TATATTTA-AAAATTTAAAA
1 TTAGTTTATGTATATTAATAAAATTTAAAA
42215937 ATTAAGTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 7 0.28
30 1 0.04
31 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (31 bp):
TTAGTTTATGTATATTAATAAAATTTAAAAT
Found at i:42218098 original size:21 final size:20
Alignment explanation
Indices: 42218066--42218107 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
42218056 TATTTTACAT
*
42218066 TTTTACCCCAAACATTTTTAC
1 TTTTACCCCAAA-ACTTTTAC
42218087 TTTT-CCCTCAAAACTTTTAC
1 TTTTACCC-CAAAACTTTTAC
42218107 T
1 T
42218108 CCTTCCCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTACCCCAAAACTTTTAC
Found at i:42229463 original size:23 final size:23
Alignment explanation
Indices: 42229433--42229484 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
42229423 TTGATCTTCT
* *
42229433 CTGTAATATCCTGAAAATTACTA
1 CTGTAATACCCCGAAAATTACTA
42229456 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCGAAAATTACTA
*
42229479 CAGTAA
1 CTGTAA
42229485 GAAAATAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
CTGTAATACCCCGAAAATTACTA
Found at i:42237500 original size:50 final size:50
Alignment explanation
Indices: 42237417--42237514 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
42237407 ACCAGACTGC
* * *
42237417 ACAAGTAGAATCTATATAAAACTGCTCTTCTTCTATTTGATATTGATTGT
1 ACAAGTAGAATCCATATAAAACTGCTCTCCTTCTATTTGACATTGATTGT
**
42237467 ACAAGTAGAATCCATATAAAACTTTTCTCCTTCTATTTGACATTGATT
1 ACAAGTAGAATCCATATAAAACTGCTCTCCTTCTATTTGACATTGATT
42237515 AGAATAAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (50 bp):
ACAAGTAGAATCCATATAAAACTGCTCTCCTTCTATTTGACATTGATTGT
Found at i:42249850 original size:31 final size:29
Alignment explanation
Indices: 42249814--42249885 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
42249804 CGCTCAATGT
*
42249814 CTAAAATGTTACAACTCGATAACGCAAGTGA
1 CTAAAATGTAACAACTC-A-AACGCAAGTGA
* ** *
42249845 CTAAAACGTAACATTTCAAACGTAAGTGA
1 CTAAAATGTAACAACTCAAACGCAAGTGA
42249874 CTAAAATGTAAC
1 CTAAAATGTAAC
42249886 CTGAGACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 21 0.60
30 1 0.03
31 13 0.37
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (29 bp):
CTAAAATGTAACAACTCAAACGCAAGTGA
Found at i:42250841 original size:35 final size:35
Alignment explanation
Indices: 42250795--42250865 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
42250785 ATTTATGTCG
42250795 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
1 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
42250830 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
1 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
42250865 T
1 T
42250866 ACGCAAGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (35 bp):
TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
Found at i:42251885 original size:46 final size:46
Alignment explanation
Indices: 42251818--42251911 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
42251808 CAAAATGTGT
* *
42251818 TTTTTTTAATGGCGCCTATCTGAGAGGCGCCAATAAATATTTTATA
1 TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
* * *
42251864 TTTTTTTAATGGCGCCTATCTGACAAGTGCTAATCAATATTTTATA
1 TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
42251910 TT
1 TT
42251912 AAAATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (46 bp):
TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
Found at i:42252902 original size:60 final size:60
Alignment explanation
Indices: 42252818--42252936 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
42252808 ATACTAAACT
* * *
42252818 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
42252878 AAACCCAAAAATTTATAACATAATCCTAAATTACTAGCAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
42252937 TAAAAAGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:42253116 original size:29 final size:30
Alignment explanation
Indices: 42253077--42253144 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
42253067 CCGTATTTAT
*
42253077 ATTTAAATATTTTTAATAAAAATAAAA-AAA
1 ATTT-AATATTTTTAATAAAAACAAAATAAA
* * *
42253107 ATTTAATA-TTTTATTCAAACCAAAATAAA
1 ATTTAATATTTTTAATAAAAACAAAATAAA
42253136 ATTTAATAT
1 ATTTAATAT
42253145 AAAATATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 13 0.41
29 15 0.47
30 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (30 bp):
ATTTAATATTTTTAATAAAAACAAAATAAA
Found at i:42254502 original size:13 final size:13
Alignment explanation
Indices: 42254484--42254527 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
42254474 TAGCTTGACA
42254484 AACTGATTCTATT
1 AACTGATTCTATT
**
42254497 AACTGATT-TGACC
1 AACTGATTCT-ATT
42254510 AACTGATTCTATT
1 AACTGATTCTATT
42254523 AACTG
1 AACTG
42254528 TTTATTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (13 bp):
AACTGATTCTATT
Found at i:42254508 original size:26 final size:26
Alignment explanation
Indices: 42254478--42254527 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
42254468 GCAGGCTAGC
42254478 TTGACAAACTGATTCTATTAACTGAT
