Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold224
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: 1473716
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 92095 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:677432 original size:120 final size:120
Alignment explanation
Indices: 677219--677538 Score: 640
Period size: 120 Copynumber: 2.7 Consensus size: 120
677209 AAGCTCTGTG
677219 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
1 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
677284 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
66 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
677339 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
1 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
677404 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
66 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
677459 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
1 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
677524 TGATTTGAGTAAATT
66 TGATTTGAGTAAATT
677539 TTTCCATTAT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 200 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (120 bp):
ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTA
TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
Found at i:677483 original size:15 final size:15
Alignment explanation
Indices: 677448--677499 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
677438 TTAAGAATTT
*
677448 TATTAAATTAT-ATA
1 TATTTAATTATAATA
677462 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
677476 TATTTAATAATAAT-
1 TATTTAATTATAATA
677490 TATGTTAATT
1 TAT-TTAATT
677500 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:677665 original size:45 final size:42
Alignment explanation
Indices: 677548--677668 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 42
677538 TTTTCCATTA
677548 TGCTATTACACCTCTATTCCATT---CAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
* * ***
677587 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA--CAACCAAACACAAGA-T
677632 TGCTATTACACCTCTATTCCATTACAGCGAACCAAAC
1 TGCTATTACACCTCTATTCCATTACA-C-AACCAAAC
677669 GTGCCCTTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
39 21 0.31
44 13 0.19
45 33 0.49
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.31
Consensus pattern (42 bp):
TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
Found at i:683353 original size:6 final size:6
Alignment explanation
Indices: 683337--683368 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
683327 AGTTAGCGGC
*
683337 GGCAAA TGCAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
683369 AAGTGAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.34, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:684145 original size:62 final size:63
Alignment explanation
Indices: 684063--684187 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 63
684053 TTTATCTAAA
684063 CAAAATAATTATATTTAGTACTTATATTTACTAATTTACCAAATAAATTTTTTAATATAAAAT
1 CAAAATAATTATATTTAGTACTTATATTTACTAATTTACCAAATAAATTTTTTAATATAAAAT
684126 CAAAATAATT-TATTTAGTACTTATATTTACTAATTTACCAAATAAATTTTTTAATATAAAAT
1 CAAAATAATTATATTTAGTACTTATATTTACTAATTTACCAAATAAATTTTTTAATATAAAAT
684188 ACATTACTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 52 0.84
63 10 0.16
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (63 bp):
CAAAATAATTATATTTAGTACTTATATTTACTAATTTACCAAATAAATTTTTTAATATAAAAT
Found at i:684844 original size:2 final size:2
Alignment explanation
Indices: 684837--684861 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
684827 TCAATGTTTC
684837 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 A
684862 GTTGTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:689599 original size:13 final size:11
Alignment explanation
Indices: 689568--689613 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
689558 ATTAGTTAAA
689568 TAATATTTTAT
1 TAATATTTTAT
689579 TAATATTTTACT
1 TAATATTTTA-T
689591 TAGATA-TTTAT
1 TA-ATATTTTAT
*
689602 TATTATTTTAT
1 TAATATTTTAT
689613 T
1 T
689614 TAGAAAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 2 0.06
11 19 0.61
12 7 0.23
13 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:689600 original size:23 final size:23
Alignment explanation
Indices: 689574--689617 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
689564 TAAATAATAT
689574 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
689597 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
689618 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:700766 original size:14 final size:15
Alignment explanation
Indices: 700742--700770 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
700732 TTTTTATAAA
700742 ATTATACTTATATAT
1 ATTATACTTATATAT
700757 ATTATA-TTATATAT
1 ATTATACTTATATAT
700771 CACCATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATACTTATATAT
Found at i:701206 original size:15 final size:15
Alignment explanation
Indices: 701186--701214 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
701176 AAACATTGAA
701186 AATCCAATTCAATCC
1 AATCCAATTCAATCC
701201 AATCCAATTCAATC
1 AATCCAATTCAATC
701215 ATCCTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
AATCCAATTCAATCC
Found at i:708659 original size:11 final size:11
Alignment explanation
Indices: 708643--708669 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
708633 GGCAACTTCC
708643 AATATATATAT
1 AATATATATAT
708654 AATATATATAT
1 AATATATATAT
708665 AATAT
1 AATAT
708670 CAGTGGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATATAT
Found at i:708672 original size:157 final size:158
Alignment explanation
Indices: 708485--708801 Score: 627
Period size: 157 Copynumber: 2.0 Consensus size: 158
708475 GCCTTAAAAT
708485 AATATATATATATATATATATATAATATCAGTGGGAGTACAAATGAAGTGGGAGCTTAGGCACTG
1 AATATATATATATATATATATATAATATCAGTGGGAGTACAAATGAAGTGGGAGCTTAGGCACTG
708550 CCACAGCTTGGAGTGGACATTTTTTTGGGGTGGAGAGGCCAAAGATCTCCTCCATATCGAGATCT
66 CCACAGCTTGGAGTGGACATTTTTTTGGGGTGGAGAGGCCAAAGATCTCCTCCATATCGAGATCT
708615 TCTTTTGTCATGTTACCAGGCAACTTCC
131 TCTTTTGTCATGTTACCAGGCAACTTCC
708643 AATATATATATA-ATATATATATAATATCAGTGGGAGTACAAATGAAGTGGGAGCTTAGGCACTG
1 AATATATATATATATATATATATAATATCAGTGGGAGTACAAATGAAGTGGGAGCTTAGGCACTG
708707 CCACAGCTTGGAGTGGACATTTTTTTGGGGTGGAGAGGCCAAAGATCTCCTCCATATCGAGATCT
66 CCACAGCTTGGAGTGGACATTTTTTTGGGGTGGAGAGGCCAAAGATCTCCTCCATATCGAGATCT
708772 TCTTTTGTCATGTTACCAGGCAACTTCC
131 TCTTTTGTCATGTTACCAGGCAACTTCC
708800 AA
1 AA
708802 GTAAATCCAT
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 147 0.92
158 12 0.08
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (158 bp):
AATATATATATATATATATATATAATATCAGTGGGAGTACAAATGAAGTGGGAGCTTAGGCACTG
CCACAGCTTGGAGTGGACATTTTTTTGGGGTGGAGAGGCCAAAGATCTCCTCCATATCGAGATCT
TCTTTTGTCATGTTACCAGGCAACTTCC
Found at i:709960 original size:21 final size:22
Alignment explanation
Indices: 709934--709981 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
709924 ATTCAAAAGT
*
709934 AAAAAAAT-TTAAAA-TTCAACA
1 AAAAAAATATAAAAAGTTCAA-A
709955 AAAAAAATATAAAAAGTTCAAA
1 AAAAAAATATAAAAAGTTCAAA
709977 AAAAA
1 AAAAA
709982 TATGTGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAAATATAAAAAGTTCAAA
Found at i:712116 original size:110 final size:108
Alignment explanation
Indices: 712002--712245 Score: 310
Period size: 109 Copynumber: 2.2 Consensus size: 108
711992 CAATACACAA
* * * * *
712002 TTTTTTTACTTTGGGATATTGATGGCCGACACTAGTTTATTTAAAAAAAAATTT-TGTGGTGACC
1 TTTTTTTACTTTGGGACATTGATGGCCGACACGAGTGTATTTAAAAAAAAATTTGGGTGCTGACC
* * *
712066 ATGTAATGGCTGACATCAAGTACAATTTTTGGCTCCCAATGCATT
66 ATGTAATGGCCGACACCAAGTAC-ATTTTTGCCTCCCAATGCA-T
* ** * * * *
712111 TTTTTTTATTTTGAAACACTGATAGCTGACACGAGTGTATTTAAAAAAAAATTTGGGTGCTGGCC
1 TTTTTTTACTTTGGGACATTGATGGCCGACACGAGTGTATTTAAAAAAAAATTTGGGTGCTGACC
* *
712176 ATGTAATGGCCGACACCAAGTACATTTTTTCCTCCCAATTCAT
66 ATGTAATGGCCGACACCAAGTACATTTTTGCCTCCCAATGCAT
712219 TTTTTTTACTTTGGGACATTGATGGCC
1 TTTTTTTACTTTGGGACATTGATGGCC
712246 AGCACCACAT
Statistics
Matches: 111, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
108 22 0.20
109 61 0.55
110 28 0.25
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (108 bp):
TTTTTTTACTTTGGGACATTGATGGCCGACACGAGTGTATTTAAAAAAAAATTTGGGTGCTGACC
ATGTAATGGCCGACACCAAGTACATTTTTGCCTCCCAATGCAT
Found at i:712915 original size:89 final size:86
Alignment explanation
Indices: 712727--713044 Score: 248
Period size: 89 Copynumber: 3.6 Consensus size: 86
712717 TCAAAATAAT
* * * * *
712727 TGTATTATTTCTTTAGAATGTTTGTATTTTTTATATTTGTAAATTTAATGTAGT-TAT-TTAGGA
1 TGTATTAATT-TTTAGAATGTTTGTATTTTTTGTATCTGTAAATTTAATTTAGTGCATATT---A
* * * *
712790 TT-TAAGGTTTCATTTTTATATTTTCG
62 TTGT-A-GTTTGAATTTAAAATTTTCG
* * *
712816 TGTATTAATTTCTTAGAATATTTGTATTTTTTGTATCTGTAAATTTAATTTA-TTCTGTATTATA
1 TGTATTAATTT-TTAGAATGTTTGTATTTTTTGTATCTGTAAATTTAATTTAGTGC-ATATTAT-
712880 TGTAGTTTGAATTTAAAATTTTCG
63 TGTAGTTTGAATTTAAAATTTTCG
* * * * ** * * *
712904 TGTATTAAATTTTACCCACTGTTTGTAGTTTGTTGGGTGTTTAAGTTTAATTTAGTGCATATTAT
1 TGTATTAATTTTTA--GAATGTTTGTA-TTTTTTGTATCTGTAAATTTAATTTAGTGCATATTAT
* * * * *
712969 TTTTGTTTGAATTTTATATTTTTG
63 TGTAGTTTGAATTTAAAATTTTCG
712993 TGTATTAATTTTGTAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATTT
1 TGTATTAATTTT-TAGAATGTTTGTATTTT-TTGTATCTGTAAATTTAATTT
713045 TTTGTTCGAA
Statistics
Matches: 180, Mismatches: 37, Indels: 25
0.74 0.15 0.10
Matches are distributed among these distances:
87 6 0.03
