Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 293 of 295
Found at i:99124695 original size:31 final size:31
Alignment explanation
Indices: 99124660--99124721 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
99124650 AACAGCCAAG
* *
99124660 TGATTTAAATAAAATATTTCGAATAGTTCAA
1 TGATTTAAATAAAAGATTTCAAATAGTTCAA
*
99124691 TGATTTAAATAAAAGCTTTCAAATAGTTCAA
1 TGATTTAAATAAAAGATTTCAAATAGTTCAA
99124722 GGACTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (31 bp):
TGATTTAAATAAAAGATTTCAAATAGTTCAA
Found at i:99128945 original size:23 final size:22
Alignment explanation
Indices: 99128915--99128972 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
99128905 TTATGGAATT
99128915 TATAATTTTTATTATAATAAAAA
1 TATAATTTTTATTATAAT-AAAA
* *
99128938 TATAATTTTACTATTTTAATAAGA
1 TATAATTTT--TATTATAATAAAA
99128962 TAT-ATTTTTAT
1 TATAATTTTTAT
99128973 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 3 0.10
23 14 0.45
24 6 0.19
25 8 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TATAATTTTTATTATAATAAAA
Found at i:99130380 original size:24 final size:24
Alignment explanation
Indices: 99130351--99130396 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
99130341 GAAGTAAAAT
99130351 TCAGGTACCAAAATGGAAAAAAGC
1 TCAGGTACCAAAATGGAAAAAAGC
* *
99130375 TCAGGTACTAAATTGGAAAAAA
1 TCAGGTACCAAAATGGAAAAAA
99130397 AATTGTCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (24 bp):
TCAGGTACCAAAATGGAAAAAAGC
Found at i:99164488 original size:16 final size:16
Alignment explanation
Indices: 99164467--99164509 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
99164457 TTATTAAATT
99164467 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
99164483 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
99164498 AT-TATGTTAATT
1 ATATATTTTAATT
99164510 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:99164502 original size:120 final size:120
Alignment explanation
Indices: 99164351--99164864 Score: 919
Period size: 120 Copynumber: 4.3 Consensus size: 120
99164341 TAAACAATAA
* * *
99164351 ATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAGTATCATATATT
1 ATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAGTATCATATATT
99164413 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
63 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
99164471 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
1 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
99164536 ATTAGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
66 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
99164591 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
1 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
99164656 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
66 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
99164711 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATG
1 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
99164776 ATTTGAGTAAATTTATATAAGAATATTAATTATTAAGAATTTTATT-AATTATAT
66 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
99164830 ATTTTAATTATAATATATTTAATAATAATTATGTT
1 ATTTTAATTATAATATATTTAATAATAATTATGTT
99164865 TAAATATGAT
Statistics
Matches: 384, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
119 49 0.13
120 333 0.87
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
Found at i:99164608 original size:16 final size:16
Alignment explanation
Indices: 99164587--99164629 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
99164577 TTATTAAATT
99164587 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
99164603 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
99164618 AT-TATGTTAATT
1 ATATATTTTAATT
99164630 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:99164728 original size:16 final size:16
Alignment explanation
Indices: 99164707--99164867 Score: 55
Period size: 15 Copynumber: 10.7 Consensus size: 16
99164697 TTATTAAATT
99164707 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
99164723 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
99164738 AT-TATGTTAA-T-T-
1 ATATATTTTAATTATA
* *
99164750 -TATATTTTATAGTATC
1 ATATATTTTA-ATTATA
* *
99164766 ATATATTATGATT-TGA
1 ATATATTTTAATTAT-A
* *
99164782 GTA-AATTT-A-TATA
1 ATATATTTTAATTATA
* *
99164795 AGA-ATATTAATTATTA
1 ATATATTTTAATTA-TA
* *
99164811 AGA-ATTTT-ATTAATT
1 ATATATTTTAATT-ATA
99164826 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
99164842 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
99164857 AT-TATGTTTAA
1 ATATAT-TTTAA
99164868 ATATGATTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
11 1 0.01
12 6 0.06
13 8 0.07
14 8 0.07
15 39 0.36
16 36 0.33
17 10 0.09
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:99164998 original size:18 final size:17
Alignment explanation
Indices: 99164970--99165004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99164960 ATTATTAAGA
*
99164970 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
99164987 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
99165005 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:99165002 original size:157 final size:156
Alignment explanation
Indices: 99164802--99165110 Score: 573
Period size: 157 Copynumber: 2.0 Consensus size: 156
99164792 ATAAGAATAT
*
99164802 TAATTATTAAGAATTTTATTAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
* *
99164867 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
99164932 AATAATTTACCAAAACAAATTTCTGC
131 AATAATTTACCAAAACAAATTTCTGC
99164958 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATT-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
99165023 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
99165088 TAATCATTTACCAAAACAAATTT
130 TAATAATTTACCAAAACAAATTT
99165111 ATGTTAAGGG
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 20 0.14
157 128 0.86
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTCTGC
Found at i:99165261 original size:16 final size:16
Alignment explanation
Indices: 99165240--99165291 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
99165230 GATTTGCTAT
99165240 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
99165256 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
* *
99165272 TACGCGTCTAATCCAA
1 TACACCTCTAATCCAA
99165288 TACA
1 TACA
99165292 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:99169379 original size:40 final size:40
Alignment explanation
Indices: 99169333--99169516 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
99169323 CTCGCACAAG
* *
99169333 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * **
99169373 GCCTTCGGGACTTAGCCCGGATATAATCGTTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
99169413 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
99169453 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
99169493 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
99169517 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:99169428 original size:80 final size:80
Alignment explanation
Indices: 99169297--99169516 Score: 252
Period size: 80 Copynumber: 2.8 Consensus size: 80
99169287 ACCCAAGTAT
* * * * *
99169297 CTTCGAGAT-TTAG-CCGGATACAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCG-GATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
99169359 TC-ACTAGCATAAATGC
65 -CAACTAGCACAAATGC
** *
99169375 CTTCGGGA-CTTAGCCCGGATATAATCGTTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTC-GGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
99169439 CAACTTGCACAAATGC
65 CAACTAGCACAAATGC
* * * *
99169455 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
99169517 CATTCGAATA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 10 0.08
79 20 0.17
80 90 0.75
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:99169539 original size:23 final size:23
Alignment explanation
Indices: 99169513--99169562 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 23
99169503 CTTAGCCCGG
99169513 ATATCATTCGAATAACCATG-CAC
1 ATATCATTC-AATAACCATGACAC
*
99169536 ATAT-A-TCAATAATCATGACAC
1 ATATCATTCAATAACCATGACAC
99169557 AT-TCAT
1 ATATCAT
99169563 ATTTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 1 0.04
23 4 0.17
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (23 bp):
ATATCATTCAATAACCATGACAC
Found at i:99175705 original size:17 final size:18
Alignment explanation
Indices: 99175679--99175714 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
99175669 CATATCATTT
99175679 ATATAAAATAAA-ATTAA
1 ATATAAAATAAACATTAA
*
99175696 ATATATAATAAACATTAA
1 ATATAAAATAAACATTAA
99175714 A
1 A
99175715 GAATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAATAAACATTAA
Found at i:99180917 original size:34 final size:34
Alignment explanation
Indices: 99180874--99180941 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
99180864 AACTCAAGCA
99180874 AATCAACTATTGAAAAGCACTAAAACATTATTAT
1 AATCAACTATTGAAAAGCACTAAAACATTATTAT
99180908 AATCAACTATTGAAAAGCACTAAAACATTATTAT
1 AATCAACTATTGAAAAGCACTAAAACATTATTAT
99180942 TTGGTGCGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (34 bp):
AATCAACTATTGAAAAGCACTAAAACATTATTAT
Found at i:99186063 original size:20 final size:21
Alignment explanation
Indices: 99186038--99186079 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
99186028 TGGACAATTC
99186038 AATT-AAATAAATATTAAAAA
1 AATTAAAATAAATATTAAAAA
*
99186058 AATTAAAAATATATATTAAAAA
1 AATT-AAAATAAATATTAAAAA
99186080 TCGATTCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
