Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 5 of 23
Found at i:650404 original size:20 final size:20
Alignment explanation
Indices: 650381--650434 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
650371 CATTTCAAAC
650381 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
* *
650401 ATGTATCAATATATTCACTT
1 ATGTATCGATACATTCACTT
650421 ATTGTATCGATACA
1 A-TGTATCGATACA
650435 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:651052 original size:52 final size:53
Alignment explanation
Indices: 650975--651470 Score: 278
Period size: 52 Copynumber: 9.5 Consensus size: 53
650965 TAATATGCAG
* * * * * *
650975 ATTCAAGGCTTGCTACA-TCAGACTTAATGATGATAAAGGTGTCAATGTGCTG
1 ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
*
651027 ATTCAAGGCTAGCGACATTGA-ACTTAAAGATG--AAAGTTGCCAATGTGCTA
1 ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* * *
651077 ATTC-AGAGCTAGTGACACT-AGGCTTAAAGATGATAAAGGTGCCAATGTGCTA
1 ATTCAAG-GCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* * *
651129 ATTCTAGG-TCAGCGACATTG-GACTTAAAGATGAT-GAGAGTGCCAATATGCTA
1 ATTCAAGGCT-AGCGACATTGAGACTTAAAGATGATAAAG-GTGCCAATGTGCTA
* ** * ** * * *
651181 ATTCAAGGTTAGCGACATT-CTACTTTGGAAATAAGGTTTTGACAA-GTGTCAATGTGTTG
1 ATTCAAGGCTAGCGACATTGAGAC-TT----A-AAGATGAT-A-AAGGTGCCAATGTGCTA
* * * * * * * *
651240 ATTCAAGGCGAGCGACATT-AGACTTGAACATGGTAAAAGTGCCTATATGCTG
1 ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* * * * * *
651292 ATTCAAGG-TCGGCAATATTG-GACTTTAGGATGATAAAGGTGCCAATATGCTA
1 ATTCAAGGCT-AGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* * * * * * * *
651344 ATTCAAGGCCAGTGACATT-AGACTTAAAAATG--AATGTTGCCAATATGTTG
1 ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* * * *
651394 ATTCAGGGCCAGCAACATTG-G-CTTAAAGATGACAAAGGTGCCAATGTGCTA
1 ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
* *
651445 ATTCCAA-GCCAACGACATTG-GACTTA
1 ATT-CAAGGCTAGCGACATTGAGACTTA
651471 GAGAGGGAGG
Statistics
Matches: 340, Mismatches: 74, Indels: 60
0.72 0.16 0.13
Matches are distributed among these distances:
49 12 0.04
50 70 0.21
51 33 0.10
52 176 0.52
53 11 0.03
57 1 0.00
58 7 0.02
59 29 0.09
61 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (53 bp):
ATTCAAGGCTAGCGACATTGAGACTTAAAGATGATAAAGGTGCCAATGTGCTA
Found at i:651154 original size:102 final size:103
Alignment explanation
Indices: 650997--651185 Score: 276
Period size: 102 Copynumber: 1.8 Consensus size: 103
650987 CTACATCAGA
* * *
650997 CTTAATGATGATAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACATTGAACTTAAAGATGA-A
1 CTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGAACTTAAAGATGAGA
*
651061 -AGTTGCCAATGTGCTAATTCAGAGCTAGTGACACTAGG
66 GAG-TGCCAATATGCTAATTCAGAGCTAGTGACACTAGG
* *
651099 CTTAAAGATGATAAAGGTGCCAATGTGCTAATTCTAGG-TCAGCGACATTGGACTTAAAGATGAT
1 CTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCT-AGCGACATTGAACTTAAAGATGA-
651163 GAGAGTGCCAATATGCTAATTCA
64 GAGAGTGCCAATATGCTAATTCA
651186 AGGTTAGCGA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
101 1 0.01
102 56 0.73
104 18 0.23
105 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (103 bp):
CTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATTGAACTTAAAGATGAGA
GAGTGCCAATATGCTAATTCAGAGCTAGTGACACTAGG
Found at i:651484 original size:101 final size:102
Alignment explanation
Indices: 650966--651488 Score: 236
Period size: 102 Copynumber: 5.0 Consensus size: 102
650956 GTAATGTGCT
* ** * ** * * * * *
650966 AATATGCAGATTCAAGGCTTGCTACATCAGACTTAATGATGATAAAGGTGTCAATGTGCTGATTC
1 AATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTAATTC
* * * * *
651031 AAGGCTAGCGACATT-GAACTTAAAGATGAAAGTTGCC
66 AAGGCCAACGACATTAG-ACTTAAAAAGGAAGGTTGCC
* * * ** * * *
651068 AATGTGCTAATTC-AGAGCTAGTGACACTAGG-CTTAAAGATGATAAAGGTGCCAATGTGCTAAT
1 AATATGCTGATTCAAG-GCCAGCAACA-TTGGACTTAAAGATGACAAAGGTGCCAATATGCTAAT
* * * * * *
651131 TCTAGGTCAGCGACATTGGACTTAAAGATGATGAGAG-TGCC
64 TCAAGGCCAACGACATTAGACTTAAAAAGGA--AG-GTTGCC
* ** ** * * * *
651172 AATATGCTAATTCAAGGTTAGCGACATTCTACTTTGGAAATAAGGTTTTGAC-AA-GTGTCAATG
1 AATATGCTGATTCAAGGCCAGC-A-A--C-A--TTGGACTTAAAG--ATGACAAAGGTGCCAATA
* * * * * * *
651235 TGTTGATTCAAGGCGAGCGACATTAGACTTGAACATGGTAAAAG-TGCC
57 TGCTAATTCAAGGCCAACGACATTAGACTT-AAAAAGG--AAGGTTGCC
* * * * * * *
651283 TATATGCTGATTCAAGGTCGGCAATATTGGACTTTAGGATGATAAAGGTGCCAATATGCTAATTC
1 AATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTAATTC
** * *
651348 AAGGCCAGTGACATTAGACTTAAAAATGAATGTTGCC
66 AAGGCCAACGACATTAGACTTAAAAAGGAAGGTTGCC
* * *
651385 AATATGTTGATTCAGGGCCAGCAACATTGG-CTTAAAGATGACAAAGGTGCCAATGTGCTAATTC
1 AATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTAATT-
* * * *
651449 CAA-GCCAACGACATTGGACTTAGAGAGGGAGGTTGCC
65 CAAGGCCAACGACATTAGACTTAAAAAGGAAGGTTGCC
651486 AAT
1 AAT
651489 GTACTAAATC
Statistics
Matches: 322, Mismatches: 76, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
101 63 0.20
102 106 0.33
103 9 0.03
104 63 0.20
105 3 0.01
106 2 0.01
108 1 0.00
109 2 0.01
110 4 0.01
111 59 0.18
112 6 0.02
113 3 0.01
114 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (102 bp):
AATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTAATTC
AAGGCCAACGACATTAGACTTAAAAAGGAAGGTTGCC
Found at i:651654 original size:31 final size:31
Alignment explanation
Indices: 651613--651672 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
651603 TGGGATTTTG
* *
651613 AAAGGATTGCCACCAGCTTGTGTGGGCTTTA
1 AAAGGATTGCCACCAACTCGTGTGGGCTTTA
*
651644 AAAGGGTTGCCACCAACTCGTGTGGGCTT
1 AAAGGATTGCCACCAACTCGTGTGGGCTT
651673 AAGAAAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (31 bp):
AAAGGATTGCCACCAACTCGTGTGGGCTTTA
Found at i:652375 original size:13 final size:13
Alignment explanation
Indices: 652359--652392 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
652349 TGTGATGGTA
652359 ATGTGAATGCATG
1 ATGTGAATGCATG
652372 ATGTGGAATGCATG
1 ATGT-GAATGCATG
652386 ATGTGAA
1 ATGTGAA
652393 GTCTAATACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (13 bp):
ATGTGAATGCATG
Found at i:653392 original size:8 final size:8
Alignment explanation
Indices: 653379--653404 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
653369 TTCATTTCAT
653379 TTTTTGTG
1 TTTTTGTG
653387 TTTTTGTG
1 TTTTTGTG
653395 TTTTTGTG
1 TTTTTGTG
653403 TT
1 TT
653405 CTTTTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (8 bp):
TTTTTGTG
Found at i:653461 original size:7 final size:7
Alignment explanation
Indices: 653433--653505 Score: 58
Period size: 7 Copynumber: 10.0 Consensus size: 7
653423 TTTTACCTTC
653433 ATTTTTT
1 ATTTTTT
* *
653440 GTTTATT
1 ATTTTTT
653447 ATTTTTTT
1 A-TTTTTT
*
653455 CTTTTTT
1 ATTTTTT
653462 ATTTTTTTT
1 A--TTTTTT
*
653471 ACTTTTT
1 ATTTTTT
*
653478 ACGTTTTT
1 A-TTTTTT
653486 A-TTTTT
1 ATTTTTT
653492 ATTTTTT
1 ATTTTTT
653499 ATTTTTT
1 ATTTTTT
653506 TTGCATGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
6 6 0.11
7 29 0.55
8 11 0.21
9 7 0.13
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (7 bp):
ATTTTTT
Found at i:653506 original size:15 final size:15
Alignment explanation
Indices: 653434--653505 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
653424 TTTACCTTCA
* *
653434 TTTTTTGTTTATTAT
1 TTTTTTATTTTTTAT
*
653449 TTTTTTCTTTTTTATT
1 TTTTTTATTTTTTA-T
* *
653465 TTTTTTACTTTTTAC
1 TTTTTTATTTTTTAT
*
653480 GTTTTTA-TTTTTA-
1 TTTTTTATTTTTTAT
653493 TTTTTTATTTTTT
1 TTTTTTATTTTTT
653506 TTGCATGGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
13 6 0.12
14 11 0.23
15 18 0.38
16 13 0.27
ACGTcount: A:0.11, C:0.04, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:660177 original size:52 final size:51
Alignment explanation
Indices: 660099--660239 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 51
660089 GAAATAGCCT
* * *
660099 GAATGTATCGATACATTGAAGAATGTATCGATACATTTAGG-TCAACAACCTA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATTTAGGCT-AA-AACCCA
660151 GAATGTATCGATACAATGAAAAATGTATC-ATTACATTTAGGCTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGA-TACATTTAGGCTAAAACCCA
* * * *
660202 AAATGTATAGATAAAATGAAAAATGTATCGATATATTT
1 GAATGTATCGATACAATGAAAAATGTATCGATACATTT
660240 TCTTTCTAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
51 38 0.48
52 40 0.51
53 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (51 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATTTAGGCTAAAACCCA
Found at i:660226 original size:51 final size:52
Alignment explanation
Indices: 660100--660239 Score: 178
Period size: 51 Copynumber: 2.7 Consensus size: 52
660090 AAATAGCCTG
* * * *
660100 AATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAACAACCTAG
1 AATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAACAACCCAA
660152 AATGTATCGATACAATGAAAAATGTATC-ATTACATTTAGG-CTAA-AACCCAA
1 AATGTATCGATACAATGAAAAATGTATCGA-TACATTTAGGTC-AACAACCCAA
* * *
660203 AATGTATAGATAAAATGAAAAATGTATCGATATATTT
1 AATGTATCGATACAATGAAAAATGTATCGATACATTT
660240 TCTTTCTAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
51 39 0.50
52 39 0.50
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (52 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAACAACCCAA
Found at i:671802 original size:50 final size:50
Alignment explanation
Indices: 671619--671805 Score: 241
Period size: 52 Copynumber: 3.7 Consensus size: 50
671609 TAACTGGAAG
* *
671619 TATCGATACAATAAAGAATGTATTGATACATTTAGGTCAAAACCCAGAATA
1 TATCGATACAATAAAAAATGTATCGATACATTT-GGTCAAAACCCAGAATA
* *
671670 TATCGATATAATAAAAAAATGTATCGATACATTTGGGTCAAAAACCCAAAATA
1 TATCGATACAAT-AAAAAATGTATCGATACATTT-GGTC-AAAACCCAGAATA
* * * * *
671723 TATTGATACAATAAAAAATGTATCAATACATTTGGATC-AATCCTAGAATG
1 TATCGATACAATAAAAAATGTATCGATACATTTGG-TCAAAACCCAGAATA
671773 TATCGATACAATAAAAAATGTATCGATACATTT
1 TATCGATACAATAAAAAATGTATCGATACATTT
671806 TCTTTCTAGA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 39 0.33
51 13 0.11
52 45 0.38
53 22 0.18
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (50 bp):
TATCGATACAATAAAAAATGTATCGATACATTTGGTCAAAACCCAGAATA
Found at i:671892 original size:20 final size:20
Alignment explanation
Indices: 671844--671918 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
671834 CATGGTCCTG
* * *
671844 TATCGATATATTTCAAATATG
1 TATCGATACA-TTCAATTATA
671865 TATCGATACATTCAATTATA
1 TATCGATACATTCAATTATA
* *
671885 TATTGATACATTCACTTATA
1 TATCGATACATTCAATTATA
671905 TATCGATACATTCA
1 TATCGATACATTCA