88 55 0.31
89 85 0.47
90 30 0.17
91 4 0.02
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.57
Consensus pattern (86 bp):
TGTATTAATTTTTAGAATGTTTGTATTTTTTGTATCTGTAAATTTAATTTAGTGCATATTATTGT
AGTTTGAATTTAAAATTTTCG
Found at i:713076 original size:14 final size:14
Alignment explanation
Indices: 713054--713084 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
713044 TTTTGTTCGA
*
713054 ATTATATATTTTTT
1 ATTAAATATTTTTT
713068 ATTAAATATTTTTT
1 ATTAAATATTTTTT
713082 ATT
1 ATT
713085 CATTTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTAAATATTTTTT
Found at i:714254 original size:5 final size:5
Alignment explanation
Indices: 714244--714278 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
714234 AAAAAATGAG
714244 TATAC TATAC TATAC TATAC TATAC TATAC TATAC
1 TATAC TATAC TATAC TATAC TATAC TATAC TATAC
714279 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAC
Found at i:715514 original size:12 final size:11
Alignment explanation
Indices: 715483--715523 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
715473 TTTTTTTCTT
*
715483 ATTTTATTT-C
1 ATTTCATTTCC
715493 ATTTCATTTCC
1 ATTTCATTTCC
715504 ATTTCCATTTCC
1 ATTT-CATTTCC
715516 A-TTCATTT
1 ATTTCATTT
715524 AATTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 13 0.46
11 7 0.25
12 8 0.29
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTCATTTCC
Found at i:715574 original size:22 final size:20
Alignment explanation
Indices: 715526--715577 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
715516 ATTCATTTAA
715526 TTTTTT-TTTCCATTTAAAT
1 TTTTTTATTTCCATTTAAAT
**
715545 TTAATTATTTCTCATTTAAAAT
1 TTTTTTATTTC-CATTT-AAAT
715567 TTTTTTATTTC
1 TTTTTTATTTC
715578 AGTTGTAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 5 0.19
22 13 0.50
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTATTTCCATTTAAAT
Found at i:716087 original size:17 final size:17
Alignment explanation
Indices: 716038--716482 Score: 234
Period size: 18 Copynumber: 24.8 Consensus size: 17
716028 NNNNNNNNNN
716038 TTTT-AAAACACGAGAAT
1 TTTTGAAAACACGA-AAT
* *
716055 TTTAG-AGACACGGAAAT
1 TTTTGAAAACAC-GAAAT
716072 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
716090 TTTTGAAAACACGACAA-
1 TTTTGAAAACACGA-AAT
716107 TTTTG-AAACACGCAAATTT
1 TTTTGAAAACACG-AAA--T
* **
716126 TTTTGAAAACCCGATTT
1 TTTTGAAAACACGAAAT
* *
716143 TTTTG-AAGCGCGAAA-
1 TTTTGAAAACACGAAAT
*
716158 ATTTGTAAAACACGAGAAT
1 TTTTG-AAAACACGA-AAT
*
716177 TGTTGAAAACACGCAAAT
1 TTTTGAAAACACG-AAAT
716195 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
* *
716213 TTTTG-AAACATGAAAA
1 TTTTGAAAACACGAAAT
*
716229 TTTT-AGAAACATGGAAAT
1 TTTTGA-AAACA-CGAAAT
* *
716247 TTTTAGAAGACACGAAAAA
1 TTTT-GAAAACACG-AAAT
* *
716266 TTTTGAAAA-ATGGAATT
1 TTTTGAAAACA-CGAAAT
*
716283 TTTTGAAAACACGGGAAT
1 TTTTGAAAACAC-GAAAT
*
716301 TTTTGAAAACACGGGAATTTT
1 TTTTGAAAACAC--GAA--AT
716322 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
**
716340 TTTT-AAAACATAAAATTAT
1 TTTTGAAAACA-CGAA--AT
716359 ATTTTGAAAACACGAAGAT
1 -TTTTGAAAACACGAA-AT
*
716378 TTTTG-AAACATGAGAAT
1 TTTTGAAAACACGA-AAT
*
716395 TTTTGAAAACA-GGAAT
1 TTTTGAAAACACGAAAT
***
716411 TTAAAAAAAAAACACGGAAAT
1 TT---TTGAAAACAC-GAAAT
716432 TTTTGAAAGACGA-GAAATTT
1 TTTTGAAA-AC-ACGAAA--T
716452 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACG-AAAT
716470 TTTTG-AAACACGA
1 TTTTGAAAACACGA
716483 TTTTTTTTAA
Statistics
Matches: 333, Mismatches: 49, Indels: 93
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.01
16 28 0.08
17 88 0.26
18 120 0.36
19 40 0.12
20 28 0.08
21 25 0.08
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAT
Found at i:716356 original size:16 final size:18
Alignment explanation
Indices: 716038--716482 Score: 292
Period size: 17 Copynumber: 24.8 Consensus size: 18
716028 NNNNNNNNNN
*
716038 TTTT-AAAACACGAGAAT
1 TTTTGAAAACACGAAAAT
* * *
716055 TTTAG-AGACACGGAAAT
1 TTTTGAAAACACGAAAAT
716072 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
716090 TTTTGAAAACACGACAA-
1 TTTTGAAAACACGAAAAT
*
716107 TTTTG-AAACACGCAAATTT
1 TTTTGAAAACACG-AAA-AT
* **
716126 TTTTGAAAACCCG-ATTT
1 TTTTGAAAACACGAAAAT
* *
716143 TTTTG-AAGCGCGAAAAT
1 TTTTGAAAACACGAAAAT
* *
716160 TTGT-AAAACACGAGAAT
1 TTTTGAAAACACGAAAAT
* *
716177 TGTTGAAAACACGCAAAT
1 TTTTGAAAACACGAAAAT
716195 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
716213 TTTTG-AAACATGAAAAT
1 TTTTGAAAACACGAAAAT
* * *
716230 TTTAG-AAACATGGAAAT
1 TTTTGAAAACACGAAAAT
* *
716247 TTTTAGAAGACACGAAAAA
1 TTTT-GAAAACACGAAAAT
* * *
716266 TTTTGAAAA-ATGGAATT
1 TTTTGAAAACACGAAAAT
**
716283 TTTTGAAAACACGGGAAT
1 TTTTGAAAACACGAAAAT
**
716301 TTTTGAAAACACGGGAATTTT
1 TTTTGAAAACAC--GAA-AAT
716322 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
**
716340 TTTT-AAAACATAAAATTAT
1 TTTTGAAAACACGAAA--AT
*
716359 ATTTTGAAAACACGAAGAT
1 -TTTTGAAAACACGAAAAT
* *
716378 TTTTG-AAACATGAGAAT
1 TTTTGAAAACACGAAAAT
*
716395 TTTTGAAAACA-G-GAAT
1 TTTTGAAAACACGAAAAT
*** *
716411 TTAAAAAAAAAACACGGAAAT
1 TT---TTGAAAACACGAAAAT
*
716432 TTTTGAAAGACGA-GAAATTT
1 TTTTGAAA-AC-ACGAAA-AT
716452 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
716470 TTTTG-AAACACGA
1 TTTTGAAAACACGA
716483 TTTTTTTTAA
Statistics
Matches: 333, Mismatches: 66, Indels: 58
0.73 0.14 0.13
Matches are distributed among these distances:
16 18 0.05
17 120 0.36
18 106 0.32
19 41 0.12
20 22 0.07
21 26 0.08
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:717009 original size:16 final size:16
Alignment explanation
Indices: 716988--717027 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
716978 GACTCGAGCC
716988 TTCCTTTTTTTCCTTT
1 TTCCTTTTTTTCCTTT
*
717004 TTCCTTTTTTTTCTTT
1 TTCCTTTTTTTCCTTT
717020 TTCTCTTT
1 TTC-CTTT
717028 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCCTTTTTTTCCTTT
Found at i:717031 original size:29 final size:32
Alignment explanation
Indices: 716996--717067 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 32
716986 CCTTCCTTTT
716996 TTTCCTTTTTCCTTT-T-TTTTCTTTTTCT-C
1 TTTCCTTTTTCCTTTCTCTTTTCTTTTTCTAC
*
717025 TTTCCTTTTT--TTTCTCTTTTCTTTTTTTAC
1 TTTCCTTTTTCCTTTCTCTTTTCTTTTTCTAC
717055 -TT-CTTTTTCCTTT
1 TTTCCTTTTTCCTTT
717068 GGCCTGCTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 3 0.08
28 7 0.19
29 23 0.62
30 4 0.11
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTCCTTTTTCCTTTCTCTTTTCTTTTTCTAC
Found at i:717036 original size:16 final size:16
Alignment explanation
Indices: 717017--717052 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
717007 CTTTTTTTTC
717017 TTTTTCTCTTTCCTTT
1 TTTTTCTCTTTCCTTT
*
717033 TTTTTCTCTTTTCTTT
1 TTTTTCTCTTTCCTTT
717049 TTTT
1 TTTT
717053 ACTTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTCTTTCCTTT
Found at i:717037 original size:17 final size:17
Alignment explanation
Indices: 717012--717067 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
717002 TTTTCCTTTT
717012 TTTTCTTTTTCTCTTTCC
1 TTTT-TTTTTCTCTTTCC
*
717030 -TTTTTTTTCTCTTTTC
1 TTTTTTTTTCTCTTTCC
*
717046 TTTTTTTACTTCTTTTTCC
1 TTTTTTT--TTCTCTTTCC
717065 TTT
1 TTT
717068 GGCCTGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 12 0.38
17 9 0.28
19 11 0.34
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCTCTTTCC
Found at i:717045 original size:23 final size:22
Alignment explanation
Indices: 716994--717046 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 22
716984 AGCCTTCCTT
*
716994 TTTTTCCTTTTTCCTTTTTTTTC
1 TTTTT-CTCTTTCCTTTTTTTTC
717017 TTTTTCTCTTTCCTTTTTTTTC
1 TTTTTCTCTTTCCTTTTTTTTC
717039 TCTTTTCT
1 T-TTTTCT
717047 TTTTTTACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCTCTTTCCTTTTTTTTC
Found at i:717330 original size:11 final size:10
Alignment explanation
Indices: 717316--717369 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
717306 ATTTTTTTCC
717316 CTTTTTTATTT
1 CTTTTTT-TTT
717327 CTTTTTTCTTT
1 CTTTTTT-TTT
*
717338 CTCTTTTTCTT
1 CT-TTTTTTTT
717349 CTTTTTTTTT
1 CTTTTTTTTT
*
717359 CTTCTTTTTT
1 CTTTTTTTTT
717369 C
1 C
717370 CTTATTTCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 17 0.45
11 16 0.42
12 5 0.13
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:717344 original size:22 final size:22
Alignment explanation
Indices: 717325--717396 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
717315 CCTTTTTTAT
717325 TTCTTTTTTCTTTC-TCTTTTTC
1 TTCTTTTTT-TTTCTTCTTTTTC
717347 TTCTTTTTTTTTCTTCTTTTT-
1 TTCTTTTTTTTTCTTCTTTTTC
*
717368 TCCTTATTTCCTTTT-TTCTTTTTC
1 TTCTT-TTT--TTTTCTTCTTTTTC
717392 TTCTT
1 TTCTT
717397 CGGGCTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.19
22 19 0.44
23 8 0.19
24 8 0.19
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTTTTTTTTCTTCTTTTTC
Found at i:717390 original size:32 final size:32
Alignment explanation
Indices: 717309--717396 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
717299 CTGTGATATT
* * *
717309 TTTTTCCCTTTTTTATTTCTTTTTTCTTTCTC
1 TTTTTCCTTTTTTTTTTTCTTCTTTCTTTCTC
717341 TTTTT-CTTCTTTTTTTTTCTTCTTT-TTTC-C
1 TTTTTCCTT-TTTTTTTTTCTTCTTTCTTTCTC
717371 TTATTTCCTTTTTTCTTTTTCTTCTT
1 TT-TTTCCTTTTTT-TTTTTCTTCTT
717397 CGGGCTGAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
30 3 0.06
31 13 0.27
32 33 0.67
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTTCCTTTTTTTTTTTCTTCTTTCTTTCTC
Found at i:717396 original size:35 final size:35
Alignment explanation
Indices: 717325--717397 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
717315 CCTTTTTTAT
* *
717325 TTCTTTTTTCTTTCTCTTTTTCTTCTTTTTTTTTC