22 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTAAAATAAATATTAAAAA
Found at i:99194068 original size:32 final size:30
Alignment explanation
Indices: 99193996--99194068 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
99193986 TGAAATTTTA
*
99193996 AAATTCAAAAAGTACAATAACCAAAATCAAT
1 AAATT-AAAAAGTACAATAACCAAAATCAAC
* * *
99194027 GAATCTAAAAAGTACAAATAACTAAAATTAACC
1 AAAT-TAAAAAGTAC-AATAACCAAAATCAA-C
99194060 AAATTAAAA
1 AAATTAAAA
99194069 CATAGGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
31 12 0.35
32 19 0.56
33 3 0.09
ACGTcount: A:0.62, C:0.14, G:0.04, T:0.21
Consensus pattern (30 bp):
AAATTAAAAAGTACAATAACCAAAATCAAC
Found at i:99209173 original size:7 final size:7
Alignment explanation
Indices: 99209161--99209186 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99209151 AATTTAGTAG
99209161 ATTTTCA
1 ATTTTCA
99209168 ATTTTCA
1 ATTTTCA
99209175 ATTTTCA
1 ATTTTCA
99209182 ATTTT
1 ATTTT
99209187 AACACAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:99210323 original size:16 final size:16
Alignment explanation
Indices: 99210298--99210331 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
99210288 TGTTTAACGT
99210298 AATTGCATGC-ATGGC
1 AATTGCATGCAATGGC
99210313 AATTGGCATGCAATGGC
1 AATT-GCATGCAATGGC
99210330 AA
1 AA
99210332 AATGATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (16 bp):
AATTGCATGCAATGGC
Found at i:99210714 original size:6 final size:6
Alignment explanation
Indices: 99210684--99210717 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
99210674 TTTTTTAACT
* *
99210684 TTACAA GTACAA GTACAA TTACAA TTACAA TTAC
1 TTACAA TTACAA TTACAA TTACAA TTACAA TTAC
99210718 GAGATGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (6 bp):
TTACAA
Found at i:99211417 original size:38 final size:38
Alignment explanation
Indices: 99211366--99211439 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 38
99211356 TCATAAAATA
99211366 TTTAATTAATTTTCATATTAATA-ATTTTTTTAAACATC
1 TTTAATTAATTTTCATATTAATATA-TTTTTTAAACATC
99211404 TTTAATTAATTTTCATATTAATATATTTTTTAAACA
1 TTTAATTAATTTTCATATTAATATATTTTTTAAACA
99211440 ATCTGGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAATTAATTTTCATATTAATATATTTTTTAAACATC
Found at i:99214326 original size:16 final size:17
Alignment explanation
Indices: 99214305--99214337 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99214295 AATTATAAAA
99214305 TAAAA-TCAAACAAATG
1 TAAAATTCAAACAAATG
*
99214321 TAAAATTCAAATAAATG
1 TAAAATTCAAACAAATG
99214338 AATAACTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAATTCAAACAAATG
Found at i:99220645 original size:15 final size:14
Alignment explanation
Indices: 99220620--99220660 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
99220610 AGTGAAAATT
99220620 AAATTATTATTTCA
1 AAATTATTATTTCA
99220634 AAATTAATTATTTCA
1 AAATT-ATTATTTCA
* *
99220649 AAGTTAGTATTT
1 AAATTATTATTT
99220661 GACGTTAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTATTATTTCA
Found at i:99240138 original size:107 final size:107
Alignment explanation
Indices: 99239942--99240259 Score: 546
Period size: 107 Copynumber: 3.0 Consensus size: 107
99239932 TTAAACTTAA
* *
99239942 AATTATATAATCTGTAGAAGAATTAAATTATAATTTTACAATTTTTACAGGGACTAGAATTGAAT
1 AATTTTATAATCTGTAGAAGAATTAAACTATAATTTTACAATTTTTACAGGGACTAGAATTGAAT
*
99240007 TATAAATTTTTTGATAAATAAAAATATTATATATTATTTTAC
66 TATAAATTTTTTGATAAATTAAAATATTATATATTATTTTAC
*
99240049 AATTTTATAGTCTGTAGAAGAATTAAACTATAATTTTACAATTTTTACAGGGACTAGAATTGAAT
1 AATTTTATAATCTGTAGAAGAATTAAACTATAATTTTACAATTTTTACAGGGACTAGAATTGAAT
*
99240114 TATAAATTTTTTGATAAATTAAAATATTATTTATTATTTTAC
66 TATAAATTTTTTGATAAATTAAAATATTATATATTATTTTAC
* * *
99240156 AATTTTACAATCTGTAGAAGAATTATACTATAATTTTACAATTTTTAAAGGGGACTAGAATTGAA
1 AATTTTATAATCTGTAGAAGAATTAAACTATAATTTTACAATTTTTACA-GGGACTAGAATTGAA
*
99240221 TTATAATTTTTTTGATAAATTAAAATATTATATATTATT
65 TTATAAATTTTTTGATAAATTAAAATATTATATATTATT
99240260 ATATTAATAA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
107 147 0.74
108 52 0.26
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (107 bp):
AATTTTATAATCTGTAGAAGAATTAAACTATAATTTTACAATTTTTACAGGGACTAGAATTGAAT
TATAAATTTTTTGATAAATTAAAATATTATATATTATTTTAC
Found at i:99247785 original size:29 final size:29
Alignment explanation
Indices: 99247704--99247785 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
99247694 GTTATAAGTA
*
99247704 TTTATACTTTTCAAAATTTTGAAATTTAGTCT
1 TTTA-ACTTTTC-AAATTTT-AAATTTAGTCC
* * **
99247736 TTTTA-TTTTTATTTTTATAAATTTAGTCC
1 TTTAACTTTTCAAATTT-TAAATTTAGTCC
99247765 TTTAACTTTTCAAATTTTAAA
1 TTTAACTTTTCAAATTTTAAA
99247786 ATTCAGGTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
29 22 0.56
30 13 0.33
31 1 0.03
32 3 0.08
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTAACTTTTCAAATTTTAAATTTAGTCC
Found at i:99258279 original size:29 final size:29
Alignment explanation
Indices: 99258185--99258281 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
99258175 TTTGATTTTA
*
99258185 GTCACTCAACTATGAAAAGTTACAAAATG
1 GTCACTCAACTATGAAATGTTACAAAATG
* * * ****
99258214 ATCA-TCAACTATTAGTAAT-TTTCTTTTTTG
1 GTCACTCAACTA-T-GAAATGTTAC-AAAATG
*
99258244 GTTACTCAACTATGAAATGTTACAAAATG
1 GTCACTCAACTATGAAATGTTACAAAATG
99258273 GTCACTCAA
1 GTCACTCAA
99258282 GTATTAGCCA
Statistics
Matches: 46, Mismatches: 17, Indels: 10
0.63 0.23 0.14
Matches are distributed among these distances:
28 7 0.15
29 21 0.46
30 11 0.24
31 7 0.15
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (29 bp):
GTCACTCAACTATGAAATGTTACAAAATG
Found at i:99258319 original size:63 final size:59
Alignment explanation
Indices: 99258180--99258319 Score: 165
Period size: 59 Copynumber: 2.3 Consensus size: 59
99258170 TTGTTTTTGA
* * *
99258180 TTTTAGTCACTCAACTATGAAAAGTTACAAAATGATCATCAACTATTAGTAATTTTCTT
1 TTTTGGTCACTCAACTATGAAAAGTTACAAAATGATCATCAACTATTAGAAATTATCTT
* * * *
99258239 TTTTGGTTACTCAACTATGAAATGTTACAAAATGGTCACTCAAGTATTAGCCAAAATTATCTT
1 TTTTGGTCACTCAACTATGAAAAGTTACAAAATGATCA-TCAACTATTAG---AAATTATCTT
99258302 TTTTGGTCA-TCCAACTAT
1 TTTTGGTCACT-CAACTAT
99258320 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 34 0.50
60 10 0.15
62 1 0.01
63 23 0.34
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (59 bp):
TTTTGGTCACTCAACTATGAAAAGTTACAAAATGATCATCAACTATTAGAAATTATCTT
Found at i:99262564 original size:24 final size:24
Alignment explanation
Indices: 99262509--99262564 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
99262499 TTTGACCCGT
99262509 TAATTATATTTATTTTTCATTTTAG
1 TAATTA-ATTTATTTTTCATTTTAG
*
99262534 -AATTTAATTT-TTTTTCCATTTTGG
1 TAA-TTAATTTATTTTT-CATTTTAG
99262558 TAATTAA
1 TAATTAA
99262565 ACTATTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 5 0.19
24 17 0.63
25 5 0.19
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
TAATTAATTTATTTTTCATTTTAG
Found at i:99264444 original size:204 final size:201
Alignment explanation
Indices: 99264089--99264603 Score: 634
Period size: 204 Copynumber: 2.5 Consensus size: 201
99264079 AAAATTGTGA
* * *
99264089 TGTCATAGATTAAGACCAATTGG-TCCATAACT-AGGTTTTATTCACATAGGACAGTCTATAGTT
1 TGTCTTAGATTAAGACCAATTGGAT-CATAACTCAGGTTTTGTTCACATAGGACAGTCTAGAGTT
* * ** *
99264152 GAGATTGCTGTACCTAAGCTGCATTTTGGGAATATAGAATTCTTTGGAGAGATTACTGTTCAAGC
65 GAGATTGTTGTACCTAAGCTGCATTTTTGGAATATAGAATTCTGGGGAGAGATTACCGTTCAAGC
* * * * *
99264217 CGGACTGATACAATATCTGGACATGGCGCTGTCGGAAAATAGATAGGGCAGTCTTTAGCTAAGAA
130 CGGACGGATACAATATCTGGACATGGCACGGTCGG--AATACATAGGGCAATCTTTAGCTAAGAA
99264282 ATTGTGTGTTC
193 A-T-TGTGTTC
*
99264293 TGTCTTAGATTAAGGCCAATTGGATCATAACTCA-GTTTTGTTCACATAGGACAGTCTAGAGTTG
1 TGTCTTAGATTAAGACCAATTGGATCATAACTCAGGTTTTGTTCACATAGGACAGTCTAGAGTTG
* *
99264357 AGATTGTTGTACTTAAGCTGCATTTTTGGAATATAGAATTCTGGGGAGAGATTACCGTTCAGGCC
66 AGATTGTTGTACCTAAGCTGCATTTTTGGAATATAGAATTCTGGGGAGAGATTACCGTTCAAGCC
*
99264422 GGACGGATACAATATCTGGACATGGCACGGTCGGAATACATAGGGCAATCTTTAGCTGAGAAATT
131 GGACGGATACAATATCTGGACATGGCACGGTCGGAATACATAGGGCAATCTTTAGCTAAGAAATT
99264487 GTGTTC
196 GTGTTC
* * * *
99264493 TATCTTTAGTTTAAGACCAACCTATTGTTGGACCGTAAC-CAGGTTTTGTTTCACATAAGG-CAG
1 TGTC-TTAGATTAAGACC-A---A---TTGGATCATAACTCAGGTTTTG-TTCACAT-AGGACAG
99264556 TCTAGAGTTGAGA---TTGTACCTAAGCTGCA-TTTTGGAAATATAGAATTC
56 TCTAGAGTTGAGATTGTTGTACCTAAGCTGCATTTTTGG-AATATAGAATTC
99264604 CTTTTATGAA
Statistics
Matches: 274, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
200 10 0.04
201 12 0.04
202 27 0.10
204 145 0.53
205 9 0.03
206 27 0.10
207 2 0.01
208 16 0.06
209 23 0.08
210 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (201 bp):
TGTCTTAGATTAAGACCAATTGGATCATAACTCAGGTTTTGTTCACATAGGACAGTCTAGAGTTG
AGATTGTTGTACCTAAGCTGCATTTTTGGAATATAGAATTCTGGGGAGAGATTACCGTTCAAGCC
GGACGGATACAATATCTGGACATGGCACGGTCGGAATACATAGGGCAATCTTTAGCTAAGAAATT
GTGTTC
Found at i:99275028 original size:169 final size:165
Alignment explanation
Indices: 99274744--99275061 Score: 383
Period size: 169 Copynumber: 1.9 Consensus size: 165
99274734 TCATGGACCA
** * **
99274744 AGTGAACAAATGCTGCAAGCTAAGCTTGAATGGTAGAAAACACTTGCATTAAGCTAAACTTTTAA
1 AGTGAACAAATGCTGCAAGCTAAGCTAAAATAGTAGAAAACACTCACATTAAGCTAAACTTTTAA
* * * * *
99274809 AGAAATTATGGCAGAGATCCCTTAAAAACTTGCATAAATGGGATAAATTGAAATTAAGCTACAAC
66 AGAAATCATGACAGAAAGCCCATAAAAACTTGCATAAATGGGATAAATTGAAATTAAG---CAAC
*
99274874 TTCTTATGAACCACACATCAAAACAACATAAAAAACCC
128 TTCTTAAGAACCACACATCAAAACAACATAAAAAACCC
* * *
99274912 AGTGACCAAATGCTGCAAGCT-AGCTCAAATATAGTGGAAAACACTCACGTTAAGCTAAACTTTT
1 AGTGAACAAATGCTGCAAGCTAAGCT-AAA-ATAGTAGAAAACACTCACATTAAGCTAAACTTTT
*