671919 CTTGTTGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 39 0.81
21 9 0.19
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCAATTATA
Found at i:671919 original size:20 final size:20
Alignment explanation
Indices: 671865--671935 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
671855 TTCAAATATG
*
671865 TATCGATACATTCAATTATA
1 TATCGATACATTCACTTATA
*
671885 TATTGATACATTCACTTATA
1 TATCGATACATTCACTTATA
* *
671905 TATCGATACATTCACTTGTTG
1 TATCGATACATTCACTT-ATA
671926 TATCGATACA
1 TATCGATACA
671936 AATTGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 34 0.76
21 11 0.24
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTTATA
Found at i:671984 original size:19 final size:19
Alignment explanation
Indices: 671960--671996 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
671950 AAAAAATACT
671960 TATTTTTAATATTTATAAC
1 TATTTTTAATATTTATAAC
671979 TATTTTTAATATTTATAA
1 TATTTTTAATATTTATAA
671997 ATAAGTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAATATTTATAAC
Found at i:673522 original size:154 final size:151
Alignment explanation
Indices: 673339--673807 Score: 421
Period size: 154 Copynumber: 3.1 Consensus size: 151
673329 TTTGTTAGAT
* * *
673339 ATAGAAAAAATGCAAAACTCATAAAATAAATTGAATCTTCAAGAATTAATTTAATATAAATTTAA
1 ATAGAAAAAATTCAAAACTCATAAAATAAATTGAATCTTCAA-AAATAATTTAATATAAATTAAA
* *
673404 TAGA-AATATTTAATGAA-TTTTAAAAATCATAAACTCAGAAAAAATCCCAC-CCAAAAAGTTTA
65 CA-ATAATATCTAA--AAGTTTTAAAAATCATAAACTCAG-AAAAATCCCACTCCAAAAA-TTTA
* *
673466 CGGAGTAGGAAACTCCATATTTTG-AA
125 CGAAGTAGAAAACTCCATATTTTGAAA
* * * * *
673492 ATAGGAAAAATTTCAAAACTCATAAAATAAATTGAATCTTTTAAAAATGATTTACTATGAATTAA
1 ATA-GAAAAAATTCAAAACTCATAAAATAAATTGAATC-TTCAAAAATAATTTAATATAAATTAA
* * ** *
673557 ACAATAATATCTAAAATGTTTTAAAAATTATAAACTTAGAAAAATCCCACTTGATAAATTTACGA
64 ACAATAATATCTAAAA-GTTTTAAAAATCATAAACTCAGAAAAATCCCACTCCAAAAATTTACGA
*
673622 AGTAGAAAACTCTATATTTTGAAA
128 AGTAGAAAACTCCATATTTTGAAA
* ** * *
673646 ATAGAAAAAATTCTAAAACTCGTAAAATAAATTGAATTCTTCAAATCTGATTTAATATGAATTAA
1 ATAGAAAAAATTC-AAAACTCATAAAATAAATTGAA-TCTTCAAAAATAATTTAATATAAATTAA
* * * * * ** **
673711 AAAATAATATTTGAAGAA-TTTGT-AAAATTATAAACTTAAAAAATATCTTA-TTGAAAAATTTA
64 ACAATAATATCT-AA-AAGTTT-TAAAAATCATAAACTCAGAAAA-ATCCCACTCCAAAAATTTA
** * * *
673773 TAAAATAGAAAACTTCGTATTTTGAAA
125 CGAAGTAGAAAACTCCATATTTTGAAA
673800 ATAGAAAA
1 ATAGAAAA
673808 CATCTGAAAG
Statistics
Matches: 267, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
152 2 0.01
153 49 0.18
154 201 0.75
155 13 0.05
156 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (151 bp):
ATAGAAAAAATTCAAAACTCATAAAATAAATTGAATCTTCAAAAATAATTTAATATAAATTAAAC
AATAATATCTAAAAGTTTTAAAAATCATAAACTCAGAAAAATCCCACTCCAAAAATTTACGAAGT
AGAAAACTCCATATTTTGAAA
Found at i:676059 original size:19 final size:19
Alignment explanation
Indices: 676035--676081 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
676025 TAGATTACCA
676035 ATAATAATATATAT-TTAT
1 ATAATAATATATATGTTAT
*
676053 CATAATAATTTATATGTTAT
1 -ATAATAATATATATGTTAT
*
676073 ATTATAATA
1 ATAATAATA
676082 AATTCTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATAATATATATGTTAT
Found at i:676688 original size:16 final size:16
Alignment explanation
Indices: 676631--676693 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
676621 AAATGAATTC
676631 AATTTAAAATAATATT-
1 AATTTAAAATAAT-TTA
* * *
676647 AATCTCAAATAACTTA
1 AATTTAAAATAATTTA
*
676663 TACTTT-AAATAATTTA
1 -AATTTAAAATAATTTA
676679 AATTTAAAATAATTT
1 AATTTAAAATAATTT
676694 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 6 0.16
16 28 0.76
17 3 0.08
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTAAAATAATTTA
Found at i:677049 original size:2 final size:2
Alignment explanation
Indices: 677044--677072 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
677034 GTGTGTCTTT
677044 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
677073 TATTGGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:677335 original size:17 final size:16
Alignment explanation
Indices: 677313--677351 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
677303 AAATCATAAT
677313 TTTAATATTTTTAAAAA
1 TTTAA-ATTTTTAAAAA
677330 TTT-AATTTTTAAAAA
1 TTTAAATTTTTAAAAA
677345 TATTAAA
1 T-TTAAA
677352 AACAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.60
16 3 0.15
17 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATTTTTAAAAA
Found at i:677339 original size:15 final size:16
Alignment explanation
Indices: 677319--677350 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
677309 TAATTTTAAT
677319 ATTTTTAAAAAT-TTA
1 ATTTTTAAAAATATTA
677334 ATTTTTAAAAATATTA
1 ATTTTTAAAAATATTA
677350 A
1 A
677351 AAACAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTAAAAATATTA
Found at i:678685 original size:2 final size:2
Alignment explanation
Indices: 678680--678719 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
678670 TCTTTCCTAC
678680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
678720 CAATGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:682966 original size:4 final size:4
Alignment explanation
Indices: 682949--682980 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
682939 ATTTCTATAT
*
682949 TAAA TAAG TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
682981 AAGACAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:683592 original size:13 final size:13
Alignment explanation
Indices: 683545--683599 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
683535 TTATTTTTTA
683545 ATTATATAA-TAT
1 ATTATATAATTAT
*
683557 ATTAT-T-TTTAT
1 ATTATATAATTAT
683568 ATT-TAT--TTAT
1 ATTATATAATTAT
683578 ATTATATAATTAT
1 ATTATATAATTAT
683591 ATTATATAA
1 ATTATATAA
683600 AAAATAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 8 0.22
11 11 0.30
12 5 0.14
13 13 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATATAATTAT
Found at i:683595 original size:28 final size:28
Alignment explanation
Indices: 683541--683597 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
683531 ATGTTTATTT
*
683541 TTTAATTATATAATATATTATTTTTATA
1 TTTAATTATATAATATATTATTATTATA
* *
683569 TTTATTTATATTATATAATTA-TATTATA
1 TTTAATTATATAATAT-ATTATTATTATA
683597 T
1 T
683598 AAAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTAATTATATAATATATTATTATTATA
Found at i:684372 original size:16 final size:15
Alignment explanation
Indices: 684334--684369 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
684324 AAATGTTAAA
684334 TTTAAATATTAATTT
1 TTTAAATATTAATTT
684349 TTTAAATATTAATTT
1 TTTAAATATTAATTT
684364 TTTAAA
1 TTTAAA
684370 ATAATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATATTAATTT
Found at i:684403 original size:15 final size:14
Alignment explanation
Indices: 684335--684407 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 14
684325 AATGTTAAAT
*
684335 TTAAATATTAATTTT
1 TTAAAT-TTAATTTA
*
684350 TTAAATATTAATTTT
1 TTAAAT-TTAATTTA
*
684365 TTAAA-ATAA-TTA
1 TTAAATTTAATTTA
684377 TATAAA-TTAATTATA
1 T-TAAATTTAATT-TA
684392 TTAAATTTAATTTA
1 TTAAATTTAATTTA
684406 TT
1 TT
684408 TGCGACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
12 3 0.06
13 10 0.20
14 9 0.18
15 29 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATTTAATTTA
Found at i:684818 original size:2 final size:2
Alignment explanation
Indices: 684813--684843 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
684803 TTCGTATTAA
684813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
684844 AACCTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:686447 original size:182 final size:181
Alignment explanation
Indices: 686140--686496 Score: 579
Period size: 182 Copynumber: 2.0 Consensus size: 181
686130 ATTTTTAATT
* * * * *
686140 TTAAAACGATAATTGTCTATCTATAGTGTTCGACAGATGCGTTGCAATTCCTTTCCTAGGTCTGT
1 TTAAAACGATAATTGTCTATCTACAGTATTCAACAGATGCATTACAATTCCTTTCCTAGGTCTGT
* *
686205 CGATCTTGTTGCAATCGGCACACGACAACGGCAACTACACAAATCTCAAAATGCATTGTATTCTC
66 CAATCTTGTTGCAATCAGCACACGACAACGGCAACTACACAAATCTCAAAATGCATTGTATTCTC
686270 TCTCAACAAATTAACGGCAAAACTAAAAGGTAGAGGAAAATAATATCTGACC
131 TCTCAACAAATTAACGGC-AAACTAAAAGGTAGAGGAAAATAATATCTGACC
* * * *
686322 TTAAAACGATTATTGTTTGTCTACAGTATTTAACAGATGCATTACAATTCCTTTCCTAGGTCTGT
1 TTAAAACGATAATTGTCTATCTACAGTATTCAACAGATGCATTACAATTCCTTTCCTAGGTCTGT
* *
686387 CAATCTTGTTGTAATCAGCACACGACAACGGTAACTACACAAATCTCAAAATGCATTGTATTCTC
66 CAATCTTGTTGCAATCAGCACACGACAACGGCAACTACACAAATCTCAAAATGCATTGTATTCTC
*
686452 TCTCAACAAATTAATGGCAAACTAAAAGGTAGAGGAAAATAATAT
131 TCTCAACAAATTAACGGCAAACTAAAAGGTAGAGGAAAATAATAT
686497 TTTTTTGAAC
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
181 27 0.17
182 134 0.83
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (181 bp):
TTAAAACGATAATTGTCTATCTACAGTATTCAACAGATGCATTACAATTCCTTTCCTAGGTCTGT
CAATCTTGTTGCAATCAGCACACGACAACGGCAACTACACAAATCTCAAAATGCATTGTATTCTC
TCTCAACAAATTAACGGCAAACTAAAAGGTAGAGGAAAATAATATCTGACC
Found at i:691390 original size:6 final size:6
Alignment explanation
Indices: 691379--691420 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
691369 CATTTGGCAT
* *
691379 TTTTTA TTTTTA TTTCTTA -TTTTA TCTTTA TTCTTA TTTTTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA
691421 ATTCATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:691414 original size:17 final size:18
Alignment explanation
Indices: 691380--691418 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
691370 ATTTGGCATT
*
691380 TTTTATTTTTATTTCTTA
1 TTTTATCTTTATTTCTTA
691398 TTTTATCTTTA-TTCTTA
1 TTTTATCTTTATTTCTTA
691415 TTTT
1 TTTT
691419 TAATTCATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATCTTTATTTCTTA
Found at i:691419 original size:18 final size:19
Alignment explanation
Indices: 691379--691420 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
691369 CATTTGGCAT
*
691379 TTTTTATTTTTATTTCTTA
1 TTTTTATCTTTATTTCTTA
691398 -TTTTATCTTTA-TTCTTA
1 TTTTTATCTTTATTTCTTA
691415 TTTTTA
1 TTTTTA
691421 ATTCATGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATCTTTATTTCTTA
Found at i:702189 original size:16 final size:17
Alignment explanation
Indices: 702168--702209 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
702158 TGAAAGAACT
702168 CAAACCCGAGA-AAACC
1 CAAACCCGAGAGAAACC
* * *
702184 CGAACCCAAGAGTAACC
1 CAAACCCGAGAGAAACC
702201 CAAACCCGA
1 CAAACCCGA
702210 ATCCGAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.45, C:0.38, G:0.14, T:0.02
Consensus pattern (17 bp):
CAAACCCGAGAGAAACC