1 TTGACAAACTGATTCTATTAACTGAT
*
42254504 TTGACCAACTGATTCTATTAACTG
1 TTGACAAACTGATTCTATTAACTG
42254528 TTTATTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (26 bp):
TTGACAAACTGATTCTATTAACTGAT
Found at i:42255333 original size:24 final size:24
Alignment explanation
Indices: 42255301--42255349 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
42255291 TTAATTTGAA
* *
42255301 ATTTAAAAGCATTGTGTTTACACC
1 ATTTAAAAGCATCGTATTTACACC
42255325 ATTTAAAAGCATCGTATTTACACC
1 ATTTAAAAGCATCGTATTTACACC
42255349 A
1 A
42255350 ATTGTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (24 bp):
ATTTAAAAGCATCGTATTTACACC
Found at i:42255758 original size:51 final size:52
Alignment explanation
Indices: 42255666--42255767 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 52
42255656 AAAGCGCGTC
* * *
42255666 CAGCTGGAAGCGCTTTCAGTTCTTTTTTCTGACATGACACTAAAAACGCTTT
1 CAGCTGGAAGCACTTTCAGTGCTTTTTTCTAACATGACACTAAAAACGCTTT
*
42255718 CAGCTGGAA-CACTTTTAGTGCTTTTTTCTAACAGTG-CACTAAAAACGCTT
1 CAGCTGGAAGCACTTTCAGTGCTTTTTTCTAACA-TGACACTAAAAACGCTT
42255768 CCATCTTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 34 0.76
52 11 0.24
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (52 bp):
CAGCTGGAAGCACTTTCAGTGCTTTTTTCTAACATGACACTAAAAACGCTTT
Found at i:42257973 original size:20 final size:18
Alignment explanation
Indices: 42257950--42258010 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 18
42257940 CAATGACTAC
42257950 AATTTTTTTATATTTTTA
1 AATTTTTTTATATTTTTA
*
42257968 TGAATTTTTTTATGTTTTTA
1 --AATTTTTTTATATTTTTA
* *
42257988 AATATTTTTATAACTTTTA
1 AATTTTTTTAT-ATTTTTA
42258007 AATT
1 AATT
42258011 ATTTATTGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 10 0.29
19 8 0.23
20 17 0.49
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
AATTTTTTTATATTTTTA
Found at i:42267857 original size:15 final size:16
Alignment explanation
Indices: 42267832--42267861 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42267822 GATATCTTAT
42267832 TTTTGCTTTTTTTTTC
1 TTTTGCTTTTTTTTTC
42267848 TTTT-CTTTTTTTTT
1 TTTTGCTTTTTTTTT
42267862 GGAATACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTGCTTTTTTTTTC
Found at i:42272458 original size:22 final size:21
Alignment explanation
Indices: 42272433--42272474 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42272423 TTAAATATAA
42272433 ATTATAAAATTCATAAAAAAAC
1 ATTA-AAAATTCATAAAAAAAC
* *
42272455 ATTAGAAATTTATAAAAAAA
1 ATTAAAAATTCATAAAAAAA
42272475 TTTAAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
ATTAAAAATTCATAAAAAAAC
Found at i:42297359 original size:3 final size:3
Alignment explanation
Indices: 42297351--42297448 Score: 187
Period size: 3 Copynumber: 32.7 Consensus size: 3
42297341 GTTTGACCCT
42297351 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
42297399 TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
42297447 TT
1 TT
42297449 TTTACTATTA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.01, C:0.00, G:0.32, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:42305572 original size:29 final size:29
Alignment explanation
Indices: 42305529--42305607 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
42305519 CTTAATAAAC
*
42305529 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
42305559 AACTCGCGCACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
42305588 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42305608 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:42307586 original size:36 final size:37
Alignment explanation
Indices: 42307514--42307591 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
42307504 TTATTACGAA
* *
42307514 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACATAATCCCCACACGAAGTCATCGG
* *
42307551 GTCTTACCCGGACA-AATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCCCCACACGAAGTCATCGG
42307587 GTCTT
1 GTCTT
42307592 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACATAATCCCCACACGAAGTCATCGG
Found at i:42308028 original size:47 final size:47
Alignment explanation
Indices: 42307709--42308030 Score: 518
Period size: 47 Copynumber: 6.7 Consensus size: 47
42307699 GCCCTTCGGG
*
42307709 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
42307759 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * * *
42307808 ACTTTCACATTCATCACTTCGACCATTAGGCCCTATCATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
42307855 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
42307902 ATTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42307949 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42307996 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
42308031 CTATCATTTC
Statistics
Matches: 259, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
47 174 0.67
49 81 0.31
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:42324625 original size:21 final size:18
Alignment explanation
Indices: 42324599--42324644 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