1 TTCTTTTTTCTTTCTCCTTTTCTTCTTTTTTCTTC
*
717360 TTCTTTTTTCCTTATTTCCTTTT-TTC-TTTTTCTTC
1 TTCTTTTTT-CTT-TCTCCTTTTCTTCTTTTTTCTTC
717395 TTC
1 TTC
717398 GGGCTGAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.61
36 6 0.18
37 7 0.21
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (35 bp):
TTCTTTTTTCTTTCTCCTTTTCTTCTTTTTTCTTC
Found at i:717519 original size:21 final size:22
Alignment explanation
Indices: 717495--717541 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
717485 TCTCTCTCTC
717495 TTTTCTTTCTTCTCTT-CTTCA
1 TTTTCTTTCTTCTCTTCCTTCA
* *
717516 TTTTTTTTCTTCTCTTCCTTCT
1 TTTTCTTTCTTCTCTTCCTTCA
717538 TTTT
1 TTTT
717542 GGCTGCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTCTTTCTTCTCTTCCTTCA
Found at i:717540 original size:18 final size:17
Alignment explanation
Indices: 717475--717541 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
717465 GCGCCTCCCT
* *
717475 TCTCTTCC-TCTCTCTC
1 TCTCTTCCTTCTTTTTC
717491 TCTCTT--TTCTTTCTTC
1 TCTCTTCCTTCTTT-TTC
* *
717507 TCTTCTTCATTTTTTTTC
1 TC-TCTTCCTTCTTTTTC
717525 TTCTCTTCCTTCTTTTT
1 -TCTCTTCCTTCTTTTT
717542 GGCTGCTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 4 0.10
16 10 0.25
17 4 0.10
18 15 0.38
19 7 0.17
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTCTTCCTTCTTTTTC
Found at i:718066 original size:29 final size:29
Alignment explanation
Indices: 717968--718082 Score: 115
Period size: 30 Copynumber: 3.9 Consensus size: 29
717958 TAATTTTGAG
*
717968 AAAA-TTTAGGGGTCAAAATATAATTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTCA
* * * * *
717996 AGAAGTTGATGGGCCAAAATGTAATTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTCA
* * *
718025 GGAAAGTTTAGGGGTGAAAATGCAATTTCA
1 -AAAAGTTTAGGGGTCAAAATGTAATTTCA
*
718055 AAAAGTTTAGGGGGTCAAAATATAATTT
1 AAAAGTTTA-GGGGTCAAAATGTAATTT
718083 TTTATTTTTG
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
28 3 0.05
29 27 0.41
30 36 0.55
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTCA
Found at i:718462 original size:81 final size:78
Alignment explanation
Indices: 718272--718491 Score: 307
Period size: 81 Copynumber: 2.8 Consensus size: 78
718262 AAATTGAAAG
* * * * *
718272 TATCTCGGCGTGTAGCCCGAGGCTCAACTCACCTCTAGCATTATGAGTTTATTTATG-AAAAACA
1 TATCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
*
718336 GAAATTTAAAAGA
66 GAAATTTAAAAAA
* *** *
718349 TACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
1 TATCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
718414 GAAATTTAAAAAAAAA
66 GAAATTT---AAAAAA
718430 TATCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 TATCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
718492 NNNNNNNNNN
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 47 0.38
78 14 0.11
81 62 0.50
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (78 bp):
TATCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
GAAATTTAAAAAA
Found at i:718888 original size:80 final size:79
Alignment explanation
Indices: 718731--719459 Score: 912
Period size: 80 Copynumber: 9.1 Consensus size: 79
718721 NNNNNNNNNA
* *
718731 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCAGAGGCTCAACTCA--TCTCTGTAATAT
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTC-GCAATAT
718794 GAGTTGATTTTTTTTTG
65 GAGTTGA--TTTTTTTG
* **
718811 AAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCAAAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACTTCTCGCAATA
*
718876 TGAGTTGATTTTTTGG
64 TGAGTTGATTTTTTTG
* * *
718892 AAAAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCT-GTAAT
1 ---AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAAT
718956 ATGAGTTGATTTTTTTTTG
63 ATGAGTTGA--TTTTTTTG
* * * *
718975 AAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCT-GTAATATG
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATG
719039 AGTTGATTTTTTTTG
66 AGTTGA-TTTTTTTG
*
719054 AAAAACAGAGATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTCGCAATA
*
719119 TGAGTTGA-TTTTTCG
64 TGAGTTGATTTTTTTG
* * ** *
719134 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGATTCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATG
719199 AGTTGATTTTTTTTTG
66 AGTTGA--TTTTTTTG
* * *
719215 AAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCTGAGGCTCAACTCA--TCTCTGTAATAT
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTC-GCAATAT
719278 GAGTTGATTTTTTTTTG
65 GAGTTGA--TTTTTTTG
*
719295 AAAAATAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTCGCAATA
*
719360 TGAGTTGA-TTTTTCG
64 TGAGTTGATTTTTTTG
* *
719375 AAAAACAGAAATTT---A-AAATACCTCAGTGTGCGACCCAAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCACTTCTCGCAATA
719436 TGAGTTGA--TTTTTG
64 TGAGTTGATTTTTTTG
719450 -AAAACAGAAA
1 AAAAACAGAAA
719460 ATGAAAAATA
Statistics
Matches: 588, Mismatches: 39, Indels: 50
0.87 0.06 0.07
Matches are distributed among these distances:
74 12 0.02
75 5 0.01
76 48 0.08
77 1 0.00
78 36 0.06
79 42 0.07
80 209 0.36
81 93 0.16
82 70 0.12
83 32 0.05
84 40 0.07
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (79 bp):
AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCAATATG
AGTTGATTTTTTTG
Found at i:719157 original size:159 final size:157
Alignment explanation
Indices: 718731--719448 Score: 934
Period size: 159 Copynumber: 4.5 Consensus size: 157
718721 NNNNNNNNNA
*
718731 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCAGAGGCTCAACTCA-TCTCTGTAATATG
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTCTC-GTAATATG
718795 AGTTGATTTTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAA
65 AGTTGA--TTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAA
* ** *
718860 CTCACTTCTCAAAATATGAGTTGATTTTTTGG
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
718892 AAAAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCAACTCAC-CTCTGTAAT
1 ---AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTCTC-GTAAT
*
718956 ATGAGTTGATTTTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCCGATGCTCA
62 ATGAGTTGA--TTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCA
*
719021 ACTCACCTCT-GTAATATGAGTTGATTTTTTTTG
125 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
* *
719054 AAAAACAGAGATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGC--GTGACCCGAGGCTCAACTCAC-TCTCGTAATA
* * * * **
719119 TGAGTTGA-TTTTTCGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGATTCGAGGCTCAACT
63 TGAGTTGATTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACT
719183 CACCTCTCGCAATATGAGTTGATTTTTTTTTG
128 CACCTCTCGCAATATGAGTTGA--TTTTTTTG
* *
719215 AAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCTGAGGCTCAACTCA-TCTCTGTAATATG
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTCTC-GTAATATG
719279 AGTTGATTTTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGTGACCCGAGGCTCAA
65 AGTTGA--TTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGC--GTGACCCGAGGCTCAA
* *
719344 CTCACTTCTCGCAATATGAGTTGA-TTTTTCG
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * *
719375 AAAAACAGAAATTT---A-AAATACCTCAGTGTGCGACCCAAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCAC-TCTCGTAATA
719436 TGAGTTGATTTTT
63 TGAGTTGATTTTT
719449 GAAAACAGAA
Statistics
Matches: 501, Mismatches: 35, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
156 13 0.03
157 10 0.02
158 29 0.06
159 118 0.24
160 36 0.07
161 105 0.21
162 41 0.08
163 39 0.08
164 110 0.22
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (157 bp):
AAAAACAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCACTCTCGTAATATGA
GTTGATTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGACCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTG
Found at i:720354 original size:1 final size:1
Alignment explanation
Indices: 720350--720453 Score: 91
Period size: 1 Copynumber: 104.0 Consensus size: 1
720340 ATTTTTCTTC
** * * * * * *
720350 TTTTTTTTTACTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
720415 TGTTTTTTTTGTTTTTTTGTTGTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
720454 AGGCATAATA
Statistics
Matches: 78, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:720372 original size:8 final size:8
Alignment explanation
Indices: 720370--720451 Score: 121
Period size: 8 Copynumber: 9.9 Consensus size: 8
720360 CTTTTTTGTT
720370 TTTTTTTG
1 TTTTTTTG
720378 TTTTTTTG
1 TTTTTTTG
720386 TTTTTTTG
1 TTTTTTTG
720394 TTTTTTTG
1 TTTTTTTG
720402 TTTTTTTG
1 TTTTTTTG
720410 -TTTTTTG
1 TTTTTTTG
720417 TTTTTTTTG
1 -TTTTTTTG
720426 TTTTTTTGTTG
1 --TTTTT-TTG
720437 TTTTTTTG
1 TTTTTTTG
720445 TTTTTTT
1 TTTTTTT
720452 TTAGGCATAA
Statistics
Matches: 70, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.10
8 42 0.60
9 12 0.17
10 6 0.09
11 3 0.04
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:720389 original size:24 final size:23
Alignment explanation
Indices: 720362--720453 Score: 132
Period size: 24 Copynumber: 3.9 Consensus size: 23
720352 TTTTTTTACT
720362 TTTTTGTTTTTTTTTGTTTTTTTG
1 TTTTT-TTTTTTTTTGTTTTTTTG
720386 TTTTTTTGTTTTTTTGTTTTTTTG
1 TTTTTTT-TTTTTTTGTTTTTTTG
720410 TTTTTTGTTTTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTTGTTTTTTTG
* *
720434 TTGTTTTTTTGTTT-TTTTTT
1 TTTTTTTTTTTTTTGTTTTTT
720454 AGGCATAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
22 6 0.09
23 9 0.14
24 48 0.75
25 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (23 bp):
TTTTTTTTTTTTTTGTTTTTTTG
Found at i:720453 original size:32 final size:30
Alignment explanation