99274976 ACTA-AAATCATGACAGAAAGCCCAT-AAAACTTACGCAT-AATGGGATAAATTGAAATTAAGCA
64 A-AAGAAATCATGACAGAAAGCCCATAAAAACTT--GCATAAATGGGATAAATTGAAATTAAGCA
* *
99275038 ACTTCTTAAGAACCGCATATCAAA
126 ACTTCTTAAGAACCACACATCAAA
99275062 TCAATTTACA
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
166 23 0.18
167 4 0.03
168 28 0.22
169 68 0.53
170 5 0.04
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (165 bp):
AGTGAACAAATGCTGCAAGCTAAGCTAAAATAGTAGAAAACACTCACATTAAGCTAAACTTTTAA
AGAAATCATGACAGAAAGCCCATAAAAACTTGCATAAATGGGATAAATTGAAATTAAGCAACTTC
TTAAGAACCACACATCAAAACAACATAAAAAACCC
Found at i:99277657 original size:2 final size:2
Alignment explanation
Indices: 99277650--99277684 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
99277640 ACCATTGACG
*
99277650 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99277685 CAAAGCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:99279988 original size:24 final size:23
Alignment explanation
Indices: 99279955--99280003 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
99279945 ATGCAAAAAT
* *
99279955 TAAAATAATATTAAGATGATTAAA
1 TAAAAAAATATTAAAAT-ATTAAA
99279979 TAAAAAAATATTAAAATATTAAA
1 TAAAAAAATATTAAAATATTAAA
99280002 TA
1 TA
99280004 TCAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAAAAAATATTAAAATATTAAA
Found at i:99283046 original size:395 final size:388
Alignment explanation
Indices: 99282312--99283359 Score: 1394
Period size: 395 Copynumber: 2.7 Consensus size: 388
99282302 TATAATTAAA
* ** *
99282312 GGTATGTTCATTTAACAGAAGCTATAATTCACTACATGTTGGATGGTGTTTGCTTTTATGGCAAA
1 GGTATGTTCATTTAACACAAGCTATAATTCACTACATGTTGGATCATG-TTGCTTTTATGACAAA
99282377 TAAAAATATGAATCTCATAGGTTAGTAATTATCTAGCTCTCGAAGTAATACAAGACTTCAGAAAT
65 TAAAAATATGAATCTCATA-GTTAGT-ATTATCTAGCTCTCGAAGTAATACAAGACTTCAGAAAT
* **
99282442 TCATGACCGAACGAACCTTGATCCATCCA------TT-TTCCTACTGAAAATGAGATCAATGTAA
128 TCATGACCGAA-GAACCTTGATCCATCCATTTTTGTTGTTCCTATTGAAAATGAGATTGATGTAA
* * * *
99282500 AAGTTTCCAGTTTTGTATCTTGTCTCACTTTCTGAATAATTGCTTTGTCTCTTCCCTTTGTTCTC
192 AAGTTCCCAGTTTTGTATCTTGT-TAACTTTCTGATTAATTGCTTCGTCTCTTCCCTTTGTTCTC
* * *
99282565 TCATATATGTGTGTTAGCAAGTTAAATTGAATTTTCTGTGTAAGTTCAGAAATAAGAATTTTTGA
256 TCATATGTGTGTGTTAGCAAGTTAAATTGAATTTTCTGTGCAACTTCAGAAATAAGAATTTTTGA
* * * *
99282630 GTGATGGGGCTGGAGTTCGCTAGAAACTTATTATGAAACTATCTTGTGTATGATTAATGACCAAA
321 GTGATGGGGCTGGAATTCGCTAGAAACTCATAATGAAACTATATTGTGTATGATTAATGACCAAA
99282695 AGC-
386 A-CT
* * * * **
99282698 GGTATGTTCATTTAACATAAGCTATATAATTCACTACGTGTTGGATCATGTTGCTCTCATGATGA
1 GGTATGTTCATTTAACACAAGC--TATAATTCACTACATGTTGGATCATGTTGCTTTTATGACAA
99282763 ATAAAAATATGAATCTCATA-TCTAGTCATTATCTAGCTCTCGAAGTAATA-AGAGACTTCAGAA
64 ATAAAAATATGAATCTCATAGT-TAGT-ATTATCTAGCTCTCGAAGTAATACA-AGACTTCAGAA
*
99282826 ATTCATGACCGAATGAACCTTGATCCATTCATTTTTGTTGTTCCTATTGAAAATGAGATTGATGT
126 ATTCATGACCGAA-GAACCTTGATCCATCCATTTTTGTTGTTCCTATTGAAAATGAGATTGATGT
* * *
99282891 AAAAAAGTTCCCATTTTTGTATCTTGTTAAACTTTCTGATTAATTGCTTCGACTCTTCACTTTGT
190 --AAAAGTTCCCAGTTTTGTATCTTGTT-AACTTTCTGATTAATTGCTTCGTCTCTTCCCTTTGT
* *
99282956 TC-CATCATATGTGTGTGTTAGGAAGTTAAATTGAATTTTCTGTGCAACTTCAGAATTAAGAATT
252 TCTC-TCATATGTGTGTGTTAGCAAGTTAAATTGAATTTTCTGTGCAACTTCAGAAATAAGAATT
* *
99283020 TTTTAGTGACT-GTGCTGGAATTCGCTAGAAACTCATAATGAAACTATATTGTGTATGATTAATG
316 TTTGAGTGA-TGGGGCTGGAATTCGCTAGAAACTCATAATGAAACTATATTGTGTATGATTAATG
99283084 ACCAAAACT
380 ACCAAAACT
* *
99283093 GGTATTTTCATTTAATACAAGC--T-ATTCACTACATGTTGGATCATGTTGCTTTTATGACAAAT
1 GGTATGTTCATTTAACACAAGCTATAATTCACTACATGTTGGATCATGTTGCTTTTATGACAAAT
* * *
99283155 GAAAATATGAATCTCATAGGTTAGTACTTATCTAGCTCTCAAAGTGATACAAGACTTCAGAAATT
66 AAAAATATGAATCTCATA-GTTAGTA-TTATCTAGCTCTCGAAGTAATACAAGACTTCAGAAATT
* * *
99283220 CATGACC---GAACCTTGTTCCATCCATTTTTGTTGTCCCTATTGAAAATGATATTGATGTAAAA
129 CATGACCGAAGAACCTTGATCCATCCATTTTTGTTGTTCCTATTGAAAATGAGATTGATGTAAAA
* ***
99283282 GTTCCCAGTTTTATATCTTGTTGAACTTTCTGATTAATTGCTTCGTCTCTTCCCTCCATTCTCTC
194 GTTCCCAGTTTTGTATCTTGTT-AACTTTCTGATTAATTGCTTCGTCTCTTCCCTTTGTTCTCTC
99283347 ATATGTGTGTGTT
258 ATATGTGTGTGTT
99283360 GTTGCATGCC
Statistics
Matches: 584, Mismatches: 56, Indels: 45
0.85 0.08 0.07
Matches are distributed among these distances:
385 74 0.13
386 89 0.15
387 77 0.13
388 23 0.04
390 52 0.09
391 46 0.08
392 4 0.01
393 22 0.04
394 3 0.01
395 193 0.33
396 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (388 bp):
GGTATGTTCATTTAACACAAGCTATAATTCACTACATGTTGGATCATGTTGCTTTTATGACAAAT
AAAAATATGAATCTCATAGTTAGTATTATCTAGCTCTCGAAGTAATACAAGACTTCAGAAATTCA
TGACCGAAGAACCTTGATCCATCCATTTTTGTTGTTCCTATTGAAAATGAGATTGATGTAAAAGT
TCCCAGTTTTGTATCTTGTTAACTTTCTGATTAATTGCTTCGTCTCTTCCCTTTGTTCTCTCATA
TGTGTGTGTTAGCAAGTTAAATTGAATTTTCTGTGCAACTTCAGAAATAAGAATTTTTGAGTGAT
GGGGCTGGAATTCGCTAGAAACTCATAATGAAACTATATTGTGTATGATTAATGACCAAAACT
Found at i:99286103 original size:14 final size:15
Alignment explanation
Indices: 99286084--99286112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99286074 TTTAAAACCT
99286084 ATTAAA-ATTTTAAA
1 ATTAAATATTTTAAA
99286098 ATTAAATATTTTAAA
1 ATTAAATATTTTAAA
99286113 TTACAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATATTTTAAA
Found at i:99286245 original size:1 final size:1
Alignment explanation
Indices: 99286239--99286273 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
99286229 TTTGGTCTCC
*
99286239 TTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
99286274 GCTTTTCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:99286802 original size:18 final size:18
Alignment explanation
Indices: 99286779--99286813 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99286769 TCAACCTCCG
*
99286779 ACCAAATTAGATCGATTA
1 ACCAAATCAGATCGATTA
99286797 ACCAAATCAGATCGATT
1 ACCAAATCAGATCGATT
99286814 CGGTCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (18 bp):
ACCAAATCAGATCGATTA
Found at i:99289271 original size:27 final size:27
Alignment explanation
Indices: 99289233--99289286 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
99289223 TCACTGTCAA
*
99289233 AAACCTTGCCAAAGAAAGGCAGGTGAG
1 AAACCTTACCAAAGAAAGGCAGGTGAG
99289260 AAACCTTACCAAAGAAAGGCAGGTGAG
1 AAACCTTACCAAAGAAAGGCAGGTGAG
99289287 TTTGCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.28, T:0.11
Consensus pattern (27 bp):
AAACCTTACCAAAGAAAGGCAGGTGAG
Found at i:99294089 original size:7 final size:7
Alignment explanation
Indices: 99294077--99294109 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
99294067 ACTAATATTT
99294077 TAAAAAA
1 TAAAAAA
99294084 TAAAAAA
1 TAAAAAA
99294091 TAAAAAA
1 TAAAAAA
99294098 T-AAAAA
1 TAAAAAA
99294104 TAAAAA
1 TAAAAA
99294110 CTCTCTCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:99294096 original size:14 final size:13
Alignment explanation
Indices: 99294077--99294109 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
99294067 ACTAATATTT
99294077 TAAAAAATAAAAAA
1 TAAAAAAT-AAAAA
99294091 TAAAAAATAAAAA
1 TAAAAAATAAAAA
99294104 TAAAAA
1 TAAAAA
99294110 CTCTCTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:99295136 original size:36 final size:36
Alignment explanation
Indices: 99295096--99295168 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
99295086 CGATGATATA
99295096 TATATATTATGTGATTCTAGGTCTTTGCTTCTTCAT
1 TATATATTATGTGATTCTAGGTCTTTGCTTCTTCAT
99295132 TATATATTATGTGATTCTAGGTCTTTGCTTCTTCAT
1 TATATATTATGTGATTCTAGGTCTTTGCTTCTTCAT
99295168 T
1 T
99295169 GTAATGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (36 bp):
TATATATTATGTGATTCTAGGTCTTTGCTTCTTCAT
Found at i:99297127 original size:30 final size:30
Alignment explanation
Indices: 99297086--99297158 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
99297076 GCTCATGAAC
* *
99297086 GAGAAGAGAGAAGGAGGCACGTGAACTAGAA
1 GAGAA-AGAGAAGGAAGCACGTGAACGAGAA
*
99297117 GAGAAAGAGAAGGAAGCTCGTGAACGAGAA
1 GAGAAAGAGAAGGAAGCACGTGAACGAGAA
*
99297147 GAGAATGAGAAG
1 GAGAAAGAGAAG
99297159 AGATTGAGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 33 0.87
31 5 0.13
ACGTcount: A:0.47, C:0.08, G:0.38, T:0.07
Consensus pattern (30 bp):
GAGAAAGAGAAGGAAGCACGTGAACGAGAA
Found at i:99297180 original size:39 final size:39
Alignment explanation
Indices: 99297125--99297655 Score: 730
Period size: 39 Copynumber: 13.7 Consensus size: 39
99297115 AAGAGAAAGA
99297125 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* * * *
99297164 GAGGGAGGATCGTGAACGAGAAGAG-ATAGAGAAGAAATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAAT-GAGAAGAGATT
99297203 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* * * * *
99297242 GAGGGAGGCTCGTGAGCGAGAAGAGAAAGAGAAGA-A-A
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* * * * *
99297279 G-AGGAGGCACATGAACGAGAAGAGAAAGAGAAGAAATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* *
99297317 GAAGGAAGCTCGTGAACGAGAAGAGAAAGAGAAGAAATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
*
99297356 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAGGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
99297395 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
** * * **
99297434 GAAGGAAATTCGTGAACGAGAAGAGAAAGAGAAGAAAGA
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* * *
99297473 GAAGG-AGGTACGTGAACGAGAAGAGAAAGAGAAGAAATT
1 GAAGGAAGCT-CGTGAACGAGAAGAGAATGAGAAGAGATT
* * *
99297512 GAAAGAAGCTCGTGAACAAGAAGAGAATGAGCAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
99297551 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
* *
99297590 GAAGGAAGCTTGTGAACAAGAAGAGAATGAGAAGAGATT
1 GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
99297629 GAAGGAAGCTCGTGAACGAGAAGAGAA