42324589 ATGATGGTAC
42324599 CGATACCTTAGGCCTAAGTAT
1 CGATACC-TAGG-CTAA-TAT
*
42324620 CGATACCTAGGCTTATAT
1 CGATACCTAGGCTAATAT
42324638 CGATACC
1 CGATACC
42324645 CACCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 4 0.17
21 7 0.29
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (18 bp):
CGATACCTAGGCTAATAT
Found at i:42326659 original size:23 final size:23
Alignment explanation
Indices: 42326606--42326661 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
42326596 ATGTTTAAAC
*
42326606 TTATTATTATCTTAAATTTATCA
1 TTATTATTATCTTAAATCTATCA
* * *
42326629 TTAATATTATC-TAAGTCTATTA
1 TTATTATTATCTTAAATCTATCA
42326651 TATATTATTAT
1 T-TATTATTAT
42326662 TTCAGATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTATTATCTTAAATCTATCA
Found at i:42328418 original size:28 final size:28
Alignment explanation
Indices: 42328385--42328535 Score: 105
Period size: 28 Copynumber: 5.2 Consensus size: 28
42328375 GCAAATAACA
42328385 ATAAGCACCGAAGTGAAAAATAATTACG
1 ATAAGCACCGAAGTGAAAAATAATTACG
* *
42328413 ATAAGCACC-AATGTGCAAATTTTACA-AATAACA
1 ATAAGCACCGAA-GTG-AAA----A-ATAATTACG
42328446 ATAAGCACCGAAGTGAAAAATAATTACG
1 ATAAGCACCGAAGTGAAAAATAATTACG
** * **
42328474 ATAAGCACC-AATGTGCAAATTTTACAACG
1 ATAAGCACCGAA-GTG-AAAAATAATTACG
*
42328503 ATAAGCACTGAAGT-ACAAAATAA-TACG
1 ATAAGCACCGAAGTGA-AAAATAATTACG
42328530 ATAAGC
1 ATAAGC
42328536 GCGCTAATTT
Statistics
Matches: 96, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
27 15 0.16
28 34 0.35
29 21 0.22
30 2 0.02
32 3 0.03
33 18 0.19
34 3 0.03
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (28 bp):
ATAAGCACCGAAGTGAAAAATAATTACG
Found at i:42328451 original size:61 final size:61
Alignment explanation
Indices: 42328376--42328535 Score: 251
Period size: 61 Copynumber: 2.7 Consensus size: 61
42328366 GCACAAAGTG
42328376 CAAATAACAATAAGCACCGAAGTGAAAAATAATTACGATAAGCACCAATGTGCAAATTTTA
1 CAAATAACAATAAGCACCGAAGTGAAAAATAATTACGATAAGCACCAATGTGCAAATTTTA
42328437 CAAATAACAATAAGCACCGAAGTGAAAAATAATTACGATAAGCACCAATGTGCAAATTTTA
1 CAAATAACAATAAGCACCGAAGTGAAAAATAATTACGATAAGCACCAATGTGCAAATTTTA
* *
42328498 C----AACGATAAGCACTGAAGT-ACAAAATAA-TACGATAAGC
1 CAAATAACAATAAGCACCGAAGTGA-AAAATAATTACGATAAGC
42328536 GCGCTAATTT
Statistics
Matches: 96, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
56 11 0.11
57 23 0.24
61 62 0.65
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (61 bp):
CAAATAACAATAAGCACCGAAGTGAAAAATAATTACGATAAGCACCAATGTGCAAATTTTA
Found at i:42330835 original size:18 final size:18
Alignment explanation
Indices: 42330769--42330836 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
42330759 ATTTTTTTAA
* *
42330769 ATATAAATTA-TAAAATT
1 ATATAAATAATTATAATT
* *
42330786 CATAAAAAT-ATTAGAATT
1 -ATATAAATAATTATAATT
*
42330804 TTATAAATAATTATAATT
1 ATATAAATAATTATAATT
*
42330822 ATATATATAATTATA
1 ATATAAATAATTATA
42330837 TGAAAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 7 0.17
18 34 0.83
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAAATAATTATAATT
Found at i:42331937 original size:13 final size:14
Alignment explanation
Indices: 42331914--42331942 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
42331904 AATTTATTTT
42331914 TATATAAAAATTAA
1 TATATAAAAATTAA
42331928 TATA-AAAAATTAA
1 TATATAAAAATTAA
42331941 TA
1 TA
42331943 CGGGTCGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATATAAAAATTAA
Found at i:42332913 original size:14 final size:15
Alignment explanation
Indices: 42332896--42332951 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
42332886 AAAATATTTT
42332896 TTAATTATTTAATT-
1 TTAATTATTTAATTA
* *
42332910 TTAAGTAGTTAATTA
1 TTAATTATTTAATTA
*
42332925 TTATATTGTTTAAATTA
1 TTA-ATTATTT-AATTA
42332942 TTAATT-TTTA
1 TTAATTATTTA
42332952 TGTTTATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 13 0.38
15 6 0.18
16 7 0.21
17 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTAATTATTTAATTA
Found at i:42335439 original size:30 final size:30
Alignment explanation
Indices: 42335403--42335462 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
42335393 TTAAAACAAA
42335403 AAAAATAAAGATCTAAAAATCCTTTTTATT
1 AAAAATAAAGATCTAAAAATCCTTTTTATT
42335433 AAAAATAAAGATCTAAAAATCCTTTTTATT
1 AAAAATAAAGATCTAAAAATCCTTTTTATT
42335463 TTCCTTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAATAAAGATCTAAAAATCCTTTTTATT
Found at i:42338710 original size:39 final size:40
Alignment explanation
Indices: 42338615--42338837 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
42338605 TTGGATGATG
*
42338615 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
42338653 ATCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42338694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
42338733 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
42338772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
42338811 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42338838 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 90 0.56
