Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 421 of 438
Found at i:130420315 original size:93 final size:93
Alignment explanation
Indices: 130420203--130420373 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
130420193 GCCCATAAGT
** *
130420203 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
130420268 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
130420296 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
130420361 CGAGTTCGGATGC
66 CGAGCTCGGATGC
130420374 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:130424923 original size:53 final size:53
Alignment explanation
Indices: 130424842--130424992 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
130424832 CTTACACGGT
* *
130424842 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
130424897 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
130424950 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
130424993 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:130432147 original size:131 final size:130
Alignment explanation
Indices: 130431687--130432162 Score: 433
Period size: 132 Copynumber: 3.6 Consensus size: 130
130431677 TTGCCTCACC
* * * *
130431687 TTAGAAAACACGAGTGAAATT-TCGAA-GAGATATTCGATTATTTTGAACAAACGGGAGATTGCA
1 TTAGAAAACATGAGTGAAATTCT-GAAGGA-ATATCCGATTATTTTGAACAAACGCGAAATTGCA
* * * * *
130431750 ACCCAGCACGATAGGGCACT-ATTCCCCGAATTACCAAACACCGGACATTTCTTTCATTTTAAAG
64 ACCCAGCACGATAGGGCA-TGATT-CTCGAATTACCAAACACC-GAGATTACCTTCGTTTTAAAG
*
130431814 GGTTT
126 GATTT
* * * *
130431819 TTAGAAAACGTGAGTGAAATTCTGAAGGAATCTCCGATTGTTTTGAACAAA--CGAAAATGCGTA
1 TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGCGAAATTGC--A
* ** * ** * **
130431882 ACCCAGCACGATAGGGCACGATTCTCGAATCGCCAAAGATCTAAGATCACCTTCGTTTTGGGAGG
64 ACCCAGCACGATAGGGCATGATTCTCGAATTACCAAACA-CCGAGATTACCTTCGTTTT-AAAGG
*
130431947 TTTT
127 ATTT
** * * ** **
130431951 TTA-ATAAACATGAGTGAAAACCTAAAGGAATATCCGATTGTTTTGAACAAACAAGAAATCACAA
1 TTAGA-AAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGCGAAATTGCAA
* * *
130432015 CCCAGTACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGAT
65 CCCAGCACGATAGGGCATGATTCTCGAATTACCAAACACCGAG-ATTACCTTCGTTTTAAAGGAT
130432080 TT
129 TT
* * * * * *
130432082 TTAGAAGACATGAGTGAAATTTTGGAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGCGAAATTGCAAC
*
130432147 CCAGCACGTTAGGGCA
66 CCAGCACGATAGGGCA
130432163 CGGTTCCGCG
Statistics
Matches: 271, Mismatches: 61, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
130 6 0.02
131 96 0.35
132 161 0.59
133 3 0.01
134 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (130 bp):
TTAGAAAACATGAGTGAAATTCTGAAGGAATATCCGATTATTTTGAACAAACGCGAAATTGCAAC
CCAGCACGATAGGGCATGATTCTCGAATTACCAAACACCGAGATTACCTTCGTTTTAAAGGATTT
Found at i:130433683 original size:3 final size:3
Alignment explanation
Indices: 130433677--130433835 Score: 69
Period size: 3 Copynumber: 53.0 Consensus size: 3
130433667 AAAAAAAGCT
* * *
130433677 ATA ATA ATA ATA ATA ATA GTA ATTA TTA ATA A-A GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
130433722 A-A TATA ACA ATA GTA ATA TTA GTG ATA AAA ATA ATA GCT- ATA AAA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
130433767 ATA A-A CATA ATA ATG ATG ACA ATA TAGA ACA ATA ATA ATA ATA ATGA
1 ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A
*
130433814 A-A ATA A-A ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
130433836 TTTTGTATTA
Statistics
Matches: 114, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
2 8 0.07
3 97 0.85
4 9 0.08
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:130434174 original size:6 final size:6
Alignment explanation
Indices: 130434163--130434561 Score: 136
Period size: 6 Copynumber: 65.0 Consensus size: 6
130434153 ACACTACTAT
130434163 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * * * *
130434211 ATGATA ATAATA TTGA-A ATACA-A AAAAAA ACAA-A TATAATA AAAATA
1 ATAATA ATAATA ATAATA ATA-ATA ATAATA ATAATA -ATAATA ATAATA
* * * * *
130434258 TTAA-A ATAA-A GTAATA AAAATA A-ACCT- ATATGTA A-ATATA TATACAT-
1 ATAATA ATAATA ATAATA ATAATA ATA-ATA ATA-ATA ATA-ATA -ATA-ATA
* * * * *
130434305 ATACATA TATACTA A-AACA TATACA-A ATATTG ATAATA ATAATG ATAATA
1 ATA-ATA -ATAATA ATAATA -ATA-ATA ATAATA ATAATA ATAATA ATAATA
* * ** *
130434355 ATAATA ATATTGA A-ACATA AAAAGC A-AAT- ATAATA TTAATA A-AATA
1 ATAATA ATAAT-A ATA-ATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * *
130434401 TTAA-A ATAA-A GTAAATA AAAATA ATATTGA AT-ATAA ATATATA TATATATA
1 ATAATA ATAATA AT-AATA ATAATA ATAAT-A ATAAT-A ATA-ATA -ATA-ATA
* * *
130434452 TATATATA TATATATA CGTATATA ATAAGA GT-ATA CACTAATA ATAATA
1 -ATA-ATA -ATA-ATA -ATA-ATA ATAATA ATAATA -A-TAATA ATAATA
130434501 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATGAA-A
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA AT-AATA
130434549 AGTAATA ATAATA
1 A-TAATA ATAATA
130434562 TATTAAATAT
Statistics
Matches: 306, Mismatches: 53, Indels: 68
0.72 0.12 0.16
Matches are distributed among these distances:
4 1 0.00
5 33 0.11
6 206 0.67
7 25 0.08
8 41 0.13
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (6 bp):
ATAATA
Found at i:130434360 original size:138 final size:142
Alignment explanation
Indices: 130433954--130434459 Score: 360
Period size: 144 Copynumber: 3.5 Consensus size: 142
130433944 GTGTATAAAA
* * * *
130433954 TAATAATAATATTAAAATAAGGTAATTAAAAATACTACT--ATATAAATACATAT--ATATACAT
1 TAATAA-AATATTAAAATAAAGTAAATAAAAATAATACTGAATATAAATATATATACATATACAT
* * * * * * * *
130434015 ATATAACGAAAACAT-T-CACTATATTAACAATGATAATAATAATAGTAATAATATTAAAATACA
65 ATAT-ACTAAAACATATACA-AATATTGATAATAATAAT-A-AATAATAATAATATTGAAACACA
*
130434078 AAAAAAAAACA-ATATAAT
126 AAAAGAAAACATA-AT-AT
* * * * * * *
130434096 ATAATAAGAATAATAAAAAAATAGTATATATAAATATATATACATAAACAAAAATATACACTACT
1 -TAATAA-AATATTAAAATAA-AGTA-A-ATAAAAATA-ATAC-TGAATATAAATATATA-TAC-
* * * * *
130434161 ATATA-ATA-ATAATAATAATAATAATA-ATAATAATAATAATAATAATAATAATGATAATAATA
57 ATATACATATATACTAA-AA-CAT-ATACA-AATATTGATAATAATAAT-A-AATAATAATAATA
*
130434223 TTGAAATACAAAAA-AAAACA-AATA-
116 TTGAAACACAAAAAGAAAACATAATAT
*
130434247 TAATAAAAATATTAAAATAAAGT-AATAAAAATAA-ACCT-ATATGTAAATATATATACATATAC
1 TAAT-AAAATATTAAAATAAAGTAAATAAAAATAATA-CTGA-ATATAAATATATATACATATAC
*
130434309 ATATATACTAAAACATATACAAATATTGATAATAATAATGATAATAATAATAATATTGAAACATA
63 ATATATACTAAAACATATACAAATATTGATAATAATAAT-A-AATAATAATAATATTGAAACACA
* *
130434374 AAAAGCAAATATAATAT
126 AAAAGAAAACATAATAT
* * *
130434391 TAATAAAATATTAAAATAAAGTAAATAAAAATAATATTGAATATAAATATATATATATATATATA
1 TAATAAAATATTAAAATAAAGTAAATAAAAATAATACTGAATATAAATATATATACATATACATA
130434456 TATA
66 TATA
130434460 TATATATACG
Statistics
Matches: 292, Mismatches: 43, Indels: 55
0.75 0.11 0.14
Matches are distributed among these distances:
141 45 0.15
142 12 0.04
143 48 0.16
144 62 0.21
145 5 0.02
146 15 0.05
147 4 0.01
148 1 0.00
149 3 0.01
150 24 0.08
151 6 0.02
152 5 0.02
153 7 0.02
154 12 0.04
155 43 0.15
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (142 bp):
TAATAAAATATTAAAATAAAGTAAATAAAAATAATACTGAATATAAATATATATACATATACATA
TATACTAAAACATATACAAATATTGATAATAATAATAAATAATAATAATATTGAAACACAAAAAG
AAAACATAATAT
Found at i:130434475 original size:2 final size:2
Alignment explanation
Indices: 130434431--130434467 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
130434421 ATAATATTGA
*
130434431 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130434468 CGTATATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:130435783 original size:15 final size:15
Alignment explanation
Indices: 130435763--130435793 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
130435753 GGGTTTAGTA
130435763 TTGGGTTTAATTTTG
1 TTGGGTTTAATTTTG
*
130435778 TTGGGTTTATTTTTG
1 TTGGGTTTAATTTTG
130435793 T
1 T
130435794 AAAAGGCCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.26, T:0.65
Consensus pattern (15 bp):
TTGGGTTTAATTTTG
Found at i:130436458 original size:14 final size:14
Alignment explanation
Indices: 130436439--130436469 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
130436429 AAGAAAATTA
130436439 AAAGAGTTTAATGC
1 AAAGAGTTTAATGC
130436453 AAAGAGTTTAATGC
1 AAAGAGTTTAATGC
130436467 AAA
1 AAA
130436470 AAGAAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (14 bp):
AAAGAGTTTAATGC
Found at i:130437880 original size:26 final size:26
Alignment explanation
Indices: 130437836--130437892 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
130437826 TGGGTTTTAT
* *
130437836 GTTTAAGTTTGGGCTATTGGGTTTGG
1 GTTTAAGTTTAGGCCATTGGGTTTGG
130437862 GTTTAAGTTTAGGCCATTGGGTTTGG
1 GTTTAAGTTTAGGCCATTGGGTTTGG
*
130437888 TTTTA
1 GTTTA
130437893 GGATATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.47
Consensus pattern (26 bp):
GTTTAAGTTTAGGCCATTGGGTTTGG
Found at i:130446680 original size:21 final size:21
Alignment explanation
Indices: 130446655--130446694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
130446645 AAATTAAATG
*
130446655 ACATTTATAATAATAATAATA
1 ACATTAATAATAATAATAATA
*
130446676 ACATTAATAGTAATAATAA
1 ACATTAATAATAATAATAA
130446695 GTGAAAGTGA
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:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
ACATTAATAATAATAATAATA
Found at i:130448449 original size:33 final size:32
Alignment explanation
Indices: 130448395--130448488 Score: 147