1 GAAGGAAGCTCGTGAACGAGAAGAGAA
99297656 ATTGAAGGAA
Statistics
Matches: 437, Mismatches: 48, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
36 29 0.07
37 2 0.00
38 6 0.01
39 395 0.90
40 5 0.01
ACGTcount: A:0.46, C:0.07, G:0.36, T:0.11
Consensus pattern (39 bp):
GAAGGAAGCTCGTGAACGAGAAGAGAATGAGAAGAGATT
Found at i:99297662 original size:30 final size:30
Alignment explanation
Indices: 99297618--99297746 Score: 199
Period size: 30 Copynumber: 4.4 Consensus size: 30
99297608 AGAAGAGAAT
99297618 GAGAAGAG--ATTGAAGGAAGCTCGTGAAC
1 GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
*
99297646 GAGAAGAGAAATTGAAGGAAGCTTGTGAAC
1 GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
99297676 GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
1 GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
** * *
99297706 GAGAAGAGAAAGAGAAGGAGGCACGTGAAC
1 GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
99297736 GAGAAGAGAAA
1 GAGAAGAGAAA
99297747 GAGAGGAAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 8 0.09
30 85 0.91
ACGTcount: A:0.45, C:0.09, G:0.36, T:0.11
Consensus pattern (30 bp):
GAGAAGAGAAATTGAAGGAAGCTCGTGAAC
Found at i:99300728 original size:29 final size:29
Alignment explanation
Indices: 99300695--99300752 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
99300685 AGATTTTTTT
* *
99300695 TAATACGGTATTTGTGTTA-GTTTTTGGTC
1 TAATACGCTACTTGTGTTATG-TTTTGGTC
*
99300724 TAATATGCTACTTGTGTTATGTTTTGGTC
1 TAATACGCTACTTGTGTTATGTTTTGGTC
99300753 CAGTTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.17, C:0.09, G:0.22, T:0.52
Consensus pattern (29 bp):
TAATACGCTACTTGTGTTATGTTTTGGTC
Found at i:99302625 original size:12 final size:12
Alignment explanation
Indices: 99302608--99302632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99302598 ATTTTATAGC
99302608 ATAAATATTGTT
1 ATAAATATTGTT
99302620 ATAAATATTGTT
1 ATAAATATTGTT
99302632 A
1 A
99302633 ATAGTCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:99307040 original size:53 final size:53
Alignment explanation
Indices: 99306960--99307111 Score: 243
Period size: 53 Copynumber: 2.9 Consensus size: 53
99306950 TTTTTAACCG
*
99306960 ATTGGCTTGACGCTCACATTCGAGACACGAAATTCGTCCTCCAAAAGCCGGTC
1 ATTGGCTCGACGCTCACATTCGAGACACGAAATTCGTCCTCCAAAAGCCGGTC
* *
99307013 ATTGGCTCAACGCTCACATTCGAGACACGAAATTCATCCTCCAAAAGCCGGTC
1 ATTGGCTCGACGCTCACATTCGAGACACGAAATTCGTCCTCCAAAAGCCGGTC
* *
99307066 ATTGGCTCGACGCTCACATTCGAGACGA-GGAATCCGTCCTCCAAAA
1 ATTGGCTCGACGCTCACATTCGAGAC-ACGAAATTCGTCCTCCAAAA
99307112 TCCGATCCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 90 0.99
54 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (53 bp):
ATTGGCTCGACGCTCACATTCGAGACACGAAATTCGTCCTCCAAAAGCCGGTC
Found at i:99310476 original size:46 final size:46
Alignment explanation
Indices: 99310410--99310626 Score: 283
Period size: 46 Copynumber: 4.7 Consensus size: 46
99310400 TGGCAACATG
* *
99310410 TGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* * * *
99310456 TGTGTAAGACTATGTTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
99310502 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
99310548 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
99310594 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
99310627 TCACGTCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 153 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:99310931 original size:23 final size:25
Alignment explanation
Indices: 99310886--99310932 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
99310876 AATAAATATA
*
99310886 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
99310911 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
99310933 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:99314983 original size:72 final size:71
Alignment explanation
Indices: 99314883--99315125 Score: 326
Period size: 72 Copynumber: 3.4 Consensus size: 71
99314873 AGAGGATGAA
*
99314883 CTCGAGAAGGATGAGGCCTCAAAGAAAGCCGAGGTTAAAGAATCTCGAGAACTGAAAATCGAACA
1 CTCGAGAAGGATGA-GCCTCGAAGAAAGCCGAGGTTAAAGAATCTCGAGAACTGAAAATCGAACA
99314948 CAAGTAT
65 CAAGTAT
* * *
99314955 CTCAAGAAGGATGAGCCCTTGAAGAAAGCCGAGGTTAAAGAATCTCGAGAACTGAAAATTGAACA
1 CTCGAGAAGGATGAG-CCTCGAAGAAAGCCGAGGTTAAAGAATCTCGAGAACTGAAAATCGAACA
*
99315020 CAAGTGT
65 CAAGTAT
* * * *
99315027 CCCGAGAAGGACGAAGTCTCGAAGAAAGCCGAGGTTAAAGAATC-CGAAGAATTGAAAATCGAAC
1 CTCGAGAAGGATG-AGCCTCGAAGAAAGCCGAGGTTAAAGAATCTCG-AGAACTGAAAATCGAAC
*
99315091 ACAAATAT
64 ACAAGTAT
* *
99315099 CTCGAGAAAGAGGAAGCCTCGAAGAAA
1 CTCGAGAAGGATG-AGCCTCGAAGAAA
99315126 ACCAACTTTT
Statistics
Matches: 150, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
71 3 0.02
72 145 0.97
73 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (71 bp):
CTCGAGAAGGATGAGCCTCGAAGAAAGCCGAGGTTAAAGAATCTCGAGAACTGAAAATCGAACAC
AAGTAT
Found at i:99319747 original size:17 final size:18
Alignment explanation
Indices: 99319725--99319763 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
99319715 TTATTCAATG
99319725 TTTTTTAATT-AATAATT
1 TTTTTTAATTAAATAATT
* *
99319742 TTTTTTATTTAAATACTT
1 TTTTTTAATTAAATAATT
99319760 TTTT
1 TTTT
99319764 ACTCTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTAATTAAATAATT
Found at i:99322551 original size:22 final size:22
Alignment explanation
Indices: 99322525--99322569 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
99322515 GAAAGGTGAC
99322525 TCACGTGTCAACAAAGGATTTA
1 TCACGTGTCAACAAAGGATTTA
99322547 TCACGTGTCAACAAAGGATTTA
1 TCACGTGTCAACAAAGGATTTA
99322569 T
1 T
99322570 GTTTAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
TCACGTGTCAACAAAGGATTTA
Found at i:99324531 original size:15 final size:16
Alignment explanation
Indices: 99324501--99324534 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
99324491 AAAATAGTTA
*
99324501 TTATTTTATAAGTTTT
1 TTATTTTATAACTTTT
99324517 TTATTTTA-AACTTTT
1 TTATTTTATAACTTTT
99324532 TTA
1 TTA
99324535 GCATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTTATAACTTTT
Found at i:99338182 original size:126 final size:129
Alignment explanation
Indices: 99337925--99338173 Score: 339
Period size: 128 Copynumber: 2.0 Consensus size: 129
99337915 GGTGTAGGCA
* * *
99337925 TTAGGGTCTAAGTTCTAAGTCTTACTATGTGTAAATGTGTGTTCAGTGTAATTTTACTATTGTCC
1 TTAGGGTCTAAGTTCTAAGTCTTACAATGCGTAAATATGTGTTCAGTGTAATTTTACTATTGTCC
* * *
99337990 TTGTTTAGAATCGTACAATTTTTAAAGGGACTAATAAGGAAATTTTCCATTTTGAGGGGCTGGT
66 TTGTTTAGAATAGTACAATTTATAAAGGGACTAACAAGGAAATTTTCCATTTTGAGGGGCTGGT
*
99338054 TTAGGGTCTAAG-TCATAAGTCTTACAATGCGTAAATATG-GCTT-GGTGTAATTTTACTATTGT
1 TTAGGGTCTAAGTTC-TAAGTCTTACAATGCGTAAATATGTG-TTCAGTGTAATTTTACTATTGT
* * *
99338116 CCTTGTTTA-AAGTATTACCA-TTATAAGGGGACT-ACAAGGAAATTTTCCATTTTGAGGG
64 CCTTGTTTAGAA-TAGTACAATTTATAAAGGGACTAACAAGGAAATTTTCCATTTTGAGGG
99338174 ATCGGTTTAA
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
126 24 0.22
127 13 0.12
128 35 0.33
129 35 0.33
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (129 bp):
TTAGGGTCTAAGTTCTAAGTCTTACAATGCGTAAATATGTGTTCAGTGTAATTTTACTATTGTCC
TTGTTTAGAATAGTACAATTTATAAAGGGACTAACAAGGAAATTTTCCATTTTGAGGGGCTGGT
Found at i:99338462 original size:121 final size:121
Alignment explanation
Indices: 99338319--99338551 Score: 319
Period size: 121 Copynumber: 1.9 Consensus size: 121
99338309 TTTGTTTCGG
**
99338319 GTCTAAGTCTTACTATTTGTAAATGTGTGGTTCAATG-AAATTTACTACCGTCCTTGTTTAAAAT
1 GTCTAAGTCTTACTATGCGTAAATGTGTGGTTCAATGTAAATTTACTACCGTCCTTGTTTAAAAT
* * **
99338383 TTTAC-AATTTTTAAAGGGACT-TGGGAAAATTTTCCATTTTGTGGGGCCGATTTAGA
66 CTTACAAAATTTTAAAGGGACTAAAGG-AAATTTTCCATTTT-TGGGGCCGATTTAGA
* ** *
99338439 GTCTAAAGTCTTACTATGCGTAAATGTGTGGTTCAATGTAATTTTACTATTGTCCTTGTTTAGAA
1 GTCT-AAGTCTTACTATGCGTAAATGTGTGGTTCAATGTAAATTTACTACCGTCCTTGTTTAAAA
99338504 TCTTACAAAATTTTAAAGGGACTACAAGGAAATTTTCCATTTTTGGGG
65 TCTTACAAAATTTTAAAGGGACTA-AAGGAAATTTTCCATTTTTGGGG
99338552 TGCCTAGGTC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
120 4 0.04
121 31 0.32
122 27 0.28
123 20 0.20
124 14 0.14
125 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (121 bp):
GTCTAAGTCTTACTATGCGTAAATGTGTGGTTCAATGTAAATTTACTACCGTCCTTGTTTAAAAT
CTTACAAAATTTTAAAGGGACTAAAGGAAATTTTCCATTTTTGGGGCCGATTTAGA
Found at i:99349781 original size:66 final size:66
Alignment explanation
Indices: 99349675--99349808 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
99349665 TTAAGATTTG
99349675 TTACTTCTCAAACGACAATATGAGATGACAATATAAATAAAGATAAATTTTCATTCGATCATGAT
1 TTACTTCTCAAACGACAATATGAGATGACAATATAAATAAAGATAAATTTTCATTCGATCATGAT
99349740 A
66 A
99349741 TTACTTCTCAAACGACAATATGAGATGACAATATAAATAAAGATAAATTTTCATTCGATCATGAT
1 TTACTTCTCAAACGACAATATGAGATGACAATATAAATAAAGATAAATTTTCATTCGATCATGAT
99349806 A
66 A
99349807 TT
1 TT
99349809 CTCAACATAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (66 bp):
TTACTTCTCAAACGACAATATGAGATGACAATATAAATAAAGATAAATTTTCATTCGATCATGAT
A
Found at i:99351892 original size:2 final size:2
Alignment explanation
Indices: 99351885--99351914 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99351875 AATCGTTGAA
99351885 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
99351915 GCAGGACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:99357051 original size:36 final size:36
Alignment explanation
Indices: 99357010--99357085 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
99357000 CTTGATTATG
99357010 ATAAAAAAATAATAATAATAAACTTGAATGGGGTAT
1 ATAAAAAAATAATAATAATAAACTTGAATGGGGTAT
99357046 ATAAAAAAATAATAATAATAAACTTGAATGGGGTAT
