Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold22
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1964558
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 137786 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:316816 original size:16 final size:16
Alignment explanation
Indices: 316795--316833 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
316785 GTCAAGTCGT
* *
316795 ACCCAACCCGACTCGC
1 ACCCAAACCAACTCGC
*
316811 ACCCAAACCAACTCGT
1 ACCCAAACCAACTCGC
316827 ACCCAAA
1 ACCCAAA
316834 TTCACTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.49, G:0.08, T:0.08
Consensus pattern (16 bp):
ACCCAAACCAACTCGC
Found at i:317456 original size:16 final size:16
Alignment explanation
Indices: 317437--317479 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
317427 TACTCAAATA
*
317437 TTTGGGTACGAGTTGG
1 TTTGGGTACGAGTCGG
*
317453 TTTGGGTGCGAGTCGG
1 TTTGGGTACGAGTCGG
*
317469 GTTGGGTACGA
1 TTTGGGTACGA
317480 CTTAACTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.33
Consensus pattern (16 bp):
TTTGGGTACGAGTCGG
Found at i:317704 original size:2 final size:2
Alignment explanation
Indices: 317697--317746 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
317687 AAATTATTTA
*
317697 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
317739 CT CT CT CT
1 CT CT CT CT
317747 GTGCAAGCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:323054 original size:2 final size:2
Alignment explanation
Indices: 323041--323075 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
323031 CTATTATCTC
*
323041 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
323076 ATATTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:323353 original size:2 final size:2
Alignment explanation
Indices: 323346--323384 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
323336 CCTGTATGTA
* *
323346 AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
323385 ATAATTAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:324402 original size:2 final size:2
Alignment explanation
Indices: 324395--324434 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
324385 ACTAGTGTCT
324395 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
324435 TTCAACAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:329049 original size:2 final size:2
Alignment explanation
Indices: 329042--329075 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
329032 GTTGACGTTC
329042 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
329076 GAAGCCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:339280 original size:18 final size:18
Alignment explanation
Indices: 339225--339281 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
339215 ATTTGATCAC
*
339225 ATAATACAATATCATAAAAT
1 ATAATACAATATCAT--ATT
339245 ATAATACAATAT-AGTATT
1 ATAATACAATATCA-TATT
*
339263 ATATTACAATATCATATT
1 ATAATACAATATCATATT
339281 A
1 A
339282 CATAATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAATACAATATCATATT
Found at i:339506 original size:15 final size:15
Alignment explanation
Indices: 339494--339623 Score: 84
Period size: 15 Copynumber: 8.1 Consensus size: 15
339484 ACACAATAAT
*
339494 ATATATTACAATATC
1 ATATAATACAATATC
*
339509 ATATAATACAATTTC
1 ATATAATACAATATC
339524 ATGTGATAAGATA-ATATATC
1 A--T-AT-A-ATACA-ATATC
339544 ATATAA-ACCAATATC
1 ATATAATA-CAATATC
* *
339559 ATATCATACAATACC
1 ATATAATACAATATC
* * *
339574 GTATGATACAATATT
1 ATATAATACAATATC
339589 ATATAATATTACAATATC
1 ATAT-A-A-TACAATATC
*
339607 ATATAATACAATTTC
1 ATATAATACAATATC
339622 AT
1 AT
339624 GTGATATAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
14 1 0.01
15 55 0.61
16 4 0.04
17 5 0.06
18 15 0.17
19 2 0.02
20 8 0.09
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (15 bp):
ATATAATACAATATC
Found at i:339556 original size:50 final size:49
Alignment explanation
Indices: 339486--339668 Score: 166
Period size: 50 Copynumber: 3.8 Consensus size: 49
339476 ATATTATGAC
339486 ACAATAATATATAT-T--A-CAATATCATATAATACAATTTCATGTGAT
1 ACAATAATATATATATAAACCAATATCATATAATACAATTTCATGTGAT
* ** * *
339531 A-AGATAATATATCATATAAACCAATATCATATCATACAATACCGTATGAT
1 ACA-ATAATATAT-ATATAAACCAATATCATATAATACAATTTCATGTGAT
* *
339581 ACAATATTATATA-ATATTA-CAATATCATATAATACAATTTCATGTGAT
1 ACAATAATATATATATA-AACCAATATCATATAATACAATTTCATGTGAT
* ** *
339629 ATAATTCTATAT-TACTGAAACCAATATCATATTATACAAT
1 ACAATAATATATATA-T-AAACCAATATCATATAATACAAT
339669 ATTGTATGAT
Statistics
Matches: 109, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 10 0.09
46 2 0.02
47 1 0.01
48 37 0.34
49 5 0.05
50 52 0.48
51 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (49 bp):
ACAATAATATATATATAAACCAATATCATATAATACAATTTCATGTGAT
Found at i:339568 original size:98 final size:99
Alignment explanation
Indices: 339466--339702 Score: 253
Period size: 98 Copynumber: 2.4 Consensus size: 99
339456 ATATTATAAA
* *
339466 ATACATTATTATATTATGACACAATA-ATAT-ATATTACAATATCATATAATACAATTTCATGTG
1 ATACA-TATTACAGTATGACACAATATATATAATATTACAATATCATATAATACAATTTCATGTG
339529 ATA-AGATAATATATCATA-T-AAACCAATATCATATC
65 ATATA-ATAATATAT--TACTGAAACCAATATCATATC
* *
339564 ATACA-A-TACCGTATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTG
1 ATACATATTACAGTATGACACAATA-TATATAATATTACAATATCATATAATACAATTTCATGTG
** *
339627 ATATAATTCTATATTACTGAAACCAATATCATATT
65 ATATAATAATATATTACTGAAACCAATATCATATC
* *
339662 ATACAATATT---GTATGATACAATATTATAGAATA-TACAATAT
1 ATAC-ATATTACAGTATGACACAATA-TATATAATATTACAATAT
339703 TGTATCATAG
Statistics
Matches: 122, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
95 13 0.11
96 3 0.02
97 13 0.11
98 89 0.73
99 2 0.02
100 1 0.01
101 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (99 bp):
ATACATATTACAGTATGACACAATATATATAATATTACAATATCATATAATACAATTTCATGTGA
TATAATAATATATTACTGAAACCAATATCATATC
Found at i:339603 original size:18 final size:18
Alignment explanation
Indices: 339580--339614 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
339570 TACCGTATGA
*
339580 TACAATATTATATAATAT
1 TACAATATCATATAATAT
339598 TACAATATCATATAATA
1 TACAATATCATATAATA
339615 CAATTTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TACAATATCATATAATAT
Found at i:339668 original size:15 final size:15
Alignment explanation
Indices: 339539--339685 Score: 64
Period size: 15 Copynumber: 9.3 Consensus size: 15
339529 ATAAGATAAT
*
339539 ATATCATA-TAAACCA
1 ATATCATATTATA-CA
*
339554 ATATCATATCATACA
1 ATATCATATTATACA
* * *
339569 ATACCGTATGATACA
1 ATATCATATTATACA
*
339584 ATATTATATAATATTACA
1 ATATCATAT--TA-TACA
*
339602 ATATCATATAATACA
1 ATATCATATTATACA
* * * *
339617 ATTTCATGTGATATA
1 ATATCATATTATACA
339632 AT-TCTATATTACTGAAACCA
1 ATATC-ATATTA-T---A-CA
339652 ATATCATATTATACA
1 ATATCATATTATACA
** *
339667 ATATTGTATGATACA
1 ATATCATATTATACA
339682 ATAT
1 ATAT
339686 TATAGAATAT
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.02
15 67 0.67
16 5 0.05
17 1 0.01
18 12 0.12
19 2 0.02
20 9 0.09
21 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.37
Consensus pattern (15 bp):
ATATCATATTATACA
Found at i:339727 original size:32 final size:32
Alignment explanation
Indices: 339661--339727 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
339651 AATATCATAT
* **
339661 TATACAATATTGTATGATACAATATTATAGAA
1 TATACAATATTGTATCATACAATACAATAGAA
** *
339693 TATACAATATTGTATCATAGGATACAATATAA
1 TATACAATATTGTATCATACAATACAATAGAA
339725 TAT
1 TAT
339728 TTTGCAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (32 bp):
TATACAATATTGTATCATACAATACAATAGAA
Found at i:339951 original size:20 final size:20
Alignment explanation
Indices: 339928--339980 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
339918 ATATGATATC
339928 ATATTGTATCATATCAAACA
1 ATATTGTATCATATCAAACA
* *
339948 ATATTGTTTCATATCATACA
1 ATATTGTATCATATCAAACA
* *
339968 ATACTATATCATA
1 ATATTGTATCATA
339981 GGAATCATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATTGTATCATATCAAACA
Found at i:342876 original size:71 final size:71
Alignment explanation
Indices: 342760--342902 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
342750 GCAAAAGGGC
*
342760 GTGGTCCTCAATTTTCACAACTTTGAATCCCCTTAGTCTATGGATGCTTTGTGTCAAGTTTGGTT
1 GTGGTCCTCAATTTTCACAACTTTGAATCCCCTTAGCCTATGGATGCTTTGTGTCAAGTTTGGTT
342825 GAAATT
66 GAAATT
* *
342831 GTGGTCCTTAATTTTCACAACTTTGAATCCTCTTAGCCTATGGATGCTTTGTGTCAAGTTTGGTT
1 GTGGTCCTCAATTTTCACAACTTTGAATCCCCTTAGCCTATGGATGCTTTGTGTCAAGTTTGGTT
342896 GAAATT
66 GAAATT
342902 G
1 G
342903 GCCCTTTGGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (71 bp):
GTGGTCCTCAATTTTCACAACTTTGAATCCCCTTAGCCTATGGATGCTTTGTGTCAAGTTTGGTT
GAAATT
Found at i:348091 original size:57 final size:56
Alignment explanation
Indices: 348018--348131 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 56
348008 GCGATCACCC
*
348018 GTGGGTATCCGACGATGATAGACTGTTCATGCATATATTTACAAAGACATTTGTAT
1 GTGGGTATCAGACGATGATAGACTGTTCATGCATATATTTACAAAGACATTTGTAT
348074 NGTGGGTATCAGACGATGATAGACTGTTCATGCATATATTTACAAAGACATTTGTAT
1 -GTGGGTATCAGACGATGATAGACTGTTCATGCATATATTTACAAAGACATTTGTAT
348131 G
1 G
348132 AAGTAATTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 1 0.02
57 55 0.98
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (56 bp):
GTGGGTATCAGACGATGATAGACTGTTCATGCATATATTTACAAAGACATTTGTAT
Found at i:356263 original size:23 final size:23
Alignment explanation
Indices: 356233--356287 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
356223 TTAGAGAAAG
356233 CCATCATATCTGTCCATTTCTGT
1 CCATCATATCTGTCCATTTCTGT
356256 CCATCATATCTGTCCATTTCTGT
1 CCATCATATCTGTCCATTTCTGT
356279 CCATCATAT
1 CCATCATAT
356288 GTCCATCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.31, G:0.07, T:0.42
Consensus pattern (23 bp):
CCATCATATCTGTCCATTTCTGT
Found at i:356267 original size:13 final size:13
Alignment explanation
Indices: 356233--356297 Score: 74
Period size: 10 Copynumber: 5.6 Consensus size: 13
356223 TTAGAGAAAG
356233 CCATCATATCTGT
1 CCATCATATCTGT
356246 CCAT--T-TCTGT