Found at i:702509 original size:17 final size:17
Alignment explanation
Indices: 702489--702522 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
702479 AATATAAAAT
702489 AAAATAAATTTGAACCC
1 AAAATAAATTTGAACCC
*
702506 AAAATCAATTTGAACCC
1 AAAATAAATTTGAACCC
702523 GAATAAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAATAAATTTGAACCC
Found at i:702599 original size:16 final size:16
Alignment explanation
Indices: 702580--702621 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
702570 CGAACGAGTT
*
702580 CGAACCCGAATGAGCC
1 CGAACCCGAATAAGCC
*
702596 CGAACCCGAATAAGCT
1 CGAACCCGAATAAGCC
*
702612 CGAATCCGAA
1 CGAACCCGAA
702622 CCTGTCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.33, G:0.21, T:0.10
Consensus pattern (16 bp):
CGAACCCGAATAAGCC
Found at i:703401 original size:25 final size:26
Alignment explanation
Indices: 703348--703401 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
703338 TCTTCAACAT
* *
703348 AATTTTTTTTTAATTTATTTAGTTAA
1 AATTATTTTTTAATTTATTTAGATAA
703374 AATTATTTTTT-ATTT-TTTAGATATA
1 AATTATTTTTTAATTTATTTAGATA-A
703399 AAT
1 AAT
703402 GAGATATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 8 0.32
26 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
AATTATTTTTTAATTTATTTAGATAA
Found at i:704616 original size:11 final size:11
Alignment explanation
Indices: 704600--704645 Score: 76
Period size: 11 Copynumber: 4.3 Consensus size: 11
704590 CATACATCGA
*
704600 TATTATATTTG
1 TATTATATTTT
704611 TATTATATTTT
1 TATTATATTTT
704622 TATTATATTTT
1 TATTATATTTT
704633 TATTA-ATTTT
1 TATTATATTTT
704643 TAT
1 TAT
704646 ACCATATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TATTATATTTT
Found at i:704625 original size:22 final size:22
Alignment explanation
Indices: 704600--704661 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
704590 CATACATCGA
704600 TATTATATTTGTATTATATTTT
1 TATTATATTTGTATTATATTTT
*
704622 TATTATATTTTTATTA-ATTTT
1 TATTATATTTGTATTATATTTT
*
704643 TATACCATATTTGTATTAT
1 TAT--TATATTTGTATTAT
704662 CTCGTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.24
22 15 0.44
23 11 0.32
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (22 bp):
TATTATATTTGTATTATATTTT
Found at i:705372 original size:19 final size:20
Alignment explanation
Indices: 705348--705409 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
705338 ATATTCATGC
705348 TATGTTTAT-TTTTTTGTAT
1 TATGTTTATATTTTTTGTAT
*
705367 TATG-TTATATTTTAT-TAT
1 TATGTTTATATTTTTTGTAT
*
705385 TATTTTTATATTATGTTTGTAT
1 TATGTTTATATT-T-TTTGTAT
705407 TAT
1 TAT
705410 ATCTCATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 10 0.29
19 16 0.46
20 1 0.03
21 2 0.06
22 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TATGTTTATATTTTTTGTAT
Found at i:705782 original size:38 final size:38
Alignment explanation
Indices: 705622--705783 Score: 166
Period size: 38 Copynumber: 4.3 Consensus size: 38
705612 GGCTGACAGT
* * **
705622 TAGAGAATTCAATTTGAAAATGACTGGCGGCTGACGGT
1 TAGAGAATTCAATTTGGAATTGACTGGCGGCTGACGAC
* *
705660 TAGAGAATTCAATTTGGAATT-AGCTGGCGGTTGGCGAC
1 TAGAGAATTCAATTTGGAATTGA-CTGGCGGCTGACGAC
** *
705698 TAGAGAATTCAATTTGGAATTGACTGATGGCT-AGCAAC
1 TAGAGAATTCAATTTGGAATTGACTGGCGGCTGA-CGAC
* * * *
705736 TAGAGAATTCAATATGGAATTGACTGGTGGCTGATGGC
1 TAGAGAATTCAATTTGGAATTGACTGGCGGCTGACGAC
*
705774 TAGGGAATTC
1 TAGAGAATTC
705784 CAACGTGAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 100 0.97
39 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (38 bp):
TAGAGAATTCAATTTGGAATTGACTGGCGGCTGACGAC
Found at i:710346 original size:31 final size:30
Alignment explanation
Indices: 710297--710385 Score: 88
Period size: 38 Copynumber: 2.7 Consensus size: 30
710287 AACCAAATCA
*
710297 AATTCAAATTGAATTGGCTGACGGTTAGAG
1 AATTCAATTTGAATTGGCTGACGGTTAGAG
710327 AATTCAATTTGAAATTGGCTTGTGACTGACGGTTAGAG
1 AATTCAATTTG-AA-----TTG-G-CTGACGGTTAGAG
710365 AATTCAATTTGGAATTGGCTG
1 AATTCAATTT-GAATTGGCTG
710386 GTGGCTGACG
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
30 10 0.20
31 5 0.10
32 1 0.02
33 3 0.06
36 3 0.06
37 1 0.02
38 25 0.51
39 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (30 bp):
AATTCAATTTGAATTGGCTGACGGTTAGAG
Found at i:710429 original size:38 final size:38
Alignment explanation
Indices: 710311--710483 Score: 186
Period size: 38 Copynumber: 4.6 Consensus size: 38
710301 CAAATTGAAT
* * * *
710311 TGGCTGACGGTTAGAGAATTCAATTTGAAATTGGCTTG
1 TGGCTGACGGCTAGAGAATTCAATTTGGAATTGACTAG
* * * *
710349 TGACTGACGGTTAGAGAATTCAATTTGGAATTGGCTGG
1 TGGCTGACGGCTAGAGAATTCAATTTGGAATTGACTAG
* * *
710387 TGGCTGACGACTAGAGAATTCAATTTGGAATTGACCAA
1 TGGCTGACGGCTAGAGAATTCAATTTGGAATTGACTAG
** *
710425 TGGCT-AGCAACTAAAGAATTCAATTTGGAATTGACTAG
1 TGGCTGA-CGGCTAGAGAATTCAATTTGGAATTGACTAG
* *
710463 TGGCTGATGGCTAGGGAATTC
1 TGGCTGACGGCTAGAGAATTC
710484 CAATGTGAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 112 0.98
39 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (38 bp):
TGGCTGACGGCTAGAGAATTCAATTTGGAATTGACTAG
Found at i:711232 original size:26 final size:27
Alignment explanation
Indices: 711186--711264 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
711176 TAAATAAAAA
**
711186 TAAATATATTTTTTATTATTTATTAAT
1 TAAATATATTTTTTAAAATTTATTAAT
*
711213 TAAATAT-TTTTTTAAAATTTTTTAAT
1 TAAATATATTTTTTAAAATTTATTAAT
*
711239 TATAA-A-A-TTATTAAAATTTAATTAAT
1 TA-AATATATTTTTTAAAATTT-ATTAAT
711265 ATTAAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 11 0.25
26 24 0.55
27 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TAAATATATTTTTTAAAATTTATTAAT
Found at i:711270 original size:26 final size:25
Alignment explanation
Indices: 711224--711277 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
711214 AAATATTTTT
*
711224 TTAAAATTTTTTAATTATAAAATTA
1 TTAAAATTTATTAATTATAAAATTA
711249 TTAAAATTTAATTAA-TATTAAAATTA
1 TTAAAATTT-ATTAATTA-TAAAATTA
711275 TTA
1 TTA
711278 TTTATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAAATTTATTAATTATAAAATTA
Found at i:711507 original size:15 final size:17
Alignment explanation
Indices: 711483--711519 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
711473 TTATTTATAA
711483 TTTTAGTTAA-AAATAT
1 TTTTAGTTAATAAATAT
711499 TTTTA-TTAATAAATAT
1 TTTTAGTTAATAAATAT
*
711515 ATTTA
1 TTTTA
711520 AAATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTAGTTAATAAATAT
Found at i:711543 original size:18 final size:20
Alignment explanation
Indices: 711502--711551 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
711492 AAAATATTTT
711502 TATTAATAAATATATTTAAAA
1 TATTAA-AAATATATTTAAAA
711523 TA-TAAAAATATATTT-AAA
1 TATTAAAAATATATTTAAAA
711541 TATTAAAAATA
1 TATTAAAAATA
711552 ACTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 3 0.11
21 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTAAAAATATATTTAAAA
Found at i:711558 original size:20 final size:19
Alignment explanation
Indices: 711502--711566 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
711492 AAAATATTTT
*
711502 TATTAATAAATATATTTAAAA
1 TATTAA-AAATA-ATTTTAAA
711523 TA-TAAAAAT-ATATTTAAA
1 TATTAAAAATAAT-TTTAAA
711541 TATTAAAAATAACTTTTAAA
1 TATTAAAAATAA-TTTTAAA
*
711561 AATTAA
1 TATTAA
711567 TCGGACGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 11 0.29
20 15 0.39
21 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAAAATAATTTTAAA
Found at i:717637 original size:39 final size:39
Alignment explanation
Indices: 717593--717683 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
717583 AAACACCAAG
*
717593 ATGGCCTTAAAGACTCAATTTTAAC-TATAAATTATCAAA
1 ATGGCCTTAAAGACTCAATTTTAACATATAAATAAT-AAA
* * * * *
717632 ATGGCCCTAAATACTCGATTTTGACATATATATAATAAA
1 ATGGCCTTAAAGACTCAATTTTAACATATAAATAATAAA
*
717671 ATGACCTTAAAGA
1 ATGGCCTTAAAGA
717684 TTCAGTTTCG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 34 0.81
40 8 0.19
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (39 bp):
ATGGCCTTAAAGACTCAATTTTAACATATAAATAATAAA
Found at i:717814 original size:39 final size:40
Alignment explanation
Indices: 717728--717815 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
717718 ATAATAATAT
* *** *
717728 TAAAATGACCTTAAAAGCTTGGTTTTGACTTAAAAAGTAA
1 TAAAATGACCCTAAAAGCTCAATTTTGACTTAAAAAGGAA
*
717768 TAAAATGACCCTAAAAGCTCAATTTTGA--TATAAAAGGAC
1 TAAAATGACCCTAAAAGCTCAATTTTGACTTA-AAAAGGAA
717807 TAAAATGAC
1 TAAAATGAC
717816 TAAAAATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 15 0.37
40 24 0.59
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (40 bp):
TAAAATGACCCTAAAAGCTCAATTTTGACTTAAAAAGGAA
Found at i:717889 original size:39 final size:38
Alignment explanation
Indices: 717715--717966 Score: 190
Period size: 39 Copynumber: 6.5 Consensus size: 38
717705 CTAAAATAAC
*
717715 GACATAATAA-TATTAAAATGACCTTAAAAGCTTGGTTTT
1 GACATAA-AAGTATTAAAATGACCCT-AAAGCTTGGTTTT
* * ***
717754 GACTTAAAAAGTAATAAAATGACCCTAAAAGCTCAATTTT
1 GACAT-AAAAGTATTAAAATGACCCT-AAAGCTTGGTTTT
* * * ** *
717794 GATATAAAAGGACTAAAATGA--CTAAAAATTTGATTTT
1 GACATAAAAGTATTAAAATGACCCT-AAAGCTTGGTTTT
* * * *
717831 GAACACAAAAGTACT-AAATGACCATAAAGGTTGGGTTTT
1 G-ACATAAAAGTATTAAAATGACCCTAAAGCTT-GGTTTT
717870 GACATAAAAGTATTAAAATGACCCTAAAGACTTGGTTTT
1 GACATAAAAGTATTAAAATGACCCTAAAG-CTTGGTTTT
* **
717909 GACCTAAAAGTAGCAAAATGACACCTAAAGCTTAGG-TTT
1 GACATAAAAGTATTAAAATGAC-CCTAAAGCTT-GGTTTT
* *
717948 GACGTAAAAGTATGAAAAT
1 GACATAAAAGTATTAAAAT
717967 AACTTGTAAG
Statistics
Matches: 172, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
37 19 0.11
38 26 0.15
39 87 0.51
40 40 0.23
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (38 bp):
GACATAAAAGTATTAAAATGACCCTAAAGCTTGGTTTT
Found at i:718493 original size:24 final size:22
Alignment explanation
Indices: 718466--718509 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
718456 AAATAACAAT
718466 ACAAAAGCAACAATAAACATAATA
1 ACAAAAGCAACAA-AAA-ATAATA
*
718490 ACAAAAGGAACAAAAAATAA
1 ACAAAAGCAACAAAAAATAA
718510 ATTTAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.70, C:0.14, G:0.07, T:0.09
Consensus pattern (22 bp):
ACAAAAGCAACAAAAAATAATA
Found at i:719002 original size:20 final size:20
Alignment explanation
Indices: 718973--719014 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
718963 GATATATTAG
*
718973 TACAAGTTGCTAAGTATCGA
1 TACAACTTGCTAAGTATCGA
**
718993 TACAACTTGCTTTGTATCGA
1 TACAACTTGCTAAGTATCGA
719013 TA
1 TA
719015 TACCATGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (20 bp):