40 59 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42338809 original size:79 final size:80
Alignment explanation
Indices: 42338615--42338837 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
42338605 TTGGATGATG
* * * *
42338615 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGG-CTAAGACCCGAAGGCAT
*
42338677 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
42338694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGAGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCG-GCTAAGACCCGAAGGCAT
*
42338755 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * * *
42338772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCC-GGCTAAGACCCGAAGGCATT
42338836 TG
65 TG
42338838 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
78 46 0.37
79 52 0.42
80 26 0.21
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:42338859 original size:79 final size:79
Alignment explanation
Indices: 42338688--42338869 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 79
42338678 TGTGCGAGAT
* * *
42338688 ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGG
** *
42338752 CATTTGTGCGAGTT
66 CATTTGAACGAGTG
* *
42338766 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGAGCTAAG-CCCGA
42338829 AGGCATTTGAACGAG-G
63 AGGCATTTGAACGAGTG
* *
42338845 AGCTATATCC-GGTTAAAT-CCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
42338870 TACGTGATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 25 0.28
79 39 0.44
80 25 0.28
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:42345028 original size:13 final size:13
Alignment explanation
Indices: 42345010--42345034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42345000 CCGAAACTAG
42345010 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
42345023 AAAGAAAAAAAA
1 AAAGAAAAAAAA
42345035 TGCTCATCCT
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:42346207 original size:39 final size:39
Alignment explanation
Indices: 42346164--42346373 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
42346154 GGACTAAGAT
*
42346164 CCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
42346203 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
42346242 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
42346281 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
42346321 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
42346361 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42346374 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 111 0.71
40 46 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:42346344 original size:40 final size:38
Alignment explanation
Indices: 42346112--42346373 Score: 280
Period size: 39 Copynumber: 6.7 Consensus size: 38
42346102 TTGGATGATG
* *
42346112 TCCGGGCTAAGTCCCGAAGGC--TTGCGCTAAGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAA-T-ACTAAT
* * *
42346150 ATCCGGACTAAGATCCGAAGGCAATTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGA-ATACTAAT
42346191 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGA-ATACTAAT
*
42346230 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGA-ATACTAAT
* *
42346269 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGA-ATACTAAT
*
42346308 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAA-TACTAAT
* *
42346347 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
42346374 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
39 129 0.65
40 58 0.29
41 10 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAATACTAAT
Found at i:42348545 original size:24 final size:24
Alignment explanation
Indices: 42348518--42348563 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
42348508 GAATTAAACC
42348518 TCAAATT-TTAGCATAATATAAATA
1 TCAAATTGTTA-CATAATATAAATA
*
42348542 TCAAATTGTTACATAATCTAAA
1 TCAAATTGTTACATAATATAAA
42348564 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (24 bp):
TCAAATTGTTACATAATATAAATA
Found at i:42350971 original size:30 final size:30
Alignment explanation
Indices: 42350937--42351062 Score: 148
Period size: 30 Copynumber: 4.2 Consensus size: 30
42350927 GGCAATATAT
42350937 ATGTATACCTATATACAAATCAATTCGGCA
1 ATGTATACCTATATACAAATCAATTCGGCA
* * * *
42350967 ATGTATATCC-ACATACAAATTAATTCGACG
1 ATGTATA-CCTATATACAAATCAATTCGGCA
* * *
42350997 ACGTATATCTATATACAAATAAATTCGGCA
1 ATGTATACCTATATACAAATCAATTCGGCA
*
42351027 ATGTATACCCATATAC-AATCAATTCGGCA
1 ATGTATACCTATATACAAATCAATTCGGCA
*
42351056 ATATATA
1 ATGTATA
42351063 AAACATATAC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
29 19 0.24
30 58 0.73
31 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (30 bp):
ATGTATACCTATATACAAATCAATTCGGCA
Found at i:42351013 original size:60 final size:59
Alignment explanation
Indices: 42350939--42351052 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 59
42350929 CAATATATAT
* * *
42350939 GTATACCTATATACAAATCAATTCGGCAATGTATATCCACATACAAATTAATTCGACGAC