1 CCATCATATCTGT
356256 CCATCATATCTGT
1 CCATCATATCTGT
356269 CCAT--T-TCTGT
1 CCATCATATCTGT
356279 CCATCATA--TGT
1 CCATCATATCTGT
356290 CCATCATA
1 CCATCATA
356298 CTCTAAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
10 18 0.39
11 13 0.28
12 2 0.04
13 13 0.28
ACGTcount: A:0.22, C:0.31, G:0.08, T:0.40
Consensus pattern (13 bp):
CCATCATATCTGT
Found at i:360026 original size:112 final size:112
Alignment explanation
Indices: 359829--360051 Score: 376
Period size: 112 Copynumber: 2.0 Consensus size: 112
359819 TACATTATCT
*
359829 TGTGGAATTTATGGGATTATTGTTGCTTCTAGGGAAATTTTGCTATTATCTTTAAATTATTCAAT
1 TGTGGAATTTATGGGATTATTGTTGCTTCTAGGAAAATTTTGCTATTATCTTTAAATTATTCAAT
*
359894 GTAATATATTTCACAACATTTTGTATTGTAATCCA-AATATTAAGTTA
66 GTAATATATTTCACAACATTTGGTATTGTAAT-CAGAATATTAAGTTA
* *
359941 TGTGGAATTTATGGGATTATTGTTGCTTCTAGGAAAATTTTGCTATTATTTTTAGATTATTCAAT
1 TGTGGAATTTATGGGATTATTGTTGCTTCTAGGAAAATTTTGCTATTATCTTTAAATTATTCAAT
* *
360006 GTAATATTTTTCACAGCATTTGGTATTGTAATCAGAATATTAAGTT
66 GTAATATATTTCACAACATTTGGTATTGTAATCAGAATATTAAGTT
360052 TTAAAAAAGG
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 2 0.02
112 102 0.98
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (112 bp):
TGTGGAATTTATGGGATTATTGTTGCTTCTAGGAAAATTTTGCTATTATCTTTAAATTATTCAAT
GTAATATATTTCACAACATTTGGTATTGTAATCAGAATATTAAGTTA
Found at i:364089 original size:13 final size:13
Alignment explanation
Indices: 364071--364095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
364061 TTTGACAGTG
364071 CTTTAACCTTGGC
1 CTTTAACCTTGGC
364084 CTTTAACCTTGG
1 CTTTAACCTTGG
364096 GACTTGGTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTTAACCTTGGC
Found at i:368344 original size:331 final size:330
Alignment explanation
Indices: 367738--368402 Score: 1303
Period size: 331 Copynumber: 2.0 Consensus size: 330
367728 ACATGTATTT
*
367738 CACAAGCACGACACACAATACACAATATTTTTACAAAACCACAAACAATATAATATATTGTACCT
1 CACAAGCACGACACACAATACACAATATTTTTACAAAACCACAAACAATATAATATATAGTACCT
367803 GGTACATAAATATGATATGTACATTGTCTGACAGTCATTTGAAAAAAATTTAAACCAAACATTAT
66 GGTACATAAATATGATATGTACATTGTCTGACAGTCATTTGAAAAAAATTTAAACCAAACATTAT
367868 TTTAATGTACAAAATCAAACAAAAAATTATTCTGATGGTCACAGATAATACATCTCAGTATAAAC
131 TTTAATGTACAAAATCAAACAAAAAATTATTCTGATGGTCACAGATAATACATCTCAGTATAAAC
367933 TGAAGAAATTAACTTGCATGTACACTTAACAATAACAAACGCACATTTCTTGTGTCTTACATTCA
196 TGAAGAAATTAACTTGCATGTACACTTAACAATAACAAACGCACATTTCTTGTGTCTTACATTCA
*
367998 TTTCTGAGATTAAACAACATTGAATCACTTAACAAATTACCACCCCTCCCCTTCTTCCTAAACTG
261 TTTCTGAGATTAAACAACATTGAATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTG
368063 AAAAA
326 AAAAA
368068 CACANAGCACGACACACAATACACAATATTTTTACAAAACCACAAACAATATAATATATAGTACC
1 CACA-AGCACGACACACAATACACAATATTTTTACAAAACCACAAACAATATAATATATAGTACC
368133 TGGTACATAAATATGATATGTACATTGTCTGACAGTCATTTGAAAAAAATTTAAACCAAACATTA
65 TGGTACATAAATATGATATGTACATTGTCTGACAGTCATTTGAAAAAAATTTAAACCAAACATTA
368198 TTTTAATGTACAAAATCAAACAAAAAATTATTCTGATGGTCACAGATAATACATCTCAGTATAAA
130 TTTTAATGTACAAAATCAAACAAAAAATTATTCTGATGGTCACAGATAATACATCTCAGTATAAA
368263 CTGAAGAAATTAACTTGCATGTACACTTAACAATAACAAACGCACATTTCTTGTGTCTTACATTC
195 CTGAAGAAATTAACTTGCATGTACACTTAACAATAACAAACGCACATTTCTTGTGTCTTACATTC
368328 ATTTCTGAGATTAAACAACATTGAATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACT
260 ATTTCTGAGATTAAACAACATTGAATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACT
368393 GAAAAA
325 GAAAAA
368399 CACA
1 CACA
368403 TCTGGTATTG
Statistics
Matches: 332, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
330 4 0.01
331 328 0.99
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (330 bp):
CACAAGCACGACACACAATACACAATATTTTTACAAAACCACAAACAATATAATATATAGTACCT
GGTACATAAATATGATATGTACATTGTCTGACAGTCATTTGAAAAAAATTTAAACCAAACATTAT
TTTAATGTACAAAATCAAACAAAAAATTATTCTGATGGTCACAGATAATACATCTCAGTATAAAC
TGAAGAAATTAACTTGCATGTACACTTAACAATAACAAACGCACATTTCTTGTGTCTTACATTCA
TTTCTGAGATTAAACAACATTGAATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTG
AAAAA
Found at i:368869 original size:287 final size:286
Alignment explanation
Indices: 368352--368926 Score: 1105
Period size: 287 Copynumber: 2.0 Consensus size: 286
368342 ACAACATTGA
368352 ATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTGAAAAACACATCTGGTATTGAAAA
1 ATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTGAAAAACACATCTGGTATTGAAAA
368417 AAATATCTAAAATGGTTTCAATCATTTTTCAACACTGAAAATGCTACCAAAATATATTCCAATAC
66 AAATATCTAAAATGGTTTCAATCATTTTTCAACACTGAAAATGCTACCAAAATATATTCCAATAC
368482 TTATGATCAGTCTATTTATTGGCATTGGAAAAAATGTGTACATGTGTGCACAAGAGAATGCCCAA
131 TTATGATCAGTCTATTTATTGGCATTGGAAAAAATGTGTACATGTGTGCACAAGAGAATGCCCAA
*
368547 TTTTGAGAAAATTTTTCTGATGGTACATTTCATATGATCAGTGAGTACATGTATAAAGATCACAC
196 TTTTGAGAAAATTTTTCTGATGGTACATTTCATATGATCAGTGAGTACACGTATAAAGATCACAC
368612 CACATGCTCAAATATTGTTTTTTGCC
261 CACATGCTCAAATATTGTTTTTTGCC
*
368638 ANTCACTTAACAAATTACCACCCCTCCCCTTCTTCCTAAACTGAAAAACACATCTGGTATTGAAA
1 A-TCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTGAAAAACACATCTGGTATTGAAA
368703 AAAATATCTAAAATGGTTTCAATCATTTTTCAACACTGAAAATGCTACCAAAATATATTCCAATA
65 AAAATATCTAAAATGGTTTCAATCATTTTTCAACACTGAAAATGCTACCAAAATATATTCCAATA
368768 CTTATGATCAGTCTATTTATTGGCATTGGAAAAAATGTGTACATGTGTGCACAAGAGAATGCCCA
130 CTTATGATCAGTCTATTTATTGGCATTGGAAAAAATGTGTACATGTGTGCACAAGAGAATGCCCA
*
368833 ATTTTGAGATAATTTTTCTGATGGTACATTTCATATGATCAGTGAGTACACGTATAAAGATCACA
195 ATTTTGAGAAAATTTTTCTGATGGTACATTTCATATGATCAGTGAGTACACGTATAAAGATCACA
*
368898 CCATATGCTCAAATATTGTTTTTTGCC
260 CCACATGCTCAAATATTGTTTTTTGCC
368925 AT
1 AT
368927 ATAAAACATA
Statistics
Matches: 284, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
286 2 0.01
287 282 0.99
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (286 bp):
ATCACTTAACAAATAACCACCCCTCCCCTTCTTCCTAAACTGAAAAACACATCTGGTATTGAAAA
AAATATCTAAAATGGTTTCAATCATTTTTCAACACTGAAAATGCTACCAAAATATATTCCAATAC
TTATGATCAGTCTATTTATTGGCATTGGAAAAAATGTGTACATGTGTGCACAAGAGAATGCCCAA
TTTTGAGAAAATTTTTCTGATGGTACATTTCATATGATCAGTGAGTACACGTATAAAGATCACAC
CACATGCTCAAATATTGTTTTTTGCC
Found at i:370463 original size:11 final size:11
Alignment explanation
Indices: 370375--370464 Score: 58
Period size: 11 Copynumber: 8.1 Consensus size: 11
370365 ACTAAACCCC
370375 GGGTTTACTTTTT
1 GGGTTTAC--TTT
370388 GGGTTTA-TTT
1 GGGTTTACTTT
*
370398 GGGGTTTACTCT
1 -GGGTTTACTTT
370410 GGGTTTACTTT
1 GGGTTTACTTT
** ** *
370421 TTG-AAAATTT
1 GGGTTTACTTT
** *
370431 GGGTCCACTTG
1 GGGTTTACTTT
370442 GGGTTTACTTT
1 GGGTTTACTTT
370453 GGGTTTACTTT
1 GGGTTTACTTT
370464 G
1 G
370465 AAATTGCTTT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
10 8 0.14
11 41 0.71
12 2 0.03
13 7 0.12
ACGTcount: A:0.12, C:0.10, G:0.28, T:0.50
Consensus pattern (11 bp):
GGGTTTACTTT
Found at i:370657 original size:11 final size:11
Alignment explanation
Indices: 370639--370669 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
370629 CTCTGTGTCC
370639 ACTCTGGGTTT
1 ACTCTGGGTTT
*
370650 ACTTTGGGTTT
1 ACTCTGGGTTT
370661 ACTCTGGGT
1 ACTCTGGGT
370670 CCACTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.16, G:0.29, T:0.45
Consensus pattern (11 bp):
ACTCTGGGTTT
Found at i:370717 original size:13 final size:12
Alignment explanation
Indices: 370677--370719 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
370667 GGTCCACTCT
*
370677 AGTAAACCC-CA
1 AGTAAACCCAGA
370688 AGTAAACCCAG-
1 AGTAAACCCAGA
370699 AGTAAACCCAGAA
1 AGTAAACCCAG-A
370712 AGTAAACC
1 AGTAAACC
370720 GAAGGTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 20 0.71
13 8 0.29
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (12 bp):
AGTAAACCCAGA
Found at i:377573 original size:16 final size:15
Alignment explanation
Indices: 377550--377579 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
377540 TCAATCAGAA
377550 ATATTTAGAAGTATC
1 ATATTTAGAAGTATC
377565 ATATATTAGAAGTAT
1 ATAT-TTAGAAGTAT
377580 AAATTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTTAGAAGTATC
Found at i:387647 original size:35 final size:35
Alignment explanation
Indices: 387530--387705 Score: 275
Period size: 35 Copynumber: 5.1 Consensus size: 35
387520 ATTTACCTGC
* * *
387530 ACTTTGTTCTGAATCTGTTGAAACTTTTTCCCAGG
1 ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
*
387565 ACTTT-TTCTGAATCTGTTGTAACATTTTGTCAGG
1 ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
*
387599 A-TTTGTTCAGAATCTGTTGTAACATTTTGCCAGG
1 ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
*
387633 ACTTTGTTCTGAATCTGTTGTAACATTTTGTCAGG
1 ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
*
387668 ACTTTGTTCAGAATCTGTTGTAACATTTTGCCAGG
1 ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
387703 ACT
1 ACT
387706 GAGGAAGAAG
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
33 3 0.02
34 54 0.42
35 72 0.56
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (35 bp):
ACTTTGTTCTGAATCTGTTGTAACATTTTGCCAGG
Found at i:394553 original size:11 final size:11
Alignment explanation
Indices: 394539--394564 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
394529 TACTGATTTT
394539 ACTTGCCTAAA
1 ACTTGCCTAAA
394550 ACTTGCCTAAA
1 ACTTGCCTAAA
394561 ACTT
1 ACTT
394565 TCTCTTAACC
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:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (11 bp):
ACTTGCCTAAA
Found at i:402248 original size:12 final size:12
Alignment explanation
Indices: 402231--402264 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
402221 GAATCACCTT
402231 GTCCGTCTGTCC
1 GTCCGTCTGTCC
402243 GTCCGTCTGTCC
1 GTCCGTCTGTCC
*
402255 GTCTGTCTGT
1 GTCCGTCTGT
402265 GCAATCGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.35, G:0.26, T:0.38
Consensus pattern (12 bp):
GTCCGTCTGTCC
Found at i:402682 original size:144 final size:145
Alignment explanation
Indices: 402269--403064 Score: 1001
Period size: 146 Copynumber: 5.5 Consensus size: 145
402259 GTCTGTGCAA
* * *
402269 TCGTGTCCGGTCCATATCTTTCTTATAGAGAAACATTGGAAGTTCCTACTTCACACAAAAATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACAC-AAGATTGC