Indices: 720361--720453 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 30
720351 TTTTTTTTAC
*
720361 TTTTTTGTTTTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTGTTTTTTTGTTTTT
720391 TTGTTTTTTTGTTTTTTTG-TTTTTTG--TTT
1 TT-TTTTTTT-TTTTTTTGTTTTTTTGTTTTT
* *
720420 TTTTTGTTTTTTTGTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTGTTTTTTTGTTTTT
720450 TTTT
1 TTTT
720454 AGGCATAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
27 7 0.13
28 13 0.24
29 5 0.09
30 9 0.16
31 13 0.24
32 8 0.15
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (30 bp):
TTTTTTTTTTTTTTTTGTTTTTTTGTTTTT
Found at i:726504 original size:18 final size:17
Alignment explanation
Indices: 726468--726530 Score: 90
Period size: 17 Copynumber: 3.5 Consensus size: 17
726458 TTCGCTCCTC
726468 ATAGATTTTTTACTGTA
1 ATAGATTTTTTACTGTA
726485 ATAGATTTTTTACTGCTA
1 ATAGATTTTTTACTG-TA
726503 ATAGATTTTTATTCACTGTA
1 ATAGA-TTTT-TT-ACTGTA
726523 ATAGATTT
1 ATAGATTT
726531 CATTAATTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.36
18 7 0.17
19 7 0.17
20 9 0.21
21 4 0.10
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (17 bp):
ATAGATTTTTTACTGTA
Found at i:729799 original size:9 final size:9
Alignment explanation
Indices: 729785--729834 Score: 91
Period size: 9 Copynumber: 5.6 Consensus size: 9
729775 TTGCAAAAAG
729785 GACGATGAC
1 GACGATGAC
729794 GACGATGAC
1 GACGATGAC
*
729803 GAAGATGAC
1 GACGATGAC
729812 GACGATGAC
1 GACGATGAC
729821 GACGATGAC
1 GACGATGAC
729830 GACGA
1 GACGA
729835 GGTTTCTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.34, T:0.10
Consensus pattern (9 bp):
GACGATGAC
Found at i:730777 original size:16 final size:16
Alignment explanation
Indices: 730756--730797 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
730746 AATAATTTGA
*
730756 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
730772 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
730788 TAGTTTTAAT
1 TAATTTTAAT
730798 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:732287 original size:18 final size:17
Alignment explanation
Indices: 732260--732630 Score: 230
Period size: 18 Copynumber: 20.9 Consensus size: 17
732250 TTTTATTTTT
732260 ATTTTT-AAACACGAAAA
1 ATTTTTAAAACACG-AAA
*
732277 ATTTTTAAAACACGAGA
1 ATTTTTAAAACACGAAA
*
732294 A-TTTTAGAGACACGAAA
1 ATTTTTA-AAACACGAAA
*
732311 ATTATTAAAACACGAAA
1 ATTTTTAAAACACGAAA
*
732328 ATTTTTGAAAACACGACA
1 ATTTTT-AAAACACGAAA
* * **
732346 ATTTTGAAACACGCGATT
1 ATTTTTAAA-ACACGAAA
* * *
732364 TTTTTTGAAAACCCG-AT
1 ATTTTT-AAAACACGAAA
* * * *
732381 TTTTTTGAAGCGCGAAA
1 ATTTTTAAAACACGAAA
* *
732398 ATTTGTAAAACACGAGA
1 ATTTTTAAAACACGAAA
* *
732415 ATTGTTGAAAACACGCAA
1 ATT-TTTAAAACACGAAA
732433 ATTTTTGAAAACACGAAA
1 ATTTTT-AAAACACGAAA
*
732451 ATTTTTGAAACACGAAA
1 ATTTTTAAAACACGAAA
* *
732468 A-TTTTAGAAACATGGAA
1 ATTTTTA-AAACACGAAA
732485 ATTTTTAGAAGACACGAAAA
1 ATTTTTA-AA-ACACG-AAA
* * *
732505 ATTTTGAAAA-ATGGAA
1 ATTTTTAAAACACGAAA
* **
732521 TTTTTTGAAAACACGGGA
1 ATTTTT-AAAACACGAAA
732539 ATTTTTGAAAACACGGGAAA
1 ATTTTT-AAAACAC--GAAA
*
732559 TTTTTTTGAAAACACGAAA
1 -ATTTTT-AAAACACGAAA
* *
732578 ATTTTTGAAAGACGAGAA
1 ATTTTTAAAACACGA-AA
732596 ATTTTTTTGAAAACACGAAA
1 A--TTTTT-AAAACACGAAA
*
732616 ATTTTTGAAACACGA
1 ATTTTTAAAACACGA
732631 TTTTTTTTAA
Statistics
Matches: 278, Mismatches: 54, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
16 20 0.07
17 100 0.36
18 107 0.38
19 13 0.05
20 18 0.06
21 20 0.07
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (17 bp):
ATTTTTAAAACACGAAA
Found at i:732438 original size:53 final size:52
Alignment explanation
Indices: 732381--732504 Score: 126
Period size: 53 Copynumber: 2.3 Consensus size: 52
732371 AAAACCCGAT
* *
732381 TTTTTTGAAGCGCGAAAATTTGTAAAACACGAGAATTGTT-GAAAACACGCAAA
1 TTTTTTGAAGCACGAAAATTTGTAAAACACGAAAATT-TTAG-AAACACGCAAA
* * * * *
732434 -TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTAGAAACATGGAAA
1 TTTTTTG-AAGCACGAAAATTTGTAAAACACGAAAATTTTAGAAACACGCAAA
*
732486 TTTTTAGAAGACACGAAAA
1 TTTTTTGAAG-CACGAAAA
732505 ATTTTGAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
52 19 0.33
53 39 0.67
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (52 bp):
TTTTTTGAAGCACGAAAATTTGTAAAACACGAAAATTTTAGAAACACGCAAA
Found at i:732445 original size:36 final size:36
Alignment explanation
Indices: 732266--732630 Score: 272
Period size: 35 Copynumber: 10.2 Consensus size: 36
732256 TTTTATTTTT
* * *
732266 AAACACGAAAAATTTTT-AAAACACGAGAATTTTAG-
1 AAACACG-AGAATTTTTGAAAACACGAAAATTTTTGA
* * *
732301 AGACACGAAAATTATT-AAAACACGAAAATTTTTGA
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGA
* * ***
732336 AAACACGACAA-TTTTGAAACACGCGATTTTTTTTGA
1 AAACACGAGAATTTTTGAAA-ACACGAAAATTTTTGA
* ** * * *
732372 AAACCCGA-TTTTTTTG-AAGCGCGAAAATTTGT-A
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGA
* *
732405 AAACACGAGAATTGTTGAAAACACGCAAATTTTTGA
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGA
* *
732441 AAACACGAAAATTTTTG-AAACACGAAAATTTTAG-
1 AAACACGAGAATTTTTGAAAACACGAAAATTTTTGA
* * *
732475 AAACATG-GAAATTTTTAGAAGACACGAAAAATTTTGA
1 AAACACGAG-AATTTTT-GAAAACACGAAAATTTTTGA
* **
732512 AAA-ATG-GAATTTTTTGAAAACACGGGAATTTTTGA
1 AAACACGAGAA-TTTTTGAAAACACGAAAATTTTTGA
*
732547 AAACACGGGAAATTTTTTTGAAAACACGAAAATTTTTG-
1 AAACACGAG-AA--TTTTTGAAAACACGAAAATTTTTGA
*
732585 AAAGACGAGAAATTTTTTTGAAAACACGAAAATTTTTG-
1 AAACACGAG-AA--TTTTTGAAAACACGAAAATTTTTGA
732623 AAACACGA
1 AAACACGA
732631 TTTTTTTTAA
Statistics
Matches: 268, Mismatches: 46, Indels: 29
0.78 0.13 0.08
Matches are distributed among these distances:
33 8 0.03
34 54 0.20
35 69 0.26
36 65 0.24
37 4 0.01
38 45 0.17
39 23 0.09
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.29
Consensus pattern (36 bp):
AAACACGAGAATTTTTGAAAACACGAAAATTTTTGA
Found at i:732541 original size:19 final size:18
Alignment explanation
Indices: 732266--732630 Score: 295
Period size: 17 Copynumber: 20.4 Consensus size: 18
732256 TTTTATTTTT
732266 AAACACGAAAAATTTTT-A
1 AAACACG-AAAATTTTTGA
* *
732284 AAACACGAGAATTTTAG-
1 AAACACGAAAATTTTTGA
* *
732301 AGACACGAAAATTATT-A
1 AAACACGAAAATTTTTGA
732318 AAACACGAAAATTTTTGA
1 AAACACGAAAATTTTTGA
*
732336 AAACACGACAA-TTTTGA
1 AAACACGAAAATTTTTGA
* ***
732353 AACACGCGATTTTTTTTGA
1 AA-ACACGAAAATTTTTGA
* **
732372 AAACCCG-ATTTTTTTG-
1 AAACACGAAAATTTTTGA
* * *
732388 AAGCGCGAAAATTTGT-A
1 AAACACGAAAATTTTTGA
* *
732405 AAACACGAGAATTGTTGA
1 AAACACGAAAATTTTTGA
*
732423 AAACACGCAAATTTTTGA
1 AAACACGAAAATTTTTGA
732441 AAACACGAAAATTTTTG-
1 AAACACGAAAATTTTTGA
*
732458 AAACACGAAAATTTTAG-
1 AAACACGAAAATTTTTGA
* *
732475 AAACATGGAAATTTTTAGA
1 AAACACGAAAATTTTT-GA
* *
732494 AGACACGAAAAATTTTGA
1 AAACACGAAAATTTTTGA
* * *
732512 AAA-ATGGAATTTTTTGA
1 AAACACGAAAATTTTTGA
**
732529 AAACACGGGAATTTTTGA
1 AAACACGAAAATTTTTGA
*
732547 AAACACGGGAAATTTTTTTGA
1 AAACAC--GAAA-ATTTTTGA
732568 AAACACGAAAATTTTTGA
1 AAACACGAAAATTTTTGA
*
732586 AAGACGA-GAAATTTTTTTGA
1 AA-AC-ACGAAA-ATTTTTGA
732606 AAACACGAAAATTTTTG-
1 AAACACGAAAATTTTTGA
732623 AAACACGA
1 AAACACGA
732631 TTTTTTTTAA
Statistics
Matches: 278, Mismatches: 51, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
16 5 0.02
17 115 0.41
18 97 0.35
19 36 0.13
20 12 0.04
21 13 0.05
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AAACACGAAAATTTTTGA
Found at i:733154 original size:7 final size:6
Alignment explanation
Indices: 733142--733215 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 6
733132 AGCCTTCCTT
*
733142 TTTTTCC TTTTTCC TTTTT- TTTTTC TTTTTC TCTTTCC TTTTT- TTTTTC
1 TTTTT-C TTTTT-C TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC
*
733191 TCTTTTC TTTTT- TTACTTC TTTTTC
1 T-TTTTC TTTTTC TT-TTTC TTTTTC
733216 CTTTGGCCTG
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
5 12 0.21
6 20 0.35
7 25 0.44
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:733164 original size:19 final size:19
Alignment explanation
Indices: 733140--733203 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
733130 CGAGCCTTCC
*
733140 TTTTTTTCCTTTTTC-CTT
1 TTTTTTTTCTTTTTCTCTT
733158 TTTTTTTTCTTTTTCTCTT
1 TTTTTTTTCTTTTTCTCTT
**
733177 TCCTTTTT-TTTTTCTCTT
1 TTTTTTTTCTTTTTCTCTT
733195 TTCTTTTTT
1 TT-TTTTTT
733204 TACTTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTTCTTTTTCTCTT
Found at i:733178 original size:24 final size:24
Alignment explanation
Indices: 733142--733198 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
733132 AGCCTTCCTT
*
733142 TTTTTCCTTTTTCCTTTTTTTTTTC
1 TTTTT-CTCTTTCCTTTTTTTTTTC
733167 TTTTTCTCTTTCCTTTTTTTTTTC
1 TTTTTCTCTTTCCTTTTTTTTTTC
733191 TCTTTTCT
1 T-TTTTCT
733199 TTTTTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCTCTTTCCTTTTTTTTTTC
Found at i:733180 original size:31 final size:34
Alignment explanation
Indices: 733144--733219 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 34
733134 CCTTCCTTTT
733144 TTTCCTTTTTCCTTTTT-T-TTTTCTTTTTCT-C
1 TTTCCTTTTTCCTTTTTCTCTTTTCTTTTTCTAC
*
733175 TTTCCTTTTT--TTTTTCTCTTTTCTTTTTTTAC
1 TTTCCTTTTTCCTTTTTCTCTTTTCTTTTTCTAC
733207 -TT-CTTTTTCCTTT
1 TTTCCTTTTTCCTTT
733220 GGCCTGCTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 5 0.13
30 7 0.18
31 23 0.59
32 4 0.10
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTCCTTTTTCCTTTTTCTCTTTTCTTTTTCTAC
Found at i:733197 original size:43 final size:41
Alignment explanation
Indices: 733140--733219 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
733130 CGAGCCTTCC
*
733140 TTTTTTTCCTTTTTCCTTTTTTT-TTTCTTTTTCTCTTTCCTT