TACAACTTGCTAAGTATCGA
Found at i:719632 original size:34 final size:33
Alignment explanation
Indices: 719557--719658 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
719547 GAAGTGATTG
* * * *
719557 AGAGATTCTATCTTAGCCTTTTAAAAAGATAAGGA
1 AGAGGTTCTATCTTAG-C-TGTGAAAAGATAGGGA
719592 AGAGGTTCTATCTTAGCATGTGAAAAGATAGGG-
1 AGAGGTTCTATCTTAGC-TGTGAAAAGATAGGGA
*
719625 AGAAGGTTTTATCTTAAGCTGTGAAAAGATAGGG
1 AG-AGGTTCTATCTT-AGCTGTGAAAAGATAGGG
719659 TTGTAAGGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 2 0.03
34 39 0.66
35 18 0.31
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCTGTGAAAAGATAGGGA
Found at i:719684 original size:34 final size:34
Alignment explanation
Indices: 719612--719684 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
719602 TCTTAGCATG
* * *
719612 TGAAAAGATAGGGAGAAGGTTTTATCTTAAGCTG
1 TGAAAAGATAGGGAGAAGGTTATACCTTAAGCTC
*
719646 TGAAAAGATAGGGTTGTAAGGTTATACCTT-AGC-C
1 TGAAAAGATAGGG-AG-AAGGTTATACCTTAAGCTC
719680 TGAAA
1 TGAAA
719685 GGTAACAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 18 0.55
35 4 0.12
36 11 0.33
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (34 bp):
TGAAAAGATAGGGAGAAGGTTATACCTTAAGCTC
Found at i:722078 original size:15 final size:17
Alignment explanation
Indices: 722044--722079 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
722034 TTAAATGAAA
722044 ATTTGTTTAAATCATTG
1 ATTTGTTTAAATCATTG
722061 ATTTGTTT-AATC-TTG
1 ATTTGTTTAAATCATTG
722076 ATTT
1 ATTT
722080 TCGTTACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (17 bp):
ATTTGTTTAAATCATTG
Found at i:722807 original size:16 final size:17
Alignment explanation
Indices: 722786--722817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
722776 TGTGCTTGTA
722786 TATGAAT-CTTTCTATC
1 TATGAATGCTTTCTATC
722802 TATGAATGCTTTCTAT
1 TATGAATGCTTTCTAT
722818 GACTTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (17 bp):
TATGAATGCTTTCTATC
Found at i:723763 original size:33 final size:33
Alignment explanation
Indices: 723700--723764 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
723690 CACACCTAGA
* *
723700 TATATCGATACAAGTTGCTAAGTATTGATACAT
1 TATATCGATACAACTTGCTAAGTATCGATACAT
* **
723733 TATATTGATACAACTTGCTTTGTATCGATACA
1 TATATCGATACAACTTGCTAAGTATCGATACA
723765 CCATGGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (33 bp):
TATATCGATACAACTTGCTAAGTATCGATACAT
Found at i:724357 original size:34 final size:34
Alignment explanation
Indices: 724311--724409 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
724301 AATGATTGAG
*
724311 AGATTCTATCTTAGCCTTTAAAAAGATAGGGACG-
1 AGATTCTATCTTAGCCTTTGAAAAGATAGGGA-GA
* *
724345 AGGTTCTATCTTAG-CTTGTGAAAAGTTAGGGAGA
1 AGATTCTATCTTAGCCTT-TGAAAAGATAGGGAGA
* *
724379 AGATTCTTTCTTAGCCTATGAAAAGATAGGG
1 AGATTCTATCTTAGCCTTTGAAAAGATAGGG
724410 TTGTAAGGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 4 0.07
34 49 0.89
35 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (34 bp):
AGATTCTATCTTAGCCTTTGAAAAGATAGGGAGA
Found at i:725074 original size:13 final size:14
Alignment explanation
Indices: 725056--725085 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
725046 AAAAACAACC
725056 TTTC-TTTCTTTTT
1 TTTCTTTTCTTTTT
725069 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
725083 TTT
1 TTT
725086 TAAGAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:725885 original size:16 final size:16
Alignment explanation
Indices: 725805--725894 Score: 55
Period size: 16 Copynumber: 5.6 Consensus size: 16
725795 TAAAATTTTT
725805 AGGTCATTTTCGAGTTC
1 AGGTCA-TTTCGAGTTC
725822 AGGTCATTTCG-GATTC
1 AGGTCATTTCGAG-TTC
**
725838 -GGATTGTTTC-AGGTTC
1 AGG-TCATTTCGA-GTTC
*
725854 -GGATCATATC-AGGTTC
1 AGG-TCATTTCGA-GTTC
725870 AGGTCATTTCGAGTTC
1 AGGTCATTTCGAGTTC
*
725886 GGGTCATTT
1 AGGTCATTT
725895 AGGATTTGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
15 3 0.05
16 47 0.78
17 10 0.17
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.39
Consensus pattern (16 bp):
AGGTCATTTCGAGTTC
Found at i:726752 original size:16 final size:16
Alignment explanation
Indices: 726685--726753 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
726675 GTTAATTGTC
726685 CGGGTCATTTCGGGTT
1 CGGGTCATTTCGGGTT
* ** *
726701 CGGATCATTTTAGATT
1 CGGGTCATTTCGGGTT
* * *
726717 CGAGTAATTTCGGTTT
1 CGGGTCATTTCGGGTT
726733 CGGGTCATTTCGGGTT
1 CGGGTCATTTCGGGTT
726749 CGGGT
1 CGGGT
726754 TTCGGGTCGA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.13, C:0.16, G:0.32, T:0.39
Consensus pattern (16 bp):
CGGGTCATTTCGGGTT
Found at i:726976 original size:21 final size:22
Alignment explanation
Indices: 726947--726991 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
726937 TTTAAACCAG
726947 TAAGATTTTT-AATTAAACCTTT
1 TAAGATTTTTCAATTAAA-CTTT
726969 TAAG-TTTTTCAATTAAACTTT
1 TAAGATTTTTCAATTAAACTTT
726990 TA
1 TA
726992 CTTATAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (22 bp):
TAAGATTTTTCAATTAAACTTT
Found at i:736551 original size:2 final size:2
Alignment explanation
Indices: 736544--736575 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
736534 TAACACAAAC
*
736544 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
736576 TCTCAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:738454 original size:5 final size:5
Alignment explanation
Indices: 738440--738475 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
738430 TGATTTTGAC
738440 ATAT- ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
738476 CTTTTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:738560 original size:21 final size:20
Alignment explanation
Indices: 738525--738606 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 20
738515 AATCATTGAT
**
738525 ATAATTTTTTAATAATTTTA
1 ATAATTTTGCAATAATTTTA
*
738545 ATAATATTTGCAATAATTTTG
1 ATAAT-TTTGCAATAATTTTA
* * * *
738566 TTAACTTTGGATATAATTTTG
1 ATAATTTTGCA-ATAATTTTA
*
738587 ATAATTTTGCTATAATTTTA
1 ATAATTTTGCAATAATTTTA
738607 TGTCAAAATA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 18 0.37
21 31 0.63
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (20 bp):
ATAATTTTGCAATAATTTTA
Found at i:738561 original size:53 final size:54
Alignment explanation
Indices: 738469--738585 Score: 136
Period size: 53 Copynumber: 2.2 Consensus size: 54
738459 ATATAATATA
*
738469 ATATAATCTTTTATATAATTTTTAAAACTTTTGAGATAATTTTGGTAATCATT-G
1 ATATAATTTTTTATATAATTTTTAAAACTTTTGAGATAATTTTGGTAA-CATTGG
* *
738523 ATATAATTTTTTA-ATAA-TTTTAATAA-TATTTGCA-ATAATTTTGTTAACTTTGG
1 ATATAATTTTTTATATAATTTTTAA-AACT-TTTG-AGATAATTTTGGTAACATTGG
738576 ATATAATTTT
1 ATATAATTTT
738586 GATAATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
52 10 0.18
53 33 0.59
54 13 0.23
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (54 bp):
ATATAATTTTTTATATAATTTTTAAAACTTTTGAGATAATTTTGGTAACATTGG
Found at i:738601 original size:11 final size:10
Alignment explanation
Indices: 738524--738605 Score: 53
Period size: 11 Copynumber: 7.9 Consensus size: 10
738514 TAATCATTGA
*
738524 TATAATTTTT
1 TATAATTTTG
738534 TAATAATTTT-
1 T-ATAATTTTG
*
738544 AATAATATTTG
1 TATAAT-TTTG
*
738555 CAATAATTTTG
1 -TATAATTTTG
*
738566 T-TAACTTTGG
1 TATAA-TTTTG
738576 ATATAATTTTG
1 -TATAATTTTG
738587 -ATAATTTTG
1 TATAATTTTG
738596 CTATAATTTT
1 -TATAATTTT
738606 ATGTCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
9 17 0.29
10 8 0.14
11 25 0.42
12 9 0.15
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (10 bp):
TATAATTTTG
Found at i:740316 original size:26 final size:26
Alignment explanation
Indices: 740280--740331 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
740270 TTATCATCCA
740280 AACCTATGTTCGTTGTCTGCAAATAC
1 AACCTATGTTCGTTGTCTGCAAATAC
740306 AACCTATGTTCGTTGTCTGCAAATAC
1 AACCTATGTTCGTTGTCTGCAAATAC
740332 TAAGAGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
AACCTATGTTCGTTGTCTGCAAATAC
Found at i:743610 original size:3 final size:3
Alignment explanation
Indices: 743604--743645 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
743594 ATGACAATGG
743604 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
743646 CAATGCCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:746096 original size:12 final size:12
Alignment explanation
Indices: 746079--746109 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
746069 ATTACAATAT
746079 TAATTTAAATTA
1 TAATTTAAATTA
746091 TAATTTAAATTA
1 TAATTTAAATTA
*
746103 TTATTTA
1 TAATTTA
746110 TTTTTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATTTAAATTA
Found at i:747594 original size:118 final size:117
Alignment explanation
Indices: 747338--747649 Score: 324
Period size: 118 Copynumber: 2.6 Consensus size: 117
747328 TCATAAAGTA
* * * * * * *
747338 GCGTACATATGCCCTTTATGTAAGAGAATTCATTTTCATATAAATCACGTAATACTCAGGCACAA
1 GCGTACAAATGCCCTTTGTATAGGAGAATTCATTTTCACATAAATCACGTAGTACTCAGGCACCA
* * * *
747403 ATAGATT-GACTCTAGGACGGGTTATTAGTCGTCCATTTAAAGTCACAAAAGAG
66 ATAGATTAG-C-CTAGGACAGGTTATCAGTCATCCATTTAAAGTCACAAAAAAG
* ** * *
747456 GCATATGAA--CACCTTCTGTATAGGAGAATTCATTTTCACATATATCACGTAGTACTCGGGCAC
1 GCGTACAAATGC-CCTT-TGTATAGGAGAATTCATTTTCACATAAATCACGTAGTACTCAGGCAC
* * * *
747519 CAATAAATTAGCCTTGGATAGGTTATCAGTCATCTATTTAAAGTCACAAAAAAAG
64 CAATAGATTAGCCTAGGACAGGTTATCAGTCATCCATTTAAAGTCAC-AAAAAAG
* * * * *
747574 GTGTACAAATGCCCTTTGTATAGGAGAATTCATTTACGCATAAATCACTTAGTACTTAGGCACCA
1 GCGTACAAATGCCCTTTGTATAGGAGAATTCATTTTCACATAAATCACGTAGTACTCAGGCACCA
*
747639 ATGGATTAGCC
66 ATAGATTAGCC
747650 CTAATGTAAA
Statistics
Matches: 156, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
116 1 0.01
117 33 0.21
118 116 0.74
119 5 0.03
120 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (117 bp):
GCGTACAAATGCCCTTTGTATAGGAGAATTCATTTTCACATAAATCACGTAGTACTCAGGCACCA
ATAGATTAGCCTAGGACAGGTTATCAGTCATCCATTTAAAGTCACAAAAAAG
Found at i:759339 original size:52 final size:52
Alignment explanation
Indices: 759205--759355 Score: 142
Period size: 52 Copynumber: 2.9 Consensus size: 52
759195 GTGATAAAAG
* * * * * * *
759205 TGCCAATATACTGATTCAAGACTAGTGATATTAGGGCTTAAAGATGTA-AATAA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTA-GACTTAAAGATG-AGAAGAA
* * * * *
759258 TGTCAATGTGCTGATTCACGATCGGCGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTAGACTTAAAGATGAGAAGAA
* * *
759310 TGCCAATGTGCTGATTCAAGGCCATCGACATTGGACTTAAAGATGA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTAGACTTAAAGATGA
759356 CTGTCGTAAC