*
402334 TTATGACCT-AAGGATGTGTCATGACCTTGACCCAATGTCATTTGGGCAAGGTCAAGGTCACTGG
65 TTATGACCTAAAGG-TGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGG
* *
402398 CAGAAAAAAATACAAAAT
129 CAG-AAAAAGTGCAAAAT
* *
402416 CCGTGTCCGGTCTATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACAC-AAGATTGC
* * *
402481 TTATGACCTAAGGGTGTGTCATGACCTTAAACCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
65 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
* *
402546 AGAAAAAATACAAAAT
130 AGAAAAAGTGCAAAAT
* * ** *
402562 TCATGTTCGGTCCATATCTTTCTTATGGAGAATTATTGGAAGTTCTTACTTCACAC-GGATTGCT
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAGATTGCT
402626 TATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGCA
66 TATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGCA
402691 GAAAAAGTGCAAAAT
131 GAAAAAGTGCAAAAT
** * *
402706 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGCCAGTCCTTTA-TCCACACAAAGATTG
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTC-TTACTTCACAC-AAGATTG
* * * * *
402770 CTTATGACCT-AAGGTTGTGCCATGACTTTTATCCAAGGTCATTTGGGCAAGGTC---GT-A-AG
64 CTTATGACCTAAAGG-TGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTG
402829 G-A-AAAATAGTGCAAAAT
128 GCAGAAAA-AGTGCAAAAT
* * *
402846 TCGTGTCCGGT-CATTATCTTTCTTATGGAGAAGCATT-GAATGTTCTAACTTCACACAAATATT
1 TCGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGGAA-GTTCTTACTTCACAC-AAGATT
* * *
402909 GCTTAGGACCAAAAGGTGTGTCCTGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTG
63 GCTTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTG
402974 GCAGAAAAAGTGCAAAAT
128 GCAGAAAAAGTGCAAAAT
* ** * ** *
402992 TTGTGTTAGGT-CATTATTTTTCTTATGGAGAGGCATT-GAATGTTCTTACTTCACACAAATATT
1 TCGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGGAA-GTTCTTACTTCACAC-AAGATT
403055 GCTTATGACC
63 GCTTATGACC
403065 AATAGTTTTA
Statistics
Matches: 575, Mismatches: 57, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
139 9 0.02
140 102 0.18
141 6 0.01
142 1 0.00
143 4 0.01
144 127 0.22
145 9 0.02
146 191 0.33
147 123 0.21
148 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (145 bp):
TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAGATTGCT
TATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGCA
GAAAAAGTGCAAAAT
Found at i:403049 original size:286 final size:287
Alignment explanation
Indices: 402269--403064 Score: 1040
Period size: 286 Copynumber: 2.8 Consensus size: 287
402259 GTCTGTGCAA
*
402269 TCGTGTCCGGTCCATATCTTTCTTATAGAGAAACATTGGAAGTTCCTACTTCACACAAAAATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTT-CTACTTCACACAAAAATTGC
* *
402334 TTATGACCTAAGGATGTGTCATGACCTTGACCCAATGTCATTTGGGCAAGGTCAAGGTCACTGGC
65 TTATGACCAAAGG-TGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
* * *
402399 AGAAAAAAATACAAAATCCGTGTCCGGTC-TATATCTTTCTTATGGAGAAACATTGGAAGTTCTT
129 AG-AAAAAGTGCAAAATTCGTGTCCGGTCAT-TATCTTTCTTATGGAGAAACATT-GAAGTTCTT
*
402463 ACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTAAACCAAGGTCATTTGGGC
191 ACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGCCATGACCTTAAACCAAGGTCATTTGGGC
*
402528 AAGGTCAAGGTCACTGGCAGAAAAAATACAAAAT
256 AAGGTC-A-GTCACAGGCAGAAAAAATACAAAAT
* * ** **
402562 TCATGTTCGGTCCATATCTTTCTTATGGAGAATTATTGGAAGTTCTTACTTCACAC--GGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTC-TACTTCACACAAAAATTGC
402625 TTATGACCTAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
65 TTATGACC-AAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
* *
402690 AGAAAAAGTGCAAAATTCGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGCCAGTCCTTT
129 AGAAAAAGTGCAAAATTCGTGTCCGGT-CATTATCTTTCTTATGGAGAAACATTG-AAGTTC-TT
* * * * *
402754 A-TCCACACAAAGATTGCTTATGACCTAAGGTTGTGCCATGACTTTTATCCAAGGTCATTTGGGC
191 ACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGCCATGACCTTAAACCAAGGTCATTTGGGC
* *
402818 AAGGTC-GT-A-AGG-A-AAAATAGTGCAAAAT
256 AAGGTCAGTCACAGGCAGAAAA-AATACAAAAT
* *
402846 TCGTGTCCGGT-CATTATCTTTCTTATGGAGAAGCATT-GAATGTTCTAACTTCACACAAATATT
1 TCGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGGAA-GTTCT-ACTTCACACAAAAATT
* *
402909 GCTTAGGACCAAAAGGTGTGTCCTGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTG
63 GCTTATGACC-AAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTG
* ** * **
402974 GCAGAAAAAGTGCAAAATTTGTGTTAGGTCATTATTTTTCTTATGGAGAGGCATTGAATGTTCTT
127 GCAGAAAAAGTGCAAAATTCGTGTCCGGTCATTATCTTTCTTATGGAGAAACATTGAA-GTTCTT
*
403039 ACTTCACACAAATATTGCTTATGACC
191 ACTTCACACAAAGATTGCTTATGACC
403065 AATAGTTTTA
Statistics
Matches: 446, Mismatches: 42, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
283 10 0.02
284 52 0.12
285 8 0.02
286 138 0.31
287 2 0.00
289 1 0.00
290 112 0.25
291 69 0.15
292 5 0.01
293 49 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (287 bp):
TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTACTTCACACAAAAATTGCT
TATGACCAAAGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGCAG
AAAAAGTGCAAAATTCGTGTCCGGTCATTATCTTTCTTATGGAGAAACATTGAAGTTCTTACTTC
ACACAAAGATTGCTTATGACCTAAGGGTGTGCCATGACCTTAAACCAAGGTCATTTGGGCAAGGT
CAGTCACAGGCAGAAAAAATACAAAAT
Found at i:404132 original size:2 final size:2
Alignment explanation
Indices: 404127--404154 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
404117 TTCAGGCTTC
404127 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
404155 GATAGATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:404465 original size:2 final size:2
Alignment explanation
Indices: 404458--404506 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
404448 GTCAGCTACA
404458 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
404500 TC TC TC T
1 TC TC TC T
404507 GAGATCCCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:408892 original size:16 final size:16
Alignment explanation
Indices: 408871--408903 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
408861 CCAGCATCCA
408871 TCTGTCCGTCTGCCTG
1 TCTGTCCGTCTGCCTG
*
408887 TCTGTCCGTCTGTCTG
1 TCTGTCCGTCTGCCTG
408903 T
1 T
408904 AAACTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.33, G:0.24, T:0.42
Consensus pattern (16 bp):
TCTGTCCGTCTGCCTG
Found at i:416163 original size:13 final size:13
Alignment explanation
Indices: 416143--416183 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
416133 TTATATTGTA
416143 AAATGTATGATAT
1 AAATGTATGATAT
*
416156 ACATGTAT-A-AT
1 AAATGTATGATAT
*
416167 AAATGTAAGATAT
1 AAATGTATGATAT
416180 AAAT
1 AAAT
416184 AAGTGTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.34
Consensus pattern (13 bp):
AAATGTATGATAT
Found at i:417605 original size:2 final size:2
Alignment explanation
Indices: 417560--417586 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
417550 CAATAGATTC
417560 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
417587 CCCCCATCTT
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:430553 original size:27 final size:27
Alignment explanation
Indices: 430502--430553 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
430492 TAAAATCTTT
* ** *
430502 AAAAAATAACAAAAAAACCACACACAC
1 AAAAAAAAACAAAAAAAAAAAACACAC
430529 AAAAAAAAACAAAAAAAAAAAACAC
1 AAAAAAAAACAAAAAAAAAAAACAC
430554 CTACCATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.79, C:0.19, G:0.00, T:0.02
Consensus pattern (27 bp):
AAAAAAAAACAAAAAAAAAAAACACAC
Found at i:434630 original size:20 final size:20
Alignment explanation
Indices: 434607--434651 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
434597 ATATAAATCA
434607 ACAAACATACATACCAAAAT
1 ACAAACATACATACCAAAAT
434627 ACAAACATACATACCAAAAT
1 ACAAACATACATACCAAAAT
434647 ACAAA
1 ACAAA
434652 GGCAAGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.13
Consensus pattern (20 bp):
ACAAACATACATACCAAAAT
Found at i:437481 original size:52 final size:53
Alignment explanation
Indices: 437416--437525 Score: 159
Period size: 52 Copynumber: 2.1 Consensus size: 53
437406 TCTAAAAGTT
** * *
437416 TGTAATAGACAGTAATTGAATTTATTTCATTAATATTTATTTTGATTCA-AAA
1 TGTAATAGACAGTAATCAAATTTATTACATTAATATTCATTTTGATTCATAAA
* *
437468 TGTAATAGTCAGTAATCAAATTTATTACATTAATATTCATTTTGATTCATCAA
1 TGTAATAGACAGTAATCAAATTTATTACATTAATATTCATTTTGATTCATAAA
437521 TGTAA
1 TGTAA
437526 CCTTTTGCGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 44 0.86
53 7 0.14
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (53 bp):
TGTAATAGACAGTAATCAAATTTATTACATTAATATTCATTTTGATTCATAAA
Found at i:439256 original size:19 final size:20
Alignment explanation
Indices: 439219--439256 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
439209 TGACAATTAT
439219 GATTTCCTATCATGTTTGGA
1 GATTTCCTATCATGTTTGGA
439239 GATTTCTCT-TCA-GTTTGG
1 GATTTC-CTATCATGTTTGG
439257 TATTGGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (20 bp):
GATTTCCTATCATGTTTGGA
Found at i:450854 original size:200 final size:200
Alignment explanation
Indices: 450511--450912 Score: 804
Period size: 200 Copynumber: 2.0 Consensus size: 200
450501 CTTTTCTTTG
450511 AAATTTTAGTCTTCAAAAGATTTCTTGCACAAAACAACAAAGTTAGAGAAATTTGGTCACCTGAA
1 AAATTTTAGTCTTCAAAAGATTTCTTGCACAAAACAACAAAGTTAGAGAAATTTGGTCACCTGAA
450576 AAAACACTGGATCATTTGTTTCTGTGAAGTTTACTTTCAAAACAAATAACTTCATTGTATAACTA
66 AAAACACTGGATCATTTGTTTCTGTGAAGTTTACTTTCAAAACAAATAACTTCATTGTATAACTA
450641 ATGGAATAAACACATCGTAATTAATATCAGGCAAACAAACAAAAGGGGAAAATAACTACAGTATT
131 ATGGAATAAACACATCGTAATTAATATCAGGCAAACAAACAAAAGGGGAAAATAACTACAGTATT
450706 TCCAT
196 TCCAT
450711 AAATTTTAGTCTTCAAAAGATTTCTTGCACAAAACAACAAAGTTAGAGAAATTTGGTCACCTGAA
1 AAATTTTAGTCTTCAAAAGATTTCTTGCACAAAACAACAAAGTTAGAGAAATTTGGTCACCTGAA
450776 AAAACACTGGATCATTTGTTTCTGTGAAGTTTACTTTCAAAACAAATAACTTCATTGTATAACTA
66 AAAACACTGGATCATTTGTTTCTGTGAAGTTTACTTTCAAAACAAATAACTTCATTGTATAACTA
450841 ATGGAATAAACACATCGTAATTAATATCAGGCAAACAAACAAAAGGGGAAAATAACTACAGTATT
131 ATGGAATAAACACATCGTAATTAATATCAGGCAAACAAACAAAAGGGGAAAATAACTACAGTATT
450906 TCCAT
196 TCCAT
450911 AA
1 AA
450913 TTTATTCCAA