1 TTTTTTTCCTTTTT-CTTTTTTTACTTCTTTTTC-CTTTCCTT
*
733182 TTTTTTTTCTCTTTTCTTTTTTTACTTCTTTTTCCTTT
1 TTTTTTTCCT-TTTTCTTTTTTTACTTCTTTTTCCTTT
733220 GGCCTGCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (41 bp):
TTTTTTTCCTTTTTCTTTTTTTACTTCTTTTTCCTTTCCTT
Found at i:733214 original size:18 final size:18
Alignment explanation
Indices: 733155--733215 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
733145 TTCCTTTTTC
* *
733155 CTTTTTTTTTTCTTTTTCT
1 CTTTTCTTTTT-TTCTTCT
* *
733174 CTTTCCTTTTTTTTTTCT
1 CTTTTCTTTTTTTCTTCT
733192 CTTTTCTTTTTTTACTTCT
1 CTTTTCTTTTTTT-CTTCT
733211 -TTTTC
1 CTTTTC
733216 CTTTGGCCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 24 0.65
19 13 0.35
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTCTTTTTTTCTTCT
Found at i:733219 original size:19 final size:18
Alignment explanation
Indices: 733142--733219 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
733132 AGCCTTCCTT
*
733142 TTTTTCC-TTTTTCCTT-
1 TTTTTCCTTTTTTTCTTC
*
733158 TTTTT--TTTCTTT-TTC
1 TTTTTCCTTTTTTTCTTC
* *
733173 TCTTTCCTTTTTTTTTTC
1 TTTTTCCTTTTTTTCTTC
733191 TCTTTT-CTTTTTTTACTTC
1 T-TTTTCCTTTTTTT-CTTC
733210 TTTTTCCTTT
1 TTTTTCCTTT
733220 GGCCTGCTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.04
15 8 0.17
16 5 0.10
17 6 0.12
18 16 0.33
19 11 0.23
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCCTTTTTTTCTTC
Found at i:733295 original size:33 final size:33
Alignment explanation
Indices: 733234--733328 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
733224 TGCTACAGAT
* *
733234 TGGGCCTGGGACTGCTGGGCCTGATGCTGGTGCGC
1 TGGGCCTGGG-C-GCTCGGCCTGCTGCTGGTGCGC
733269 TGGGCCTGGGCGCTCGGCCTGCTGCTGGTGCGC
1 TGGGCCTGGGCGCTCGGCCTGCTGCTGGTGCGC
*
733302 TGGGCCTGGGCGCTCGGCGTGCTGCTG
1 TGGGCCTGGGCGCTCGGCCTGCTGCTG
733329 CACCTGCTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 46 0.81
34 1 0.02
35 10 0.18
ACGTcount: A:0.02, C:0.29, G:0.46, T:0.22
Consensus pattern (33 bp):
TGGGCCTGGGCGCTCGGCCTGCTGCTGGTGCGC
Found at i:733307 original size:20 final size:20
Alignment explanation
Indices: 733247--733309 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
733237 GCCTGGGACT
*
733247 GCTGGGCCTGATGCTGGTGC
1 GCTGGGCCTGCTGCTGGTGC
733267 GCT-GG---GC--CTGG-GC
1 GCTGGGCCTGCTGCTGGTGC
*
733280 GCTCGGCCTGCTGCTGGTGC
1 GCTGGGCCTGCTGCTGGTGC
733300 GCTGGGCCTG
1 GCTGGGCCTG
733310 GGCGCTCGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
16 1 0.03
17 2 0.06
19 6 0.18
20 14 0.41
ACGTcount: A:0.02, C:0.30, G:0.46, T:0.22
Consensus pattern (20 bp):
GCTGGGCCTGCTGCTGGTGC
Found at i:733552 original size:10 final size:10
Alignment explanation
Indices: 733543--733584 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
733533 TTTTCCCTTT
733543 TTTTTTCTTTC
1 TTTTTT-TTTC
733554 TCTTTTTTTTC
1 T-TTTTTTTTC
733565 TTTTTTTTTC
1 TTTTTTTTTC
*
733575 TTCTTTTTTC
1 TTTTTTTTTC
733585 ATTCTTTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 18 0.62
11 6 0.21
12 5 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:733558 original size:16 final size:15
Alignment explanation
Indices: 733534--733567 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
733524 TGTGATATTT
733534 TTTCCCTTTTTTTTTC
1 TTTCCC-TTTTTTTTC
*
733550 TTTCTCTTTTTTTTC
1 TTTCCCTTTTTTTTC
733565 TTT
1 TTT
733568 TTTTTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCCCTTTTTTTTC
Found at i:733559 original size:11 final size:11
Alignment explanation
Indices: 733544--733583 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
733534 TTTCCCTTTT
733544 TTTTTCTTTCTC
1 TTTTT-TTTCTC
733556 TTTTTTTTCT-
1 TTTTTTTTCTC
733566 TTTTTTTTCTTC
1 TTTTTTTTC-TC
733578 TTTTTT
1 TTTTTT
733584 CATTCTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:733578 original size:24 final size:24
Alignment explanation
Indices: 733539--733602 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 24
733529 TATTTTTTCC
*
733539 CTTTTTTTTTCTTTCTCTTTTT-TTT
1 CTTTTTTTTTC-TTCT-TTTTTCATT
733564 CTTTTTTTTTCTTCTTTTTTCATT
1 CTTTTTTTTTCTTCTTTTTTCATT
733588 CTTTCCTTTTTTCTT
1 CTTT--TTTTTTCTT
733603 TTTCTTCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 5 0.14
24 10 0.29
25 11 0.31
26 9 0.26
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (24 bp):
CTTTTTTTTTCTTCTTTTTTCATT
Found at i:733589 original size:11 final size:10
Alignment explanation
Indices: 733539--733611 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 10
733529 TATTTTTTCC
*
733539 CTTTTTTTTT
1 CTTTTTTCTT
*
733549 C-TTTCTCTT
1 CTTTTTTCTT
733558 -TTTTTTCTT
1 CTTTTTTCTT
*
733567 TTTTTTTCTT
1 CTTTTTTCTT
733577 CTTTTTTCATT
1 CTTTTTTC-TT
*
733588 CTTTCCTTTTTT
1 CTTT--TTTCTT
733600 C-TTTTTCTT
1 CTTTTTTCTT
733609 CTT
1 CTT
733612 CGGGCTGAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
9 19 0.37
10 18 0.35
11 8 0.16
12 3 0.06
13 3 0.06
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:734173 original size:30 final size:29
Alignment explanation
Indices: 734138--734264 Score: 101
Period size: 30 Copynumber: 4.2 Consensus size: 29
734128 GGGCCAAGCA
* *
734138 TAATTTTGAAAAAATTTAGGGGTCAAAATA
1 TAATTTT-AAAAAATTGAGGGGTCAAAATG
* * * * * * *
734168 TAATTTCAAAAAGTTGATGAGCCTAAACG
1 TAATTTTAAAAAATTGAGGGGTCAAAATG
* * *
734197 TAATTTTAGGAAAGTTTAGGGGTCAAAATG
1 TAATTTTA-AAAAATTGAGGGGTCAAAATG
*
734227 TAATTTTTAAAAAAGTTGAGGGGTTAAAATG
1 TAA-TTTTAAAAAA-TTGAGGGGTCAAAATG
734258 TAATTTT
1 TAATTTT
734265 TTATTTTGTA
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
29 21 0.29
30 30 0.41
31 22 0.30
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (29 bp):
TAATTTTAAAAAATTGAGGGGTCAAAATG
Found at i:734242 original size:31 final size:31
Alignment explanation
Indices: 734138--734265 Score: 111
Period size: 31 Copynumber: 4.3 Consensus size: 31
734128 GGGCCAAGCA
* * *
734138 TAATTTTGAAAAAA-TTTAGGGGTCAAAATA
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
* * * * * *
734168 TAA--TTTCAAAAAGTTGATGAGCCTAAACG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
** *
734197 TAA-TTTTAGGAAAGTTTAGGGGTCAAAATG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
*
734227 TAATTTTTAAAAAAGTTGAGGGGTTAAAATG
1 TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
734258 TAATTTTT
1 TAATTTTT
734266 TATTTTGTAT
Statistics
Matches: 73, Mismatches: 22, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
28 7 0.10
29 12 0.16
30 23 0.32
31 31 0.42
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (31 bp):
TAATTTTTAAAAAAGTTGAGGGGTCAAAATG
Found at i:734428 original size:5 final size:5
Alignment explanation
Indices: 734387--734457 Score: 56
Period size: 5 Copynumber: 13.4 Consensus size: 5
734377 TATAATTTAT
* *
734387 TTTCA TTTACA CTTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTCA
1 TTTCA TTT-CA -TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA
734433 TATTCA TTTAACA TTTCA TTTCA TT
1 T-TTCA TTT--CA TTTCA TTTCA TT
734458 AATTTTTTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.05
5 32 0.58
6 12 0.22
7 8 0.15
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (5 bp):
TTTCA
Found at i:734429 original size:19 final size:19
Alignment explanation
Indices: 734401--734439 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
734391 ATTTACACTT
734401 TCATTCCATTTCATAATCA
1 TCATTCCATTTCATAATCA
* *
734420 TCATTTCATTTCATATTCA
1 TCATTCCATTTCATAATCA
734439 T
1 T
734440 TTAACATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (19 bp):
TCATTCCATTTCATAATCA
Found at i:734635 original size:22 final size:21
Alignment explanation
Indices: 734603--734644 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
734593 CATCAGGGTC
734603 ATTTAAATTTTT-TCATATTTT
1 ATTTAAATTTTTCTCA-ATTTT
734624 ATTTAAAATTTTTCTCAATTT
1 ATTT-AAATTTTTCTCAATTT
734645 AAATATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAAATTTTTCTCAATTTT
Found at i:734864 original size:6 final size:5
Alignment explanation
Indices: 734839--734944 Score: 113
Period size: 5 Copynumber: 19.6 Consensus size: 5
734829 ATCTTTTTTT
734839 TTTCA TTTCA TTTCA TTTCTA TTTCTA TTTCCA TTTCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA TTTC-A TTTC-A TTT-CA TTTCA TTTCA TTTCA
* * *
734887 TTTCA TTCCA TTTGTA TTTCCA TTTTA TTTCA TTTCCA TTTCCA TTTCCA
1 TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTT-CA TTT-CA TTT-CA
734937 TTTCA TTT
1 TTTCA TTT
734945 AAATTATCTT
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
5 50 0.56
6 39 0.43
7 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.01, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:734963 original size:23 final size:25
Alignment explanation
Indices: 734931--735004 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 25
734921 TCCATTTCCA
*
734931 TTTCCATTTCATTTAAATTATCTTT
1 TTTCTATTTCATTTAAATTATCTTT
734956 TTT-T-TTTCATTTAAATTTAAT-TTT
1 TTTCTATTTCATTTAAA-TT-ATCTTT
734980 TTTCTCATTTCATTTAAATTATCTT
1 TTTCT-ATTTCATTTAAATTATCTT
735005 CCCATTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
23 11 0.26
24 8 0.19
25 8 0.19
26 4 0.10
27 11 0.26
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTCTATTTCATTTAAATTATCTTT
Found at i:735067 original size:91 final size:93
Alignment explanation
Indices: 734931--735169 Score: 306
Period size: 91 Copynumber: 2.5 Consensus size: 93
734921 TCCATTTCCA
* *
734931 TTTC-CATTTCATTTAAATTATCTTTTTTTTTTCATTTAAATTTAATTTTTTTCTCATTTCATTT
1 TTTCTCATTTCATTTAAATTA---TTTTTTTTCCATTTAAATTTAATTTTTTTCTCATCTCATTT
* *
734995 AAATTATC-TTCCCATTTTAATTTAA-TTTT
63 AAATGATCTTTCCCATTTAAATTTAATTTTT