1 GTATACCTATATACAAATAAATTCGGCAATGTATACCCACATAC-AATCAATTCGACGAC
* *
42350999 GTATATCTATATACAAATAAATTCGGCAATGTATACCCATATACAATCAATTCG
1 GTATACCTATATACAAATAAATTCGGCAATGTATACCCACATACAATCAATTCG
42351053 GCAATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 9 0.18
60 40 0.82
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (59 bp):
GTATACCTATATACAAATAAATTCGGCAATGTATACCCACATACAATCAATTCGACGAC
Found at i:42351070 original size:30 final size:29
Alignment explanation
Indices: 42351007--42351073 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
42350997 ACGTATATCT
* **
42351007 ATATACAAATAAATTCGGCAATGTATACCC
1 ATATAC-AATAAATTCGGCAATATATAAAC
*
42351037 ATATACAATCAATTCGGCAATATATAAAAC
1 ATATACAATAAATTCGGCAATATAT-AAAC
42351067 ATATACA
1 ATATACA
42351074 TTTGAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATACAATAAATTCGGCAATATATAAAC
Found at i:42359967 original size:21 final size:20
Alignment explanation
Indices: 42359928--42359972 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
42359918 ATCTATACTT
*
42359928 AAAATAAATTATATTATTTG
1 AAAATAAATTATATTATTTA
* *
42359948 AAAATAATTTATTTTTATTTA
1 AAAATAAATTA-TATTATTTA
42359969 AAAA
1 AAAA
42359973 ATATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAAATAAATTATATTATTTA
Found at i:42359971 original size:20 final size:19
Alignment explanation
Indices: 42359926--42359971 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
42359916 GGATCTATAC
42359926 TTAAAATAAATTATATTAT
1 TTAAAATAAATTATATTAT
* *
42359945 TTGAAAATAATTTATTTTTAT
1 TT-AAAATAAATTA-TATTAT
42359966 TTAAAA
1 TTAAAA
42359972 AATATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAAAATAAATTATATTAT
Found at i:42370547 original size:19 final size:19
Alignment explanation
Indices: 42370523--42370568 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
42370513 TGTTACACTA
*
42370523 TTTCTCAAATTTTCATT-TT
1 TTTCTCAAAATTTC-TTATT
42370542 TTTCTCAAAATTTCTTATT
1 TTTCTCAAAATTTCTTATT
*
42370561 TGTCTCAA
1 TTTCTCAA
42370569 TTGGATCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTCAAAATTTCTTATT
Found at i:42371700 original size:37 final size:37
Alignment explanation
Indices: 42371659--42371756 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
42371649 CATCAGTCCA
42371659 TATAATAGTAAGATTTGCTC-AGTTAAGCTCCATTCAG
1 TATAATAGTAAGATTTGCTCGA-TTAAGCTCCATTCAG
* * * *
42371696 TATAATGGTATGATTTGCTCGATTAAGCTTCATTTAG
1 TATAATAGTAAGATTTGCTCGATTAAGCTCCATTCAG
* * *
42371733 TAGAACATTAAGATTTGGCTCGAT
1 TATAATAGTAAGATTT-GCTCGAT
42371757 AGAGCATACT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
37 42 0.84
38 8 0.16
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (37 bp):
TATAATAGTAAGATTTGCTCGATTAAGCTCCATTCAG
Found at i:42376143 original size:41 final size:41
Alignment explanation
Indices: 42376089--42376250 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
42376079 TATATCAGTG
* * * *
42376089 ATATTCAGGCTTTATGCCTAGCAGACTTTATGCTGATGAATT
1 ATATT-AGGCTTTATGCCTAGCAGGCTTTATGCCGATGTATC
*
42376131 ATATTAGGCTTTATGCCTAGCAGGCTTTATGCCGATGTACC
1 ATATTAGGCTTTATGCCTAGCAGGCTTTATGCCGATGTATC
* * *
42376172 ATATCAGGCTTTATGCATAGCAGGCTTTGTGCCGATGTATC
1 ATATTAGGCTTTATGCCTAGCAGGCTTTATGCCGATGTATC
* * * * *
42376213 ATATTTGGATTTGTGTCTAGTAGGCTTTATGCCGATGT
1 ATATTAGGCTTTATGCCTAGCAGGCTTTATGCCGATGT
42376251 GGTATCTAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 98 0.95
42 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
ATATTAGGCTTTATGCCTAGCAGGCTTTATGCCGATGTATC
Found at i:42383166 original size:28 final size:26
Alignment explanation
Indices: 42383122--42383173 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
42383112 ATATTATTAA
42383122 TATAATATATAAATGTTATAATAAGG
1 TATAATATATAAATGTTATAATAAGG
*
42383148 TATAATATATTATTATGTTATAATAA
1 TATAATATA-TA-AATGTTATAATAA
42383174 ACATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TATAATATATAAATGTTATAATAAGG
Found at i:42384194 original size:41 final size:41
Alignment explanation
Indices: 42384078--42384235 Score: 190
Period size: 41 Copynumber: 3.9 Consensus size: 41
42384068 TCAGTGATAT
* * * *
42384078 TCAGGCTTTATGCCTAGCAGGCTTTGTACCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGATGTATCATA
* *
42384119 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGATGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGATGTATCATA
*
42384160 TCAGGCTTTATGCCTACCAGGCTTTGTGCCGATGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGATGTATCATA
** * * * * *
42384201 TTTGGATTTGTGTCTAGTAGGCTTTATGCCGATGT
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGATGT
42384236 GGTATCGAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGATGTATCATA
Found at i:42384223 original size:82 final size:82
Alignment explanation
Indices: 42384078--42384235 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 82
42384068 TCAGTGATAT
* * * *
42384078 TCAGGCTTTATGCCTAGCAGGCTTTGTACCGGTGAATTATATCAGGCTTTATGCCTAGCAGGCTT
1 TCAGGCTTTATGCCTACCAGGCTTTGTACCGATGAATCATATCAGGATTTATGCCTAGCAGGCTT