Period size: 32 Copynumber: 3.0 Consensus size: 32
130448385 GGTGGCTAGG
*
130448395 TTTTTT-TATTTTTTTTT-GGTTAGGTTTTTC
1 TTTTTTCTTTTTTTTTTTGGGTTAGGTTTTTC
130448425 TTTTTTCTTCTTTTTTTTTGGGTTAGGTTTTTC
1 TTTTTTCTT-TTTTTTTTTGGGTTAGGTTTTTC
*
130448458 TTTTTTCTTTTTTTTTTAGGGTTAGGTTTTT
1 TTTTTTCTTTTTTTTTTTGGGTTAGGTTTTT
130448489 TTTGGGGGGC
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 6 0.10
31 1 0.02
32 30 0.51
33 22 0.37
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.74
Consensus pattern (32 bp):
TTTTTTCTTTTTTTTTTTGGGTTAGGTTTTTC
Found at i:130448456 original size:18 final size:18
Alignment explanation
Indices: 130448435--130448491 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 18
130448425 TTTTTTCTTC
130448435 TTTTTTTTTGGGTTAGGT
1 TTTTTTTTTGGGTTAGGT
* *
130448453 TTTTCTTTT---TT--CT
1 TTTTTTTTTGGGTTAGGT
130448466 TTTTTTTTTAGGGTTAGGT
1 TTTTTTTTT-GGGTTAGGT
130448485 TTTTTTT
1 TTTTTTT
130448492 GGGGGGCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 11
0.66 0.09 0.25
Matches are distributed among these distances:
13 9 0.31
15 2 0.07
17 2 0.07
18 8 0.28
19 8 0.28
ACGTcount: A:0.05, C:0.04, G:0.18, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTGGGTTAGGT
Found at i:130449164 original size:14 final size:13
Alignment explanation
Indices: 130449133--130449164 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
130449123 ATTGACTCTC
*
130449133 TAAAAACAGACAT
1 TAAAAACAGAAAT
130449146 TAAAAACAGAAAT
1 TAAAAACAGAAAT
130449159 TAAAAA
1 TAAAAA
130449165 TAGCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (13 bp):
TAAAAACAGAAAT
Found at i:130449351 original size:30 final size:30
Alignment explanation
Indices: 130449315--130449376 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
130449305 TTTTGAAAAA
130449315 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
130449345 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
130449375 CA
1 CA
130449377 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:130449488 original size:88 final size:88
Alignment explanation
Indices: 130449399--130449558 Score: 200
Period size: 86 Copynumber: 1.8 Consensus size: 88
130449389 TTTTTTTGAA
* * *
130449399 AAAAAAAAAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCAC-T-TCTCAATATGA
1 AAAAAAAAAAATTGAAAATACCTCGA-CACGTGACCCAAGGCTCAACTCACATCTCGCAATATGA
130449461 GTTGATTTTTGAAAACAGAATCTG
65 GTTGATTTTTGAAAACAGAATCTG
* * ** * * *
130449485 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAAAAAAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
130449550 TTGATTTTT
66 TTGATTTTT
130449559 TTGAAAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
86 40 0.66
87 2 0.03
88 19 0.31
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
AAAAAAAAAAATTGAAAATACCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
TTGATTTTTGAAAACAGAATCTG
Found at i:130449507 original size:250 final size:242
Alignment explanation
Indices: 130449155--130450052 Score: 791
Period size: 250 Copynumber: 3.7 Consensus size: 242
130449145 TTAAAAACAG
*
130449155 AAATTAAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** * * *
130449220 TTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGGTTCAACT
66 TTGAAAACAGAATC-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGGCTCAACT
*
130449282 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAACTCTCGC
129 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA-AAT-AACTC-A--CT-GC
*
130449346 AGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAA
188 AG--ATCT--AAAGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTTTTG--AAAAAAAA
*
130449407 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCA-CT-TCTCAATATGAGTTGA-TTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
130449469 TTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
66 TTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCA
* * * * * * **
130449534 CATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTTGATCT
131 CCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAAATAACTCACTGCAGATCT
* * * *
130449599 GAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGACAG
194 AAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAAAAA
130449648 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---T
* * ** * * * *
130449713 TTTTTGAAAGGCAGAAAT-TGAAAAACGGAAATTGAAAATACATCGGCGTTTGACCTGAGGCTCA
63 TTTTTGAAA-ACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCA
* * * * *
130449777 ACTCGCCTCTCACAATATGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACCTCA--GC-
126 ACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAAATAACTCACTGCA
* * * * * *
130449836 GTGTCCTGAGGCTCAACTCACCTCTCGCAAT-TGAGTTGATTTTTTTGAAAAACAG
189 G-AT-CTAAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAAAAA
* * ** ** *
130449891 AAATTGAAAATACCTCAG-A--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATT
1 AAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATT
* * * **
130449952 TTTT---------TTTTGAAAGACAGAAATTGAAAATACCTC-AGCATGTGAACC-GAGGCTCAA
64 TTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGA-CATGTG-ACCTGAGGCTCAA
* *
130450006 CTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTAGAAATT-AAAA
127 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTGAAAA
130450053 GGTTCAACCC
Statistics
Matches: 556, Mismatches: 64, Indels: 76
0.80 0.09 0.11
Matches are distributed among these distances:
225 5 0.01
226 3 0.01
227 8 0.01
228 59 0.11
229 3 0.01
238 6 0.01
239 1 0.00
240 30 0.05
241 47 0.08
242 4 0.01
243 66 0.12
244 54 0.10
245 12 0.02
246 1 0.00
247 21 0.04
248 71 0.13
249 9 0.02
250 84 0.15
251 9 0.02
252 59 0.11
253 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (242 bp):
AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAATAACTCACTGCAGATCTAA
AGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAAAAA
Found at i:130449566 original size:77 final size:76
Alignment explanation
Indices: 130449483--130450033 Score: 316
Period size: 78 Copynumber: 7.0 Consensus size: 76
130449473 AAACAGAATC
** * *
130449483 TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTG
1 TGAAAAACAGAAATTGAAAATACCTC-ACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
130449548 AGTTGATTTTTT
65 AGTTGATTTTTT
* * * * * * *
130449560 TGAAAAATATAAATTGAAAAAATACCTCA-GTGTTGATCTGAAGCTCAACTCACCTCTAGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCACATG-TGACCCGAGGCTCAACTCACCTCTCGCAATA
130449624 TGAGTTGATTTTTT
63 TGAGTTGATTTTTT
* * * * *
130449638 TGAAAGACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
130449703 AGTTGATTTTTTTT
65 AGTTGA--TTTTTT
** ** * * * * * * *
130449717 TGAAAGGCAGAAATTGAAAA-A-CGGAAAT-TGAAAATACATCG-GCGTTTGACCTGAGGCTCAA
1 TGAAAAACAGAAATTGAAAATACCTCACATGTG-----AC-CCGAG-G-CTCAACTCA--C-C-T
* * * * *
130449778 CTCGC-CTCTCACAATATGAGTTGATTT
54 CTCGCAATAT--GAGT-TGA-TT-TTTT
* * * *
130449805 TTTTG-ACAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 T---GAAAAACAGAAATTGAAAATACCTCA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
130449867 -TGAGTTGATTTTTT
62 ATGAGTTGATTTTTT
* ** ** *
130449881 TGAAAAACAGAAATTGAAAATACCTCAGATGT--CTTGAGGCTCAACTCATTTCTCACAATATGA
1 TGAAAAACAGAAATTGAAAATACCTCACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
130449944 GTTGAATTTTTTTTT
66 GTTG-A---TTTTTT
* *
130449959 TGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
130450024 AGCTGATTTT
65 AGTTGATTTT
130450034 GAAAAAGTAG
Statistics
Matches: 355, Mismatches: 76, Indels: 86
0.69 0.15 0.17
Matches are distributed among these distances:
73 24 0.07
74 29 0.08
75 5 0.01
76 15 0.04
77 56 0.16
78 90 0.25
79 41 0.12
80 3 0.01
81 36 0.10
82 7 0.02
83 1 0.00
84 1 0.00
85 8 0.02
86 7 0.02
87 6 0.02
88 7 0.02
90 13 0.04
91 2 0.01
92 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (76 bp):
TGAAAAACAGAAATTGAAAATACCTCACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTT
Found at i:130449880 original size:74 final size:74
Alignment explanation
Indices: 130449734--130450033 Score: 345
Period size: 74 Copynumber: 3.9 Consensus size: 74
130449724 CAGAAATTGA
* * * * *
130449734 AAAACGGAAATTGAAAATACATCGGCGTTTGACCTGAGGCTCAACTCGCCTCTCACAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCG--TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGT
130449799 TGATTTTTTTG
64 TGATTTTTTTG
* * *
130449810 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT-TGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
130449874 ATTTTTTTG
66 ATTTTTTTG
* * **
130449883 AAAAACAGAAATTGAAAATACCTCAG-ATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
130449947 GAATTTTTTTTTTG
65 G-A---TTTTTTTG
* *
130449961 AAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAA-ACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCACAATATGA
*
130450025 GCTGATTTT
62 GTTGATTTT
130450034 GAAAAAGTAG
Statistics
Matches: 191, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
73 42 0.22
74 57 0.30
75 1 0.01
76 22 0.12
77 7 0.04
78 30 0.16
80 1 0.01
81 30 0.16
82 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTTTTTTG
Found at i:130450038 original size:152 final size:145
Alignment explanation
Indices: 130449768--130450052 Score: 369
Period size: 152 Copynumber: 1.9 Consensus size: 145
130449758 GCGTTTGACC
* * *
130449768 TGAGGCTCAACTCGCCTCTCACAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTC
* *
130449833 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATTGAGTTGATTTTTTTGAAAAA-CAGAAATTG
66 AGCGTGACCTGAGGCTCAACTCACCTCTCGCAATTGAGCTGA--TTTTTGAAAAAGCAGAAATT-
130449897 AAAATACCTCAGATGTCT
128 AAAATACCTCAGATGTCT
**
130449915 TGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 TGAGGCTCAACTCACCTCTCACAATATGAGTTG-A---TTTTTTTGAAA-ACAGAAATTGAAAAT
*
130449980 ACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTA
61 ACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAAT-TGAGCTGATTTTTGAAAAAGCA
130450043 GAAATTAAAA
122 GAAATTAAAA
130450053 GGTTCAACCC
Statistics
Matches: 120, Mismatches: 8, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
147 30 0.25
148 1 0.01
151 10 0.08
152 36 0.30
153 7 0.06
154 27 0.22
155 9 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (145 bp):
TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGACCTGAGGCTCAACTCACCTCTCGCAATTGAGCTGATTTTTGAAAAAGCAGAAATTAAA
ATACCTCAGATGTCT
Found at i:130450102 original size:54 final size:54
Alignment explanation
Indices: 130450002--130450107 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
130449992 GAACCGAGGC
*
130450002 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
130450056 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
130450108 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:130450224 original size:71 final size:71
Alignment explanation
Indices: 130450098--130450262 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
130450088 TGAACAACGT
* * * *
130450098 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
130450163 GAGTTG
66 GAGTTG
130450169 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
130450233 TGAGTTG
65 TGAGTTG
**
130450240 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
130450263 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 4 0.05
71 53 0.62
72 29 0.34
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:130450587 original size:148 final size:146
Alignment explanation
Indices: 130450322--130450649 Score: 491
Period size: 148 Copynumber: 2.3 Consensus size: 146
130450312 TCAACTGCCC
*
130450322 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCA
** * *
130450384 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAGACAAAAATTGAAAA
66 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAA
*
130450449 TACCTCGGCGTGTGACCT
131 TACCTCAGC--GTGACCT
* * * *
130450467 GAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCA
* *
130450532 GCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGAAATTAAAACACAAAAATTGAAAA
66 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAA
130450597 TACCTCAGCGTGACCT
131 TACCTCAGCGTGACCT
* *
130450613 GAGGCTCGACTCACCTCTAGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
130450650 GAAAAACAAA
Statistics
Matches: 163, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
145 29 0.18
146 39 0.24
148 95 0.58
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (146 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAAATTAAAACACAAAAATTGAAAA
TACCTCAGCGTGACCT
Found at i:130450614 original size:72 final size:71
Alignment explanation
Indices: 130450322--130450662 Score: 421
Period size: 72 Copynumber: 4.7 Consensus size: 71
130450312 TCAACTGCCC
* * * *
130450322 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAACAAAAATTGAAAATACCTCAGCG
*
130450387 TGTCCT
66 TGACCT
* * *
130450393 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAGACAAAAATTGAAAATACCTCGGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAAAACAAAAATTGAAAATACCTCAGC
130450458 GTGTGACCT
65 --GTGACCT
* * * * * * *
130450467 GAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTAAAAACAAAAATTGAAAATACCTCA
*
130450532 GCGTGTCCT
63 GCGTGACCT
* **
130450541 GAGGCTCAACTCACCTCTCGTAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAA-ACAAAAATTGAAAATACCTCAGC
130450606 GTGACCT
65 GTGACCT
* *
130450613 GAGGCTCGACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAAAACAAAAAT
130450663 AAAAAGGCTT
Statistics
Matches: 227, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
71 39 0.17
72 89 0.39
73 4 0.02
74 70 0.31
76 21 0.09
77 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (71 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAACAAAAATTGAAAATACCTCAGCG
TGACCT
Found at i:130459132 original size:12 final size:12
Alignment explanation
Indices: 130459112--130459147 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
130459102 TGGGATATGC
*
130459112 AATGTATGAATG
1 AATGCATGAATG
130459124 AATGCATGAATG
1 AATGCATGAATG
130459136 AATGCATGAATG
1 AATGCATGAATG
130459148 TAAAATGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:130463621 original size:2 final size:2
Alignment explanation
Indices: 130463570--130463608 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
130463560 GATCCAACAC
130463570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130463609 TATTAGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130464543 original size:21 final size:23
Alignment explanation
Indices: 130464519--130464563 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
130464509 ATTTAACATT
130464519 CAAT-CAATCAA-ATCTTATTAA
1 CAATACAATCAATATCTTATTAA
*
130464540 CAATCACAATCAATTTCTTATTAA
1 CAAT-ACAATCAATATCTTATTAA
130464564 TGTTGGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
CAATACAATCAATATCTTATTAA
Found at i:130464617 original size:3 final size:3
Alignment explanation
Indices: 130464609--130464633 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
130464599 TATATTTGTT
130464609 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
130464634 CATATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:130465144 original size:12 final size:11
Alignment explanation
Indices: 130465127--130465152 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
130465117 TTGTTTAACC
130465127 TTTTTTTTTTA
1 TTTTTTTTTTA
130465138 TTTTTTTTTTA
1 TTTTTTTTTTA
130465149 TTTT
1 TTTT
130465153 GCAGAGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:130466850 original size:19 final size:19
Alignment explanation
Indices: 130466800--130466852 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
130466790 AAAAAAAATG
* *
130466800 AAAATACTA-AAAACTGAA
1 AAAAAACTAGAAAAATGAA
*
130466818 AAAAAACTATAAAAATGAA
1 AAAAAACTAGAAAAATGAA
* *
130466837 AAAAGATTAGAAAAAT
1 AAAAAACTAGAAAAAT
130466853 TATTATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.17
Consensus pattern (19 bp):
AAAAAACTAGAAAAATGAA
Found at i:130466979 original size:12 final size:11
Alignment explanation
Indices: 130466956--130466988 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
130466946 AATTTTAAAA
130466956 TATAAAAA-AT
1 TATAAAAATAT
130466966 TATTAAAAATAT
1 TA-TAAAAATAT
130466978 TATAAAAATAT
1 TATAAAAATAT
130466989 AGAAAAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 15 0.71
12 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:130467045 original size:31 final size:29
Alignment explanation
Indices: 130466952--130467045 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 29
130466942 GGAAAATTTT
**
130466952 AAAATATAAAAAATTATTAAAAATATTATA
1 AAAATATAAAAAATTACAAAAAATATTA-A
* * * *
130466982 AAAATATAGAAAAGTGCAAAAAAGTATAAA
1 AAAATATAAAAAATTACAAAAAA-TATTAA
*
130467012 AAAATTATATAAAATTACAAAAAATTATTAA
1 AAAA-TATAAAAAATTACAAAAAA-TATTAA
130467043 AAA
1 AAA
130467046 TTTTTCAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
30 23 0.45
31 28 0.55
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (29 bp):
AAAATATAAAAAATTACAAAAAATATTAA
Found at i:130467047 original size:30 final size:29
Alignment explanation
Indices: 130466944--130467046 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
130466934 ATATATATGG
*
130466944 AAAATT-TT-AAAATATAAAAAATTATTAA
1 AAAATTATTAAAAATATAAAAAATTA-CAA
* * *
130466972 AAATATTA-TAAAAATATAGAAAAGTGCAA
1 AAA-ATTATTAAAAATATAAAAAATTACAA
* * *
130467001 AAAAGTATAAAAAAATTATATAAAATTACAA
1 AAAATTAT-TAAAAA-TATAAAAAATTACAA
130467032 AAAATTATTAAAAAT
1 AAAATTATTAAAAAT
130467047 TTTTCAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
28 6 0.10
29 10 0.17
30 23 0.40
31 19 0.33
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAATTATTAAAAATATAAAAAATTACAA
Found at i:130467320 original size:28 final size:28
Alignment explanation
Indices: 130467280--130467373 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 28
130467270 GAAAAAAATG
* *
130467280 TTTTTTATATTTTTAGT-TTGTTTTATAA
1 TTTTTTTTATTTTTA-TATTATTTTATAA
*
130467308 TTTTTTTTATTTTTATATTATTTTGTAA
1 TTTTTTTTATTTTTATATTATTTTATAA
* * *
130467336 ATTTTATTATTTTTA-AATATTTTACATAA
1 TTTTTTTTATTTTTATATTATTTT--ATAA
130467365 TTTTTTTTA
1 TTTTTTTTA
130467374 AAAAAATTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
27 8 0.15
28 36 0.67
29 10 0.19
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTTTTATTTTTATATTATTTTATAA
Found at i:130467331 original size:17 final size:17
Alignment explanation
Indices: 130467300--130467351 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
130467290 TTTTAGTTTG
* *
130467300 TTTTATAATTTTTTTTAT
1 TTTTAT-ATTATTTTTAA
130467318 TTTTATATTATTTTGTAA
1 TTTTATATTATTTT-TAA
*
130467336 ATTT-TATTATTTTTAA
1 TTTTATATTATTTTTAA
130467352 ATATTTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 16 0.53
18 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTATATTATTTTTAA
Found at i:130467429 original size:15 final size:17
Alignment explanation
Indices: 130467410--130467449 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
130467400 TAATTTTACA
130467410 ATTTTAC-CTTTT-TAT
1 ATTTTACACTTTTCTAT
*
130467425 TTTTTACACTTTTCTAT
1 ATTTTACACTTTTCTAT
130467442 ATTTTACA
1 ATTTTACA
130467450 TTATTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.29
16 5 0.24
17 10 0.48
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTACACTTTTCTAT
Found at i:130471409 original size:22 final size:22
Alignment explanation
Indices: 130471381--130471425 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
130471371 TATCACGTTG
130471381 AGATATGGTACACGAGGTTTAT
1 AGATATGGTACACGAGGTTTAT
130471403 AGATATGGTACACGAGGTTTAT
1 AGATATGGTACACGAGGTTTAT
130471425 A
1 A
130471426 CTCCTTACCT
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:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (22 bp):
AGATATGGTACACGAGGTTTAT
Found at i:130473594 original size:16 final size:17
Alignment explanation
Indices: 130473573--130473604 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
130473563 CATATGAAAA
130473573 GTAAAAAT-AATAATTC
1 GTAAAAATAAATAATTC
130473589 GTAAAAATAAATAATT
1 GTAAAAATAAATAATT
130473605 TAGGAAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
GTAAAAATAAATAATTC
Found at i:130474590 original size:15 final size:14
Alignment explanation
Indices: 130474555--130474581 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
130474545 TTATATTTTT
130474555 TGAAAAACAAAAGA
1 TGAAAAACAAAAGA
130474569 TGAAAAACAAAAG
1 TGAAAAACAAAAG
130474582 TAGAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.15, T:0.07
Consensus pattern (14 bp):
TGAAAAACAAAAGA
Found at i:130475418 original size:20 final size:20
Alignment explanation
Indices: 130475390--130475443 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
130475380 ATAAAGGCAC
*
130475390 ATGCTCGTGTGGCCTGGGAT
1 ATGCCCGTGTGGCCTGGGAT
*
130475410 ATGCCCGTGTGGCTTGGGAT
1 ATGCCCGTGTGGCCTGGGAT
* *
130475430 ATGGCCGTGGGGCC
1 ATGCCCGTGTGGCC
130475444 AGGCTATGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.09, C:0.22, G:0.43, T:0.26
Consensus pattern (20 bp):
ATGCCCGTGTGGCCTGGGAT
Found at i:130479356 original size:46 final size:44
Alignment explanation
Indices: 130479252--130479359 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
130479242 TGTCTTTGAC
** * * *
130479252 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
130479296 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
130479342 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
130479360 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:130485497 original size:46 final size:44
Alignment explanation
Indices: 130485393--130485500 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
130485383 TGTCTTTGAC
** * * *
130485393 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
130485437 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
130485483 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
130485501 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:130490463 original size:20 final size:20
Alignment explanation
Indices: 130490438--130490489 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
130490428 AGGGGCACAC
130490438 GCCCGTGTGGCCTAGGACAT
1 GCCCGTGTGGCCTAGGACAT
* *
130490458 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTAGGACAT
* *
130490478 GACCGTGGGGCC
1 GCCCGTGTGGCC
130490490 AGGCCGTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTAGGACAT
Found at i:130496585 original size:46 final size:46
Alignment explanation
Indices: 130496518--130496733 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
130496508 GGCAACCTGA
130496518 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
130496564 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
130496610 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
130496656 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
130496702 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
130496734 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:130496713 original size:138 final size:130
Alignment explanation
Indices: 130496468--130496733 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
130496458 AGTGTGCTCT
*
130496468 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
130496533 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
130496598 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
130496663 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
130496728 ATGGCA
123 ATGGCA
130496734 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:130500217 original size:20 final size:19
Alignment explanation
Indices: 130500173--130500216 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
130500163 GGCTCAACCG
*
130500173 TTTTCTAAACAAACCTTAT
1 TTTTTTAAACAAACCTTAT
130500192 TTTTTTAAACAAACCTTAT
1 TTTTTTAAACAAACCTTAT
130500211 TTTTTT
1 TTTTTT
130500217 TGCCCAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTTAAACAAACCTTAT
Found at i:130502367 original size:18 final size:18
Alignment explanation
Indices: 130502346--130502386 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
130502336 AGTATTGGTG
* *
130502346 GTTTTTATTTTTATTTTT
1 GTTTTTAGTTTTATTTGT
130502364 GTTTTTAGTTTTATTTGT
1 GTTTTTAGTTTTATTTGT
130502382 GTTTT
1 GTTTT
130502387 AATTAGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (18 bp):
GTTTTTAGTTTTATTTGT
Found at i:130502671 original size:21 final size:21
Alignment explanation
Indices: 130502642--130502682 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
130502632 TAAACAATAT
*
130502642 AATGGTTTTGCCTTTTAACTG
1 AATGATTTTGCCTTTTAACTG
*
130502663 AATGATTTTGGCTTTTAACT
1 AATGATTTTGCCTTTTAACT
130502683 TTATAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (21 bp):
AATGATTTTGCCTTTTAACTG
Found at i:130502923 original size:2 final size:2
Alignment explanation
Indices: 130502916--130502945 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
130502906 CCTAATTTTG
130502916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130502946 GGATTTGTCA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130511452 original size:22 final size:23
Alignment explanation
Indices: 130511427--130511470 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
130511417 AAGAATGAAT
130511427 TTTTTAAT-AAAAACTAATTTAA
1 TTTTTAATCAAAAACTAATTTAA
* *
130511449 TTTTTAATCTAAGACTAATTTA
1 TTTTTAATCAAAAACTAATTTA
130511471 TTCAAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTTAATCAAAAACTAATTTAA
Found at i:130514704 original size:43 final size:45
Alignment explanation
Indices: 130514657--130514766 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
130514647 TTTTAAATGA
* *
130514657 TTTATCCACACCAT-TTGAGC-A-GCTTATCTGCACCATTGAGTGG
1 TTTATCCACACCATATT-AGCAACGCTTATCTACACCAATGAGTGG
* * *
130514700 TTTATCCATACCGTATTAGCAACGTTTATCTACACCAATGAGTGG
1 TTTATCCACACCATATTAGCAACGCTTATCTACACCAATGAGTGG
* *
130514745 TTTATCCACACCCTACTAGCAA
1 TTTATCCACACCATATTAGCAA
130514767 TTTATTTGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 15 0.27
44 3 0.05
45 38 0.68
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (45 bp):
TTTATCCACACCATATTAGCAACGCTTATCTACACCAATGAGTGG
Found at i:130514736 original size:45 final size:45
Alignment explanation
Indices: 130514680--130514766 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
130514670 TTTGAGCAGC
* * * * *
130514680 TTATCTGCACCATTGAGTGGTTTATCCATACCGTATTAGCAACGT
1 TTATCTACACCAATGAGTGGTTTATCCACACCCTACTAGCAACGT
130514725 TTATCTACACCAATGAGTGGTTTATCCACACCCTACTAGCAA
1 TTATCTACACCAATGAGTGGTTTATCCACACCCTACTAGCAA
130514767 TTTATTTGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
TTATCTACACCAATGAGTGGTTTATCCACACCCTACTAGCAACGT
Found at i:130516610 original size:3 final size:3
Alignment explanation
Indices: 130516602--130516679 Score: 63
Period size: 3 Copynumber: 26.3 Consensus size: 3
130516592 TTTACCCCTG
* * *
130516602 TTA TTA TTA TTA TCA TTA TT- TTA TCTA CTTA TTA TCA TTA TGA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA
* * *
130516647 TGA TTA TTA ATA TTA TTA TTA -CA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
130516680 AGTATTCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 4 0.07
3 49 0.84
4 4 0.07
5 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:130516625 original size:20 final size:20
Alignment explanation
Indices: 130516602--130516679 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 20
130516592 TTTACCCCTG
130516602 TTATTATTATTATCATTATT
1 TTATTATTATTATCATTATT
*
130516622 TTATCTACTTATTATCATTATG
1 TTAT-TA-TTATTATCATTATT
* *
130516644 ATATGATTATTAAT-ATTATT
1 TTATTATTATT-ATCATTATT
130516664 ATTACATTATTATTAT
1 -TT--ATTATTATTAT
130516680 AGTATTCCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 14 0.30
21 6 0.13
22 18 0.39
23 8 0.17
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (20 bp):
TTATTATTATTATCATTATT
Found at i:130516685 original size:11 final size:11
Alignment explanation
Indices: 130516602--130516685 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 11
130516592 TTTACCCCTG
130516602 TTATTATTATTA
1 TTATTA-TATTA
* *
130516614 TCATTATTTTA
1 TTATTATATTA
*
130516625 TCTACTTATTATCA
1 T-TA-TTA-TATTA
* *
130516639 TTATGATATGA