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 202 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (200 bp):
AAATTTTAGTCTTCAAAAGATTTCTTGCACAAAACAACAAAGTTAGAGAAATTTGGTCACCTGAA
AAAACACTGGATCATTTGTTTCTGTGAAGTTTACTTTCAAAACAAATAACTTCATTGTATAACTA
ATGGAATAAACACATCGTAATTAATATCAGGCAAACAAACAAAAGGGGAAAATAACTACAGTATT
TCCAT
Found at i:452555 original size:2 final size:2
Alignment explanation
Indices: 452548--452585 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
452538 GCAGAATTTG
452548 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
452586 TTACAAGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:462504 original size:2 final size:2
Alignment explanation
Indices: 462497--462543 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
462487 ATGCTTTCTA
462497 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
462539 AG AG A
1 AG AG A
462544 TGTAATTTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:463663 original size:2 final size:2
Alignment explanation
Indices: 463658--463722 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
463648 TAGGGGGGGG
463658 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
463700 GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA G
463723 GACAATTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:480057 original size:14 final size:16
Alignment explanation
Indices: 480038--480070 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
480028 GAACGTTAGA
480038 TTTA-TTAAATATC-T
1 TTTATTTAAATATCAT
480052 TTTATTTAAATATCAT
1 TTTATTTAAATATCAT
480068 TTT
1 TTT
480071 CACGAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTAAATATCAT
Found at i:481221 original size:11 final size:11
Alignment explanation
Indices: 481205--481236 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
481195 CCTGATCATA
481205 CATACACACAT
1 CATACACACAT
*
481216 CATACACGCAT
1 CATACACACAT
481227 CATACACACA
1 CATACACACA
481237 AACTTAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.16
Consensus pattern (11 bp):
CATACACACAT
Found at i:481769 original size:22 final size:22
Alignment explanation
Indices: 481728--481788 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
481718 CGAAGATGCG
* *
481728 AGTGCGAAGTTGCAAAGGCGAA
1 AGTGCGAAGGTGCGAAGGCGAA
*
481750 AGTGCGAAGGTGCGACGGCGAA
1 AGTGCGAAGGTGCGAAGGCGAA
* * *
481772 GGAGCGAAAGTGCGAAG
1 AGTGCGAAGGTGCGAAG
481789 ATGCGACGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.43, T:0.10
Consensus pattern (22 bp):
AGTGCGAAGGTGCGAAGGCGAA
Found at i:481770 original size:14 final size:14
Alignment explanation
Indices: 481753--481802 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
481743 AGGCGAAAGT
481753 GCGAAGGTGCGACG
1 GCGAAGGTGCGACG
* *
481767 GCGAAGGAGCGAAAG
1 GCGAAGGTGCG-ACG
*
481782 TGCGAAGATGCGACG
1 -GCGAAGGTGCGACG
481797 GCGAAG
1 GCGAAG
481803 CGCGAAGATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 16 0.55
15 4 0.14
16 9 0.31
ACGTcount: A:0.30, C:0.18, G:0.46, T:0.06
Consensus pattern (14 bp):
GCGAAGGTGCGACG
Found at i:481779 original size:30 final size:30
Alignment explanation
Indices: 481745--481802 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
481735 AGTTGCAAAG
*
481745 GCGAAAGTGCGAAGGTGCGACGGCGAAGGA
1 GCGAAAGTGCGAAGATGCGACGGCGAAGGA
481775 GCGAAAGTGCGAAGATGCGACGGCGAAG
1 GCGAAAGTGCGAAGATGCGACGGCGAAG
481803 CGCGAAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.45, T:0.07
Consensus pattern (30 bp):
GCGAAAGTGCGAAGATGCGACGGCGAAGGA
Found at i:482136 original size:2 final size:2
Alignment explanation
Indices: 482129--482169 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
482119 AGATTAAAAT
482129 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
482170 TTTTCATTAT
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:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:483218 original size:75 final size:75
Alignment explanation
Indices: 483095--483239 Score: 290
Period size: 75 Copynumber: 1.9 Consensus size: 75
483085 CCAAACAGGN
483095 TATTGCAAAAATACACAAAATAAAGGTCCTTTGTATGTAATTTTATATAAACAAAAAACTTTAAT
1 TATTGCAAAAATACACAAAATAAAGGTCCTTTGTATGTAATTTTATATAAACAAAAAACTTTAAT
483160 TTCTTAAATG
66 TTCTTAAATG
483170 TATTGCAAAAATACACAAAATAAAGGTCCTTTGTATGTAATTTTATATAAACAAAAAACTTTAAT
1 TATTGCAAAAATACACAAAATAAAGGTCCTTTGTATGTAATTTTATATAAACAAAAAACTTTAAT
483235 TTCTT
66 TTCTT
483240 TCAAGTGTTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (75 bp):
TATTGCAAAAATACACAAAATAAAGGTCCTTTGTATGTAATTTTATATAAACAAAAAACTTTAAT
TTCTTAAATG
Found at i:483225 original size:36 final size:36
Alignment explanation
Indices: 483109--483225 Score: 85
Period size: 36 Copynumber: 3.2 Consensus size: 36
483099 GCAAAAATAC
483109 ACAAAATAAAGGTCCTTTGTATGTAATTTTATATAA
1 ACAAAATAAAGGTCCTTTGTATGTAATTTTATATAA
*** ** * ** * *
483145 ACAAAA-AACTTTAATTTCTTAAATGT-ATTGCAAAAATAC
1 ACAAAATAAAGGTCCTTT-GT--ATGTAATT--TTATATAA
483184 ACAAAATAAAGGTCCTTTGTATGTAATTTTATATAA
1 ACAAAATAAAGGTCCTTTGTATGTAATTTTATATAA
483220 ACAAAA
1 ACAAAA
483226 AACTTTAATT
Statistics
Matches: 54, Mismatches: 20, Indels: 14
0.61 0.23 0.16
Matches are distributed among these distances:
35 6 0.11
36 17 0.31
37 7 0.13
38 7 0.13
39 11 0.20
40 6 0.11
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (36 bp):
ACAAAATAAAGGTCCTTTGTATGTAATTTTATATAA
Found at i:483989 original size:2 final size:2
Alignment explanation
Indices: 483982--484034 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
483972 AGTTTTCGCG
* *
483982 GA GA GA GA GA GT TA G- GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
484023 GA GA GA GA GA GA
1 GA GA GA GA GA GA
484035 ATAAGCTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.47, C:0.00, G:0.49, T:0.04
Consensus pattern (2 bp):
GA
Found at i:492407 original size:41 final size:40
Alignment explanation
Indices: 492351--492675 Score: 321
Period size: 41 Copynumber: 7.9 Consensus size: 40
492341 CCCTTCCCCT
**
492351 CCCCCTCTCGTACCCACCCACATACACTTTTATGCCTCCC
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGCCTCCC
*
492391 CACCCCTCTCCAACCCACCCACATACACTTTT-TGCTTCCCCTC
1 C-CCCCTCTCCAACCCACCCACATACACTTTTATGC--CTCC-C
* ** * * *
492434 CCCCCTCTCAAACTAACCCACACACACGTTTATGCCTCTCT
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGCCTC-CC
* *
492475 CCCCCTCTCTAACCCACCCACATACACTTTT-TGCTTCCCCTC
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGC--CTCC-C
* * * *
492517 CCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCT
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGCCTC-CC
* * *
492558 CCCCCTCTCCCACCCAACCACATACACTTGTATGCCTCCC
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGCCTCCC
* *
492598 CTTCCCCTCTCCAACCCACCTACATACACTTTTATGCCTCTCT
1 C--CCCCTCTCCAACCCACCCACATACACTTTTATGCCTC-CC
* * *
492641 CCCCCTCTCTAACCCAACCACATACACTTTAATGC
1 CCCCCTCTCCAACCCACCCACATACACTTTTATGC
492676 ATTCTACTAA
Statistics
Matches: 233, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
40 9 0.04
41 121 0.52
42 93 0.40
43 10 0.04
ACGTcount: A:0.21, C:0.50, G:0.03, T:0.26
Consensus pattern (40 bp):
CCCCCTCTCCAACCCACCCACATACACTTTTATGCCTCCC
Found at i:492481 original size:83 final size:82
Alignment explanation
Indices: 492343--492670 Score: 442
Period size: 83 Copynumber: 4.0 Consensus size: 82
492333 GATTCTTCCC
** * * *
492343 CTTCCCCTCCCCCTCTCGTACCCACCCACATACACTTTTATGCCTC-CCCACCCCTCTCCAACCC
1 CTTCCCCTCCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTC-CCCCTCTCCAACCC
*
492407 ACCCACATACACTTTTTG
65 AACCACATACACTTTTTG
* * *
492425 CTTCCCCTCCCCCCTCTCAAACTAACCCACACACACGTTTATGCCTCTCTCCCCCTCTCTAACCC
1 CTTCCCCT-CCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTCCCCCTCTCCAACCC
*
492490 ACCCACATACACTTTTTG
65 AACCACATACACTTTTTG
*
492508 CTTCCCCTCCCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTCCCCCTCTCCCACCC
1 CTTCCCCT-CCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTCCCCCTCTCCAACCC
*
492573 AACCACATACACTTGTATG
65 AACCACATACACTT-TTTG
* * * * * * *
492592 CCTCCCCTTCCCCTCTCCAACCCACCTACATACACTTTTATGCCTCTCTCCCCCTCTCTAACCCA
1 CTTCCCCTCCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTCCCCCTCTCCAACCCA
492657 ACCACATACACTTT
66 ACCACATACACTTT
492671 AATGCATTCT
Statistics
Matches: 221, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
82 9 0.04
83 200 0.90
84 12 0.05
ACGTcount: A:0.20, C:0.51, G:0.03, T:0.26
Consensus pattern (82 bp):
CTTCCCCTCCCCCTCTCAAACCAACCCACACACACTTTTATGCCTCTCTCCCCCTCTCCAACCCA
ACCACATACACTTTTTG
Found at i:501778 original size:116 final size:116
Alignment explanation
Indices: 501626--501860 Score: 289
Period size: 116 Copynumber: 2.0 Consensus size: 116
501616 TGAGGGTGAC
* * * * *
501626 AATCAATTTTCTTATTTTATTTAAAAAGTCAACAAGAA-CAGTACCAGGGGTTCATGCATTTTGT
1 AATCAATTTTCTAATGTAATTTAAAAAGTCAACAAGAACCA-TACCAGGGATTCATGCATTTTGC
* ** *
501690 GAAT-TCTATGTCTTTAATATGGAGTTC-TTATCT-TTTTAGAGAGGTTAGGGA
65 GAATGT-GAAATCTTTAATATGGAGTTCATTAT-TATTTTAGAGAGGTGAGGGA
* *
501741 AATCAATTTTCTAAGTGTAATTTAAAAAGTCATCAAGAACCATATCAGGGATTCATGCATTTTGC
1 AATCAATTTTCTAA-TGTAATTTAAAAAGTCAACAAGAACCATACCAGGGATTCATGCATTTTGC
501806 GAATGTGAAATCTTTAATATGGAGTTCTAATTATTATTTTAGAGAGGTGAGGGA
65 GAATGTGAAATCTTTAATATGGAGTTC--ATTATTATTTTAGAGAGGTGAGGGA
501860 A
1 A
501861 GCTACAGGTG
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
115 13 0.13
116 63 0.62
117 3 0.03
118 1 0.01
119 22 0.22
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (116 bp):
AATCAATTTTCTAATGTAATTTAAAAAGTCAACAAGAACCATACCAGGGATTCATGCATTTTGCG
AATGTGAAATCTTTAATATGGAGTTCATTATTATTTTAGAGAGGTGAGGGA
Found at i:507182 original size:3 final size:3
Alignment explanation
Indices: 507168--507214 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
507158 AGTATATTTG
*
507168 TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGAA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG-A TGA
507214 T
1 T
507215 TCTCTAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:507380 original size:2 final size:2
Alignment explanation