Statistics
Matches: 77, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
51 1 0.01
52 52 0.68
53 24 0.31
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGACCAGCGACATTAGACTTAAAGATGAGAAGAA
Found at i:762494 original size:38 final size:38
Alignment explanation
Indices: 762443--762518 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
762433 ATGTATCGAT
*
762443 ACATTTCATAGTGTATCGACACATCTTGGCAAATTTGC
1 ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
* *
762481 ACATTTTATAGTGTATCGATACATCTAGGCAAATTTGC
1 ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
762519 CTGCATGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (38 bp):
ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
Found at i:762635 original size:19 final size:19
Alignment explanation
Indices: 762611--762708 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
762601 TAGCTTACAT
762611 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
762630 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
762643 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
762662 TGTATCGAT---AAA--T-
1 TGTATCGATACAAAACTTA
*
762675 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
762695 TGTATCGATACAAA
1 TGTATCGATACAAA
762709 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 20 0.31
14 2 0.03
16 7 0.11
18 1 0.02
19 21 0.33
20 13 0.20
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:762647 original size:32 final size:32
Alignment explanation
Indices: 762606--762706 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
762596 GGCAGTAGCT
762606 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
762638 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
* *
762670 TAAATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAAC-TTATGTATCGA
762703 TACA
1 TACA
762707 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 51 0.78
33 14 0.22
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:762648 original size:13 final size:13
Alignment explanation
Indices: 762630--762686 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
762620 ACAAAACTTA
762630 TGTATCGATACAT
1 TGTATCGATACAT
762643 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
*
762661 ATGTATCGATAAAT
1 -TGTATCGATACAT
762675 TGTATCGATACA
1 TGTATCGATACA
762687 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
14 1 0.03
16 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:763057 original size:43 final size:43
Alignment explanation
Indices: 762951--763168 Score: 249
Period size: 43 Copynumber: 4.9 Consensus size: 43
762941 TGACAAATGC
* *
762951 GCCAATATGCGGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGT
* * * *
763000 GCCTATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
* * * *
763043 GACAATATGTTGATTCAAGGCCAGCGATATTGGACTTATAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
**
763086 GCCAATATGCTGATTCAAGGCCAGCGGTATTGGACTTAGAA-GT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTA-AAGGT
*
763129 GCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTAAA
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
763169 AGAAGATGCC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.01
43 112 0.76
44 1 0.01
45 1 0.01
49 31 0.21
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
Found at i:763216 original size:31 final size:28
Alignment explanation
Indices: 763178--763234 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 28
763168 AAGAAGATGC
763178 CACCAACTTGTGTAGGCTTTTGAAAGGTTTG
1 CACCAACTTGTGT--GCTTTTG-AAGGTTTG
763209 CACCAACTTGTGTGCTTTTGAAGGTT
1 CACCAACTTGTGTGCTTTTGAAGGTT
763235 GCCATGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.23
29 7 0.27
31 13 0.50
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (28 bp):
CACCAACTTGTGTGCTTTTGAAGGTTTG
Found at i:763261 original size:26 final size:27
Alignment explanation
Indices: 763214--763804 Score: 331
Period size: 29 Copynumber: 20.6 Consensus size: 27
763204 GTTTGCACCA
*
763214 ACTTGTGTGCTTTTGAAGGTTGCCA-TG
1 ACTTGTGGGC-TTTGAAGGTTGCCACTG
* *
763241 CCTTGTGGGCTTTGAAGGTTGTCACTG
1 ACTTGTGGGCTTTGAAGGTTGCCACTG
*
763268 ACTTGTGGGCTTTGAAAAGG-TGCCACTA
1 ACTTGTGGGCTTTG--AAGGTTGCCACTG
* * *
763296 ACTTGTGGGCTTTTGAAAAGATACCACTG
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
**
763325 ACTTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGGGCTTTG-AA--GGTTGCCACTG
* *
763355 ACTTGTGTGAGCTTTGAAATGATGCCACTG
1 ACTTGTG-G-GCTTTG-AAGGTTGCCACTG
* * *
763385 ACTTGTGGACTTTAAAATGGGTTGCCACCG
1 ACTTGTGGGCTTT-GAA--GGTTGCCACTG
* * *
763415 ACTTGTGTGCTTCTCAAGGTTGCCATTG
1 ACTTGTGGGCTT-TGAAGGTTGCCACTG
* * *
763443 ACTTGTGGGCTTTTGAAAAGATGCCACTA
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
* **
763472 ACTTGTGGGCTTTAAAATGGGTTGCCACCA
1 ACTTGTGGGCTTT-GAA--GGTTGCCACTG
* * *
763502 ACTTGTGTGAGCATTGAAATGATGCCACTG
1 ACTTGTG-G-GCTTTG-AAGGTTGCCACTG
* * *
763532 ACTTGTGGACTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTG-AAGGTTGCCACTG
* * *
763560 ACTTGTGGGCTTTTGAAAAGATACCACTG
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
* * *
763589 ACTTGTGGGCTTTGAAAAGATGCCACTA
1 ACTTGTGGGCTTTG-AAGGTTGCCACTG
* * * *
763617 ACTTGTGAGCTTTTGAAAAGATGCCACTA
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
* * *
763646 ACTTGTGGGCTTTAAAAAGATGCCACTG
1 ACTTGTGGGCTTT-GAAGGTTGCCACTG
* * * * *
763674 AGTTGTGGACTTTGAAAAGATGTCACTG
1 ACTTGTGGGCTTTG-AAGGTTGCCACTG
* * * *
763702 ACTTGTAGGCTTTTGAAAAGATGCCACAG
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
* *
763731 ACTTGTGAGCTTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTG--AAGGTTGCCACTG
* * *
763760 ACTTATGGGCTTTTGAAAAGATGCCACTG
1 ACTTGTGGGC-TTTG-AAGGTTGCCACTG
763789 ACTTGTGGGCTTTGAA
1 ACTTGTGGGCTTTGAA
763805 AGGTGAGAAA
Statistics
Matches: 462, Mismatches: 74, Indels: 56
0.78 0.12 0.09
Matches are distributed among these distances:
26 13 0.03
27 25 0.05
28 161 0.35
29 165 0.36
30 80 0.17
31 3 0.01
32 15 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (27 bp):
ACTTGTGGGCTTTGAAGGTTGCCACTG
Found at i:763310 original size:29 final size:28
Alignment explanation
Indices: 763234--763805 Score: 569
Period size: 28 Copynumber: 19.9 Consensus size: 28
763224 TTTTGAAGGT
* * *
763234 TGCCA-TGCCTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
763260 TGTCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
*
763288 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* * *
763317 TACCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA--AGA
** *
763347 TGCCACCAACTTGTGTGAGCTTTGAAATGA
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGA
* *
763377 TGCCACTGACTTGTGGACTTT-AAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAAA---GA
* * * * *
763407 TGCCACCGACTTGTGTGCTTCT-CAAGGT
1 TGCCACTGACTTGTGGGCTT-TGAAAAGA
*
763435 TGCCATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
763464 TGCCACTAACTTGTGGGCTTT-AAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAAA---GA
** * *
763494 TGCCACCAACTTGTGTGAGCATTGAAATGA
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGA
*
763524 TGCCACTGACTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
763552 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
*
763581 TACCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
763609 TGCCACTAACTTGTGAGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
763638 TGCCACTAACTTGTGGGCTTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
763666 TGCCACTGAGTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
763694 TGTCACTGACTTGTAGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* * *
763723 TGCCACAGACTTGTGAGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAA-GA
*
763752 TGCCACTGACTTATGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
763781 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAA
763806 GGTGAGAAAT
Statistics
Matches: 453, Mismatches: 69, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.01
27 22 0.05
28 164 0.36
29 160 0.35
30 82 0.18
31 5 0.01
32 13 0.03
33 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:763336 original size:57 final size:56
Alignment explanation
Indices: 763234--763805 Score: 569
Period size: 57 Copynumber: 9.9 Consensus size: 56
763224 TTTTGAAGGT
* * * * *
763234 TGCCA-TGCCTTGTGGGCTTTG-AAGGTTGTCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
763288 TGCCACTAACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA--AGA
** * * *
763347 TGCCACCAACTTGTGTGAGCTTTGAAATGATGCCACTGACTTGTGGACTTT-AAAATGGGT
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA---GA
* * * * * *
763407 TGCCACCGACTTGTGTGCTTCT-CAAGGTTGCCATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTT-TGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* * ** * *
763464 TGCCACTAACTTGTGGGCTTT-AAAATGGGTTGCCACCAACTTGTGTGAGCATTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAA---GATGCCACTGACTTGTG-G-GCTTTGAAAAGA
*
763524 TGCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* * *
763581 TACCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGAGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* * * *
763638 TGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGAGTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * *
763694 TGTCACTGACTTGTAGGCTTTTGAAAAGATGCCACAGACTTGTGAGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GA
*
763752 TGCCACTGACTTATGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA
763806 GGTGAGAAAT
Statistics
Matches: 433, Mismatches: 63, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
54 5 0.01
55 10 0.02
56 34 0.08
57 176 0.41
58 87 0.20
59 36 0.08
60 77 0.18
61 8 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:763439 original size:147 final size:145
Alignment explanation
Indices: 763171--763777 Score: 616
Period size: 147 Copynumber: 4.2 Consensus size: 145
763161 GACTTAAAAG
* *
763171 AAGATGCCACCAACTTGTGTAGGCTTTTGAAA-GGTTTG-CACCAACTTGTGT--GCTTTTG-AA
1 AAGATGCCACTAACTTGTG--GGC-TTTGAAATGGGTTGCCACCAACTTGTGTGAGC-TTTGAAA
* * * * * * * *
763231 GGTTGCCA-TGCCTTGTGGGCTTTG-AAGGTTGTCACTGACTTGTGGGCTT-TGAAAAGGTGCCA
62 TGATGCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCTG-AAAGGTGCCA
*
763293 CTAACTTGTGGGCTTTTGAA
126 CTGACTTGTGGGCTTTTGAA
* *
763313 AAGATACCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
1 AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
* * * *
763378 GCCACTGACTTGTGGACTTT-AAAATGGGTTGCCACCGACTTGTGTGCTTCT-CAAGGTTGCCAT