1 TTATTATATTA
130516650 TTATTAATATTA
1 TTATT-ATATTA
*
130516662 TTATTACATTA
1 TTATTATATTA
*
130516673 TTATTATAGTA
1 TTATTATATTA
130516684 TT
1 TT
130516686 CCTTTATTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
11 29 0.52
12 18 0.32
13 5 0.09
14 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (11 bp):
TTATTATATTA
Found at i:130519173 original size:33 final size:33
Alignment explanation
Indices: 130519109--130519175 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
130519099 TACTTTCTTT
* * *
130519109 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
*
130519142 TTGGTGTGATGGATGGATTGGCTC-GAGTGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGA-TGAGCA
130519175 T
1 T
130519176 CTATTGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.16, C:0.09, G:0.37, T:0.37
Consensus pattern (33 bp):
TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
Found at i:130534103 original size:20 final size:20
Alignment explanation
Indices: 130534075--130534113 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
130534065 AGATATGACC
*
130534075 CATTAAAAACCTTCCAAATA
1 CATTAAAAACCTTCAAAATA
* *
130534095 CATTGAAAAGCTTCAAAAT
1 CATTAAAAACCTTCAAAAT
130534114 TTCGAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (20 bp):
CATTAAAAACCTTCAAAATA
Found at i:130535730 original size:22 final size:24
Alignment explanation
Indices: 130535686--130535732 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
130535676 TTATGTCTAT
*
130535686 AAAATTATTAAATGTTTCTATAAAA
1 AAAATTATTAAA-GTTTCAATAAAA
130535711 AAAATTATTAAA-TTT-AATAAAA
1 AAAATTATTAAAGTTTCAATAAAA
130535733 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 3 0.14
25 12 0.57
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATTATTAAAGTTTCAATAAAA
Found at i:130544659 original size:19 final size:19
Alignment explanation
Indices: 130544623--130544676 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
130544613 TCAAATTTTA
130544623 AAAAAATATCTAAAAAAATT-
1 AAAAAA-ATCT-AAAAAATTC
130544643 ATAAAAAATCTAAAAAATTC
1 A-AAAAAATCTAAAAAATTC
*
130544663 AAAAAAATATAAAA
1 AAAAAAATCTAAAA
130544677 TAAAACTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 20 0.65
20 6 0.19
21 5 0.16
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATCTAAAAAATTC
Found at i:130548656 original size:2 final size:2
Alignment explanation
Indices: 130548649--130548675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
130548639 CATAATCCTC
130548649 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
130548676 GGGAGATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130548739 original size:18 final size:18
Alignment explanation
Indices: 130548718--130548758 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
130548708 AATAGGAAAG
*
130548718 AGGTTATAA-GAAGATGAA
1 AGGTT-TAAGGAAGATAAA
130548736 AGGTTTAAGGAAGATAAA
1 AGGTTTAAGGAAGATAAA
130548754 AGGTT
1 AGGTT
130548759 CACTGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGTTTAAGGAAGATAAA
Found at i:130549933 original size:18 final size:18
Alignment explanation
Indices: 130549910--130549944 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
130549900 AAGGATGAAG
130549910 AAATAATAAT-AAATAAAT
1 AAATAA-AATAAAATAAAT
130549928 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
130549945 AATTTTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAATAAAATAAAT
Found at i:130551683 original size:6 final size:6
Alignment explanation
Indices: 130551674--130551709 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
130551664 TCCCTTTCCT
130551674 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
1 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
130551710 CATCCTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TTCCCC
Found at i:130552856 original size:17 final size:17
Alignment explanation
Indices: 130552842--130552902 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
130552832 ATAATCTTCA
130552842 ATGATATGCAATCTTAG
1 ATGATATGCAATCTTAG
*
130552859 AT-ATGATACAATCTTAG
1 ATGAT-ATGCAATCTTAG
130552876 ATATGATATGCAATCTTAG
1 --ATGATATGCAATCTTAG
*
130552895 AAGATATG
1 ATGATATG
130552903 ATTATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.05
17 20 0.54
19 13 0.35
20 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (17 bp):
ATGATATGCAATCTTAG
Found at i:130552866 original size:19 final size:19
Alignment explanation
Indices: 130552842--130552895 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
130552832 ATAATCTTCA
130552842 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
130552861 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
130552878 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
130552896 AGATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:130552885 original size:22 final size:19
Alignment explanation
Indices: 130552857--130552904 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
130552847 ATGCAATCTT
130552857 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
130552877 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
130552896 AGATATGAT
1 AGATATGAT
130552905 TATATAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:130552921 original size:22 final size:22
Alignment explanation
Indices: 130552874--130552918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
130552864 ATACAATCTT
*
130552874 AGATATGATATGCAATCTTAGA
1 AGATATGATATACAATCTTAGA
*
130552896 AGATATGATTATATAATCTTAGA
1 AGATATGA-TATACAATCTTAGA
130552919 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (22 bp):
AGATATGATATACAATCTTAGA
Found at i:130553207 original size:18 final size:17
Alignment explanation
Indices: 130553184--130553217 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
130553174 ATGTTTCCTG
*
130553184 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
130553202 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
130553218 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:130561762 original size:89 final size:89
Alignment explanation
Indices: 130561629--130561830 Score: 341
Period size: 89 Copynumber: 2.3 Consensus size: 89
130561619 ATTCGACGGA
*
130561629 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
* **
130561694 ATTTGGCATCTTTGGGTTGACAAG
66 ATTTGGCATCCTTGCATTGACAAG
* *
130561718 GAGCAGATCGAAGACATAACAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
*
130561783 ATTTGGCATCCTTGCATTGATAAG
66 ATTTGGCATCCTTGCATTGACAAG
130561807 GAGCAGATCGAAGACATAGCAGAT
1 GAGCAGATCGAAGACATAGCAGAT
130561831 TTGGCTTTCA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 105 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
ATTTGGCATCCTTGCATTGACAAG
Found at i:130561955 original size:220 final size:220
Alignment explanation
Indices: 130561718--130562190 Score: 811
Period size: 220 Copynumber: 2.1 Consensus size: 220
130561708 GGTTGACAAG
* *
130561718 GAGCAGATCGAAGACATAACAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
* *
130561783 ATTTGGCATCCTTGCATTGATAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTT
66 ATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACATAGCAGATTTAGCTTTCACGTGTTT
* * *
130561848 ACGCTGAAGCAGATCTAAAATGATTTAACATCTCTGTATTGTCAGAGAATAAATCGAAGAAACAG
131 ACGCTCAAGCAGATCTAAAATGATTTAACATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAG
130561913 ATTTGGCATCTCCATATTCGACGGA
196 ATTTGGCATCTCCATATTCGACGGA
* *
130561938 GAGCAGATTGAAGACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
*
130562003 ATTTGGCATCCTTGTATTGACAAGGAGCAGATCGAAGACATAGCAGATTTAGCTTTCACGTGTTT
66 ATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACATAGCAGATTTAGCTTTCACGTGTTT
* * **
130562068 ATGCTCAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAG
131 ACGCTCAAGCAGATCTAAAATGATTTAACATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAG
130562133 ATTTGGCATCTCCATATTCGACGGA
196 ATTTGGCATCTCCATATTCGACGGA
*
130562158 GAGCAGATCGAAGACATAGCAGATCTGACCTTC
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC
130562191 ATTGAAGCAG
Statistics
Matches: 237, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
220 237 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (220 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATG
ATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACATAGCAGATTTAGCTTTCACGTGTTT
ACGCTCAAGCAGATCTAAAATGATTTAACATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAG
ATTTGGCATCTCCATATTCGACGGA
Found at i:130562246 original size:78 final size:78
Alignment explanation
Indices: 130562132--130562426 Score: 450
Period size: 78 Copynumber: 3.8 Consensus size: 78
130562122 CGAAGAAACA
** *
130562132 GATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGA-AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
130562196 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
130562210 GATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
130562275 GCAGATCCACGAT
66 GCAGATCCAAGAT
* * *
130562288 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGTCATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
130562352 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
130562366 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
130562427 GTGTTTACAT
Statistics
Matches: 198, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.01
78 193 0.97
79 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:130562574 original size:89 final size:90