42384143 TATGCCGATGTACCATA
66 TATGCCGATGTACCATA
* * ** * * *
42384160 TCAGGCTTTATGCCTACCAGGCTTTGTGCCGATGTATCATATTTGGATTTGTGTCTAGTAGGCTT
1 TCAGGCTTTATGCCTACCAGGCTTTGTACCGATGAATCATATCAGGATTTATGCCTAGCAGGCTT
42384225 TATGCCGATGT
66 TATGCCGATGT
42384236 GGTATCGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (82 bp):
TCAGGCTTTATGCCTACCAGGCTTTGTACCGATGAATCATATCAGGATTTATGCCTAGCAGGCTT
TATGCCGATGTACCATA
Found at i:42402216 original size:39 final size:40
Alignment explanation
Indices: 42402173--42402340 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
42402163 CTCGTTCAAG
* * * *
42402173 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
42402212 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
42402252 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
42402292 GGCCTTCGGGACTTAACCCGAAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCG-GATTATAAAACTCACACGAA
42402332 TGCCTTCGG
1 TGCCTTCGG
42402341 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:42402262 original size:40 final size:39
Alignment explanation
Indices: 42402210--42402340 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
42402200 TAACTCATAC
* *
42402210 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
42402250 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
42402290 AAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
42402330 AATGCCTTCGG
1 AATGCCTTCGG
42402341 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:42402353 original size:80 final size:79
Alignment explanation
Indices: 42402173--42402391 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
42402163 CTCGTTCAAG
* * * * * * * **
42402173 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCC-GAAAT
*
42402237 TAAAACTCGCACGAA
65 TAAAACTCGCACAAA
*
42402252 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGAA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGAA
42402314 ATTAATAACTCGCACAAA
63 ATTAA-AACTCGCACAAA
** * *
42402332 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGAACTTAGCCCG
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
42402392 GACAGCATTC
Statistics
Matches: 116, Mismatches: 15, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 36 0.31
80 66 0.57
81 10 0.09
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGAAATT
AAAACTCGCACAAA
Found at i:42410118 original size:39 final size:40
Alignment explanation
Indices: 42410075--42410242 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
42410065 CTCGTTCAAG
* * * *
42410075 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
42410114 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
42410154 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
42410194 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
42410234 TGCCTTCGG
1 TGCCTTCGG
42410243 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:42410226 original size:80 final size:80
Alignment explanation
Indices: 42410110--42410295 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
42410100 AGTAACTCAT
* * *
42410110 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
42410174 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
42410189 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
42410253 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
42410270 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
42410296 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:42410255 original size:40 final size:40
Alignment explanation
Indices: 42410112--42410295 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
42410102 TAACTCATAC
* *
42410112 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
42410152 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
42410192 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
42410232 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
42410273 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42410296 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:42419080 original size:19 final size:18
Alignment explanation
Indices: 42419052--42419094 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
42419042 TTTAGAATGT
*
42419052 AAAAATTAAATTAAAAAC
1 AAAAATTAAAATAAAAAC
*
42419070 AAAATATTAAAATAAAAAT
1 AAAA-ATTAAAATAAAAAC
42419089 AAAAAT
1 AAAAAT
42419095 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:42422201 original size:25 final size:25
Alignment explanation
Indices: 42422170--42422234 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
42422160 TATTTAAAAA
* *
42422170 ATTAAATATAATA-ATTTATTTTTAT
1 ATTAAATA-AATATAATTATTTATAT
42422195 ATTAAATAAATATAATTATTTATAT
1 ATTAAATAAATATAATTATTTATAT
42422220 ATGT-AAT-AATATAAT
1 AT-TAAATAAATATAAT
42422235 GTAAAATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 12 0.33
25 23 0.64
26 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTAAATAAATATAATTATTTATAT
Found at i:42422496 original size:23 final size:22
Alignment explanation