66 GCCACTGACTTGTGGACTTTGAAAA---GATGCCACCGACTTGTGGGCTTCTGAAAGG-TGCCAC
763441 TGACTTGTGGGCTTTTGAA
127 TGACTTGTGGGCTTTTGAA
* *
763460 AAGATGCCACTAACTTGTGGGCTTTAAAATGGGTTGCCACCAACTTGTGTGAGCATTGAAATGAT
1 AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
* * * *
763525 GCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGA
66 GCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCTG-AAAGGTGCCACTGA
763590 CTTGTGGGC-TTTGAA
130 CTTGTGGGCTTTTGAA
* * * * * *
763605 AAGATGCCACTAACTTGTGAGCTTTTGAAA--AGATGCCACTAACTTGTG-G-GCTTTAAAAAGA
1 AAGATGCCACTAACTTGTGGGC-TTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGA
* * * * * * *
763666 TGCCACTGAGTTGTGGACTTTGAAAAGATGTCACTGACTTGTAGGCTTTTGAAAAGATGCCACAG
65 TGCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCTG-AAAGGTGCCACTG
*
763731 ACTTGTGAGC-TTTGAA
129 ACTTGTGGGCTTTTGAA
* * *
763747 AAGGGTGCCACTGACTTATGGGCTTTTGAAA
1 AA-GATGCCACTAACTTGTGGGC-TTTGAAA
763778 AGATGCCACT
Statistics
Matches: 403, Mismatches: 45, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
139 7 0.02
140 8 0.02
141 13 0.03
142 106 0.26
143 35 0.09
144 30 0.07
145 47 0.12
146 26 0.06
147 126 0.31
148 5 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (145 bp):
AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
GCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCTGAAAGGTGCCACTGAC
TTGTGGGCTTTTGAA
Found at i:764209 original size:37 final size:37
Alignment explanation
Indices: 764167--764251 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
764157 AAAGATGAAG
*
764167 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
*
764204 CACAAATGCATCATGCAAAATGAACTGTTATGAATCT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
764241 CACAAATGCAT
1 CACAAATGCAT
764252 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
Found at i:765297 original size:9 final size:9
Alignment explanation
Indices: 765276--765354 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
765266 ATCCAGACCA
*
765276 TTTTTGTTG
1 TTTTTTTTG
*
765285 -TTTTTTTC
1 TTTTTTTTG
765293 TTTTTTTTG
1 TTTTTTTTG
765302 TTTTTTTTG
1 TTTTTTTTG
*
765311 TTTTGTTT-
1 TTTTTTTTG
*
765319 TTTTTTTGG
1 TTTTTTTTG
765328 TTTTGTTTT-
1 TTTT-TTTTG
* * *
765337 TTTTGTCTA
1 TTTTTTTTG
765346 TTTTTTTTG
1 TTTTTTTTG
765355 CGGGGGACGC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 14 0.26
9 37 0.69
10 3 0.06
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:765302 original size:17 final size:16
Alignment explanation
Indices: 765282--765340 Score: 77
Period size: 17 Copynumber: 3.7 Consensus size: 16
765272 ACCATTTTTG
765282 TTGTTTTTTTCTTT-TT
1 TTGTTTTTTT-TTTGTT
*
765298 TT-TGTTTTTTTTGTT
1 TTGTTTTTTTTTTGTT
765313 TTGTTTTTTTTTTGGTT
1 TTGTTTTTTTTTT-GTT
765330 TTGTTTTTTTT
1 TTGTTTTTTTT
765341 GTCTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
16 11 0.29
17 14 0.37
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (16 bp):
TTGTTTTTTTTTTGTT
Found at i:765305 original size:26 final size:26
Alignment explanation
Indices: 765276--765352 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 26
765266 ATCCAGACCA
765276 TTTTTGTTGTTTTTTTCTTTTTTTTG
1 TTTTTGTTGTTTTTTTCTTTTTTTTG
* *
765302 TTTTTTTTGTTTTGTT-TTTTTTTTG
1 TTTTTGTTGTTTTTTTCTTTTTTTTG
*
765327 GTTTTGTT-TTTTTTGTCTATTTTTTT
1 TTTTTGTTGTTTTTT-TCT-TTTTTTT
765353 TGCGGGGGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 5 0.12
25 16 0.37
26 15 0.35
27 7 0.16
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (26 bp):
TTTTTGTTGTTTTTTTCTTTTTTTTG
Found at i:765320 original size:31 final size:31
Alignment explanation
Indices: 765282--765342 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
765272 ACCATTTTTG
*
765282 TTGTTTTTTTCTTT-TTTTTGTTTTTTTTGTT
1 TTGTTTTTTT-TTTGGTTTTGTTTTTTTTGTT
765313 TTGTTTTTTTTTTGGTTTTGTTTTTTTTGT
1 TTGTTTTTTTTTTGGTTTTGTTTTTTTTGT
765343 CTATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (31 bp):
TTGTTTTTTTTTTGGTTTTGTTTTTTTTGTT
Found at i:765353 original size:17 final size:15
Alignment explanation
Indices: 765276--765353 Score: 77
Period size: 16 Copynumber: 5.1 Consensus size: 15
765266 ATCCAGACCA
*
765276 TTTTTGTTGTTTTTT
1 TTTTTGTTTTTTTTT
* *
765291 TCTTT-TTTTTGTTT
1 TTTTTGTTTTTTTTT
765305 TTTTTGTTTTGTTTTT
1 TTTTTGTTTT-TTTTT
* *
765321 TTTTTGGTTTTGTTT
1 TTTTTGTTTTTTTTT
*
765336 TTTTTGTCTATTTTTT
1 TTTTTGT-TTTTTTTT
765352 TT
1 TT
765354 GCGGGGGACG
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.22
15 18 0.36
16 21 0.42
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTTTTTTT
Found at i:769217 original size:52 final size:52
Alignment explanation
Indices: 769069--769197 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
769059 CGAAATATGA
769069 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
769121 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
769173 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
769198 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:769305 original size:18 final size:19
Alignment explanation
Indices: 769282--769330 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
769272 AGCGATACAT
*
769282 TGTATCAATACAA-ACTTA
1 TGTATCGATACAACACTTA
769300 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
769319 TGTATCGATACA
1 TGTATCGATACA
769331 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:769338 original size:32 final size:32
Alignment explanation
Indices: 769300--769362 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
769290 TACAAACTTA
769300 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
* * *
769332 TGTATCGATATAACATTTTTGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
769363 AATCATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:777878 original size:20 final size:20
Alignment explanation
Indices: 777853--777994 Score: 119
Period size: 20 Copynumber: 6.8 Consensus size: 20
777843 TTTTTACAAT
*
777853 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
777873 TTGTATCGATATATTGTTCA
1 TTGTATCGATACATTGTTCA
777893 TTGTATCGATAC-TCTGGGTTTACTTAA
1 TTGTATCGATACAT-T--G-TT-C---A
*
777920 ATGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
777940 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
777960 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
* *
777980 ATGTATCGAAACATT
1 TTGTATCGATACATT
777995 CAGGCATTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
19 2 0.02
20 77 0.76
21 1 0.01
22 1 0.01
23 5 0.05
24 1 0.01
27 13 0.13
28 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:785297 original size:22 final size:23
Alignment explanation
Indices: 785269--785320 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
785259 CATGTTAAAT
785269 ATGCATGAAACATAAT-AAAAAA
1 ATGCATGAAACATAATAAAAAAA
785291 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
785314 ATGCATG
1 ATGCATG
785321 GTCAAAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:786278 original size:20 final size:20
Alignment explanation
Indices: 786231--786305 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
786221 AAAAAGACAT
*
786231 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
786250 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
786271 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
786291 AATGTATCGATACAT
1 AATGTATCGATACAT
786306 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:786299 original size:40 final size:39
Alignment explanation
Indices: 786228--786305 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
786218 GGTAAAAAGA
* *
786228 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
786267 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
786306 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:787196 original size:86 final size:86
Alignment explanation
Indices: 786819--787801 Score: 1416
Period size: 86 Copynumber: 11.4 Consensus size: 86
786809 ACAGTGGTGA
* * * *
786819 TTTGAAAAGGGTTGCCATTGACTTGCATGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTT
1 TTTGAAAAGAG-TGCCACTGACTTG--TGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTT
* * *
786884 G-AAAGAATGCCACTAACTCGTGGGC
61 GAAAAGAGTGCCACTGACTTGTGGGC
*
786909 TTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTT-AAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
786972 GGGTGCCACTGACTTGTGGGC
66 GAGTGCCACTGACTTGTGGGC
* * * * *
786993 TTTG-AAAGAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGGCCTCG-AA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
787055 AGGGTGCCACTGACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
* * * *
787077 TCTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
787141 GAGTGCCACTGATTTGTGGGC
66 GAGTGCCACTGACTTGTGGGC
787162 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAA
* *
787226 AGGGTGCCACTAACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
* *
787248 TTTGAAAAGAGTGCCACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
787313 GGAGTGCCACTGACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
* *
787335 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTATG-AA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
* *
787398 AGGGTGCCACTAACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
* *
787420 TTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
787485 AGAGTGCCACTGACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
787507 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAA
* *
787571 AGGGTGCCACTGAGTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
* *
787593 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
787657 AGAGTGCCACTGACTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
*
787679 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
787743 AGAGTGCCACTGATTTGTGGGC
65 AGAGTGCCACTGACTTGTGGGC
*
787765 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAG
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
787802 GGATGAACAT
Statistics
Matches: 814, Mismatches: 62, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
83 7 0.01
84 145 0.18
85 104 0.13
86 382 0.47
87 156 0.19
88 12 0.01
90 8 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (86 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
GAGTGCCACTGACTTGTGGGC
Found at i:787801 original size:29 final size:29
Alignment explanation
Indices: 786831--787802 Score: 1454
Period size: 29 Copynumber: 33.9 Consensus size: 29