Indices: 507375--507399 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
507365 ATANNNNNNC
507375 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 T
507400 GTGTGTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:510787 original size:17 final size:17
Alignment explanation
Indices: 510765--510799 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
510755 ATAGATGCTT
510765 AAGTAGAGAATTATTTG
1 AAGTAGAGAATTATTTG
510782 AAGTAGAGAATTATTTG
1 AAGTAGAGAATTATTTG
510799 A
1 A
510800 GATTATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (17 bp):
AAGTAGAGAATTATTTG
Found at i:518808 original size:2 final size:2
Alignment explanation
Indices: 518801--518855 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
518791 GTGATCTATG
518801 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
518843 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
518856 CAAACATTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:532156 original size:15 final size:15
Alignment explanation
Indices: 532136--532165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
532126 AGTTTCACTT
*
532136 TGATATCTCTAATAC
1 TGATATCTCAAATAC
532151 TGATATCTCAAATAC
1 TGATATCTCAAATAC
532166 AATGGATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (15 bp):
TGATATCTCAAATAC
Found at i:537583 original size:27 final size:27
Alignment explanation
Indices: 537552--537609 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
537542 CAAAGAAAGT
*
537552 TTTATCATCTATGCTTCATTTGTATTA
1 TTTATCATCTATACTTCATTTGTATTA
*
537579 TTTATTATCTATACTTCATTTGTATTA
1 TTTATCATCTATACTTCATTTGTATTA
537606 TTTA
1 TTTA
537610 GATAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTATCATCTATACTTCATTTGTATTA
Found at i:537662 original size:45 final size:46
Alignment explanation
Indices: 537607--537700 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 46
537597 TTTGTATTAT
537607 TTAGATAAATAAAAGAAATTTTCTATTGAATTTGATTTATGGCAAG
1 TTAGATAAATAAAAGAAATTTTCTATTGAATTTGATTTATGGCAAG
537653 TTAGA-AAATAAAAGAAATTTTCTATTGAATTTGATTTATGGCAAG
1 TTAGATAAATAAAAGAAATTTTCTATTGAATTTGATTTATGGCAAG
537698 TTA
1 TTA
537701 TTTATTTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 43 0.90
46 5 0.10
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.39
Consensus pattern (46 bp):
TTAGATAAATAAAAGAAATTTTCTATTGAATTTGATTTATGGCAAG
Found at i:549653 original size:48 final size:48
Alignment explanation
Indices: 549599--549695 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
549589 TACTTTATTT
* *
549599 ATTTTTAGCCTAAATTTAT-AAACAAATTTCCGTGGAAGATTTCTCAGC
1 ATTTTTAGCCTAAATTT-TCAAACAAATTTCCATAGAAGATTTCTCAGC
549647 ATTTTTAGCCTAAATTTTCAAACAAATTTCCATAGAAGATTTCTCAGC
1 ATTTTTAGCCTAAATTTTCAAACAAATTTCCATAGAAGATTTCTCAGC
549695 A
1 A
549696 ACTATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (48 bp):
ATTTTTAGCCTAAATTTTCAAACAAATTTCCATAGAAGATTTCTCAGC
Found at i:550611 original size:12 final size:12
Alignment explanation
Indices: 550594--550618 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
550584 GTTAAATACC
550594 AAGAGAGTGAAG
1 AAGAGAGTGAAG
550606 AAGAGAGTGAAG
1 AAGAGAGTGAAG
550618 A
1 A
550619 GGAGGAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.40, T:0.08
Consensus pattern (12 bp):
AAGAGAGTGAAG
Found at i:573077 original size:21 final size:21
Alignment explanation
Indices: 573025--573066 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
573015 AGCTTTGAAC
573025 ATGATATTGATATTTTATATG
1 ATGATATTGATATTTTATATG
573046 ATGATATTGATATTTTATATG
1 ATGATATTGATATTTTATATG
573067 TATATGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
ATGATATTGATATTTTATATG
Found at i:574551 original size:2 final size:2
Alignment explanation
Indices: 574544--574622 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
574534 TGTAATAATA
574544 TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
574585 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
574623 ATGCGCATGC
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:575015 original size:2 final size:2
Alignment explanation
Indices: 575008--575044 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
574998 AGATTAATAA
575008 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
575045 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:585429 original size:2 final size:2
Alignment explanation
Indices: 585422--585463 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
585412 AGTGGCGTCG
585422 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
585464 AATGTATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:588544 original size:15 final size:15
Alignment explanation
Indices: 588521--588551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
588511 TTTGATTCTG
588521 TAGCCTGGGAATTTA
1 TAGCCTGGGAATTTA
*
588536 TAGCTTGGGAATTTA
1 TAGCCTGGGAATTTA
588551 T
1 T
588552 TCAAAATACG
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:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (15 bp):
TAGCCTGGGAATTTA
Found at i:591743 original size:81 final size:80
Alignment explanation
Indices: 591609--592503 Score: 1047
Period size: 81 Copynumber: 11.2 Consensus size: 80
591599 AATTTGTGTT
* *
591609 AAACACAAGT-AATTGTGTTTATTCC-TATGCAATGAGATCCGCCTCAGGGAGGCAAAATTTAAA
1 AAACACAAGTAAATTGTGTTGATTCCAT-TGCAATGAGATCCGCCTCAGGGAGGCAAAA-ATAAA
*
591672 TTTGAAAAATCTCAGGA
64 TATGAAAAATCTCAGGA
* * * *
591689 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCTGCATCAGGGAGGCAACAAGTAAGT
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAA-AAATAAAT
591754 ATGAAAAATCTCAGGA
65 ATGAAAAATCTCAGGA
* * * * *
591770 AAACACAGGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGC-TATACAAATA
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAATA
591834 TGAAAAATCTCAGGA
66 TGAAAAATCTCAGGA
* * * * *
591849 AAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGAGGCAACAAATAAGT
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAA-AAATAAAT
591914 ATGAAAAATCTCAGGA
65 ATGAAAAATCTCAGGA
* * * *
591930 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGC-TATACAAATA
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAATA
591994 TGAAAAATCTCAGGA
66 TGAAAAATCTCAGGA
* * * * *
592009 AAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGAGGCAACAAATAAGT
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAA-AAATAAAT
592074 ATGAAAAATCTCAGGA
65 ATGAAAAATCTCAGGA
* * * *
592090 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGC-TATACAAATA
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAATA
592154 TGAAAAATCTCAGGA
66 TGAAAAATCTCAGGA
* * * * *
592169 AAACACAGGTAAATTGAGATGATTCCAGTGCAATGAGATCCGCCTCAGGGAGGCAACAAATAAGT
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAA-AAATAAAT
592234 ATGAAAAATCTCAGGA
65 ATGAAAAATCTCAGGA
* * * * *
592250 AAACACAGGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGC-TATACAAATA
1 AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAATA
** *
592314 TGAACTATCTCTGGA
66 TGAAAAATCTCAGGA
* * ** *
592329 AAACACCAA-TAAATTGTGATGATTCCAGTGCAATGAGATATGCCTC-GGAGAGGCAAAAAATAC
1 AAACA-CAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGG-GAGGC-AAAAATAA
* * * * *
592392 ATATGGAAATTATAATGA
63 ATATGAAAAATCTCAGGA
** * * * * * *
592410 AAACACTTGTAAATTATGCTT-ATTCCAGTGCAATGAGATCTGCCTCAGTGAGGCAATAA-ACAT
1 AAACACAAGTAAATTGTG-TTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAAT
* *
592473 TTG-AAAATTTACAGGA
65 ATGAAAAATCT-CAGGA
592489 AAACACAAGTAAATT
1 AAACACAAGTAAATT
592504 ATGATAAAAC
Statistics
Matches: 696, Mismatches: 102, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
78 7 0.01
79 292 0.42
80 17 0.02
81 375 0.54
82 5 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (80 bp):
AAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCAAAAATAAATA
TGAAAAATCTCAGGA
Found at i:591902 original size:160 final size:160
Alignment explanation
Indices: 591609--592508 Score: 1321
Period size: 160 Copynumber: 5.6 Consensus size: 160
591599 AATTTGTGTT
* * * **
591609 AAACACAAGT-AATTGTGTTTATTCC-TATGCAATGAGATCCGCCTCAGGGAGGCAAAATTTAAA
1 AAACACAAGTAAATTGTATTGATTCCAT-TGCAATGAGATCCGCCTCAGGGAGGC--TATACAAA
* * * * *
591672 TTTGAAAAATCTCAGGAAAACACAAGTAAATTGTGTTGATTCCATTGCAATGAGATCTGCATCAG
63 TATGAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAG
*
591737 GGAGGCAACAAGTAAGTATGAAAAATCTCAGGA
128 GGAGGCAACAAATAAGTATGAAAAATCTCAGGA
*
591770 AAACACAGGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
1 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
591835 GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
66 GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
591900 GGCAACAAATAAGTATGAAAAATCTCAGGA
131 GGCAACAAATAAGTATGAAAAATCTCAGGA
591930 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
1 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
591995 GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
66 GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
592060 GGCAACAAATAAGTATGAAAAATCTCAGGA
131 GGCAACAAATAAGTATGAAAAATCTCAGGA
592090 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
1 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
* *
592155 GAAAAATCTCAGGAAAACACAGGTAAATTGAGATGATTCCAGTGCAATGAGATCCGCCTCAGGGA
66 GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
592220 GGCAACAAATAAGTATGAAAAATCTCAGGA
131 GGCAACAAATAAGTATGAAAAATCTCAGGA
*
592250 AAACACAGGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
1 AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
** * * *
592315 GAACTATCTCTGGAAAACACCA-ATAAATTGTGATGATTCCAGTGCAATGAGATATGCCTC-GGA
66 GAAAAATCTCAGGAAAACA-CAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGG-
* * * * * *
592378 GAGGCAAAAAATACA-TATGGAAATTATAATGA
129 GAGGCAACAAATA-AGTATGAAAAATCTCAGGA
** * * * * * *
592410 AAACACTTGTAAATTATGCTT-ATTCCAGTGCAATGAGATCTGCCTCAGTGAGGCAATA-AACAT
1 AAACACAAGTAAATTGT-ATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAA-AT
* * * *
592473 TTG-AAAATTTACAGGAAAACACAAGTAAATTATGAT
64 ATGAAAAATCT-CAGGAAAACACAGGTAAATTGTGAT