Indices: 42422437--42422497 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
42422427 TTTATAATTT
*
42422437 TCAT-AATTTTTATTTGAAAAC
1 TCATAAATTTTTTTTTGAAAAC
* *
42422458 -CTTAACTTTGTTTTTTTGAAAAC
1 TCATAA-ATT-TTTTTTTGAAAAC
42422481 TCATAAATTTTATTTTT
1 TCATAAATTTT-TTTTT
42422498 AAATTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 4 0.13
23 19 0.63
24 4 0.13
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (22 bp):
TCATAAATTTTTTTTTGAAAAC
Found at i:42422659 original size:6 final size:6
Alignment explanation
Indices: 42422648--42422679 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
42422638 GGTCTTACTC
42422648 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
42422680 TCGGGGCTAA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:42433687 original size:30 final size:30
Alignment explanation
Indices: 42433642--42433720 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
42433632 TTCAAAGGTG
* * *
42433642 GCAACATAGCAGCAACATGCAAGAAACCAT
1 GCAACACAGCTGCAACATGCAAGAAACCAA
* *
42433672 GCAACACAGCTGCAACATGCAAGTAATCAA
1 GCAACACAGCTGCAACATGCAAGAAACCAA
42433702 G-AACACAGCTG-AAGCATGC
1 GCAACACAGCTGCAA-CATGC
42433721 TAATGTCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.05
29 15 0.35
30 26 0.60
ACGTcount: A:0.43, C:0.27, G:0.19, T:0.11
Consensus pattern (30 bp):
GCAACACAGCTGCAACATGCAAGAAACCAA
Found at i:42438081 original size:27 final size:27
Alignment explanation
Indices: 42438049--42438227 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
42438039 TTAAATTGTA
42438049 CAGCACTAAGTGTGCGATTTGACTATG
1 CAGCACTAAGTGTGCGATTTGACTATG
* ** *
42438076 CGGCACTAAGTGTGCGAAATGAATATG
1 CAGCACTAAGTGTGCGATTTGACTATG
* *
42438103 -ATGCACTAAGTGTGCGAATTGACCATG
1 CA-GCACTAAGTGTGCGATTTGACTATG
*
42438130 CGGCACTAAGTGTGCGAGTTTGACTATG
1 CAGCACTAAGTGTGCGA-TTTGACTATG
* * *
42438158 TAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGATTTGACTATG
* * * *
42438185 TAGCACTAAGTGTGCGAGTTGATTATA
1 CAGCACTAAGTGTGCGATTTGACTATG
* *
42438212 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
42438228 GACTCAATAT
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
CAGCACTAAGTGTGCGATTTGACTATG
Found at i:42438111 original size:54 final size:55
Alignment explanation
Indices: 42438050--42438227 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
42438040 TAAATTGTAC
*
42438050 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
* * * *
42438105 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGA-ATTGAATATGAT
* * ** * *
42438159 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
*
42438213 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42438228 GACTCAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
54 63 0.59
55 43 0.41
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:42438164 original size:82 final size:81
Alignment explanation
Indices: 42438051--42438206 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42438041 AAATTGTACA
* *
42438051 GCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42438115 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
42438132 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42438197 TGCGAGTTGA
65 TGCGAATTGA
42438207 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42438218 original size:82 final size:81
Alignment explanation
Indices: 42438047--42438227 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42438037 GATTAAATTG
* *
42438047 TACAGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42438112 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
42438128 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42438192 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42438210 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42438228 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42446125 original size:49 final size:48
Alignment explanation
Indices: 42446068--42446184 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 48
42446058 TAAATTGTAC
42446068 AGCA-TAAGTGTGCGATTGA-AT-CGGCACTAAGTGTGCGAAATGA-TATG-
1 AGCACTAAGTGT-CGATTGACATGCGGCACTAA-TGT-CG-AATGACTATGT
*
42446115 ATGCACTAAGTGTCGAATTGACCATGCGGCACTAATGTCGATTGACTATGT
1 A-GCACTAAGTGTCG-ATTGA-CATGCGGCACTAATGTCGAATGACTATGT
42446166 AGCACTAAGTGTCGATTGA
1 AGCACTAAGTGTCGATTGA
42446185 TTACGTAGCA
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
47 1 0.02
48 5 0.08
49 21 0.34
50 19 0.31
51 6 0.10
52 9 0.15
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (48 bp):
AGCACTAAGTGTCGATTGACATGCGGCACTAATGTCGAATGACTATGT
Found at i:42446146 original size:26 final size:25
Alignment explanation
Indices: 42446072--42446184 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
42446062 TTGTACAGCA
42446072 TAAGTGTGCGATTGA--AT-CGGCAC
1 TAAGTGT-CGATTGACTATGCGGCAC
* **
42446095 TAAGTGTGCGAAATGA-TATGATGCAC
1 TAAGTGT-CG-ATTGACTATGCGGCAC
*
42446121 TAAGTGTCGAATTGACCATGCGGCAC
1 TAAGTGTCG-ATTGACTATGCGGCAC
**
42446147 TAA-TGTCGATTGACTATGTAGCAC