1 ATAAAAAAATAATAATAATAAACTTGAATGGGGTAT
99357082 ATAA
1 ATAA
99357086 CACTTAGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.28
Consensus pattern (36 bp):
ATAAAAAAATAATAATAATAAACTTGAATGGGGTAT
Found at i:99357493 original size:15 final size:16
Alignment explanation
Indices: 99357447--99357495 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
99357437 CAATTGAATT
99357447 AAATTTATGATTTTTATTA
1 AAATTTAT-A-TTTTA-TA
*
99357466 AAATTTTTATTTTATA
1 AAATTTATATTTTATA
99357482 AAA-TTATATTTTAT
1 AAATTTATATTTTAT
99357496 CTTAATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
16 5 0.18
17 5 0.18
18 1 0.04
19 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
AAATTTATATTTTATA
Found at i:99367911 original size:59 final size:59
Alignment explanation
Indices: 99367839--99367952 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
99367829 AGTCATTGAC
* * *
99367839 TATTAGTAAATTTTTATTTAGTTA-TCTAATTATTAAAAGTTATAAAATGATCACTCAAT
1 TATTAGTAAATTTTTATTTAGTCATTC-AACTATGAAAAGTTATAAAATGATCACTCAAT
* *
99367898 TATTAGTAAATTTTTTTTTAGTCATTCAACTATGAAAAGTTATAAAATGGTCACT
1 TATTAGTAAATTTTTATTTAGTCATTCAACTATGAAAAGTTATAAAATGATCACT
99367953 TAACTCTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 47 0.96
60 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (59 bp):
TATTAGTAAATTTTTATTTAGTCATTCAACTATGAAAAGTTATAAAATGATCACTCAAT
Found at i:99368100 original size:60 final size:59
Alignment explanation
Indices: 99368030--99368148 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 59
99368020 AAATAGTTGT
*
99368030 GTGACCAAAAAAGATAAAGTT-GAATAGGTGAG-TGATTATTTTGTAACTTTTCATAATTAA
1 GTGACC-AAAAA-ATAAAGTTAGAATA-GTGAGATGATCATTTTGTAACTTTTCATAATTAA
* * *
99368090 GTGACCAAAAAATAAATTTACTAATAGTTAGATGATCATTTTGTAACTTTTCATAATTA
1 GTGACCAAAAAATAAAGTTA-GAATAGTGAGATGATCATTTTGTAACTTTTCATAATTA
99368149 GATAACCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
58 7 0.13
59 9 0.17
60 36 0.69
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (59 bp):
GTGACCAAAAAATAAAGTTAGAATAGTGAGATGATCATTTTGTAACTTTTCATAATTAA
Found at i:99368161 original size:60 final size:58
Alignment explanation
Indices: 99368062--99368173 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 58
99368052 AATAGGTGAG
* * *
99368062 TGATTATTTTGTAACTTTTCATAATTAAGTGACCAAAAAATAAATTTACTAATAGTTAGA
1 TGATCATTTTGTAACTTTTCATAATTAAGTAACCAAAAAA-AAA-TCACTAATAGTTAGA
*
99368122 TGATCATTTTGTAACTTTTCATAATT-AGATAACCCAAAAAAAATCACTAATA
1 TGATCATTTTGTAACTTTTCATAATTAAG-TAACCAAAAAAAAATCACTAATA
99368174 ATTGGGTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 8 0.17
59 5 0.11
60 34 0.72
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (58 bp):
TGATCATTTTGTAACTTTTCATAATTAAGTAACCAAAAAAAAATCACTAATAGTTAGA
Found at i:99372306 original size:83 final size:84
Alignment explanation
Indices: 99372144--99372315 Score: 224
Period size: 83 Copynumber: 2.0 Consensus size: 84
99372134 AAGAATCTTC
* * *
99372144 AATTCAGTCCTCTTATAAATAAAAAAAAATTATAAATTAATTTATAGTGAAATTACACTTTAACT
1 AATTCAGTCCTCTTATAAAT-AAAAAAAATTATAAATTAATTAATAGTAAAATTACACTTTAACC
*
99372209 CCCCAAAATATAAAAAAATT
65 CCCCAAAATATAAAAAAAAT
* * *
99372229 AATTCAGTCCTCTTATTAAT-AAAGAAATTATAAATTAA-TAATAGTAAAATTGCA-TTTAACCC
1 AATTCAGTCCTCTTATAAATAAAAAAAATTATAAATTAATTAATAGTAAAATTACACTTTAACCC
*
99372291 CCCTAAAAATTTAAAAAAAAT
66 CCC--AAAATATAAAAAAAAT
99372312 AATT
1 AATT
99372316 ATTTTTAGTC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
81 10 0.13
82 13 0.17
83 35 0.45
85 19 0.25
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (84 bp):
AATTCAGTCCTCTTATAAATAAAAAAAATTATAAATTAATTAATAGTAAAATTACACTTTAACCC
CCCAAAATATAAAAAAAAT
Found at i:99376379 original size:20 final size:21
Alignment explanation
Indices: 99376354--99376392 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
99376344 TTATTGAACT
*
99376354 TGACAAAT-GTAAAAATTTGA
1 TGACAAATAATAAAAATTTGA
99376374 TGACAAATAATAAAAATTT
1 TGACAAATAATAAAAATTT
99376393 TGACAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (21 bp):
TGACAAATAATAAAAATTTGA
Found at i:99382161 original size:15 final size:16
Alignment explanation
Indices: 99382143--99382172 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99382133 ATTAATATTA
99382143 TTTTTAT-ATTTATAT
1 TTTTTATCATTTATAT
99382158 TTTTTATCATTTATA
1 TTTTTATCATTTATA
99382173 AATATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATCATTTATAT
Found at i:99385436 original size:20 final size:20
Alignment explanation
Indices: 99385411--99385451 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
99385401 CAAGATGATT
* *
99385411 TTTTTTAATTATACTATTAA
1 TTTTTTAAGTATAATATTAA
99385431 TTTTTTAAGTATAATATTAA
1 TTTTTTAAGTATAATATTAA
99385451 T
1 T
99385452 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTTTAAGTATAATATTAA
Found at i:99387694 original size:73 final size:72
Alignment explanation
Indices: 99387615--99387777 Score: 187
Period size: 67 Copynumber: 2.3 Consensus size: 72
99387605 ATCGAATATT
* * *
99387615 TATTTTTAAGTTCGAGTTCGAGTTCACTTTAAAATTTAAAGTTTGATGTTCAGTTCAAACTCAAT
1 TATTTTTAAGTTCGAGTTCGAGTTCAC-TTAAAATTCAAAGTTTGATGCTCAGCTCAAACTCAAT
* *
99387680 TGAGTATC
65 TAAGCATC
* * *
99387688 TATTTTTAAGTTCGAGCTC-A----ACTTGAAATTCAAAGTTTGATGCTCAGCTCAAGCTCAATT
1 TATTTTTAAGTTCGAGTTCGAGTTCACTTAAAATTCAAAGTTTGATGCTCAGCTCAAACTCAATT
99387748 AAGCATC
66 AAGCATC
*
99387755 TA-TTTTAAGTTTGAGTTCG-GTTC
1 TATTTTTAAGTTCGAGTTCGAGTTC
99387778 GATATATAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
66 14 0.19
67 40 0.53
68 2 0.03
72 1 0.01
73 18 0.24
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (72 bp):
TATTTTTAAGTTCGAGTTCGAGTTCACTTAAAATTCAAAGTTTGATGCTCAGCTCAAACTCAATT
AAGCATC
Found at i:99395266 original size:22 final size:20
Alignment explanation
Indices: 99395219--99395266 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
99395209 AATAAATAAA
99395219 AAATTAAAAAATATTAAATAT
1 AAATTAAAAAATA-TAAATAT
99395240 AAAATTAAAAATAATATAAATAT
1 -AAATT-AAAA-AATATAAATAT
99395263 AAAT
1 AAAT
99395267 CTACCAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTAAAAAATATAAATAT
Found at i:99403376 original size:17 final size:18
Alignment explanation
Indices: 99403346--99403391 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
99403336 ATTTAAATTA
99403346 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
99403364 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
99403380 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
99403392 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:99405156 original size:18 final size:19
Alignment explanation
Indices: 99405118--99405157 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
99405108 AAATGAATCC
*
99405118 ATATATAAAATATATTATA
1 ATATATAAAATAAATTATA
*
99405137 ATATAT-AAATAAATTCTA
1 ATATATAAAATAAATTATA
99405155 ATA
1 ATA
99405158 CCTTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATATAAAATAAATTATA
Found at i:99407903 original size:20 final size:18
Alignment explanation
Indices: 99407880--99407923 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
99407870 AAAAAATATT
99407880 ATAATAATTAATTGAAGAAA
1 ATAATAA-TAATT-AAGAAA
99407900 ATAATAATAATTAAGAAA
1 ATAATAATAATTAAGAAA
99407918 A-AATAA
1 ATAATAA
99407924 AAAAGGGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 5 0.21
20 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
ATAATAATAATTAAGAAA
Found at i:99407904 original size:17 final size:17
Alignment explanation
Indices: 99407882--99407922 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
99407872 AAAATATTAT
99407882 AATAAT-TAATTGAAGAA
1 AATAATATAATT-AAGAA
99407899 AATAATAATAATTAAGAA
1 AATAAT-ATAATTAAGAA
99407917 AA-AATA
1 AATAATA
99407923 AAAAAGGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 9 0.41
18 7 0.32
19 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
AATAATATAATTAAGAA
Found at i:99418705 original size:22 final size:24
Alignment explanation
Indices: 99418680--99418737 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
99418670 ATATATTTTT
*
99418680 ATTTATA-ATTTAATATTTAAT-A
1 ATTTATATATATAATATTTAATAA
* *
99418702 ATTT-TATATATATTATTTATTAA
1 ATTTATATATATAATATTTAATAA
99418725 ATTTATATATATA
1 ATTTATATATATA
99418738 TCGTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 5 0.17
24 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTATATATATAATATTTAATAA
Found at i:99418748 original size:24 final size:23
Alignment explanation
Indices: 99418701--99418748 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
99418691 AATATTTAAT
*
99418701 AATTTTATATATATTATTTATTA
1 AATTTTATATATATCATTTATTA
* *
99418724 AATTTATATATATATCGTTTTTTA
1 AATTT-TATATATATCATTTATTA
99418748 A
1 A
99418749 GGTTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTTTATATATATCATTTATTA
Found at i:99419397 original size:22 final size:23
Alignment explanation
Indices: 99419348--99419399 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
99419338 TAAAATTTTG
* *
99419348 ATTTAATCTCTTAAAAATTACAT
1 ATTTAATATCGTAAAAATTACAT
*
99419371 TTTTAATATCGTAAAAATTACA-
1 ATTTAATATCGTAAAAATTACAT
99419393 ATTTAAT
1 ATTTAAT
99419400 TTTGGCCTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTAATATCGTAAAAATTACAT
Found at i:99423761 original size:3 final size:3
Alignment explanation
Indices: 99423753--99423779 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99423743 CACTTCCATG
99423753 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
99423780 ACCTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:99424698 original size:4 final size:4