592509 AAAACTATGT
Statistics
Matches: 686, Mismatches: 44, Indels: 19
0.92 0.06 0.03
Matches are distributed among these distances:
159 10 0.01
160 622 0.91
161 14 0.02
162 39 0.06
163 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (160 bp):
AAACACAAGTAAATTGTATTGATTCCATTGCAATGAGATCCGCCTCAGGGAGGCTATACAAATAT
GAAAAATCTCAGGAAAACACAGGTAAATTGTGATGATTCCAGTGCAATGAGATCTGCCTCAGGGA
GGCAACAAATAAGTATGAAAAATCTCAGGA
Found at i:608764 original size:2 final size:2
Alignment explanation
Indices: 608757--608792 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
608747 TGGAAGTCAA
608757 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
608793 TTTTATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:611859 original size:166 final size:166
Alignment explanation
Indices: 611499--612628 Score: 1535
Period size: 166 Copynumber: 6.8 Consensus size: 166
611489 ATAAAAATGT
* * ** *
611499 ATCCCCC-ATTGTGGCCCCGCCCTACTCCTAGGGACCATGATTTGAACAAACTTGAATCTACATT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
* * * **
611563 ATCTGAGGATGGTTACA-TGCCAATTTGAG-CTTTCTTGGCCTAATAGTTCTTTAGAGAAGAAGA
66 ACCTGAGGATGCTTCCAGT-TTAATTTGAGCCTTTC-TGGCCTAATAGTTCTTT--AGAAGAAGA
* *
611626 TTTTTAAAGATTTTCTCTATATATTCCTATGTACAACATG
127 TTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
* * * *
611666 ATCCCCCTATTGTGGCCCTATCCTACCCCCGAGGACCATGATTTGAACAAACTTGAATTTACACT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
611731 ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTT
66 ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTT
*
611796 TAAAGATTTTCTCTATATATTCCTATGTAGAACTTG
131 TAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
* *
611832 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAGCCTGAATCTACACT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
* * * *
611897 ACCTGAGGATGCTTCCAGTTTAATTTAAGCTTTTCTGGTCTTATAGTTCTTTAGAAGAAGATTTT
66 ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTT
* *
611962 TAAAGATTTTCTCTATATATCCCTATGTAGAACTTG
131 TAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
* * *
611998 ATCCCCCTATTGAGGCCCCATCCTACCCCCGGGGACCATGATTTGAACAAGCTTGAATCTACACT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
* *
612063 ACCTGAGGATGCTTCCAGTTTAATTTGAG-CTTTCCTGGCCTAATAGTT-TTAGAGAAAAAGATT
66 ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTT-CTGGCCTAATAGTTCTT-TAGAAGAAGATT
* **
612126 TTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCC
129 TTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
* * * * *
612164 ATCTCCCCCATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTGAATTTACAC
1 ATC-CCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACAC
* *
612229 TACCTGAGGATGCTTCCATTTTAATTT-AGGCTTTTCTGGCCTAATAGTTCTTTAGAAGAAGATT
65 TACCTGAGGATGCTTCCAGTTTAATTTGA-GCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATT
*
612293 TTTAAAGATTTTTCTCTATATACTCCTATGTAAAACTTG
129 TTTAAAGA-TTTTCTCTATATATTCCTATGTAAAACTTG
* * * *
612332 ATCCCCCAATTGTGGCCCCACACTACCCCCGGGGACCATGATTTGGACAAAATTGAATCTACACT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
* *
612397 ACCTGAGGATGCTTTCATTTTAATTTGAG-CTTTCCTGGCCTAATA-TT-TTTGAGAAGAAGATT
66 ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTT-CTGGCCTAATAGTTCTTT-AGAAGAAGA-T
612459 TTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
128 TTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
* * * *
612498 ATCCCCCCATTGTGGCCCCGCCCTACCCCCGGGGGCCATGATTTGCACAAACTTGAATCTACACT
1 ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
* *** * * *
612563 ACCTGAGGATGCATCCA-CACAAGTTTAAGCATTTCAGGCCTAATAGTT-TTTGAGAAGAAGATT
66 ACCTGAGGATGCTTCCAGTTTAA-TTTGAGCCTTTCTGGCCTAATAGTTCTTT-AGAAGAAGATT
612626 TTT
129 TTT
612629 GAAAAATACC
Statistics
Matches: 864, Mismatches: 82, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
165 10 0.01
166 488 0.56
167 238 0.28
168 122 0.14
169 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (166 bp):
ATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACT
ACCTGAGGATGCTTCCAGTTTAATTTGAGCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTT
TAAAGATTTTCTCTATATATTCCTATGTAAAACTTG
Found at i:612431 original size:334 final size:331
Alignment explanation
Indices: 611501--612628 Score: 1624
Period size: 334 Copynumber: 3.4 Consensus size: 331
611491 AAAAATGTAT
* * * * *
611501 CCCCCATTGTGGCCCCGCCCTACTCCTAGGGACCATGATTTGAACAAACTTGAATCTACATTATC
1 CCCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACC
* * ** *
611566 TGAGGATGGTTACATGCCAATTTGAGC-TTTCTTGGCCTAATAGTTCTTTAGAGAAGAAGATTTT
66 TGAGGATGCTTCCATTTCAATTTAAGCTTTTC-TGGCCTAATAGTTCTTT-GAGAAGAAGATTTT
* * *
611630 TAAAGATTTTCTCTATATATTCCTATGTACAACATGATCCCCCTATTGTGGCCCTATCCTACCCC
129 TAAAGATTTTCTCTATATA-TCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCC
* *
611695 CGAGGACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCAGTTTAATTTGAG
193 CGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAGTTTAATTTGAG
*
611760 CCTTT-CTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGT
258 -CTTTCCTGGCCTAATAGTT-TTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGT
*
611824 AGAACTTGATC
321 AAAACTTGATC
* * * *
611835 CCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAGCCTGAATCTACACTACC
1 CCCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACC
* *
611900 TGAGGATGCTTCCAGTTT-AATTTAAGCTTTTCTGGTCTTATAGTTCTTT-AGAAGAAGATTTTT
66 TGAGGATGCTTCCA-TTTCAATTTAAGCTTTTCTGGCCTAATAGTTCTTTGAGAAGAAGATTTTT
* *
611963 AAAGATTTTCTCTATATATCCCTATGTAGAACTTGATCCCCCTATTGAGGCCCCATCCTACCCCC
130 AAAGATTTTCTCTATATAT-CCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCCC
*
612028 GGGGACCATGATTTGAACAAGCTTGAATCTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGC
194 GGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGC
*
612093 TTTCCTGGCCTAATAGTTTTAGAGAAAAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAA
259 TTTCCTGGCCTAATAGTTTT-GAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAA
* **
612158 AAATCCATC
323 AACTTGATC
* * *
612167 TCCCCCATTGTGGCCCCACCATACCACCAGGGACCATGATTTGAACAAACTTGAATTTACACTAC
1 -CCCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTAC
* *
612232 CTGAGGATGCTTCCATTTTAATTTAGGCTTTTCTGGCCTAATAGTTCTTT-AGAAGAAGATTTTT
65 CTGAGGATGCTTCCATTTCAATTTAAGCTTTTCTGGCCTAATAGTTCTTTGAGAAGAAGATTTTT
*
612296 AAAGATTTTTCTCTATATACTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCA-CACTACCC
130 AAAGA-TTTTCTCTATATA-TCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATC-CTACCC
* * * *
612360 CCGGGGACCATGATTTGGACAAAATTGAATCTACACTACCTGAGGATGCTTTCATTTTAATTTGA
192 CCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAGTTTAATTTGA
*
612425 GCTTTCCTGGCCTAATATTTTTGAGAAGAAGATTTTTTAAAGATTTTCTCTATATATTCCTATGT
257 GCTTTCCTGGCCTAATAGTTTTGAGAAGAAGA-TTTTTAAAGATTTTCTCTATATATTCCTATGT
612490 AAAACTTGATC
321 AAAACTTGATC
* * * *
612501 CCCCCATTGTGGCCCCGCCCTACCCCCGGGGGCCATGATTTGCACAAACTTGAATCTACACTACC
1 CCCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACC
* ** * *
612566 TGAGGATGCATCCA-CACAAGTTTAAGCATTTCAGGCCTAATAGTT-TTTGAGAAGAAGATTTTT
66 TGAGGATGCTTCCATTTCAA-TTTAAGCTTTTCTGGCCTAATAGTTCTTTGAGAAGAAGATTTTT
612629 GAAAAATACC
Statistics
Matches: 715, Mismatches: 66, Indels: 27
0.88 0.08 0.03
Matches are distributed among these distances:
331 7 0.01
332 203 0.28
333 236 0.33
334 263 0.37
335 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (331 bp):
CCCCCATTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTACC
TGAGGATGCTTCCATTTCAATTTAAGCTTTTCTGGCCTAATAGTTCTTTGAGAAGAAGATTTTTA
AAGATTTTCTCTATATATCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCCCGG
GGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGCTT
TCCTGGCCTAATAGTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAC
TTGATC
Found at i:612464 original size:500 final size:497
Alignment explanation
Indices: 611501--612628 Score: 1640
Period size: 500 Copynumber: 2.3 Consensus size: 497
611491 AAAAATGTAT
* * * ** * *
611501 CCCCCATTGTGGCCCCGCCCTACTCCTAGGGACCATGATTTGAACAAACTTGAATCTACATTATC
1 CCCCCATTGAGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACC
* * * *
611566 TGAGGATGGTTACATGCCAATTTGAGCTTTCTTGGCCTAATAGTTCTTTAGAGAAGAAGATTTTT
66 TGAGGATGCTTCCAT-ACAATTTGAGCTTTCCTGGCCTAATAG-T-TTTAGAGAAGAAGATTTTT
* * * * *
611631 AAAGATTTTCTCTATATATTCCTATGTACAACATGATCCCCCTATTGTGGCCCTATCCTACCCCC
128 AAAGATTTTCTCTATATATTCCTATGTACAAAATCATCCCCCCATTGTGGCCCCATCCTACCCCA
611696 GAGGACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGC
193 GAGGACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGC
* *
611761 CTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAG
258 CTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATACTCCTATGTAA
* * **
611826 AACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAGCCTGAATC
323 AACTTGATCCCCCAATTGTGGCCCCACACTACCCCCGGGGACCATGATTTGAACAAAACTGAATC
* * *
611891 TACACTACCTGAGGATGCTTCCAGTTTAATTTAAGCTTTTCTGGTCTTATAGTTCTTTAGAAGAA
388 TACACTACCTGAGGATGCTTCCAGTTTAATTTAAGCTTTCCTGGCCTAATAGTTCTTTAGAAGAA
*
611956 GATTTTTAAAGATTTTCTCTATATATCCCTATGTAGAACTTGATC
453 GATTTTTAAAGATTTTCTCTATATATCCCTATGTAAAACTTGATC
* * *
612001 CCCCTATTGAGGCCCCATCCTACCCCCGGGGACCATGATTTGAACAAGCTTGAATCTACACTACC
1 CCCCCATTGAGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACC
** *
612066 TGAGGATGCTTCCAGTTTAATTTGAGCTTTCCTGGCCTAATAGTTTTAGAGAAAAAGATTTTTAA
66 TGAGGATGCTTCCA-TACAATTTGAGCTTTCCTGGCCTAATAGTTTTAGAGAAGAAGATTTTTAA
612131 AGATTTTCTCTATATATTCCTATGTA-AAAATCCATCTCCCCCATTGTGGCCCCA-CCATACCAC
130 AGATTTTCTCTATATATTCCTATGTACAAAAT-CATC-CCCCCATTGTGGCCCCATCC-TACC-C
*
612194 CAG-GGACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCATTTTAATTT-A
191 CAGAGGACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCAGTTTAATTTGA
*
612257 GGCTTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGATTTTTCTCTATATACTCCTAT
256 -GCCTTTCTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGA-TTTTCTCTATATACTCCTAT
* *
612322 GTAAAACTTGATCCCCCAATTGTGGCCCCACACTACCCCCGGGGACCATGATTTGGACAAAATTG