* *
735024 TTTGTCATTTCATTGAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATCTCATTTAAA
1 TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATCTCATTTAAA
*
735089 TGATCTTTTTTCCATTTAAATTTAATTTTT
66 TGATC--TTTCCCATTTAAATTTAATTTTT
* *
735119 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-ATGTTTTTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAAT-TTTTTT
735170 ACATATTAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
91 46 0.36
93 3 0.02
94 30 0.23
95 26 0.20
96 23 0.18
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.62
Consensus pattern (93 bp):
TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATCTCATTTAAA
TGATCTTTCCCATTTAAATTTAATTTTT
Found at i:735070 original size:47 final size:47
Alignment explanation
Indices: 734931--735169 Score: 290
Period size: 47 Copynumber: 5.1 Consensus size: 47
734921 TCCATTTCCA
*
734931 TTTC-CATTTCATTTAAATTATCTTTTTTTTTTCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTA---TTTTTTTTCCATTTAAATTTAATTTT
* * *
734980 TTTCTCATTTCATTTAAATTA---TCTTCCCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTT
* *
735024 TTTGTCATTTCATTGAAATTATTTTTTTTCCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTT
* * *
735071 TTTCTCATCTCATTTAAATGATCTTTTTTCCATTTAAATTTAATTTTT
1 TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAA-TTTT
* *
735119 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-ATGTTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAAT-TTT
735167 TTT
1 TTT
735170 ACATATTAAT
Statistics
Matches: 164, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
44 38 0.23
47 59 0.36
48 31 0.19
49 20 0.12
50 16 0.10
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.62
Consensus pattern (47 bp):
TTTCTCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTT
Found at i:735133 original size:22 final size:22
Alignment explanation
Indices: 734939--735135 Score: 125
Period size: 22 Copynumber: 8.6 Consensus size: 22
734929 CATTTCCATT
* * *
734939 TCATTTAAATTATCTTTTTTTTT
1 TCATTTAATTTA-ATTTTTTTTC
734962 TCATTTAAATTTAA-TTTTTTTC
1 TCATTT-AATTTAATTTTTTTTC
* * * *
734984 TCATTTCATTTAAATTATCTTC
1 TCATTTAATTTAATTTTTTTTC
*
735006 CCATTTTAATTTAATTTTTTTGTC
1 TCA-TTTAATTTAATTTTTTT-TC
* *
735030 ATTTCATTGAAATT-ATTTTTTTTC
1 ---TCATTTAATTTAATTTTTTTTC
735054 -CATTTAAATTTAA-TTTTTTTC
1 TCATTT-AATTTAATTTTTTTTC
* *
735075 TCATCTCATTTAAATGATCTTTTTTC
1 TCATTTAATTT-AAT--T-TTTTTTC
735101 -CATTTAAATTTAATTTTTTTTC
1 TCATTT-AATTTAATTTTTTTTC
*
735123 TCATTTCATTTAA
1 TCATTTAATTTAA
735136 ATTATCTTTC
Statistics
Matches: 136, Mismatches: 21, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.03
21 22 0.16
22 41 0.30
23 25 0.18
24 9 0.07
25 16 0.12
26 17 0.12
27 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.61
Consensus pattern (22 bp):
TCATTTAATTTAATTTTTTTTC
Found at i:748093 original size:19 final size:20
Alignment explanation
Indices: 748054--748094 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
748044 TAATTTTAGA
748054 TTTAGTTTTCTCTAGATTTT
1 TTTAGTTTTCTCTAGATTTT
748074 TTTAGTTTT-TCT-GCATTTT
1 TTTAGTTTTCTCTAG-ATTTT
748093 TT
1 TT
748095 CTAGAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.05
19 10 0.50
20 9 0.45
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.68
Consensus pattern (20 bp):
TTTAGTTTTCTCTAGATTTT
Found at i:753437 original size:42 final size:42
Alignment explanation
Indices: 753385--753484 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
753375 GATCTTGGTA
* * **
753385 TCGCACACTTAGTGCCCATTATTCGACATCGCCATTTTTGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCACCATTTTAATT
* *
753427 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCACCATTTTAATT
*
753469 TCGCACACATAGTGCC
1 TCGCACACTTAGTGCC
753485 ATTCGTATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCACCATTTTAATT
Found at i:755946 original size:3 final size:3
Alignment explanation
Indices: 755938--755973 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
755928 AATTTAGTCC
755938 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
755974 TAAATCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:757707 original size:28 final size:28
Alignment explanation
Indices: 757676--757729 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
757666 TGTATTATTA
*
757676 ATATTAT-TTATAAATGTTATAATAAAGT
1 ATATTATATTAT-AATGATATAATAAAGT
*
757704 ATATTATATTATTATGATATAATAAA
1 ATATTATATTATAATGATATAATAAA
757730 ACATTATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (28 bp):
ATATTATATTATAATGATATAATAAAGT
Found at i:758744 original size:41 final size:41
Alignment explanation
Indices: 758595--758744 Score: 165
Period size: 41 Copynumber: 3.7 Consensus size: 41
758585 TCGGGCTCTG
* * * * * *
758595 TGCCTAGCAGGCTTTATACTGGTGAATTATAGCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* * *
758636 TGCCTAGCAGGCTTCATGTCGGTGTACCATATCAAGCTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* ** *
758677 TGCCTAGCAGGCTTCGTGCCGGTGTATCATATTTGGCTTTG
1 TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
* *
758718 TGCCTAGAAGGCTTTATGCCGGTGTAT
1 TGCCTAGCAGGCTTCATGCCGGTGTAT
758745 TTTAATAAGT
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATCATATCAGGCTTTA
Found at i:762284 original size:106 final size:105
Alignment explanation
Indices: 762081--762292 Score: 334
Period size: 106 Copynumber: 2.0 Consensus size: 105
762071 ATGCAAGGAT
** *
762081 TACTTTATTTTGCATTAACAATTTTCCCTATTAGGATTTCAATTCTATTGGAGCATTTTCAGTTG
1 TACTTTATTTTGCATTAACAATTTTCCCTATTAGGACATCAATTCTATTGGAGCATTTTCAGCTG
* * *
762146 GTATGTGAGGTTTAATGAATCTGGCAGTTGATTTGTAAAA
66 GCATGTGAGATTTAATGAATCCGGCAGTTGATTTGTAAAA
* * *
762186 TACTTTATTTTGCATTAACAGTTTTCCCTATTAGGACATCAATTCATATTGGAGTATTTTTAGCT
1 TACTTTATTTTGCATTAACAATTTTCCCTATTAGGACATCAATTC-TATTGGAGCATTTTCAGCT
762251 GGCATGTGAGATTTAATGAATCCGGCAGTTGATTTGTAAAA
65 GGCATGTGAGATTTAATGAATCCGGCAGTTGATTTGTAAAA
762292 T
1 T
762293 GAATTATCTG
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 42 0.43
106 55 0.57
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (105 bp):
TACTTTATTTTGCATTAACAATTTTCCCTATTAGGACATCAATTCTATTGGAGCATTTTCAGCTG
GCATGTGAGATTTAATGAATCCGGCAGTTGATTTGTAAAA
Found at i:772169 original size:30 final size:30
Alignment explanation
Indices: 772135--772191 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
772125 TAAAATTAAT
*
772135 TGATGCGAAAATTAATTAAGAATTCATATA
1 TGATGCAAAAATTAATTAAGAATTCATATA
*
772165 TGATGCAAAAATTAATTGAGAATTCAT
1 TGATGCAAAAATTAATTAAGAATTCAT
772192 TATAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (30 bp):
TGATGCAAAAATTAATTAAGAATTCATATA
Found at i:772555 original size:15 final size:15
Alignment explanation
Indices: 772535--772564 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
772525 GCAAGATTGC
772535 TTGTTTAAATGATTA
1 TTGTTTAAATGATTA
772550 TTGTTTAAATGATTA
1 TTGTTTAAATGATTA
772565 ATTTCAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
TTGTTTAAATGATTA
Found at i:773474 original size:6 final size:6
Alignment explanation
Indices: 773459--773491 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
773449 TTCAGGTACT
*
773459 TGAAAG TGAAAA TGAAAA TGAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGAAAA TGA
773492 TGAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (6 bp):
TGAAAA
Found at i:780819 original size:3 final size:3
Alignment explanation
Indices: 780811--780846 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
780801 TATAGCTTTG
780811 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
780847 TTTATGGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:784556 original size:20 final size:21
Alignment explanation
Indices: 784516--784556 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
784506 TAGAAACCGG
* *
784516 TAGAATTGTATTCTTATAAAA
1 TAGAATTGTATGCTTAGAAAA
784537 TAGAATT-TATGCTTAGAAAA
1 TAGAATTGTATGCTTAGAAAA
784557 GAAATTCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (21 bp):
TAGAATTGTATGCTTAGAAAA
Found at i:785223 original size:45 final size:45
Alignment explanation
Indices: 785156--785284 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
785146 TGTGTACTTT
*
785156 AAATGAGTAAGACAATAGCTGAAAGACGCTATGGCATCACCATAA-
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCA-AAG
* * * **
785201 AGATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATGAAAG
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCAAAG
* *
785246 AAATGAGTAAGATCGTAGCTGAAAGACGCTATGGCATCA
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCA
785285 TGTGAAAGCA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 2 0.03
45 70 0.97
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCAAAG
Found at i:788554 original size:15 final size:15
Alignment explanation
Indices: 788536--788585 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
788526 GATGAAAACG
788536 ATAATATAAATAACA
1 ATAATATAAATAACA
788551 ATAATGAT-AATAACA
1 ATAAT-ATAAATAACA
*
788566 ATAATA-ATAATAATA
1 ATAATATA-AATAACA
788581 ATAAT
1 ATAAT
788586 CTAAGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 1 0.03
15 28 0.90
16 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAATATAAATAACA
Found at i:788571 original size:3 final size:3
Alignment explanation
Indices: 788544--788585 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
788534 CGATAATATA
* * *
788544 AAT AAC AAT AAT GAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