Alignment explanation
Indices: 130562438--130562625 Score: 279
Period size: 89 Copynumber: 2.1 Consensus size: 90
130562428 TGTTTACATC
* * *
130562438 GAAGCAGATTCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAACA
1 GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
*
130562503 GATTTGGCATCTCTGTATTAGACGG
66 GATTTGGCATCTCTATATTAGACGG
* * * *
130562528 GGAGCAGATTGAAGAAG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
**
130562592 GATTTGGTGTCTCTATATTAGACGG
66 GATTTGGCATCTCTATATTAGACGG
130562617 GAAGCAGAT
1 GAAGCAGAT
130562626 CAAAGATAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 73 0.84
90 14 0.16
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (90 bp):
GAAGCAGATTCAAGAAGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
GATTTGGCATCTCTATATTAGACGG
Found at i:130562611 original size:134 final size:136
Alignment explanation
Indices: 130562366--130562622 Score: 310
Period size: 134 Copynumber: 1.9 Consensus size: 136
130562356 GATCCAAGAT
* *
130562366 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCTTCATGTGA
* * *
130562431 TTACATCGAAGCAGATTCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGA
65 TTACATCGAAGCAGATTCAAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCAAATTGGA
130562496 GATAACA
130 GATAACA
* * * *
130562503 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCT-TCATGTGA
* * **
130562564 TTAGA-CGGGGAGCAGA-TCGAAGATAACAGATTTGGTGTCTCTATATTAGACGGGAAGCA
65 TTACATC--GAAGCAGATTC-AAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCA
130562623 GATCAAAGAT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
132 1 0.01
133 6 0.06
134 56 0.54
135 3 0.03
137 37 0.36
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTTCATGTGAT
TACATCGAAGCAGATTCAAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCAAATTGGAG
ATAACA
Found at i:130562626 original size:45 final size:45
Alignment explanation
Indices: 130562366--130562633 Score: 267
Period size: 45 Copynumber: 5.9 Consensus size: 45
130562356 GATCCAAGAT
* *
130562366 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * *
130562413 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATTC-AAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGA-TCGAAGATAACA
* * *
130562458 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
130562503 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
130562547 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** * * *
130562592 GATTTGGTGTCTCTATATTAGACGGGAAGCAGATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA
130562634 GCAATATCGC
Statistics
Matches: 183, Mismatches: 29, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 46 0.25
45 106 0.58
46 4 0.02
47 19 0.10
48 6 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:130563084 original size:17 final size:19
Alignment explanation
Indices: 130562987--130563077 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
130562977 ATAATCTTCA
130562987 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
130563006 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
130563025 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
130563042 ATGAT-TGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
130563060 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
130563078 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:130563390 original size:17 final size:17
Alignment explanation
Indices: 130563366--130563400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
130563356 TGTTTCCCTG
*
130563366 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
130563384 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
130563401 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:130564756 original size:16 final size:18
Alignment explanation
Indices: 130564735--130564767 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
130564725 CACATCAACT
130564735 CCAAAAT-AT-GATAGTA
1 CCAAAATGATCGATAGTA
130564751 CCAAAATGATCGATAGT
1 CCAAAATGATCGATAGT
130564768 GTGACGAACT
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:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATCGATAGTA
Found at i:130565377 original size:40 final size:39
Alignment explanation
Indices: 130565333--130565524 Score: 181
Period size: 38 Copynumber: 4.9 Consensus size: 39
130565323 GAATCTAGTC
* **
130565333 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAA-CCCAGATATAAT
* * *
130565373 ACCAGCACTAGGCCTGCAGGGACTTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGC-GGGACTTTAACCCAGATATAAT
* * * * *
130565413 AACAGCACGAAGCCTGCGGGA-TTTAAACCGGATATATT
1 ACCAGCACAAAGCCTGCGGGACTTTAACCCAGATATAAT
* *
130565451 ACCAGCACGAAGCCTGCGGGA-TATAACCCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAACCCAGATATAAT
* * * * *
130565489 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACAAAGCCTGCGGGACTTTAA-CCCAGATA
130565525 CACATCAAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
38 64 0.51
39 8 0.06
40 44 0.35
41 10 0.08
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (39 bp):
ACCAGCACAAAGCCTGCGGGACTTTAACCCAGATATAAT
Found at i:130568306 original size:28 final size:28
Alignment explanation
Indices: 130568275--130568356 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
130568265 GACTTCTGAT
130568275 GATCTGAAGCTGCTTTTAGACTTTCACG
1 GATCTGAAGCTGCTTTTAGACTTTCACG
*
130568303 GATC---A----CTTTTACGACTTCTGAC-
1 GATCTGAAGCTGCTTTTA-GACTT-TCACG
130568325 GATCTGAAGCTGCTTTTAGACTTTCACG
1 GATCTGAAGCTGCTTTTAGACTTTCACG
130568353 GATC
1 GATC
130568357 ACTTTTACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
21 6 0.14
22 9 0.21
23 3 0.07
25 2 0.05
27 3 0.07
28 13 0.31
29 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (28 bp):
GATCTGAAGCTGCTTTTAGACTTTCACG
Found at i:130568321 original size:50 final size:50
Alignment explanation
Indices: 130568262--130568364 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
130568252 TAAATCCGCA
*
130568262 TACGACTTCTGATGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
1 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
130568312 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
1 TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
130568362 TAC
1 TAC
130568365 TTTCTGCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (50 bp):
TACGACTTCTGACGATCTGAAGCTGCTTTTAGACTTTCACGGATCACTTT
Found at i:130568328 original size:22 final size:21
Alignment explanation
Indices: 130568287--130568363 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
130568277 TCTGAAGCTG
130568287 CTTTTAGACTTTCACGGATCA
1 CTTTTAGACTTTCACGGATCA
*
130568308 CTTTTACGACTTCTGAC-GATCTGAA
1 CTTTTA-GACTT-TCACGGATC---A
130568333 GCTGCTTTTAGACTTTCACGGATCA
1 ----CTTTTAGACTTTCACGGATCA
130568358 CTTTTA
1 CTTTTA
130568364 CTTTCTGCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
21 12 0.27
22 9 0.20
23 3 0.07
25 2 0.05
27 3 0.07
28 9 0.20
29 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (21 bp):
CTTTTAGACTTTCACGGATCA
Found at i:130571008 original size:2 final size:2
Alignment explanation
Indices: 130570997--130571039 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
130570987 ACTTTAACAC
130570997 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130571038 AT
1 AT
130571040 CCCTTTCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:130574977 original size:46 final size:46
Alignment explanation
Indices: 130574917--130575144 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
130574907 TTTGACATGA
* * * * * *
130574917 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
130574963 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
130575009 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
130575055 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
130575101 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
130575145 AGAGCACACT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:130577326 original size:11 final size:11
Alignment explanation
Indices: 130577282--130577333 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
130577272 TATACTAAAT
130577282 AAATAATAATA
1 AAATAATAATA
*
130577293 TAATAATAAT-
1 AAATAATAATA
* *
130577303 AAATATCTCATA
1 AAATA-ATAATA
*
130577315 AAATATTAATA
1 AAATAATAATA
130577326 AAATAATA
1 AAATAATA
130577334 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 4 0.12
11 23 0.72
12 5 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:130581656 original size:38 final size:38
Alignment explanation
Indices: 130581576--130581704 Score: 195
Period size: 38 Copynumber: 3.4 Consensus size: 38
130581566 TTAAGTTCAA
* *
130581576 ATATAATACCAGCACTAGGCCTGCGGGACTTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA-TTTAACCCGG
*
130581615 ATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
130581653 ATATATTACCAGCACGAAGCTTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
130581691 ATATAATTCCAGCA
1 ATATAATACCAGCA
130581705 TATAGCCTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 57 0.70
39 25 0.30
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:130585427 original size:14 final size:14
Alignment explanation
Indices: 130585408--130585438 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
130585398 CCAGAAAAGT
130585408 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