319 GTAAAACTTGATCCCCCAATTGTGGCCCCACACTACCCCCGGGGACCATGATTTGAACAAAACTG
* * *
612387 AATCTACACTACCTGAGGATGCTTTCATTTTAATTTGAGCTTTCCTGGCCTAATA-TT-TTTGAG
384 AATCTACACTACCTGAGGATGCTTCCAGTTTAATTTAAGCTTTCCTGGCCTAATAGTTCTTT-AG
*
612450 AAGAAGATTTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATC
448 AAGAAGA-TTTTTAAAGATTTTCTCTATATATCCCTATGTAAAACTTGATC
* * * *
612501 CCCCCATTGTGGCCCCGCCCTACCCCCGGGGGCCATGATTTGCACAAACTTGAATCTACACTACC
1 CCCCCATTGAGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACC
* * * * *
612566 TGAGGATGCATCCACACAAGTTTAAGCATTT-CAGGCCTAATAGTTTTTGAGAAGAAGATTTTT
66 TGAGGATGCTTCCATACAA-TTTGAGC-TTTCCTGGCCTAATAGTTTTAGAGAAGAAGATTTTT
612629 GAAAAATACC
Statistics
Matches: 563, Mismatches: 54, Indels: 22
0.88 0.08 0.03
Matches are distributed among these distances:
497 4 0.01
498 55 0.10
499 133 0.24
500 367 0.65
501 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (497 bp):
CCCCCATTGAGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACC
TGAGGATGCTTCCATACAATTTGAGCTTTCCTGGCCTAATAGTTTTAGAGAAGAAGATTTTTAAA
GATTTTCTCTATATATTCCTATGTACAAAATCATCCCCCCATTGTGGCCCCATCCTACCCCAGAG
GACCATGATTTGAACAAACTTGAATTTACACTACCTGAGGATGCTTCCAGTTTAATTTGAGCCTT
TCTGGCCTAATAGTTCTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATACTCCTATGTAAAAC
TTGATCCCCCAATTGTGGCCCCACACTACCCCCGGGGACCATGATTTGAACAAAACTGAATCTAC
ACTACCTGAGGATGCTTCCAGTTTAATTTAAGCTTTCCTGGCCTAATAGTTCTTTAGAAGAAGAT
TTTTAAAGATTTTCTCTATATATCCCTATGTAAAACTTGATC
Found at i:612809 original size:3 final size:3
Alignment explanation
Indices: 612801--612826 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
612791 AAAGTTTACA
612801 ACG ACG ACG ACG ACG ACG ACG ACG AC
1 ACG ACG ACG ACG ACG ACG ACG ACG AC
612827 AGACAACGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (3 bp):
ACG
Found at i:620786 original size:13 final size:13
Alignment explanation
Indices: 620768--620793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
620758 ATTGGCTGTC
620768 CGCCATTTTGAAT
1 CGCCATTTTGAAT
620781 CGCCATTTTGAAT
1 CGCCATTTTGAAT
620794 TACTTAACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CGCCATTTTGAAT
Found at i:631701 original size:4 final size:4
Alignment explanation
Indices: 631692--631932 Score: 437
Period size: 4 Copynumber: 60.2 Consensus size: 4
631682 TGTAGAATCC
* * * * *
631692 AGAT AGAT AGAT AGAT AGAT GGAT GGAT GGAT GGAT GGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
631740 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
631788 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
631836 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
631884 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
631932 A
1 A
631933 AACCATTTTA
Statistics
Matches: 235, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 235 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:632171 original size:17 final size:17
Alignment explanation
Indices: 632138--632171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
632128 AAAACGTTTG
*
632138 CATTTCCATTTCTTTCT
1 CATTTCCATTTCATTCT
*
632155 CATTTCCATTTGATTCT
1 CATTTCCATTTCATTCT
632172 TCAGCGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (17 bp):
CATTTCCATTTCATTCT
Found at i:633066 original size:10 final size:11
Alignment explanation
Indices: 633041--633069 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
633031 ACTCATCTAA
633041 AAAAAATAATT
1 AAAAAATAATT
633052 AAAAAATAATT
1 AAAAAATAATT
633063 AAAAAAT
1 AAAAAAT
633070 GAAGATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:637345 original size:20 final size:18
Alignment explanation
Indices: 637322--637369 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
637312 TACTTGGAGT
*
637322 GGGGTGGGGGAAATGGGGGG
1 GGGGGGGGGGAAA--GGGGG
637342 GGGGGGGGGGAAAGGGGG
1 GGGGGGGGGGAAAGGGGG
637360 GGGGGGGGGG
1 GGGGGGGGGG
637370 TCGGTCCTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.12, C:0.00, G:0.83, T:0.04
Consensus pattern (18 bp):
GGGGGGGGGGAAAGGGGG
Found at i:637349 original size:19 final size:19
Alignment explanation
Indices: 637322--637369 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
637312 TACTTGGAGT
*
637322 GGGGTGGGGGAAATGGGGGG
1 GGGGGGGGGGAAA-GGGGGG
637342 GGGGGGGGGGAAAGGGGGG
1 GGGGGGGGGGAAAGGGGGG
637361 GGGGGGGGG
1 GGGGGGGGG
637370 TCGGTCCTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.12, C:0.00, G:0.83, T:0.04
Consensus pattern (19 bp):
GGGGGGGGGGAAAGGGGGG
Found at i:642802 original size:11 final size:11
Alignment explanation
Indices: 642786--642825 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
642776 TAAGCAAGTC
642786 CTTAAAGGTGG
1 CTTAAAGGTGG
*
642797 CTTAAAGGTGA
1 CTTAAAGGTGG
*
642808 CTTAAAGG-AG
1 CTTAAAGGTGG
642818 CTTAAAGG
1 CTTAAAGG
642826 CTATACAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:644828 original size:11 final size:11
Alignment explanation
Indices: 644812--644865 Score: 99
Period size: 11 Copynumber: 4.9 Consensus size: 11
644802 TTTTTTTAAA
644812 TGGCTTAAAGG
1 TGGCTTAAAGG
644823 TGGCTTAAAGG
1 TGGCTTAAAGG
*
644834 TAGCTTAAAGG
1 TGGCTTAAAGG
644845 TGGCTTAAAGG
1 TGGCTTAAAGG
644856 TGGCTTAAAG
1 TGGCTTAAAG
644866 AAGTTTGGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:644913 original size:11 final size:11
Alignment explanation
Indices: 644897--644925 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
644887 ATAAGTTGTC
644897 CTTAAAGGTGG
1 CTTAAAGGTGG
644908 CTTAAAGGTGG
1 CTTAAAGGTGG
644919 CTTAAAG
1 CTTAAAG
644926 ATAGTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:644956 original size:11 final size:11
Alignment explanation
Indices: 644942--644982 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
644932 TTTAAGCTGC
644942 CTTTAAGCCAT
1 CTTTAAGCCAT
* **
644953 CTTTACGCTTT
1 CTTTAAGCCAT
644964 CTTTAAGCCAT
1 CTTTAAGCCAT
644975 CTTTAAGC
1 CTTTAAGC
644983 AACACATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (11 bp):
CTTTAAGCCAT
Found at i:645007 original size:11 final size:11
Alignment explanation
Indices: 644991--645022 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
644981 GCAACACATA
644991 TAGCTTAAAGG
1 TAGCTTAAAGG
645002 TAGCTTAAAGG
1 TAGCTTAAAGG
*
645013 TGGCTTAAAG
1 TAGCTTAAAG
645023 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:645051 original size:21 final size:21
Alignment explanation
Indices: 645025--645066 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
645015 GCTTAAAGAT
645025 CGTCTTTAAGCTACCTTTAAG
1 CGTCTTTAAGCTACCTTTAAG
*
645046 CGTCTTTAAGCTATCTTTAAG
1 CGTCTTTAAGCTACCTTTAAG
645067 GAGAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (21 bp):
CGTCTTTAAGCTACCTTTAAG
Found at i:645421 original size:13 final size:13
Alignment explanation
Indices: 645403--645427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
645393 AAATATCTAT
645403 TATTATATACTCG
1 TATTATATACTCG
645416 TATTATATACTC
1 TATTATATACTC
645428 TTTTGATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (13 bp):
TATTATATACTCG
Found at i:648044 original size:42 final size:42
Alignment explanation
Indices: 647980--648065 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
647970 TTGATTTGAC
647980 TCTTTTTGAACGATATCGATGGTACTCACAAGACTCTCTATAA
1 TCTTTTTGAAC-ATATCGATGGTACTCACAAGACTCTCTATAA
648023 TNCTTTTTGAAC-TATCGATGGTACTCACAAGACTCTCTATAA
1 T-CTTTTTGAACATATCGATGGTACTCACAAGACTCTCTATAA
648065 T
1 T
648066 AAAGAAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
42 31 0.74
43 1 0.02
44 10 0.24
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (42 bp):
TCTTTTTGAACATATCGATGGTACTCACAAGACTCTCTATAA
Found at i:657460 original size:3 final size:3
Alignment explanation
Indices: 657452--657482 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
657442 AATTGATAAG
657452 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
657483 CAATATGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:664472 original size:11 final size:12
Alignment explanation
Indices: 664456--664485 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
664446 TATTTTTATG
664456 TATATATTTCT-
1 TATATATTTCTA
664467 TATATATTTCTA
1 TATATATTTCTA
664479 TATATAT
1 TATATAT
664486 AAACATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATTTCTA
Found at i:669736 original size:21 final size:21
Alignment explanation
Indices: 669710--669838 Score: 168
Period size: 21 Copynumber: 6.1 Consensus size: 21
669700 AAATATTTTT
* *
669710 ATCTCGATATTACGAGATAAG
1 ATCTCGTTATTACGAGAAAAG
* **
669731 ATCTCGTTATTACGAGTTAATT
1 ATCTCGTTATTACGAG-AAAAG
669753 ATCTCGTTATTACGAGAAAAG
1 ATCTCGTTATTACGAGAAAAG
*
669774 ATCTCGTAATTACGAGAAAAG
1 ATCTCGTTATTACGAGAAAAG
* *
669795 ATATTGTTATTACGAGAAAAG
1 ATCTCGTTATTACGAGAAAAG
*
669816 ATCTCGTTATTACGAGGAAAG
1 ATCTCGTTATTACGAGAAAAG
669837 AT
1 AT
669839 ATATTTGAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 75 0.82
22 17 0.18
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
ATCTCGTTATTACGAGAAAAG
Found at i:669764 original size:43 final size:44
Alignment explanation
Indices: 669708--669836 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 44
669698 AAAAATATTT
* * **
669708 TTATCTCGATATTACGAGATAAGATCTCGTTATTACGAGTTAA-
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
*
669751 TTATCTCGTTATTACGAGAAAAGATCTCGTAATTACGAGAAAAG
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
* *
669795 ATAT-T-GTTATTACGAGAAAAGATCTCGTTATTACGAGGAAAG
1 TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
669837 ATATATTTGA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 35 0.45
43 39 0.51
44 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (44 bp):
TTATCTCGTTATTACGAGAAAAGATCTCGTTATTACGAGAAAAG
Found at i:670277 original size:21 final size:20
Alignment explanation
Indices: 670246--670333 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
670236 GATTTTATAT
*
670246 AGATCTTTTCTCGTAATAACG
1 AGATCCTTT-TCGTAATAACG
* *
670267 ATATCCTTTCTCGTAATTACG
1 AGATCCTTT-TCGTAATAACG
**
670288 AGATAATTAATTCGTAATAACG