786821 TGAAAAGGGT
* *
786831 TGCCATTGACTTGCATGGGCTTTAAAAGG-G
1 TGCCACTGACTTG--TGGGCTTTGAAAGGAG
*
786861 TGCCACTGACTTGCGTGGGCTTTGAAA-GAA
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
* *
786891 TGCCACTAACTCGTGGGCTTTGAAAGGA-
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
786919 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
786947 TGCCACTGACTTGTGGGCTTTAAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
786975 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * * *
787003 TGCCACTGAATTGTGGGCTTCGCAATG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787031 TGCCACTGACTTGTGGGCCTCGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787059 TGCCACTGACTTGTGGGCTCTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787087 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787115 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787144 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787173 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787202 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787230 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
787259 TGCCACTGATTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787288 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787317 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787345 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787374 TGCCACTGACTTGTGGGCTATGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787402 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787431 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787460 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787489 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787518 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787547 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787575 TGCCACTGAGTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787603 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
787632 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787661 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787689 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787718 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
787747 TGCCACTGATTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
787776 TGCCACTGACTTGTGGGCTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGG
787803 GATGAACATT
Statistics
Matches: 874, Mismatches: 54, Indels: 29
0.91 0.06 0.03
Matches are distributed among these distances:
27 3 0.00
28 367 0.42
29 471 0.54
30 32 0.04
32 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGAG
Found at i:789014 original size:1 final size:1
Alignment explanation
Indices: 789010--789064 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
789000 TTTTTTGCTA
* * * ** *
789010 TTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGGTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
789065 GGGTGTAAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:789025 original size:12 final size:12
Alignment explanation
Indices: 789017--789063 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
789007 CTATTTTTTC
789017 TTTTTTTTTTGT
1 TTTTTTTTTTGT
*
789029 TTTTTTGTTTTGG
1 TTTTTT-TTTTGT
789042 TTTTTTTTTTGT
1 TTTTTTTTTTGT
789054 TTTTTTTTTT
1 TTTTTTTTTT
789064 TGGGTGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:789033 original size:13 final size:13
Alignment explanation
Indices: 789017--789065 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
789007 CTATTTTTTC
789017 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
* *
789030 TTTTTGTTTTG-G
1 TTTTTTTTTTGTT
789042 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
789055 TTTTTTTTTTG
1 TTTTTTTTTTG
789066 GGTGTAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:789045 original size:25 final size:25
Alignment explanation
Indices: 789017--789066 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
789007 CTATTTTTTC
789017 TTTTTTTTTTGTTTTTTTGTTTTGG
1 TTTTTTTTTTGTTTTTTTGTTTTGG
*
789042 TTTTTTTTTTGTTTTTTTTTTTTGG
1 TTTTTTTTTTGTTTTTTTGTTTTGG
789067 GTGTAAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (25 bp):
TTTTTTTTTTGTTTTTTTGTTTTGG
Found at i:798799 original size:4 final size:4
Alignment explanation
Indices: 798792--798818 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
798782 ATGAATAGCA
798792 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
798819 AATGAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:802168 original size:22 final size:23
Alignment explanation
Indices: 802140--802191 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
802130 CATGTTAAAT
802140 ATGCATGAAACATAAT-AAAAAA
1 ATGCATGAAACATAATAAAAAAA
802162 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
802185 ATGCATG
1 ATGCATG
802192 GTCAAAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:803146 original size:20 final size:20
Alignment explanation
Indices: 803099--803173 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
803089 GGTAAAACAT
*
803099 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
803118 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
803139 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
803159 AATGTATCGATACAT
1 AATGTATCGATACAT
803174 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:803167 original size:40 final size:39
Alignment explanation
Indices: 803096--803173 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
803086 TTAGGTAAAA
* *
803096 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
803135 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
803174 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:804850 original size:30 final size:30
Alignment explanation
Indices: 804814--804905 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
804804 CCACAATTTA
804814 TATCGATACATTCTGGGTTTTACCCAGATG
1 TATCGATACATTCTGGGTTTTACCCAGATG
* *
804844 TATCGATACA---T---TATT---CA-TTG
1 TATCGATACATTCTGGGTTTTACCCAGATG
804864 TATCGATACATTCTGGGTTTTACCCAGATG
1 TATCGATACATTCTGGGTTTTACCCAGATG
804894 TATCGATACATT
1 TATCGATACATT
804906 TCTCAATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
20 12 0.25
21 2 0.04
23 1 0.02
24 3 0.06
26 3 0.06
27 1 0.02
29 2 0.04
30 24 0.50
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (30 bp):
TATCGATACATTCTGGGTTTTACCCAGATG
Found at i:804889 original size:50 final size:50
Alignment explanation
Indices: 804814--804925 Score: 199
Period size: 50 Copynumber: 2.2 Consensus size: 50
804804 CCACAATTTA
*
804814 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTAT-TCATTG
1 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATT-TCTCAATG
804864 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCTCAATG
1 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCTCAATG
804914 TATCGATACATT
1 TATCGATACATT
804926 TAGGCATTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (50 bp):
TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCTCAATG
Found at i:807450 original size:78 final size:77
Alignment explanation
Indices: 807220--807478 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 77
807210 ATTTTCCACC
* * * *
807220 ATCGGGGATACTCCAACCCCGTTGTTTTTGAGGGGATATTCCAACCCC-AGTTTAATTTCCAAAA
1 ATCGGGGATACTCCAACCCCATT-ATTTTGAGGGGATACTCCAACCCCGA-TTT-ATTTTCAAAA
*
807284 CATCGA-TTATC-TGCA
63 CATCGATTTTTCAT--A
* * ** * *
807299 ATAGGGGATACTCCTACCCTGTTATTTTTGAGGGGATACTCCAACCTCGATTT-TATTTCTGAAA
1 ATCGGGGATACTCCAACCCCATTA-TTTTGAGGGGATACTCCAACCCCGATTTAT-TTTC-AAAA
*
807363 CATCAATTTTTCATA
63 CATCGATTTTTCATA
* **
807378 ATCGGGGATACTCCAACCCCATTATTTCGAAAGGATACTCCAACCCCGGATTTATTTTCAAAACA
1 ATCGGGGATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCC-GATTTATTTTCAAAACA
**
807443 TCGATTTTTCACC
65 TCGATTTTTCATA
*
807456 ATCGGGGATGCTCCAACCCCATT
1 ATCGGGGATACTCCAACCCCATT
807479 TTTATCTCCA
Statistics
Matches: 149, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
77 1 0.01
78 59 0.40
79 82 0.55
80 6 0.04
81 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (77 bp):
ATCGGGGATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCCGATTTATTTTCAAAACAT
CGATTTTTCATA
Found at i:809544 original size:4 final size:4
Alignment explanation
Indices: 809535--809572 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
809525 TTTGAGGTGC
* *
809535 TTAT TTAT TTAT TTAT TCAT TTGT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
809573 TGTTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:809561 original size:16 final size:16
Alignment explanation
Indices: 809537--809577 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
809527 TGAGGTGCTT
*
809537 ATTTATTTATTTATTC
1 ATTTGTTTATTTATTC
*
809553 ATTTGTTTATTTATTT
1 ATTTGTTTATTTATTC
809569 ATTTTGTTT
1 A-TTTGTTT
809578 TGTTTTGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (16 bp):
ATTTGTTTATTTATTC
Found at i:820452 original size:31 final size:31
Alignment explanation
Indices: 820414--820474 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
820404 GAACTCATAA
*
820414 GGTTATTATTGGTAGGGCTTAGGACTCTTAG
1 GGTTATTATTGGTAGGGCTTAGGACCCTTAG
820445 GGTTATTATTGGTAGGGCTTAGGACCCTTA
1 GGTTATTATTGGTAGGGCTTAGGACCCTTA
820475 CGAACAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.38
Consensus pattern (31 bp):
GGTTATTATTGGTAGGGCTTAGGACCCTTAG
Found at i:820959 original size:61 final size:60
Alignment explanation
Indices: 820848--821538 Score: 764
Period size: 61 Copynumber: 11.3 Consensus size: 60
820838 ACCTTTTATC
* ** * *
820848 CTTTCAGTCCTCAAAGAGCA-GA-ACACTTTCCTTTCAAAAGCCCACACAAGTTGGTGACA
1 CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * *
820907 CTTTCCAGTCCTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTAGCA
1 CTTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
820968 CCTTCCAGTCCTCAAAGAGTAGGA--CATCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGC-T-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
821029 TCTTTCAGTCCTCAATGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
821090 CCTTCCAGTCTTCAAAGAATAGGACGCCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
821151 CCTTCTAGTCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
821212 CCTTCCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
821273 CCTTTCAGTCCTCAAAGAGCCAGGATGCCTTTTCCATTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAG-CAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