Alignment explanation
Indices: 99424689--99424734 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
99424679 TTCCGGCTTT
*
99424689 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA GGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
99424735 AAAGTTACCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:99432816 original size:19 final size:19
Alignment explanation
Indices: 99432759--99432816 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
99432749 TATCTCTTCT
99432759 TTACTATACTGCTAACTCA
1 TTACTATACTGCTAACTCA
* *
99432778 -TAC-ATTCT-CTATCTCTTCA
1 TTACTATACTGCTA--AC-TCA
99432797 TTACTATACTGCTAACTCA
1 TTACTATACTGCTAACTCA
99432816 T
1 T
99432817 GTCAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 4 0.14
19 7 0.24
20 4 0.14
21 4 0.14
22 3 0.10
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (19 bp):
TTACTATACTGCTAACTCA
Found at i:99433723 original size:34 final size:34
Alignment explanation
Indices: 99433660--99433745 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
99433650 TGCAATTTAT
*
99433660 AACAAATAAAAATTAAATTATATACTATAATGTA
1 AACAAATAAAAATTAAATTATATAATATAATGTA
* * *
99433694 AACAAA-AAAAATGTTAAGTTATA-AATATAATTTT
1 AACAAATAAAAA--TTAAATTATATAATATAATGTA
*
99433728 AATAAATAAAAATATAAA
1 AACAAATAAAAAT-TAAA
99433746 AGCATTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
33 6 0.14
34 22 0.52
35 14 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (34 bp):
AACAAATAAAAATTAAATTATATAATATAATGTA
Found at i:99434782 original size:27 final size:27
Alignment explanation
Indices: 99434752--99434862 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
99434742 TGAAAATCAC
* * *
99434752 GGTCCCTTGTATCAACATACCTTTGTT
1 GGTCCCTTGGATCGACATACCTCTGTT
* *
99434779 GGTCCCTCGGATCGACGTACCTCTGTT
1 GGTCCCTTGGATCGACATACCTCTGTT
* *
99434806 GGTCTCTTGGATCGACATACCTTTGTT
1 GGTCCCTTGGATCGACATACCTCTGTT
* * *
99434833 GATCCCTTGTATCGACGTACCTCTGTT
1 GGTCCCTTGGATCGACATACCTCTGTT
99434860 GGT
1 GGT
99434863 TTCCGAAATA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (27 bp):
GGTCCCTTGGATCGACATACCTCTGTT
Found at i:99434848 original size:54 final size:54
Alignment explanation
Indices: 99434752--99434862 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
99434742 TGAAAATCAC
* *
99434752 GGTCCCTTGTATCAACATACCTTTGTTGGTCCCTCGGATCGACGTACCTCTGTT
1 GGTCCCTTGGATCAACATACCTTTGTTGATCCCTCGGATCGACGTACCTCTGTT
* * * *
99434806 GGTCTCTTGGATCGACATACCTTTGTTGATCCCTTGTATCGACGTACCTCTGTT
1 GGTCCCTTGGATCAACATACCTTTGTTGATCCCTCGGATCGACGTACCTCTGTT
99434860 GGT
1 GGT
99434863 TTCCGAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (54 bp):
GGTCCCTTGGATCAACATACCTTTGTTGATCCCTCGGATCGACGTACCTCTGTT
Found at i:99436921 original size:13 final size:13
Alignment explanation
Indices: 99436903--99436928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99436893 CAATACAAAA
99436903 AATGTTTTATGTT
1 AATGTTTTATGTT
99436916 AATGTTTTATGTT
1 AATGTTTTATGTT
99436929 TAAAAGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
AATGTTTTATGTT
Found at i:99446142 original size:47 final size:47
Alignment explanation
Indices: 99446033--99446143 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
99446023 CCGGGATAAG
* * *
99446033 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
99446080 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
99446127 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99446144 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:99453040 original size:22 final size:22
Alignment explanation
Indices: 99453012--99453054 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99453002 TTGGTGACTG
99453012 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
99453034 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
99453055 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:99456768 original size:22 final size:22
Alignment explanation
Indices: 99456740--99456782 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99456730 AGAGGGAGTG
99456740 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
99456762 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
99456783 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:99459594 original size:22 final size:22
Alignment explanation
Indices: 99459562--99459627 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
99459552 AAATATTATA
99459562 ATTTAA-ATTTAACATTTAATT
1 ATTTAATATTTAACATTTAATT
* * * **
99459583 GTTTAATATTTAAAATTTTAGC
1 ATTTAATATTTAACATTTAATT
*
99459605 ATTTAATATGTCAACATTTAATT
1 ATTTAATAT-TTAACATTTAATT
99459628 TTTCAGTTTA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
21 5 0.16
22 19 0.59
23 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTAATATTTAACATTTAATT
Found at i:99467308 original size:10 final size:12
Alignment explanation
Indices: 99467284--99467321 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
99467274 ACTCATAATG
*
99467284 AAATTATCAAAA
1 AAATTATTAAAA
*
99467296 AAAAT-TTAAAA
1 AAATTATTAAAA
99467307 AAATTATTAAAA
1 AAATTATTAAAA
99467319 AAA
1 AAA
99467322 ACCTTTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:99468037 original size:22 final size:21
Alignment explanation
Indices: 99468009--99468049 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
99467999 AGCCTCATCT
99468009 ATATATATATATGTATACATAC
1 ATATATATATATGT-TACATAC
99468031 ATATATATATATGTTACAT
1 ATATATATATATGTTACAT
99468050 TGGGTTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
ATATATATATATGTTACATAC
Found at i:99472123 original size:11 final size:11
Alignment explanation
Indices: 99472107--99472137 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99472097 GCTTAAATTT
99472107 ATTATTTAATA
1 ATTATTTAATA
99472118 ATTATTTAATA
1 ATTATTTAATA
*
99472129 ATTTTTTAA
1 ATTATTTAA
99472138 AGCTATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTATTTAATA
Found at i:99479669 original size:20 final size:20
Alignment explanation
Indices: 99479646--99479683 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99479636 TATATTTTAA
* *
99479646 TAATTGGATTTATTTAATAG
1 TAATTGGACTAATTTAATAG
99479666 TAATTGGACTAATTTAAT
1 TAATTGGACTAATTTAAT
99479684 TTGATCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (20 bp):
TAATTGGACTAATTTAATAG
Found at i:99480391 original size:16 final size:18
Alignment explanation
Indices: 99480360--99480392 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
99480350 ATGTAATTTT
99480360 ATTTTTATTAATTTTAAA
1 ATTTTTATTAATTTTAAA
99480378 ATTTTT-TT-ATTTTAA
1 ATTTTTATTAATTTTAA
99480393 GAGGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATTAATTTTAAA
Found at i:99484304 original size:31 final size:31
Alignment explanation
Indices: 99484260--99484338 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
99484250 TGGGGGGAAA
99484260 AAACTC-AGCTACCAAATTAAACATGGAAGCC
1 AAACTCAAG-TACCAAATTAAACATGGAAGCC
* * *
99484291 AAACTCAAGTACCAAATTGAACATTGAAGCT
1 AAACTCAAGTACCAAATTAAACATGGAAGCC
* *
99484322 AAACTCAGGTATCAAAT
1 AAACTCAAGTACCAAAT
99484339 GGTATATGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 40 0.95
32 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.20
Consensus pattern (31 bp):
AAACTCAAGTACCAAATTAAACATGGAAGCC
Found at i:99489388 original size:28 final size:27
Alignment explanation
Indices: 99489348--99489425 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
99489338 ATATACTAAA
**
99489348 TATATATTT-TTTTATTTTTAATCATATT
1 TATAT-TTTATTTTATTTTTAAT-ATAAC
*
99489376 TATATTTTATTTTTAATTTTAATATAAC
1 TATATTTTA-TTTTATTTTTAATATAAC
* * *
99489404 CATCTTTTATTATATTTTTAAT
1 TATATTTTATTTTATTTTTAAT
99489426 TTGTGTATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
27 14 0.34
28 15 0.37
29 12 0.29
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TATATTTTATTTTATTTTTAATATAAC
Found at i:99489966 original size:23 final size:24
Alignment explanation
Indices: 99489920--99489967 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
99489910 GAATCTATTA
*
99489920 AAATAATTTAAAAATGATTCAAAT
1 AAATAATTTAAAAATAATTCAAAT
99489944 AAATAA-TTAAAAATAACTT-AAAT
1 AAATAATTTAAAAATAA-TTCAAAT
99489967 A
1 A
99489968 TGAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAATTTAAAAATAATTCAAAT
Found at i:99495524 original size:22 final size:22
Alignment explanation
Indices: 99495499--99495542 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
99495489 TTAACTCCTC
99495499 TAAAAATTTATAATATTTAATT
1 TAAAAATTTATAATATTTAATT
** * *
99495521 TAAACCTTTTTAATCTTTAATT
1 TAAAAATTTATAATATTTAATT
99495543 AAATGAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAAAATTTATAATATTTAATT
Found at i:99497111 original size:16 final size:16
Alignment explanation
Indices: 99497072--99497135 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
99497062 AGTGATCTGA
*
99497072 TCAAAATAATCCTAAAAC
1 TCAAAATAA--CTTAAAC
* *
99497090 TTAAAATAATTTAAAC
1 TCAAAATAACTTAAAC
*
99497106 TCAAAATTACTTAAAC
1 TCAAAATAACTTAAAC
99497122 T-AAAATAACTTAAA
1 TCAAAATAACTTAAA
99497136 ATTTTAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 12 0.31
16 19 0.49
18 8 0.21
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (16 bp):
TCAAAATAACTTAAAC
Found at i:99497673 original size:31 final size:30
Alignment explanation
Indices: 99497606--99497674 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
99497596 ACGATAATGT
* * *
99497606 AAGTGACTAAAATGTAATATTTTAAACATA
1 AAGTGACTAAAATGTAACATGTAAAACATA
99497636 AA-TGACTAAAATGTAACATGAGTAAAACA-A
1 AAGTGACTAAAATGTAACAT--GTAAAACATA
99497666 AAGTGACTA