1 AGATCCTT--TTCGTAATAACG
*
670310 AGATCTCTTTTCGTAATTACG
1 AGATC-CTTTTCGTAATAACG
670331 AGA
1 AGA
670334 ATCCCTTGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 37 0.69
22 14 0.26
23 3 0.06
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
AGATCCTTTTCGTAATAACG
Found at i:672341 original size:44 final size:44
Alignment explanation
Indices: 672286--672370 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
672276 ATTACGATAA
*
672286 AAAAAATACAATTATAAATATTGAAGAAAACAGATACTTTGTAC
1 AAAAAATACAATTATAAATACTGAAGAAAACAGATACTTTGTAC
*
672330 AAAAAATACAATTATAAATACTGAAGAAAGCAGATACTTTG
1 AAAAAATACAATTATAAATACTGAAGAAAACAGATACTTTG
672371 AACATTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (44 bp):
AAAAAATACAATTATAAATACTGAAGAAAACAGATACTTTGTAC
Found at i:672863 original size:21 final size:21
Alignment explanation
Indices: 672839--672939 Score: 89
Period size: 21 Copynumber: 4.8 Consensus size: 21
672829 CGAGAAAAGA
672839 TCTCGTAATTACGAGATTTTT
1 TCTCGTAATTACGAGATTTTT
* * *
672860 TCTCGTTATAATGAGA-TTTT
1 TCTCGTAATTACGAGATTTTT
* ** *
672880 TCTCGTAATGACGAGAAAATTA
1 TCTCGTAATTACGAG-ATTTTT
* *
672902 ACTCGTAA-TACCGAGATCTTT
1 TCTCGTAATTA-CGAGATTTTT
672923 TCTCGTAATTACGAGAT
1 TCTCGTAATTACGAGAT
672940 AAAAAAAATA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
20 16 0.26
21 31 0.50
22 15 0.24
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (21 bp):
TCTCGTAATTACGAGATTTTT
Found at i:672939 original size:63 final size:62
Alignment explanation
Indices: 672822--672939 Score: 148
Period size: 63 Copynumber: 1.9 Consensus size: 62
672812 TAATTATCGT
* * * * *
672822 GTAATTACGAGAAAAGATCTCGTAATTACGAGATTTTTTCTCGTTATAATGAGATTTTTCTC
1 GTAATGACGAGAAAAGAACTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATTTTTCTC
* *
672884 GTAATGACGAGAAAATTAACTCGTAA-TACCGAGATCTTTTCTCGTAATTACGAGAT
1 GTAATGACGAGAAAA-GAACTCGTAATTA-CGAGATCTTTTCTCGTAATAACGAGAT
672940 AAAAAAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 16 0.34
63 31 0.66
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (62 bp):
GTAATGACGAGAAAAGAACTCGTAATTACGAGATCTTTTCTCGTAATAACGAGATTTTTCTC
Found at i:680573 original size:3 final size:3
Alignment explanation
Indices: 680560--680598 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
680550 AATTCTTACT
* * *
680560 TCA TTA TCA TCA TCA TCA TGA TGA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
680599 AATAAAGGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:688067 original size:13 final size:13
Alignment explanation
Indices: 688049--688078 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
688039 GGTGAGTATC
688049 GGGGATGGGGGCT
1 GGGGATGGGGGCT
688062 GGGGATGGGGGCT
1 GGGGATGGGGGCT
688075 GGGG
1 GGGG
688079 GGGGGGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.73, T:0.13
Consensus pattern (13 bp):
GGGGATGGGGGCT
Found at i:688079 original size:1 final size:1
Alignment explanation
Indices: 688075--688113 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
688065 GATGGGGGCT
688075 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
688114 AGCGAAAGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:690054 original size:2 final size:2
Alignment explanation
Indices: 690047--690101 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
690037 AAGTAAATTT
690047 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
690089 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
690102 GGCGAAGGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:702405 original size:64 final size:63
Alignment explanation
Indices: 702304--702432 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 63
702294 CCTAAGCCAC
* *
702304 TAATAATCGGTCCCTTTATACAGAGGGAAAGGACGAGTGCAATAATATTTTCTCTTTTTATCAT
1 TAATAATCGGTCCCTTTATACAGAGGGAAAGGACGAGTGCAATAATATTTTATCTCTTTAT-AT
*
702368 TAATAATCGTTCCCTTTATACAGAGGGAAAGGACGAGTGCAATAATATTTTATCTCTTTATAT
1 TAATAATCGGTCCCTTTATACAGAGGGAAAGGACGAGTGCAATAATATTTTATCTCTTTATAT
702431 TA
1 TA
702433 TTACTGCCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 4 0.06
64 58 0.94
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (63 bp):
TAATAATCGGTCCCTTTATACAGAGGGAAAGGACGAGTGCAATAATATTTTATCTCTTTATAT
Found at i:727921 original size:8 final size:8
Alignment explanation
Indices: 727908--727944 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
727898 TGCGTCTACA
727908 GACAGACG
1 GACAGACG
727916 GACAGACG
1 GACAGACG
* *
727924 GACGGACA
1 GACAGACG
727932 GACAGACG
1 GACAGACG
727940 GACAG
1 GACAG
727945 GGTGAAACCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.38, C:0.24, G:0.38, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:727922 original size:12 final size:12
Alignment explanation
Indices: 727905--727944 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
727895 AGTTGCGTCT
727905 ACAGACAGACGG
1 ACAGACAGACGG
*
727917 ACAGACGGACGG
1 ACAGACAGACGG
727929 ACAGACAGACGG
1 ACAGACAGACGG
727941 ACAG
1 ACAG
727945 GGTGAAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:728182 original size:8 final size:9
Alignment explanation
Indices: 728161--728185 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
728151 GAATTTAAAA
728161 AAAAAATGT
1 AAAAAATGT
728170 AAAAAATGT
1 AAAAAATGT
728179 AAAAAAT
1 AAAAAAT
728186 TGATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (9 bp):
AAAAAATGT
Found at i:744726 original size:40 final size:40
Alignment explanation
Indices: 744671--744790 Score: 240
Period size: 40 Copynumber: 3.0 Consensus size: 40
744661 ATATTATTCC
744671 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
1 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
744711 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
1 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
744751 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
1 CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
744791 AAACATTAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (40 bp):
CATAAACTTTTATTCTGTCAATTACCAGTACAATACAACA
Found at i:744891 original size:14 final size:14
Alignment explanation
Indices: 744872--744899 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
744862 GTCCCAATGC
744872 ATTTTATTCAAACT
1 ATTTTATTCAAACT
744886 ATTTTATTCAAACT
1 ATTTTATTCAAACT
744900 TGAAACTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTATTCAAACT
Found at i:746855 original size:2 final size:2
Alignment explanation
Indices: 746848--746895 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
746838 AACGAACGTC
746848 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
746890 AG AG AG
1 AG AG AG
746896 GGTGTGTGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:752658 original size:16 final size:13
Alignment explanation
Indices: 752625--752649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
752615 CAGGGATGGG
752625 GTAATGGTAATTT
1 GTAATGGTAATTT
752638 GTAATGGTAATT
1 GTAATGGTAATT
752650 GAGTGTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
GTAATGGTAATTT
Found at i:753808 original size:37 final size:33
Alignment explanation
Indices: 753727--753798 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
753717 TAAATTTTGA
753727 TGAAAATGTAATTTGTAATTTAATTAATTACATC
1 TGAAAATGTAA-TTGTAATTTAATTAATTACATC
* *
753761 TGGAAA-GTAATTGTAATTTAATTAATTACATT
1 TGAAAATGTAATTGTAATTTAATTAATTACATC
753793 TGAAAA
1 TGAAAA
753799 CTCTTGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 26 0.74
33 4 0.11
34 5 0.14
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (33 bp):
TGAAAATGTAATTGTAATTTAATTAATTACATC
Found at i:758453 original size:2 final size:2
Alignment explanation
Indices: 758446--758489 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
758436 ACATTAGTTT
758446 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
758488 TG
1 TG
758490 GAATCGTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:762850 original size:54 final size:54
Alignment explanation
Indices: 762790--762897 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
762780 AGAGAGTTAC
* * *
762790 AGAGCTCACAATTCTTAGTTATGCTTATAAGTTCTTTTATAACGAAGAATTGTG
1 AGAGCTCACAATTCTTAGTTATGCTTATAAGTGCTTATATAACAAAGAATTGTG
762844 AGAGCTCACAATTCTTAGTTATGCTTATAAGTGCTTATATAACAAAGAATTGTG
1 AGAGCTCACAATTCTTAGTTATGCTTATAAGTGCTTATATAACAAAGAATTGTG
762898 GGCTCTGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
AGAGCTCACAATTCTTAGTTATGCTTATAAGTGCTTATATAACAAAGAATTGTG
Found at i:763482 original size:17 final size:19
Alignment explanation
Indices: 763462--763500 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
763452 AATTTAGTTA
763462 TAATTGGC-AATGATTG-T
1 TAATTGGCAAATGATTGCT
763479 TAATTGGCAAATGATTGCT
1 TAATTGGCAAATGATTGCT
763498 TAA
1 TAA
763501 CGGTTGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (19 bp):
TAATTGGCAAATGATTGCT
Found at i:766560 original size:3 final size:3
Alignment explanation
Indices: 766552--766594 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
766542 AAGAGTCTAG
*
766552 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
766595 ATGTTAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:767139 original size:3 final size:3
Alignment explanation
Indices: 767131--767159 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
767121 ACAAACATCA
767131 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
767160 ATGTTCAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:767234 original size:3 final size:3
Alignment explanation
Indices: 767226--767268 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
767216 AAGAGTCTAG
*
767226 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
767269 ATGTTAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:767813 original size:3 final size:3
Alignment explanation
Indices: 767805--767833 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
767795 ACAAACATCA
767805 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
767834 ATGTTCAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.