130585422 AAATCATTTTCCGG
1 AAATCATTTTCCAG
130585436 AAA
1 AAA
130585439 ATGTTTTACT
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:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:130596746 original size:122 final size:122
Alignment explanation
Indices: 130596529--130596775 Score: 476
Period size: 122 Copynumber: 2.0 Consensus size: 122
130596519 TTAACAAAAG
130596529 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAAATGGTTAAAACATGTTG
1 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAAATGGTTAAAACATGTTG
130596594 TTAGTCCCTATACTTTGACAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
66 TTAGTCCCTATACTTTGACAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
* *
130596651 AATGCAATTGGTACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAATTGGTTAAAACATGTTG
1 AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAAATGGTTAAAACATGTTG
130596716 TTAGTCCCTATACTTTGACAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
66 TTAGTCCCTATACTTTGACAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
130596773 AAT
1 AAT
130596776 TCCATCTTTT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (122 bp):
AATGCAATTGATACAACAATCATCTTGAAGTTTAAGGGTTGATTTAAAATGGTTAAAACATGTTG
TTAGTCCCTATACTTTGACAAATTTTGAAATTTAATACTTGTACTTTAAAAGTTAAA
Found at i:130596936 original size:23 final size:23
Alignment explanation
Indices: 130596905--130596955 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
130596895 TAGTCTAATC
*
130596905 GATATAAAA-TATTGATAGATTTT
1 GATAAAAAATTATTGATA-ATTTT
*
130596928 GATAAAAAATTATTTATAATTTT
1 GATAAAAAATTATTGATAATTTT
*
130596951 AATAA
1 GATAA
130596956 TTGAATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
GATAAAAAATTATTGATAATTTT
Found at i:130600590 original size:2 final size:2
Alignment explanation
Indices: 130600583--130600626 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
130600573 ACAATAATAC
* *
130600583 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130600625 TA
1 TA
130600627 ATAGAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:130600727 original size:2 final size:2
Alignment explanation
Indices: 130600722--130600758 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
130600712 AAAACAATAC
130600722 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130600759 CATAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:130601005 original size:3 final size:3
Alignment explanation
Indices: 130600992--130601077 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
130600982 GAGGGCATAT
**
130600992 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
130601039 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
130601078 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:130601016 original size:12 final size:12
Alignment explanation
Indices: 130600992--130601074 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
130600982 GAGGGCATAT
130600992 ATAATAT-AATA
1 ATAATATAAATA
130601003 ATAATATAAATA
1 ATAATATAAATA
130601015 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
130601030 GGAATA-ATAATA
1 ATAATATA-AATA
130601042 ATAATATAAATA
1 ATAATATAAATA
* *
130601054 ATAGTAAAAATA
1 ATAATATAAATA
*
130601066 ATAAAATAA
1 ATAATATAA
130601075 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:130601065 original size:27 final size:27
Alignment explanation
Indices: 130600992--130601078 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
130600982 GAGGGCATAT
* *
130600992 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
130601018 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
130601042 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
130601069 A-AATAATAAA
1 ATAAT-ATAAA
130601079 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:130601435 original size:20 final size:23
Alignment explanation
Indices: 130601410--130601456 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
130601400 TCTTTCCAAA
130601410 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
*
130601430 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAATCCTCCTCC
130601453 AAAA
1 AAAA
130601457 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.55, C:0.30, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:130601628 original size:12 final size:12
Alignment explanation
Indices: 130601611--130601644 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
130601601 GAGATTAGGT
130601611 TTTTTTTTTTGA
1 TTTTTTTTTTGA
130601623 TTTTTTTTTTGA
1 TTTTTTTTTTGA
130601635 TTTTTTTTTT
1 TTTTTTTTTT
130601645 TGGGTTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTGA
Found at i:130602255 original size:132 final size:132
Alignment explanation
Indices: 130602084--130602707 Score: 1068
Period size: 132 Copynumber: 4.7 Consensus size: 132
130602074 TCAACTATGA
* * * * * *
130602084 TTCGATTTGTTCCTTGTAAGCATAAGGATGTCAATTCTGATGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
* *
130602149 ACAGGGATGCCATGATGAAATCTTTGATCTGCTTCAGTGTAAGCACAGGAATGTCAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
130602214 TC
131 TC
*
130602216 TTCGATTTATTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
* *
130602281 ACAAGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
130602346 TC
131 TC
* *
130602348 TTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
130602413 ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
130602478 TC
131 TC
130602480 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
* * *
130602545 ACAGGGATGCTATGCTGAAATATTTGATCTGCTTCACTGTAAGCACAGGAATATCAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
130602610 TC
131 TC
*
130602612 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGC
1 TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
* * *
130602677 ACAGGAATGCCATGCTGAAACCTTCGATCTG
66 ACAGGGATGCCATGCTGAAATCTTTGATCTG
130602708 TTTCCCTACT
Statistics
Matches: 465, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 465 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (132 bp):
TTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGC
ACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
TC
Found at i:130602687 original size:44 final size:44
Alignment explanation
Indices: 130602090--130602688 Score: 387
Period size: 44 Copynumber: 13.6 Consensus size: 44
130602080 ATGATTCGAT
* * * * * * *
130602090 TTGTTCCTTGTAAGCATAAGGATGTCAATTCTGATGTTTTCAAC
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* * * *
130602134 TTGTTCCCTATAAGCACAGGGATGCC--ATGATGAAATCTTTGATC
1 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAAC
** * * * * * * * *
130602178 -TGCTTCAGTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 TTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* *
130602222 TTATTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAAC
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* * * *
130602266 TTGTTCCCTATAAGCACAAGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATATTTTCAAC
* * * * * * * *
130602308 TCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-
1 T-TG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* *
130602353 TCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAAC
1 T-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* * *
130602398 TTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
1 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAAC
* * * * * * * * *
130602442 -TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 TTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
*
130602486 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAAC
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* * * *
130602530 TTGTTCCCTATAAGCACAGGGATG-C-TATGCTGAAATATTTGATC
1 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAAC
* * * ** * * * * *
130602574 -TGCTTCACTGTAAGCACAGGAATATCAGATCTGCTATCTTCGAT
1 TTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
* *
130602618 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAAC
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
*
130602662 TTGTTCCCTATAAGCACAGGAATGCCA
1 TTGTTCCCTATAAGCACAGGGATGCCA
130602689 TGCTGAAACC
Statistics
Matches: 419, Mismatches: 112, Indels: 48
0.72 0.19 0.08
Matches are distributed among these distances:
42 8 0.02
43 31 0.07
44 336 0.80
45 36 0.09
46 8 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAAC
Found at i:130602793 original size:86 final size:88
Alignment explanation
Indices: 130602698--130602865 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 88
130602688 ATGCTGAAAC
* * *
130602698 CTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTG-CAA-TTCGGTCTGTTACCCTACCG
1 CTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAACTTCAGCCTGTTACCCTACCG
*
130602761 ATTAGGGGTTTAAGACCCTTCGT
66 ATTAGGGGGTTAAGACCCTTCGT
* * *
130602784 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACT
1 CTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAA-CTTCAGCCTGTTACCCTACC
*
130602849 GCTTAGGGGGTTAAGAC
65 GATTAGGGGGTTAAGAC
130602866 TTGTGAATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
86 38 0.54
87 2 0.03
89 31 0.44
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (88 bp):
CTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAACTTCAGCCTGTTACCCTACCG
ATTAGGGGGTTAAGACCCTTCGT
Found at i:130603038 original size:66 final size:66
Alignment explanation