1 TAAGTGTCGATTGACTATGCGGCAC
42446171 TAAGTGTCGATTGA
1 TAAGTGTCGATTGA
42446185 TTACGTAGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
23 10 0.13
24 20 0.27
25 24 0.32
26 21 0.28
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (25 bp):
TAAGTGTCGATTGACTATGCGGCAC
Found at i:42446153 original size:25 final size:25
Alignment explanation
Indices: 42446117--42446184 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 25
42446107 ATGATATGAT
*
42446117 GCACTAAGTGTCGAATTGACCATGCG
1 GCACTAAGTGTCG-ATTGACCATGCA
* *
42446143 GCACTAA-TGTCGATTGACTATGTA
1 GCACTAAGTGTCGATTGACCATGCA
42446167 GCACTAAGTGTCGATTGA
1 GCACTAAGTGTCGATTGA
42446185 TTACGTAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.42
25 15 0.39
26 7 0.18
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (25 bp):
GCACTAAGTGTCGATTGACCATGCA
Found at i:42446170 original size:24 final size:25
Alignment explanation
Indices: 42446091--42446201 Score: 104
Period size: 25 Copynumber: 4.4 Consensus size: 25
42446081 GATTGAATCG
*
42446091 GCACTAAGTGTGCGAAATGA-TATG-A
1 GCACTAAGTGT-CG-ATTGACTATGTA
* **
42446116 TGCACTAAGTGTCGAATTGACCATGCG
1 -GCACTAAGTGTCG-ATTGACTATGTA
42446143 GCACTAA-TGTCGATTGACTATGTA
1 GCACTAAGTGTCGATTGACTATGTA
* *
42446167 GCACTAAGTGTCGATTGATTACGTA
1 GCACTAAGTGTCGATTGACTATGTA
42446192 GCAC-AAGTGT
1 GCACTAAGTGT
42446202 GCGAGTGATA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
24 22 0.30
25 31 0.42
26 21 0.28
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (25 bp):
GCACTAAGTGTCGATTGACTATGTA
Found at i:42446192 original size:25 final size:25
Alignment explanation
Indices: 42446143--42446210 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
42446133 TGACCATGCG
* *
42446143 GCACTAA-TGTCGATTGACTATGTA
1 GCACTAAGTGTCGATTGATTACGTA
42446167 GCACTAAGTGTCGATTGATTACGTA
1 GCACTAAGTGTCGATTGATTACGTA
*
42446192 GCAC-AAGTGTGCGAGTGAT
1 GCACTAAGTGT-CGATTGAT
42446211 ATATACCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 13 0.33
25 26 0.67
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (25 bp):
GCACTAAGTGTCGATTGATTACGTA
Found at i:42458591 original size:27 final size:27
Alignment explanation
Indices: 42458559--42458737 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
42458549 TTAAATTGTA
42458559 CAGCACTAAGTGTGCGATTTGACTATG
1 CAGCACTAAGTGTGCGATTTGACTATG
* ** *
42458586 CGGCACTAAGTGTGCGAAATGAATATG
1 CAGCACTAAGTGTGCGATTTGACTATG
* *
42458613 -ATGCACTAAGTGTGCGAATTGACCATG
1 CA-GCACTAAGTGTGCGATTTGACTATG
*
42458640 CGGCACTAAGTGTGCGAGTTTGACTATG
1 CAGCACTAAGTGTGCGA-TTTGACTATG
* * *
42458668 TAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGATTTGACTATG
* * * *
42458695 TAGCACTAAGTGTGCGAGTTGATTATA
1 CAGCACTAAGTGTGCGATTTGACTATG
* *
42458722 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
42458738 GACTCAATAT
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
CAGCACTAAGTGTGCGATTTGACTATG
Found at i:42458621 original size:54 final size:55
Alignment explanation
Indices: 42458560--42458737 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
42458550 TAAATTGTAC
*
42458560 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
* * * *
42458615 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGA-ATTGAATATGAT
* * ** * *
42458669 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
*
42458723 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42458738 GACTCAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
54 63 0.59
55 43 0.41
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:42458674 original size:82 final size:81
Alignment explanation
Indices: 42458561--42458716 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42458551 AAATTGTACA
* *
42458561 GCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42458625 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
42458642 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42458707 TGCGAGTTGA
65 TGCGAATTGA
42458717 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42458728 original size:82 final size:81
Alignment explanation
Indices: 42458557--42458737 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42458547 GATTAAATTG
* *
42458557 TACAGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42458622 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
42458638 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42458702 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42458720 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42458738 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGCAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42460641 original size:9 final size:9
Alignment explanation
Indices: 42460611--42460639 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
42460601 ATAAATAAAT
42460611 AAATTAACA
1 AAATTAACA
42460620 AAATTAACA
1 AAATTAACA
42460629 AAATT-ACA
1 AAATTAACA
42460637 AAA
1 AAA
42460640 ATATAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATTAACA
Done.