1 AAGTGACTA
99497675 TTTTTAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 16 0.48
30 5 0.15
31 12 0.36
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (30 bp):
AAGTGACTAAAATGTAACATGTAAAACATA
Found at i:99507722 original size:6 final size:6
Alignment explanation
Indices: 99507711--99507737 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
99507701 CAAGTAATAT
99507711 CCTAAG CCTAAG CCTAAG CCTAAG CCT
1 CCTAAG CCTAAG CCTAAG CCTAAG CCT
99507738 TGTCAGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (6 bp):
CCTAAG
Found at i:99509365 original size:505 final size:505
Alignment explanation
Indices: 99508387--99509959 Score: 3042
Period size: 505 Copynumber: 3.1 Consensus size: 505
99508377 AGCCTTAGAT
* * * *
99508387 TATAGCAAAATGCAT-A-AATAGGGCTAATCAACAATAAAAGAAATATAGAAAATCATCACATAT
1 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
99508450 AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
66 AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
*
99508515 ACACTAATTGCATTAGAGTATTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
131 ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
99508580 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
196 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
99508645 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
261 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
99508710 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
326 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
99508775 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
391 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
99508840 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
456 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
99508890 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
1 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
*
99508955 AAATGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
66 AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
99509020 ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
131 ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
99509085 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
196 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
99509150 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
261 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
99509215 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
326 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
*
99509280 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTATAGTTCTTCCT
391 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
99509345 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
456 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
99509395 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
1 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
99509460 AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
66 AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
99509525 ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
131 ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
99509590 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
196 ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
99509655 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
261 GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
99509720 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
326 CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
99509785 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
391 AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
99509850 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
456 CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
* **
99509900 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGCAGCATAGAAAATCATCA
1 TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCA
99509960 GTTCATCACA
Statistics
Matches: 1056, Mismatches: 12, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
503 14 0.01
504 1 0.00
505 1041 0.99
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (505 bp):
TATAGCAAAATGTATAACAATAGCGCTAACCAACAATCAAAGAAATATAGAAAATCATCACATAT
AAAGGCCTGTAATACTCAACACTACATATCGTTCTGAATGCATTTTTCATTTTAAGCAGTCTTTC
ACACTAATTGCATTAGAGTACTCATGATATCAACAGCAAGCCTTAGATCATAGCAAAATGCATAA
ATAGGGCCAATTTACAATCAAAGGTTACCACATATAAAGGCCAGTGATACTCAACACTACACATA
GATCTGAAACCCGAATGTAGGATTGTAATAAGAAACTTTGAACTAAAGATATACTTTTTTTAATG
CTAAAACCCGAATTATGGATCAAATTCAGAATCCTTTTGCTTAAGAGATGCTCATGTTATCCCCC
AATTTGCATTCCATGAGTTAAGAACCAAGCAACATTTATCCAACAATTGCATTACAGTTCTTCCT
CATAAGCTAGGCATACAATTAAGCACTAATATCCACATCAAACCCAAGAC
Found at i:99510990 original size:138 final size:137
Alignment explanation
Indices: 99510742--99511027 Score: 328
Period size: 138 Copynumber: 2.1 Consensus size: 137
99510732 ATTTTTTTGG
* ** * *
99510742 GTTAATTAAATGAGTTAATTGCACTAAATGTCCCCAAACTATGACTCATTCTAAATTGGTCCTAA
1 GTTAATT-AATGAGTTAATTGCACAAAACATCCCCAAACTACGACTCATTCTAAATTGCTCCTAA
** * * *
99510807 ACTTTTAAAACATTCTAATTATATCTTCAAACTATCAATGTTATATCAATAAGGT-TCTTCCATT
65 ACTTTTAAAACATTCTAAAAACATCCTCAAACTATCAAGGTTATATCAATAAGGTCT-TTCCATT
99510871 ACTAAAATC
129 ACTAAAATC
*
99510880 GTTAATTAA-GAGTTAATTGCACAAAACATCCTCAAACTACGACTCTCATTCTAAATTGCTCCAT
1 GTTAATTAATGAGTTAATTGCACAAAACATCCCCAAACTACGA--CTCATTCTAAATTGCTCC-T
* * * * *
99510944 AAAC-TTTAAATCATTCTAAAAACATTCCT-AAACTATCGAGGTTATATCAATTAGGTCTTTTCG
63 AAACTTTTAAAACATTCTAAAAACA-TCCTCAAACTATCAAGGTTATATCAATAAGGTCTTTCCA
99511007 TTACTAAAATC
127 TTACTAAAATC
* *
99511018 ATTATTTAAT
1 GTTAATTAAT
99511028 TGTTAAATGA
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
136 28 0.23
137 2 0.02
138 85 0.69
139 9 0.07
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (137 bp):
GTTAATTAATGAGTTAATTGCACAAAACATCCCCAAACTACGACTCATTCTAAATTGCTCCTAAA
CTTTTAAAACATTCTAAAAACATCCTCAAACTATCAAGGTTATATCAATAAGGTCTTTCCATTAC
TAAAATC
Found at i:99516823 original size:21 final size:19
Alignment explanation
Indices: 99516799--99516840 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
99516789 AAAGTTAAAA
*
99516799 TTTTAAAATTTAAAATATAT
1 TTTTTAAATTTAAAATA-AT
*
99516819 TTTTTAAATTTTAAATAAT
1 TTTTTAAATTTAAAATAAT
99516838 TTT
1 TTT
99516841 ATGTATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAATTTAAAATAAT
Found at i:99521444 original size:144 final size:142
Alignment explanation
Indices: 99521202--99521780 Score: 601
Period size: 144 Copynumber: 4.2 Consensus size: 142
99521192 TTTCGAAACA
* * * * * *
99521202 TTTCGAATGAGAAACACACATAAAAGAAAAAACCCTTTCAAATGGAAAACAATGTAAGGGTTCTA
1 TTTCGAATGAGAAACACAC--ACAAGAAAAAA-TCTTTCAAATGCAAGACAATATTAGGGTTCTA
* * * *
99521267 GCTCGGCTTTGCGCCCTTAACAACACTAGTTGTGACATTGCCTAATAAATTTAGCTTTAGTACAA
63 GCTCGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAA
99521332 AAATGTCCAGAACCC
128 AAATGTCCAGAACCC
99521347 TTTCGAATGAGAAACACACACAAGAAAGAAATCCTTTCAAATGCAAGACAATATTAGGGTTCTAG
1 TTTCGAATGAGAAACACACACAAGAAA-AAAT-CTTTCAAATGCAAGACAATATTAGGGTTCTAG
99521412 CTCGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAAA
64 CTCGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAAA
*
99521477 AATAT-CACGAACCC
129 AATGTCCA-GAACCC
* * * * * *
99521491 TTTTGAATGAGAGAGAGAGACAC-AG-AAAAA---TTCGAATGCAAGACAATATTAAGATTCTAG
1 TTTCGAATGAGA-A-ACACACACAAGAAAAAATCTTTCAAATGCAAGACAATATTAGGGTTCTAG
* * * * *
99521551 CTTGGCTTTGCACCTTTAACAACACTAGTTCTGCCATTGCCTAGTGAATTTAGCTCTACTACAAA
64 CTCGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAAA
*
99521616 AATGTCTTA-AACCC
129 AATGTC-CAGAACCC
* ** *
99521630 TTTCGACA-GAGAAACACATACAA-AAAACCTCTTTCGAATGCAAGACAAT-TTAGGGGTTCTAG
1 TTTCGA-ATGAGAAACACACACAAGAAAAAATCTTTCAAATGCAAGACAATATTA-GGGTTCTAG
* * * *
99521692 CTTGGCTTTGCG-------C--C-CT--TTCTGCCATTGCCTAGTGAATTTAGTTTTAGTACAAA
64 CTCGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAAA
99521745 AATGTCTC-GAACCC
129 AATGTC-CAGAACCC
*
99521759 TTTCGAATGAGACACACACACA
1 TTTCGAATGAGAAACACACACA
99521781 CACACAAAAA
Statistics
Matches: 379, Mismatches: 39, Indels: 48
0.81 0.08 0.10
Matches are distributed among these distances:
128 1 0.00
129 64 0.17
131 2 0.01
132 1 0.00
134 1 0.00
137 5 0.01
138 5 0.01
139 105 0.28
140 4 0.01
141 36 0.09
143 12 0.03
144 115 0.30
145 22 0.06
146 6 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (142 bp):
TTTCGAATGAGAAACACACACAAGAAAAAATCTTTCAAATGCAAGACAATATTAGGGTTCTAGCT
CGGCTTTGCGCCCTTAACAACACTAGTTGTGCCATTGCCTAGTGAATTTAGCTCTAGTACAAAAA
TGTCCAGAACCC
Found at i:99527611 original size:6 final size:6
Alignment explanation
Indices: 99527600--99527642 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
99527590 AAACCCTAGA
* * *
99527600 GGCGGT GGCGGT GGAGAT GGCGAT GGCGGT GGCGGT GGCGGT G
1 GGCGGT GGCGGT GGCGGT GGCGGT GGCGGT GGCGGT GGCGGT G
99527643 AGAATGAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.07, C:0.14, G:0.63, T:0.16
Consensus pattern (6 bp):
GGCGGT
Found at i:99528830 original size:15 final size:15
Alignment explanation
Indices: 99528810--99528839 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99528800 AAAATTTTAA
*
99528810 AAAATACAGAAAATT
1 AAAATACAAAAAATT
99528825 AAAATACAAAAAATT
1 AAAATACAAAAAATT
99528840 CCAAATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAATACAAAAAATT
Found at i:99530365 original size:24 final size:23
Alignment explanation
Indices: 99530338--99530382 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
99530328 CGAATTATAT
*
99530338 ATCAAATATATATTTTTATTTTTA
1 ATCAAATATACA-TTTTATTTTTA