Indices: 130602927--130603053 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 66
130602917 TCTATGCTTA
* *
130602927 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTGTTATGAAT
130602992 G
66 G
* *
130602993 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATACTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTGTTAT
130603054 TATATGAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAAATGTGTTATGAAT
G
Found at i:130604209 original size:19 final size:19
Alignment explanation
Indices: 130604185--130604229 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
130604175 TCCGCTTCTT
*
130604185 TTTTTTTAGAATTTTTTTG
1 TTTTTTTAGAATTTTTGTG
* **
130604204 TTTTTTTTGTGTTTTTGTG
1 TTTTTTTAGAATTTTTGTG
130604223 TTTTTTT
1 TTTTTTT
130604230 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (19 bp):
TTTTTTTAGAATTTTTGTG
Found at i:130607067 original size:19 final size:20
Alignment explanation
Indices: 130607043--130607089 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
130607033 AGTGAAAGTT
130607043 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
130607062 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
130607082 -AATGCAAA
1 TAATGCAAA
130607090 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:130609530 original size:2 final size:2
Alignment explanation
Indices: 130609523--130609579 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
130609513 ACAATAATAC
130609523 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
130609564 TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA
130609580 ATAGAAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:130609948 original size:3 final size:3
Alignment explanation
Indices: 130609935--130610020 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
130609925 GAGGGCATAT
**
130609935 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
130609982 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
130610021 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:130609959 original size:12 final size:12
Alignment explanation
Indices: 130609935--130610017 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
130609925 GAGGGCATAT
130609935 ATAATAT-AATA
1 ATAATATAAATA
130609946 ATAATATAAATA
1 ATAATATAAATA
130609958 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
130609973 GGAATA-ATAATA
1 ATAATATA-AATA
130609985 ATAATATAAATA
1 ATAATATAAATA
* *
130609997 ATAGTAAAAATA
1 ATAATATAAATA
*
130610009 ATAAAATAA
1 ATAATATAA
130610018 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:130610008 original size:27 final size:27
Alignment explanation
Indices: 130609935--130610021 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
130609925 GAGGGCATAT
* *
130609935 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
130609961 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
130609985 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
130610012 A-AATAATAAA
1 ATAAT-ATAAA
130610022 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:130610378 original size:20 final size:23
Alignment explanation
Indices: 130610353--130610399 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
130610343 TCTTTCCAAA
130610353 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
*
130610373 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAATCCTCCTCC
130610396 AAAA
1 AAAA
130610400 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.55, C:0.30, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:130610578 original size:13 final size:13
Alignment explanation
Indices: 130610556--130610590 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
130610546 GAGATTAGGT
130610556 TTTTTCTTTTTTGA
1 TTTTT-TTTTTTGA
130610570 -TTTTTTTTTTGA
1 TTTTTTTTTTTGA
130610582 TTTTTTTTT
1 TTTTTTTTT
130610591 GGGTTGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGA
Found at i:130610591 original size:11 final size:12
Alignment explanation
Indices: 130610557--130610590 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
130610547 AGATTAGGTT
130610557 TTTTCTTTTTTGA
1 TTTT-TTTTTTGA
130610570 TTTTTTTTTTGA
1 TTTTTTTTTTGA
130610582 TTTTTTTTT
1 TTTTTTTTT
130610591 GGGTTGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGA
Found at i:130612421 original size:24 final size:23
Alignment explanation
Indices: 130612380--130612424 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
130612370 ATGTCATCAA
**
130612380 CTAAAAATTTTAAAATATATAAT
1 CTAAAAATGATAAAATATATAAT
130612403 CTAAAAATGATAAATATATATA
1 CTAAAAATGATAAA-ATATATA
130612425 TATATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
CTAAAAATGATAAAATATATAAT
Found at i:130613682 original size:16 final size:15
Alignment explanation
Indices: 130613656--130613690 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
130613646 TGATGTGAAT
130613656 AATATAAAATATTAA
1 AATATAAAATATTAA
*
130613671 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
130613687 AATA
1 AATA
130613691 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:130613875 original size:20 final size:21
Alignment explanation
Indices: 130613833--130613875 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
130613823 CCTTTTTTAG
* *
130613833 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
130613854 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
130613874 AA
1 AA
130613876 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:130614092 original size:11 final size:11
Alignment explanation
Indices: 130614076--130614105 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
130614066 TAACATTAAG
130614076 AATATATATAT
1 AATATATATAT
*
130614087 AATATAAATAT
1 AATATATATAT
130614098 AATATATA
1 AATATATA
130614106 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:130614579 original size:13 final size:13
Alignment explanation
Indices: 130614531--130614583 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
130614521 AAAAAATGTA
130614531 ATTTTTTT-TTAT
1 ATTTTTTTATTAT
*
130614543 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
130614558 ATATTTTTATTAT
1 ATTTTTTTATTAT
130614571 ATTTTTTTATTAT
1 ATTTTTTTATTAT
130614584 GATGTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 4 0.11
13 19 0.54
14 6 0.17
15 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:130615042 original size:17 final size:18
Alignment explanation
Indices: 130615020--130615060 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
130615010 AAATGGGTCA
130615020 TGGGTTAAG-GGTTTTGG-
1 TGGGTTAAGAGG-TTTGGT
*
130615037 TGGGTTTAGAGGTTTGGT
1 TGGGTTAAGAGGTTTGGT
130615055 TGGGTT
1 TGGGTT
130615061 TTGATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.10, C:0.00, G:0.46, T:0.44
Consensus pattern (18 bp):
TGGGTTAAGAGGTTTGGT
Found at i:130615835 original size:16 final size:17
Alignment explanation
Indices: 130615814--130615849 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
130615804 GGATGAAAGA
*
130615814 TAAATATATTTATT-AT
1 TAAATATAATTATTAAT
130615830 TAAATATAATTATTAAT
1 TAAATATAATTATTAAT
130615847 TAA
1 TAA
130615850 TGAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAATTATTAAT
Found at i:130621068 original size:15 final size:15
Alignment explanation
Indices: 130621048--130621076 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
130621038 AAGTTTTGGT
130621048 CTTTTGTCTCAGCAG
1 CTTTTGTCTCAGCAG
130621063 CTTTTGTCTCAGCA
1 CTTTTGTCTCAGCA
130621077 ACCAAGCGTA
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:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (15 bp):
CTTTTGTCTCAGCAG
Found at i:130625489 original size:18 final size:18
Alignment explanation
Indices: 130625466--130625504 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
130625456 TCGATATTTT
* *
130625466 TATTATATCAATTTAAAA
1 TATTATATAAATATAAAA
130625484 TATTATATAAATATAAAA
1 TATTATATAAATATAAAA
130625502 TAT
1 TAT
130625505 GATAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATATAAATATAAAA
Found at i:130625530 original size:20 final size:18
Alignment explanation
Indices: 130625475--130625532 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 18
130625465 TTATTATATC
130625475 AATTTAAAATATT-ATATA
1 AATTTAAAATATTAAT-TA
*
130625493 AATATAAAATATGATAATTA
1 AATTTAAAATAT--TAATTA
130625513 AATCTTTAAAATATTAATTA
1 AA--TTTAAAATATTAATTA
130625533 TATAATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 11 0.33
20 11 0.33
21 2 0.06
22 9 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTTAAAATATTAATTA
Found at i:130650278 original size:31 final size:31
Alignment explanation
Indices: 130650209--130650275 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
130650199 AGAAAACAAT
*
130650209 AATTTGGA-TCTTTTAAAAAAGTTAATAATCA
1 AATTT-GACTCTTTTAAAAAAGTTAAGAATCA
* *
130650240 AATTTGACTCTTTTTAAAAAGTTTAAGAGTCA
1 AATTTGACTCTTTTAAAAAAG-TTAAGAATCA
130650272 AATT
1 AATT
130650276 GACAAAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 17 0.55
32 12 0.39
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (31 bp):
AATTTGACTCTTTTAAAAAAGTTAAGAATCA
Found at i:130651207 original size:2 final size:2
Alignment explanation
Indices: 130651200--130651240 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
130651190 AAAAATGTGT
130651200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130651241 TAAAACTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.