788586 CTAAGTTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:788804 original size:33 final size:35
Alignment explanation
Indices: 788767--788834 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
788757 GTTTTTTTTA
788767 AATAAAT-AAAAAAA-TGAAGTTAAACAGACTAAG
1 AATAAATAAAAAAAATTGAAGTTAAACAGACTAAG
788800 AATAAATAAAAAAAATTGAAGTTAAACAGACTAAG
1 AATAAATAAAAAAAATTGAAGTTAAACAGACTAAG
788835 GATTGAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 7 0.21
34 7 0.21
35 19 0.58
ACGTcount: A:0.63, C:0.06, G:0.12, T:0.19
Consensus pattern (35 bp):
AATAAATAAAAAAAATTGAAGTTAAACAGACTAAG
Found at i:794578 original size:3 final size:3
Alignment explanation
Indices: 794570--794598 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
794560 GGCAAAATCA
794570 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
794599 AATGATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:796182 original size:29 final size:29
Alignment explanation
Indices: 796133--796188 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
796123 AAATACATTA
* *
796133 ATTTATTTTTGCATTGGATAAATATAATT
1 ATTTATTATTGCATTGGATAAACATAATT
*
796162 ATTTATTATTGCAATT-TATAAACATAA
1 ATTTATTATTGC-ATTGGATAAACATAA
796189 AATGATGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTATTATTGCATTGGATAAACATAATT
Found at i:800687 original size:22 final size:22
Alignment explanation
Indices: 800660--800706 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
800650 ATTATTTTCC
800660 CAATTTCC-TCTCAAATTGCTCT
1 CAATTTCCTTC-CAAATTGCTCT
*
800682 CAATTTCCTTCCAAATTTCTCT
1 CAATTTCCTTCCAAATTGCTCT
800704 CAA
1 CAA
800707 ATCCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.02, T:0.40
Consensus pattern (22 bp):
CAATTTCCTTCCAAATTGCTCT
Found at i:802561 original size:18 final size:18
Alignment explanation
Indices: 802538--802580 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
802528 TGCCAGGTGC
* *
802538 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
802556 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
802574 GTTTCCT
1 GTATCCT
802581 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:802736 original size:36 final size:38
Alignment explanation
Indices: 802681--802754 Score: 134
Period size: 36 Copynumber: 2.0 Consensus size: 38
802671 TCACAGGAGG
802681 GATCGCAAGAGAGGCCGTCGGGGAGCTCTTCTTTTTAC
1 GATCGCAAGAGAGGCCGTCGGGGAGCTCTTCTTTTTAC
802719 GATCGC-A-AGAGGCCGTCGGGGAGCTCTTCTTTTTAC
1 GATCGCAAGAGAGGCCGTCGGGGAGCTCTTCTTTTTAC
802755 CAAACGCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 29 0.81
37 1 0.03
38 6 0.17
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (38 bp):
GATCGCAAGAGAGGCCGTCGGGGAGCTCTTCTTTTTAC
Found at i:802903 original size:21 final size:21
Alignment explanation
Indices: 802879--802918 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
802869 CTACCAGATG
* *
802879 AACCAGAATCCCCGCCGGAGC
1 AACCACAACCCCCGCCGGAGC
802900 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
802919 AGCTGGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.47, G:0.20, T:0.03
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGC
Found at i:812727 original size:18 final size:18
Alignment explanation
Indices: 812704--812746 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
812694 TGCCAGGTGC
* *
812704 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
812722 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
812740 GTTTCCT
1 GTATCCT
812747 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:813028 original size:21 final size:21
Alignment explanation
Indices: 813004--813043 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
812994 CTACCAGATG
* *
813004 AACCAGAATCCCCGCCGGAGC
1 AACCACAACCCCCGCCGGAGC
813025 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
813044 AGCTGGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.47, G:0.20, T:0.03
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGC
Found at i:813215 original size:49 final size:49
Alignment explanation
Indices: 813162--813282 Score: 233
Period size: 49 Copynumber: 2.5 Consensus size: 49
813152 GTTTATATTA
813162 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
*
813211 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
813260 ATGTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
813283 AATATTCTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
Found at i:813347 original size:47 final size:47
Alignment explanation
Indices: 813296--813391 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
813286 ATTCTTAATA
*
813296 ATAAAAAATATTTTAAATAATTCAATATGTTGAACACTTGCCACATT
1 ATAAAAAATATTTTAAATAATTCAATATGTTGAACACTTGACACATT
813343 ATAAAAAATATTTTAAATAATTCAATATGTTGAACACTTGACACATT
1 ATAAAAAATATTTTAAATAATTCAATATGTTGAACACTTGACACATT
813390 AT
1 AT
813392 TTCATTTCAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (47 bp):
ATAAAAAATATTTTAAATAATTCAATATGTTGAACACTTGACACATT
Found at i:814924 original size:6 final size:6
Alignment explanation
Indices: 814913--814944 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
814903 AAAAACCTTA
*
814913 AACCCT AACCCT AATCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
814945 AAACCCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:829590 original size:18 final size:17
Alignment explanation
Indices: 829562--829596 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
829552 ATTATTAAGA
*
829562 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
829579 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
829597 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:829787 original size:39 final size:40
Alignment explanation
Indices: 829744--829848 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
829734 TTCCATTATG
829744 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
829783 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
829828 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
829849 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:829842 original size:45 final size:44
Alignment explanation
Indices: 829742--829851 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
829732 TTTTCCATTA
829742 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
829781 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
829826 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
829852 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:829851 original size:16 final size:16
Alignment explanation
Indices: 829830--829899 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
829820 TTGATTTGCT
829830 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
829846 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
829862 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
829878 ATTACGCCTCTAATCC
1 ATTACACCTCTATTCC
*
829894 AATACA
1 ATTACA
829900 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.29, C:0.36, G:0.01, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:834686 original size:19 final size:19
Alignment explanation
Indices: 834651--834687 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
834641 TATATAGATG
*
834651 ATATTTTGATATATTTCAA
1 ATATTTTGAAATATTTCAA
*
834670 ATATTTTGAAATTTTTCA
1 ATATTTTGAAATATTTCA
834688 GATACTCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (19 bp):
ATATTTTGAAATATTTCAA
Found at i:843227 original size:24 final size:23
Alignment explanation
Indices: 843195--843240 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
843185 CCATAGCATT
843195 TATATCATTAAAATATTAGAAATAA
1 TATATCATTAAAAT-TTA-AAATAA
843220 TATA-CATTAAAATTTAAAATA
1 TATATCATTAAAATTTAAAATA
843241 TATTTAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 3 0.14
24 9 0.43
25 4 0.19
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATCATTAAAATTTAAAATAA
Found at i:853430 original size:5 final size:5
Alignment explanation
Indices: 853422--853448 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
853412 ATTGTTTTAA
853422 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
853449 ATAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:853455 original size:15 final size:15
Alignment explanation
Indices: 853421--853455 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
853411 AATTGTTTTA
*
853421 AATTTTATTTTATTT
1 AATTTTATTTTATAT
*
853436 TATTTTATTTTATAT
1 AATTTTATTTTATAT
853451 AATTT
1 AATTT
853456 ATTAAAGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTATTTTATAT
Found at i:858400 original size:2 final size:2
Alignment explanation
Indices: 858393--858420 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
858383 TTGCTTCACA
858393 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
858421 TAACTCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:864103 original size:65 final size:65
Alignment explanation
Indices: 863978--864120 Score: 180
Period size: 65 Copynumber: 2.2 Consensus size: 65
863968 GGACTACTGT
* * *
863978 AGCTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCATGCATATATTGTGGACACAAACAC
1 AGCTCTTTGTGAGAGTCCTGTTATATGATCGGCTGTGATCATGCATATATTGAGGACACAAACAC
* * * * *
864043 AGCTCTTTGTGAGATTCCTGTTTTATGATCGGCTGTGATCCTGCATATGTTGCAGG-CACAAACG
1 AGCTCTTTGTGAGAGTCCTGTTATATGATCGGCTGTGATCATGCATATATTG-AGGACACAAACA
864107 C
65 C
* *
864108 AGCTTTTTATGAG
1 AGCTCTTTGTGAG
864121 CGTCTTGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
65 65 0.97
66 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (65 bp):
AGCTCTTTGTGAGAGTCCTGTTATATGATCGGCTGTGATCATGCATATATTGAGGACACAAACAC