* *
99530362 ATCATATTTACATTTTATTTT
1 ATCAAATATACATTTTATTTT
99530383 CAATTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
ATCAAATATACATTTTATTTTTA
Found at i:99530476 original size:19 final size:20
Alignment explanation
Indices: 99530452--99530490 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
99530442 TCTCATTTTT
99530452 TATTTGTTTCT-TGTTTTAA
1 TATTTGTTTCTATGTTTTAA
*
99530471 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTCTATGTTTTAA
99530491 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
TATTTGTTTCTATGTTTTAA
Found at i:99530513 original size:25 final size:23
Alignment explanation
Indices: 99530471--99530516 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
99530461 CTTGTTTTAA
*
99530471 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
99530494 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
99530517 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:99531527 original size:3 final size:3
Alignment explanation
Indices: 99531508--99531561 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
99531498 AATGTAAGAG
* * * * *
99531508 AAT AAT AA- AAT ATT AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
99531555 AAT AAT A
1 AAT AAT A
99531562 GCTAAGTGGG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:99531673 original size:15 final size:15
Alignment explanation
Indices: 99531653--99531683 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99531643 ATATATATTA
99531653 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
99531668 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
99531683 A
1 A
99531684 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:99532024 original size:20 final size:21
Alignment explanation
Indices: 99531985--99532024 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
99531975 TGTAGTAATA
*
99531985 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
99532006 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
99532025 AATATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:99534814 original size:30 final size:30
Alignment explanation
Indices: 99534780--99534842 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
99534770 GACCTTGCAA
99534780 TAATGGAGATTGAGGTTGGACCGATGATGC
1 TAATGGAGATTGAGGTTGGACCGATGATGC
99534810 TAATGGAGATTGAGGTTGGACCGATGATGC
1 TAATGGAGATTGAGGTTGGACCGATGATGC
99534840 TAA
1 TAA
99534843 GTTTCGAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.27
Consensus pattern (30 bp):
TAATGGAGATTGAGGTTGGACCGATGATGC
Found at i:99540449 original size:7 final size:7
Alignment explanation
Indices: 99540437--99540484 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
99540427 AACTTTCAAT
99540437 AAATAAA
1 AAATAAA
99540444 AAATAAAA
1 AAAT-AAA
99540452 AAATAAA
1 AAATAAA
* *
99540459 AATTTAA
1 AAATAAA
* *
99540466 ATATTAA
1 AAATAAA
99540473 AAATAAA
1 AAATAAA
99540480 AAATA
1 AAATA
99540485 TAGAACCCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATAAA
Found at i:99555330 original size:210 final size:209
Alignment explanation
Indices: 99554963--99555390 Score: 793
Period size: 210 Copynumber: 2.0 Consensus size: 209
99554953 TCACTCCCAG
*
99554963 CTTTCTTTTTCTGCTGCTGATAATAAATAAACGTTAAATGAAACTAGTGGGCATGACTAATGTTA
1 CTTT-TTTTTCTGCTGCTGATAATAAATAAACGTTAAATGAAACTAGTGAGCATGACTAATGTTA
99555028 ATTTGAAGTTTGGCTTTGTCATGTCCTTAAATATTTCTATAACATATGTTTTTCTTCAATGGATT
65 ATTTGAAGTTTGGCTTTGTCATGTCCTTAAATATTTCTATAACATATGTTTTTCTTCAATGGATT
*
99555093 TTACTTTGATTTTCATGTGCCAGCAGTATTTATGCTTGATTTGCTTCTGGTATCATGCCAACTTT
130 TTACTTCGATTTTCATGTGCCAGCAGTATTTATGCTTGATTTGCTTCTGGTATCATGCCAACTTT
99555158 AGAAATATTTTATCC
195 AGAAATATTTTATCC
*
99555173 CTTTGTTTTTCTGCTGCTGATAATAAATAAACGTTAAATGAAACTAGTGAGCGTGACTAATGTTA
1 CTTT-TTTTTCTGCTGCTGATAATAAATAAACGTTAAATGAAACTAGTGAGCATGACTAATGTTA
**
99555238 ATTTGAAGTTTGGCTTTGTCATGTCCTTAAATATTTCTATAATGTATGTTTTTCTTCAATGGATT
65 ATTTGAAGTTTGGCTTTGTCATGTCCTTAAATATTTCTATAACATATGTTTTTCTTCAATGGATT
99555303 TTACTTCGATTTTCATGTGCCAGCAGTATTTATGCTTGATTTGCTTCTGGTATCATGCCAACTTT
130 TTACTTCGATTTTCATGTGCCAGCAGTATTTATGCTTGATTTGCTTCTGGTATCATGCCAACTTT
99555368 AGAAATATTTTATCC
195 AGAAATATTTTATCC
99555383 CTTTTTTT
1 CTTTTTTT
99555391 CATTTGCATG
Statistics
Matches: 212, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
209 4 0.02
210 208 0.98
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (209 bp):
CTTTTTTTTCTGCTGCTGATAATAAATAAACGTTAAATGAAACTAGTGAGCATGACTAATGTTAA
TTTGAAGTTTGGCTTTGTCATGTCCTTAAATATTTCTATAACATATGTTTTTCTTCAATGGATTT
TACTTCGATTTTCATGTGCCAGCAGTATTTATGCTTGATTTGCTTCTGGTATCATGCCAACTTTA
GAAATATTTTATCC
Found at i:99558439 original size:7 final size:7
Alignment explanation
Indices: 99558427--99558451 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
99558417 ACTAAAATTG
99558427 TTGTAGT
1 TTGTAGT
99558434 TTGTAGT
1 TTGTAGT
99558441 TTGTAGT
1 TTGTAGT
99558448 TTGT
1 TTGT
99558452 CTTCTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TTGTAGT
Found at i:99563611 original size:231 final size:232
Alignment explanation
Indices: 99563205--99563675 Score: 613
Period size: 231 Copynumber: 2.0 Consensus size: 232
99563195 CAGGTTCTTC
* * *
99563205 TTCTTCGACCTTTTGCAACAGTGTCTTGACTTGACTCCTTAGTAATGCCTCACCAGAACCAGGAG
1 TTCTTCGACCTTTTGCAACAGAGTCTTGACCTGACCCCTTAGTAATGCCTCACCAGAACCAGGAG
*
99563270 TCATCATCTTCATCATTTTATCGGCTCTCCATTGCTTAGATGTTTCAGACAATGGTGTCCCCATG
66 TCATCA--TTCATCATTATATCGGCTCTCCATTGCTTAGATGTTTCAGACAATGGTGTCCCCATG
* ** * * * * * *
99563335 GCAAGCCCGATGATAGGCGAATCGTTCCTTACATCGATAAGGGCAGGCCTTTCCTGTTGCTGCTG
129 GCAAGCCCAACAATAGGAGAATCATTCCTTACATCAATAAGGGCAGACCTTTCCTCTTGCTGCTC
* ** *
99563400 CTTTTCATTTCTTGTTTTTAACACACTCTTCTTCTCCGA
194 CTTTCCATTTCTTGTTTGCAACACACTCTTCTTCTCAGA
* * *
99563439 TTCTTCGTCTTTTTGGAACAGAGTCTTGACCTGACCCCTTAGTAATGCCTCACCAGAACCAGGAG
1 TTCTTCGACCTTTTGCAACAGAGTCTTGACCTGACCCCTTAGTAATGCCTCACCAGAACCAGGAG
* * * * * *
99563504 TCATCA-TCATCATTATCTTGGGTCTCCATTGCTTAGATGTATT-TGACGATGGTGTCCCCATTG
66 TCATCATTCATCATTATATCGGCTCTCCATTGCTTAGATGT-TTCAGACAATGGTGTCCCCATGG
* * * * *
99563567 CAAGCCCAACAATAGGAGAATCATTCGTTATATCAATAAGGGCAGACCTTTCTTCTTGTTTCTCC
130 CAAGCCCAACAATAGGAGAATCATTCCTTACATCAATAAGGGCAGACCTTTCCTCTTGCTGCTCC
*
99563632 TTTCCATTTCTTGTTTGCAGCACACTCTTCTTCTCAGA
195 TTTCCATTTCTTGTTTGCAACACACTCTTCTTCTCAGA
99563670 TTCTTC
1 TTCTTC
99563676 TAAAAAAAAA
Statistics
Matches: 204, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
231 137 0.67
232 2 0.01
234 65 0.32
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (232 bp):
TTCTTCGACCTTTTGCAACAGAGTCTTGACCTGACCCCTTAGTAATGCCTCACCAGAACCAGGAG
TCATCATTCATCATTATATCGGCTCTCCATTGCTTAGATGTTTCAGACAATGGTGTCCCCATGGC
AAGCCCAACAATAGGAGAATCATTCCTTACATCAATAAGGGCAGACCTTTCCTCTTGCTGCTCCT
TTCCATTTCTTGTTTGCAACACACTCTTCTTCTCAGA
Found at i:99571191 original size:15 final size:15
Alignment explanation
Indices: 99571171--99571208 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
99571161 TAATTTATCA
*
99571171 AATTTATTTTGATTG
1 AATTTATATTGATTG
99571186 AATTTATATTGATTG
1 AATTTATATTGATTG
*
99571201 AAATTATA
1 AATTTATA
99571209 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
AATTTATATTGATTG
Found at i:99571649 original size:21 final size:23
Alignment explanation
Indices: 99571587--99571651 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
99571577 GCTTTATCGA
99571587 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
99571610 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
*
99571632 T-AGGCACTTTATGGGTCGTA
1 TCAGGCACTTTATGTGTCGTA
99571652 CTCTGATCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.38
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:99571834 original size:18 final size:19
Alignment explanation
Indices: 99571813--99571853 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
99571803 AATGAAATGA
99571813 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
99571831 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
99571850 GAAA
1 GAAA
99571854 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:99584618 original size:4 final size:4
Alignment explanation
Indices: 99584609--99584633 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
99584599 GCATTCATAA
99584609 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
99584634 TAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:99590559 original size:71 final size:71
Alignment explanation
Indices: 99590443--99590593 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
99590433 GGTTTCATTT
* *
99590443 GGTATC-AGTAGAAGTGCAGGGGATGCTGAACTTTAACCATTGACTTGACTTGTTTCGGTATAAG
1 GGTATCGA-TAGAAGTGCAGGAGATGCTGAACTTTAACCATTGACTTGACTTGTTTCGGTAGAAG
99590507 TCCTCAA
65 TCCTCAA
** * *
99590514 GGTATCGATAGAAGTGCAGGAGATGCTGAACTTTGGCTATTGACTTTACTTGTTTCGGTAGAAGT
1 GGTATCGATAGAAGTGCAGGAGATGCTGAACTTTAACCATTGACTTGACTTGTTTCGGTAGAAGT
99590579 CCTCAA
66 CCTCAA
99590585 GGTATCGAT
1 GGTATCGAT
99590594 CGAATAGACC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
71 72 0.99
72 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (71 bp):
GGTATCGATAGAAGTGCAGGAGATGCTGAACTTTAACCATTGACTTGACTTGTTTCGGTAGAAGT
CCTCAA
Found at i:99598747 original size:20 final size:22
Alignment explanation
Indices: 99598718--99598759 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
99598708 TTGTTCACTT
99598718 TTAAA-ATTTTAAAA-AAATAA
1 TTAAATATTTTAAAAGAAATAA
*
99598738 TTAAATTTTTTAAAAGAAATAA
1 TTAAATATTTTAAAAGAAATAA
99598760 ATTTGATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAAATATTTTAAAAGAAATAA
Done.