821335 CCATTCAATCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCGC
1 -CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC-A
** * *
821397 CTTTCAGTCCTCAAAGAGCAAAATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
821457 CCTTTCAGTCTTTAAAAAGCAGGATG-TCTTTTCCTTTTAGAGCCTACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGATGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
821518 CCTTTTAGTTCTCAAATAGCA
1 -CTTTCAGTCCTCAAAGAGCA
821539 AGACGCACTT
Statistics
Matches: 543, Mismatches: 73, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.01
60 25 0.05
61 434 0.80
62 78 0.14
63 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (60 bp):
CTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:821068 original size:122 final size:122
Alignment explanation
Indices: 820847--821538 Score: 881
Period size: 122 Copynumber: 5.7 Consensus size: 122
820837 AACCTTTTAT
* * * * *
820847 CCTTTCAGTCCTCAAAGAGCAGAAC-AC-TTTCCTTTCAAAAGCCCACACAAGTTGGTGACA-CT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCACCT
* * * *
820909 TTCCAGTCCTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTAGCA
65 TT-CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * *
820968 CCTTCCAGTCCTCAAAGAGTAGGACATCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGCATCTT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
821033 TCAGTCCTCAATGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
821090 CCTTCCAGTCTTCAAAGAATAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-T
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * ** *
821154 TCTAGTCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 TC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
821212 CCTTCCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
821277 TCAGTCCTCAAAGAGCCAGGATGCCTTTTCCATTTAAAGCCCACACAAGTTGGTGGCA
66 TCAGTCCTCAAAGAG-CAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
821335 CCATT-CAATCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCGCCT
1 CC-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
** *
821399 TTCAGTCCTCAAAGAGCAAAATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
65 TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
821457 CCTTTCAGTCTTTAAAAAGCAGGATGTCTTTTCCTTTTAGAGCCTACACAAGTTGGTGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
821522 TTAGTTCTCAAATAGCA
66 TCAGTCCTCAAAGAGCA
821539 AGACGCACTT
Statistics
Matches: 502, Mismatches: 61, Indels: 15
0.87 0.11 0.03
Matches are distributed among these distances:
121 27 0.05
122 352 0.70
123 121 0.24
124 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (122 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:821192 original size:183 final size:183
Alignment explanation
Indices: 820847--821542 Score: 916
Period size: 183 Copynumber: 3.8 Consensus size: 183
820837 AACCTTTTAT
* * * *
820847 CCTTTCAGTCCTCAAAGAGCAGAAC-AC-TTTCCTTTCAAAAGCCCACACAAGTTGGTGACACTT
1 CCTTTCAGTCCTCAAAGAGCAGAACGCCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCACCT
** * * * *
820910 TCCAGTCCTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCCCACGCAAGTTGGTAGCACCTTCCA
65 TCCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * *
820975 GTCCTCAAAGAGTAGGACA-TCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGCA
130 GTCCTCAAAGAGTAAGACACT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
821029 TCTTTCAGTCCTCAATGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
821094 CCAGTCTTCAAAGAATAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
66 CCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
821159 TCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
131 TCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
821212 CCTTCCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
821277 TCAGTCCTCAAAGAGCCAGGATGCCTTTTCCATTTAAAGCCCACACAAGTTGGTGGCACCATTC-
66 CCAGTCCTCAAAGA-ACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCT
* * * *
821341 AATCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCG
129 AGTCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
821396 CCTTTCAGTCCTCAAAGAGCAAAATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * *
821461 TCAGTCTTTAAA-AAGCAGGATGTCTTTTCCTTTTAGAGCCTACACAAGTTGGTGGCACCTTTTA
66 CCAGTCCTCAAAGAA-CAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
* * *
821525 GTTCTCAAATAGCAAGAC
130 GTCCTCAAAGAGTAAGAC
821543 GCACTTCATT
Statistics
Matches: 455, Mismatches: 52, Indels: 13
0.88 0.10 0.03
Matches are distributed among these distances:
182 24 0.05
183 258 0.57
184 170 0.37
185 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (183 bp):
CCTTTCAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CCAGTCCTCAAAGAACAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
TCCTCAAAGAGTAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:821637 original size:41 final size:41
Alignment explanation
Indices: 821592--821710 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
821582 TAAGATGCAC
821592 TTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCAA
1 TTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCAA
*** *
821633 TTTATTTCCTTTTCCCTTTGTCCTCAAAGAATGGGACGCAC
1 TTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCAA
*
821674 TTTATTTCTTTTTCCCTTTGTCCTCAAAGAGCAGGAC
1 TTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGAC
821711 AGATTTAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (41 bp):
TTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCAA
Found at i:822502 original size:20 final size:20
Alignment explanation
Indices: 822451--822503 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
822441 TTTTACCCAG
*
822451 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTCTCA
* * *
822471 CTATATTGATACATTTCTCA
1 ATGTATCGATACATTTCTCA
*
822491 ATGTATCAATACA
1 ATGTATCGATACA
822504 ATCAAGCATT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCA
Found at i:825053 original size:79 final size:79
Alignment explanation
Indices: 824854--825033 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 79
824844 TCATTCATGT
* * * ** * * * *
824854 TTTTATTTCTAAAATACCAATTTTCCACCATCGGGGATACTCCAACCCTGTTGTTTCCGAGGGGA
1 TTTTATTTCTAAAACACCGATTGTCCAGAATCGGGGATACTCCAACCCTATTATTTCCAAAGGGA
824919 TACTCCAACCCCGA
66 TACTCCAACCCCGA
*
824933 TTTTATTTCTAAAACACCGATTGTCCAGAATCGAGGATACTCCAACCCTATTATTTCCAAAGGGA
1 TTTTATTTCTAAAACACCGATTGTCCAGAATCGGGGATACTCCAACCCTATTATTTCCAAAGGGA
* *
824998 TACTTCAACCCCGG
66 TACTCCAACCCCGA
*
825012 TTTTATTTCTAAAACATCGATT
1 TTTTATTTCTAAAACACCGATT
825034 TTTCATTGTC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 88 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTGTCCAGAATCGGGGATACTCCAACCCTATTATTTCCAAAGGGA
TACTCCAACCCCGA
Found at i:825097 original size:51 final size:52
Alignment explanation
Indices: 824994--825109 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 52
824984 TATTTCCAAA
* ***
824994 GGGATACT-TCAACCCCGGTTTTATTTCTAAAACATCGATTTTTCATTGTCG
1 GGGATACTCTCAACCCCAGTTTTATTTCTAAAACATCGATTTTTCACCATCG
*
825045 GGGATACTCT-AATCCCAGTTTTATTT-TCAAAACATCGA-TTTTCAACCATCG
1 GGGATACTCTCAACCCCAGTTTTATTTCT-AAAACATCGATTTTTC-ACCATCG
825096 GGGATACTC-CAACC
1 GGGATACTCTCAACC
825110 TCGTTATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
50 6 0.11
51 48 0.87
52 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
GGGATACTCTCAACCCCAGTTTTATTTCTAAAACATCGATTTTTCACCATCG
Found at i:825130 original size:79 final size:78
Alignment explanation
Indices: 825044--825392 Score: 387
Period size: 79 Copynumber: 4.4 Consensus size: 78
825034 TTTCATTGTC
* *
825044 GGGGATACTCTAATCCCAGTTTTATTTTCAAAACATCGA-TTTTCAACCATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCCAGTTTTATTTCCAAAACATCGATTTTTC-ACCATCGGGGATACTCCAA
*
825108 CCTCGTTATTTTTGA
64 CCCCGTTATTTTTGA
** * * *** * *
825123 GCAGATACTCCAACCCCAGTTTTATTTCTAAAGCAAATATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAA-CCCAGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
*
825188 CCCGTTATTTTCGA
65 CCCGTTATTTTTGA
* *
825202 GGGGATACTCCGACCTCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
1 GGGGATACTCCAACC-CAGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
** *
825267 CCTATTATTTCTGA
65 CCCGTTATTTTTGA
* * * *
825281 GGGGATACTCCAACCCTAGTTTTATTTCCAAAACATCAATTTTTCACTATCTGGGATACTACAAC
1 GGGGATACTCCAACCC-AGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
**
825346 CCCGTTATTTTCAA
65 CCCGTTATTTTTGA
* *
825360 GGGGATGCTCCAATCCC-GTTTTTATCTCCAAAA
1 GGGGATACTCCAA-CCCAG-TTTTATTTCCAAAA
825393 TATTAAATTT
Statistics
Matches: 223, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.02
79 211 0.95
80 8 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCAGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACC
CCGTTATTTTTGA
Found at i:825224 original size:209 final size:209
Alignment explanation
Indices: 824873--825262 Score: 523
Period size: 209 Copynumber: 1.9 Consensus size: 209
824863 TAAAATACCA
* * **
824873 ATTTTCCACCATCGGGGATACTCCAACCCTGTTGTTTCCGAGGGGATACTCCAACCCCGATTTTA
1 ATTTTCAACCATCGGGGATACTCCAACCCTGTTATTTCCGAGCAGATACTCCAACCCCGATTTTA
** * * *
824938 TTTCTAAAACACCGATTGTCCAGAATCGAGGATACTCCAACCCTATTATTTCCAAAGGGATACTT
66 TTTCTAAAACAAAGATTGTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAAGGGATACTC
* ***
825003 CAACCCCGGTTTTATTTCTAAAACATCGATTTTTCATTGTCGGGGATACTCTAATCCCAGTTTTA
131 CAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCTAATCCCAGTTTTA
825068 TTTTCAAAACATCG
196 TTTTCAAAACATCG
**
825082 ATTTTCAACCATCGGGGATACTCCAA-CCTCGTTATTTTTGAGCAGATACTCCAACCCC-AGTTT
1 ATTTTCAACCATCGGGGATACTCCAACCCT-GTTATTTCCGAGCAGATACTCCAACCCCGA-TTT
* * * * * * * *
825145 TATTTCTAAAGCAAATATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATAC
64 TATTTCTAAAACAAAGATTGTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAAGGGATAC
* *
825210 TCCGACCTCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTC
129 TCCAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTC
825263 CAACCCTATT
Statistics
Matches: 154, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
208 4 0.03
209 150 0.97
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (209 bp):
ATTTTCAACCATCGGGGATACTCCAACCCTGTTATTTCCGAGCAGATACTCCAACCCCGATTTTA
TTTCTAAAACAAAGATTGTCCACAATCGAGGATACTCCAACCCCATTATTTCCAAAGGGATACTC
CAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCTAATCCCAGTTTTA
TTTTCAAAACATCG
Done.