Found at i:864213 original size:25 final size:26
Alignment explanation
Indices: 864185--864233 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
864175 ATAAATGGCT
*
864185 CTTCGTGAGCTTCC-GTTTAAAAGCC
1 CTTCGTGAGCTTCCTGATTAAAAGCC
864210 CTTCGTGAGCTTCCTGATTAAAAG
1 CTTCGTGAGCTTCCTGATTAAAAG
864234 TTCTATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
CTTCGTGAGCTTCCTGATTAAAAGCC
Found at i:864253 original size:26 final size:25
Alignment explanation
Indices: 864224--864272 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
864214 GTGAGCTTCC
864224 TGATTAAAAGTTCTATGTGAACTTTA
1 TGATT-AAAGTTCTATGTGAACTTTA
** *
864250 TGATTATGGTTCTGTGTGAACTT
1 TGATTAAAGTTCTATGTGAACTT
864273 CCTGTTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
TGATTAAAGTTCTATGTGAACTTTA
Found at i:864339 original size:26 final size:26
Alignment explanation
Indices: 864305--864361 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
864295 CTTCCTGAAA
*
864305 GGCTATTTGTGAACTTCCCGATTA-AT
1 GGCTCTTTGTGAACTTCCCG-TTATAT
* *
864331 GGCTCTTTGTGAGCTTCCTGTTATAT
1 GGCTCTTTGTGAACTTCCCGTTATAT
864357 GGCTC
1 GGCTC
864362 GAGAGAGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCCGTTATAT
Found at i:869386 original size:10 final size:10
Alignment explanation
Indices: 869371--869404 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
869361 TTTTTTTTTA
*
869371 TCCCCAATGG
1 TCCCCAAGGG
869381 TCCCCAAGGG
1 TCCCCAAGGG
869391 TCCCCAAGGG
1 TCCCCAAGGG
869401 TCCC
1 TCCC
869405 ACACAGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (10 bp):
TCCCCAAGGG
Found at i:875125 original size:8 final size:8
Alignment explanation
Indices: 875112--875136 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
875102 CGGAAATACT
875112 TCCATTGG
1 TCCATTGG
875120 TCCATTGG
1 TCCATTGG
875128 TCCATTGG
1 TCCATTGG
875136 T
1 T
875137 GACAAATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (8 bp):
TCCATTGG
Found at i:877507 original size:11 final size:11
Alignment explanation
Indices: 877485--877524 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
877475 AACTAATCCT
877485 CTCTCAAATTTC
1 CTCTC-AATTTC
*
877497 CTCTTAATTTC
1 CTCTCAATTTC
877508 CTCTCAATTTC
1 CTCTCAATTTC
877519 CT-TCAA
1 CTCTCAA
877525 AAATTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 4 0.15
11 18 0.69
12 4 0.15
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:877646 original size:49 final size:49
Alignment explanation
Indices: 877557--877655 Score: 173
Period size: 48 Copynumber: 2.0 Consensus size: 49
877547 TATTTCAATT
* *
877557 TTCTCTCAAGTTCTTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
1 TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
877606 TTCTCTCAA-ATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
1 TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
877654 TT
1 TT
877656 TTAAAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 39 0.81
49 9 0.19
ACGTcount: A:0.25, C:0.23, G:0.01, T:0.51
Consensus pattern (49 bp):
TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
Found at i:878607 original size:11 final size:11
Alignment explanation
Indices: 878585--878624 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
878575 AACTAATCCT
878585 CTCTCAAATTTC
1 CTCTC-AATTTC
*
878597 CTCTTAATTTC
1 CTCTCAATTTC
878608 CTCTCAATTTC
1 CTCTCAATTTC
878619 CT-TCAA
1 CTCTCAA
878625 AAATTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 4 0.15
11 18 0.69
12 4 0.15
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:878746 original size:49 final size:49
Alignment explanation
Indices: 878657--878755 Score: 173
Period size: 48 Copynumber: 2.0 Consensus size: 49
878647 TATTTCAATT
* *
878657 TTCTCTCAAGTTCTTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
1 TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
878706 TTCTCTCAA-ATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
1 TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
878754 TT
1 TT
878756 TTAAAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 39 0.81
49 9 0.19
ACGTcount: A:0.25, C:0.23, G:0.01, T:0.51
Consensus pattern (49 bp):
TTCTCTCAAGATCCTCTTAAATTTCTCTTAACTCCCTTTTTTTAAATAA
Found at i:881037 original size:25 final size:25
Alignment explanation
Indices: 881009--881126 Score: 122
Period size: 25 Copynumber: 4.9 Consensus size: 25
880999 TATTTTGATA
*
881009 TTATTTGACGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
881034 TTATTTAATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
881059 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
881078 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
881104 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
881127 ATTTTTGAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.01
20 8 0.11
21 5 0.07
22 1 0.01
23 1 0.01
24 5 0.07
25 52 0.70
26 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:881078 original size:70 final size:70
Alignment explanation
Indices: 880999--881132 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
880989 ATATTTTGAA
880999 TATTTTGATATTATTTGACGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAATTTTTT
1 TATTTTGATATTATTTGACGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAATTTTTT
881064 TGAGT
66 TGAGT
* *
881069 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTT
1 TATTTTGATATTATTTGACGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAATTTTT
881133 GAATATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (70 bp):
TATTTTGATATTATTTGACGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAATTTTTT
TGAGT
Found at i:881241 original size:21 final size:21
Alignment explanation
Indices: 881184--881718 Score: 443
Period size: 23 Copynumber: 24.3 Consensus size: 21
881174 ACCATTAATA
*
881184 CCTTAACTTAAAAACTCTAAC
1 CCTTAACTTAAAAACCCTAAC
*
881205 CTAATTTAA-TTAAAAACCCTAAAC
1 C---CTTAACTTAAAAACCCT-AAC
881229 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
881250 CTAATTAAATTAAAAACCCTAAC
1 C--CTTAACTTAAAAACCCTAAC
881273 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
881294 CTAATTTAA-TAAAAAACCTTAAAC
1 C---CTTAACTTAAAAACCCT-AAC
881318 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
881339 CTAATTAAATTAAAAACCCTAAC
1 C--CTTAACTTAAAAACCCTAAC
* *
881362 CTAATTTAA-TTTAAAACCCTAAAC
1 C---CTTAACTTAAAAACCCT-AAC
*
881386 CCTTAACTTAAAAACCTTAAC
1 CCTTAACTTAAAAACCCTAAC
* * * *
881407 CTAATTAAATTTAAAACTCTAAC
1 C--CTTAACTTAAAAACCCTAAC
* * *
881430 CTAATTAAATTAAAAACTCTAAC
1 C--CTTAACTTAAAAACCCTAAC
*
881453 CTAATTAACTTAAAAACCCTAAC
1 C--CTTAACTTAAAAACCCTAAC
881476 CCTTAACTTAAAAACCCTTAAC
1 CCTTAACTTAAAAACCC-TAAC
881498 CCTTAACTTAAAAACCCTAAAC
1 CCTTAACTTAAAAACCCT-AAC
*
881520 CCTTAACTTAGAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
*
881541 CCTTAACTTAAAAACTCTAAC
1 CCTTAACTTAAAAACCCTAAC
* *
881562 CTAATTAAATTAAAAACCCTAAAC
1 C--CTTAACTTAAAAACCCT-AAC
** *
881586 TAATTAAATTAAAAACCCTAAC
1 -CCTTAACTTAAAAACCCTAAC
*
881608 CTTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
* * *
881629 CTAATTAAATTAAAAATCCTAAC
1 C--CTTAACTTAAAAACCCTAAC
*
881652 CCTTAACTTAAAAATCCTAA-
1 CCTTAACTTAAAAACCCTAAC
* *
881672 CC-TAA-TTAAATACCTTAAC
1 CCTTAACTTAAAAACCCTAAC
*
881691 CCTAAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
881712 CCTTAAC
1 CCTTAAC
881719 ATTCACATAA
Statistics
Matches: 432, Mismatches: 52, Indels: 60
0.79 0.10 0.11
Matches are distributed among these distances:
18 10 0.02
19 5 0.01
20 4 0.01
21 137 0.32
22 73 0.17
23 175 0.41
24 28 0.06
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (21 bp):
CCTTAACTTAAAAACCCTAAC
Found at i:881289 original size:44 final size:43
Alignment explanation
Indices: 881184--881718 Score: 471
Period size: 44 Copynumber: 12.2 Consensus size: 43
881174 ACCATTAATA
* *
881184 CCTTAACTTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAAC
1 CCTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCT-AAC
881229 CCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCTAAC
* * *
881273 CCTTAACTTAAAAACCCTAACCTAATTTAATAAAAAACCTTAAAC
1 CCTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCT-AAC
881318 CCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCTAAC
* * * * *
881362 CTAATTTAA-TTTAAAACCCTAAACC-CTTAACTTAAAAACCTTAAC
1 C---CTTAACTTAAAAACCCT-AACCTATTAAATTAAAAACCCTAAC
* * * * *
881407 CTAATTAAATTTAAAACTCTAACCTAATTAAATTAAAAACTCTAAC
1 C--CTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCTAAC
* * *
881453 CTAATTAACTTAAAAACCCTAACC-CTTAACTTAAAAACCCTTAAC
1 C--CTTAACTTAAAAACCCTAACCTATTAAATTAAAAACCC-TAAC
* * *
881498 CCTTAACTTAAAAACCCTAAACC-CTTAACTTAGAAACCCTAAC
1 CCTTAACTTAAAAACCCT-AACCTATTAAATTAAAAACCCTAAC
*
881541 CCTTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAAC
1 CCTTAACTTAAAAACCCTAACCT-ATTAAATTAAAAACCCT-AAC
** * *
881586 TAATTAAATTAAAAACCCTAACCT-TTAACTTAAAAACCCTAAC
1 -CCTTAACTTAAAAACCCTAACCTATTAAATTAAAAACCCTAAC
* * * * * *
881629 CTAATTAAATTAAAAATCCTAACC-CTTAACTTAAAAATCCTAA-
1 C--CTTAACTTAAAAACCCTAACCTATTAAATTAAAAACCCTAAC
* * *
881672 CC-TAA-TTAAATACCTTAACCCTA--AACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAA-CCTATTAAATTAAAAACCCTAAC
881712 CCTTAAC
1 CCTTAAC
881719 ATTCACATAA
Statistics
Matches: 422, Mismatches: 46, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
39 25 0.06
40 7 0.02
41 3 0.01
42 4 0.01
43 41 0.10
44 152 0.36
45 116 0.27
46 66 0.16
47 8 0.02
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (43 bp):
CCTTAACTTAAAAACCCTAACCTATTAAATTAAAAACCCTAAC
Done.