Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 2 of 198
Found at i:478719 original size:23 final size:23
Alignment explanation
Indices: 478648--478719 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
478638 TTTTTTTAAA
478648 TATGCAGAAAAAAATTATTCAAC
1 TATGCAGAAAAAAATTATTCAAC
**
478671 TAT--AGAAAAATGTTAAATT-ATA-
1 TATGCAGAAAAAAATT--ATTCA-AC
478693 TATGCAGAAAAAAATTATTCAAC
1 TATGCAGAAAAAAATTATTCAAC
478716 TATG
1 TATG
478720 GAAAGCTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 9 0.24
22 8 0.21
23 12 0.32
24 9 0.24
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (23 bp):
TATGCAGAAAAAAATTATTCAAC
Found at i:481992 original size:41 final size:41
Alignment explanation
Indices: 481932--482050 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
481922 ATAATATTGA
*
481932 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTATACTTCGGTACCCC
* * *
481973 TGAATTGCACATACGTGCCCTTGTTTATACTTCGGTACCCT
1 TGAATTGCACATACATGCCCCTGTTTATACTTCGGTACCCC
** * *
482014 TGAATTGCACATACATGTTCCTGTTTAGACTTTGGTA
1 TGAATTGCACATACATGCCCCTGTTTATACTTCGGTA
482051 ATTATGAATC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTATACTTCGGTACCCC
Found at i:488880 original size:24 final size:24
Alignment explanation
Indices: 488849--488925 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
488839 AAAGAACCTA
488849 TAACGGGTAGCTCCGAAGAGCAAT
1 TAACGGGTAGCTCCGAAGAGCAAT
* *
488873 TAATGGGTAGCTCCGAAGAGCATT
1 TAACGGGTAGCTCCGAAGAGCAAT
* * *
488897 TAACGAGTAGCTCCGAAGAGTACT
1 TAACGGGTAGCTCCGAAGAGCAAT
488921 TAACG
1 TAACG
488926 AGAAGCACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAGAGCAAT
Found at i:493512 original size:99 final size:99
Alignment explanation
Indices: 493396--493591 Score: 392
Period size: 99 Copynumber: 2.0 Consensus size: 99
493386 TTGACATTTC
493396 AATACAATATACTTTTGTTCACAATTTACCACGGCATCATGCTGAGTCAACCAATCCATACCCAG
1 AATACAATATACTTTTGTTCACAATTTACCACGGCATCATGCTGAGTCAACCAATCCATACCCAG
493461 AATAACACAAAATCATCAAATGGCAATAACATCA
66 AATAACACAAAATCATCAAATGGCAATAACATCA
493495 AATACAATATACTTTTGTTCACAATTTACCACGGCATCATGCTGAGTCAACCAATCCATACCCAG
1 AATACAATATACTTTTGTTCACAATTTACCACGGCATCATGCTGAGTCAACCAATCCATACCCAG
493560 AATAACACAAAATCATCAAATGGCAATAACAT
66 AATAACACAAAATCATCAAATGGCAATAACAT
493592 TAAGTCAGCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.24
Consensus pattern (99 bp):
AATACAATATACTTTTGTTCACAATTTACCACGGCATCATGCTGAGTCAACCAATCCATACCCAG
AATAACACAAAATCATCAAATGGCAATAACATCA
Found at i:496778 original size:24 final size:24
Alignment explanation
Indices: 496751--496796 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
496741 AAAGAGCCTA
* * *
496751 TAACATGTAGCTTCGAAGAGCAAT
1 TAACAGGTAGCTCCGAAAAGCAAT
*
496775 TAACGGGTAGCTCCGAAAAGCA
1 TAACAGGTAGCTCCGAAAAGCA
496797 CTTAGTGGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
TAACAGGTAGCTCCGAAAAGCAAT
Found at i:496883 original size:26 final size:26
Alignment explanation
Indices: 496854--496920 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
496844 CACTAATGGA
*
496854 AAGCTCACAAAGAGCT-TTTAATCGGG
1 AAGCTCACAAAGAGCTATATAA-CGGG
*
496880 AAGCTTACAAAGAGCTATATAACGGG
1 AAGCTCACAAAGAGCTATATAACGGG
* *
496906 ACGCTCA-TAAGAGCT
1 AAGCTCACAAAGAGCT
496921 GCGGTGTGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 7 0.20
26 24 0.69
27 4 0.11
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
AAGCTCACAAAGAGCTATATAACGGG
Found at i:502828 original size:101 final size:101
Alignment explanation
Indices: 502654--502912 Score: 326
Period size: 101 Copynumber: 2.6 Consensus size: 101
502644 GTTTCCTTTG
* * * ** *
502654 TGCCATAGTCCAACTATGGTATTACATAT--GCATTGCCATGACTCT-GTCATGGTCTTACATTC
1 TGCCATAGTCCAACTATGGTCTTACATATAAACATTGCCATG-GTCTAACCATGGTCTTACATCC
* *
502716 GTAGTGCCATAACCTAGTTATGGTCTTACCATCAAAA
65 ATAGTGCCATAACCCAGTTATGGTCTTACCATCAAAA
* * *
502753 TGCCATAGTCCAGCTATGGTCTTACATATAAACATTGTCATGGTCTAACCATGGTCTTACGTCCA
1 TGCCATAGTCCAACTATGGTCTTACATATAAACATTGCCATGGTCTAACCATGGTCTTACATCCA
* *
502818 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAA
66 TAGTGCCATAACCCAGTTATGGTCTTACCATCAAAA
* * * * *
502854 TGCCATAGCCCATCTATGGTCTTACATATAAATACTGCCATGGTCCAACCATGGTCTTA
1 TGCCATAGTCCAACTATGGTCTTACATATAAACATTGCCATGGTCTAACCATGGTCTTA
502913 ATTTTGAATA
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
99 27 0.20
100 3 0.02
101 108 0.78
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
TGCCATAGTCCAACTATGGTCTTACATATAAACATTGCCATGGTCTAACCATGGTCTTACATCCA
TAGTGCCATAACCCAGTTATGGTCTTACCATCAAAA
Found at i:503626 original size:2 final size:2
Alignment explanation
Indices: 503619--503648 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
503609 TATTCTACTA
*
503619 CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
503649 TTCACTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:520950 original size:3 final size:3
Alignment explanation
Indices: 520933--520994 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
520923 CCCCAAATGG
*
520933 AAT AAG AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
520980 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
520995 TTACCTATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:521388 original size:30 final size:30
Alignment explanation
Indices: 521353--521417 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
521343 TAACAAAAAA
521353 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
* *
521383 CTCTCAAATTTCTCCTTAGATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
521413 CTCTC
1 CTCTC
521418 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:523441 original size:21 final size:20
Alignment explanation
Indices: 523417--523457 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
523407 ACCCATAACT
*
523417 AGAGCAACCATAACCCTCGTC
1 AGAGCAACCACAACCC-CGTC
523438 AGAGCAACCACAACCCCGTC
1 AGAGCAACCACAACCCCGTC
523458 GGAAGCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.34, C:0.41, G:0.15, T:0.10
Consensus pattern (20 bp):
AGAGCAACCACAACCCCGTC
Found at i:526842 original size:98 final size:96
Alignment explanation
Indices: 526726--526903 Score: 284
Period size: 98 Copynumber: 1.8 Consensus size: 96
526716 GAACTATTGT
* * *
526726 AGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTCGCTGACAGTGCATCATGCTTGAAG
1 AGAAAAAGAACATCCACGTGAGAGCTTTTTT-AGTAATTTCACTGACAATGCATCAT-CTTGAAG
526791 CGTTTTTGACACTATTTGTTCAGGAACTACTAC
64 CGTTTTTGACACTATTTGTTCAGGAACTACTAC
* * *
526824 AGAAAAAGAACGTCCACGTGAGAGCTTTTTTAGTAATTTTACTGACAATGCATCCTCTTGAAGCG
1 AGAAAAAGAACATCCACGTGAGAGCTTTTTTAGTAATTTCACTGACAATGCATCATCTTGAAGCG
526889 TTTTTGACACTATTT
66 TTTTTGACACTATTT
526904 ATTTAGAACC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
96 24 0.32
97 21 0.28
98 29 0.39
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (96 bp):
AGAAAAAGAACATCCACGTGAGAGCTTTTTTAGTAATTTCACTGACAATGCATCATCTTGAAGCG
TTTTTGACACTATTTGTTCAGGAACTACTAC
Found at i:527109 original size:33 final size:32
Alignment explanation
Indices: 527006--527119 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 32
526996 CTGAACACAA
* * *
527006 TATTATTTAAAAAAACTAAACCTTAATTTAAT
1 TATTTTTTAAAAATACTAAACCCTAATTTAAT
* * *
527038 TAATTTTCCTAAAAATACTAAAACCTAATTTTATT
1 T-ATTTT-TTAAAAATACTAAACCCTAA-TTTAAT
* *
527073 TATTTATTTAAAACTCCTAAACCCTAATTTAAT
1 TATTT-TTTAAAAATACTAAACCCTAATTTAAT
527106 TATTTGTTTAAAAA
1 TATTT-TTTAAAAA
527120 GAACACTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
32 1 0.02
33 21 0.32
34 36 0.55
35 7 0.11
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (32 bp):
TATTTTTTAAAAATACTAAACCCTAATTTAAT
Found at i:527186 original size:21 final size:20
Alignment explanation
Indices: 527161--527233 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
527151 TCCTAAAACT
527161 CAAAACCCTAAATTATTTTAA
1 CAAAACCCTAAATT-TTTTAA
* * ***
527182 CAAAACTCTAAACTCTACAAA
1 CAAAACCCTAAA-TTTTTTAA
**
527203 CCTAACCCTAAATTTTTTAA
1 CAAAACCCTAAATTTTTTAA
*
527223 CAAAATCCTAA
1 CAAAACCCTAA
527234 CCCTAAAAAC
Statistics
Matches: 36, Mismatches: 15, Indels: 3
0.67 0.28 0.06
Matches are distributed among these distances:
20 12 0.33
21 23 0.64
22 1 0.03
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (20 bp):
CAAAACCCTAAATTTTTTAA
Found at i:527805 original size:3 final size:3
Alignment explanation
Indices: 527797--527858 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
527787 CGAGCGAGAC
* * ** * *
527797 GAA GAA GAA GAA GAT GAC GTT GAA GAT GAA GAA GAA GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
527845 GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GA
527859 GCCGAGGCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.56, C:0.02, G:0.35, T:0.06
Consensus pattern (3 bp):
GAA
Found at i:527853 original size:21 final size:21
Alignment explanation
Indices: 527797--527859 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
527787 CGAGCGAGAC
* * **
527797 GAAGAAGAAGAAGATGACGTT
1 GAAGAAGAAGAAGAAGAAGAG
*
527818 GAAGATGAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAAGAAGAG
527839 GAAGAAGAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAAGAAGAG
527860 CCGAGGCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.06
Consensus pattern (21 bp):
GAAGAAGAAGAAGAAGAAGAG
Found at i:536449 original size:20 final size:20
Alignment explanation
Indices: 536417--536464 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
536407 AAATTAGTAC
*
536417 ATTTTTATAATATTTTTTTTA
1 ATTTTTATAATA-TTATTTTA
536438 ATTTTTAT-ATATTATTTTA
1 ATTTTTATAATATTATTTTA
536457 ACTTTTTA
1 A-TTTTTA
536465 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATAATATTATTTTA
Found at i:536521 original size:21 final size:22
Alignment explanation
Indices: 536479--536522 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
536469 TTAAAATTAT
536479 ATATTTTAGAATTTTATAAAAA
1 ATATTTTAGAATTTTATAAAAA
536501 ATATTTTA-AACTTTT-TAAAAA
1 ATATTTTAGAA-TTTTATAAAAA
536522 A
1 A
536523 ATTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATTTTAGAATTTTATAAAAA
Found at i:536700 original size:19 final size:20
Alignment explanation
Indices: 536676--536713 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
536666 TTAAATATTA
536676 TAATATTTAT-TTTTAAATC
1 TAATATTTATATTTTAAATC
*
536695 TAATATTTTTATTTTAAAT
1 TAATATTTATATTTTAAAT
536714 GAACTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATATTTATATTTTAAATC
Found at i:536884 original size:4 final size:4
Alignment explanation
Indices: 536877--536905 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
536867 TCATATATAT
536877 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
536906 CCCGATCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:552359 original size:2 final size:2
Alignment explanation
Indices: 552348--552387 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
552338 AAATAATAAA
*
552348 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
552388 ACCCAAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:554957 original size:23 final size:24
Alignment explanation
Indices: 554926--554974 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
554916 ACACATTTAA
554926 TTTAA-TTTTCA-ATATATTATATT
1 TTTAATTTTTCACATATATTA-ATT
* *
554949 TTTACTTTTTCACTTATATTAATT
1 TTTAATTTTTCACATATATTAATT
554973 TT
1 TT
554975 GAAAAGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 7 0.32
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTAATTTTTCACATATATTAATT
Found at i:559552 original size:29 final size:30
Alignment explanation
Indices: 559518--559576 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
559508 TTATAGGGAG
559518 TGGATCAA-ATTAGTCACTATATTATTAAA
1 TGGATCAATATTAGTCACTATATTATTAAA
* * *
559547 TGGATCAATTTTAGTCCCTGTATTATTAAA
1 TGGATCAATATTAGTCACTATATTATTAAA
559577 AAGAATCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (30 bp):
TGGATCAATATTAGTCACTATATTATTAAA
Found at i:562300 original size:31 final size:32
Alignment explanation
Indices: 562265--562333 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
562255 ATTTCAATTT
562265 TTTTGAGAGA-CTTAACT-AAAACTTTCCAAAA
1 TTTTGAGAGATCTTAA-TGAAAACTTTCCAAAA
* * *
562296 TTTTGA-AGATCTTAATGATAATTTTCCAAAT
1 TTTTGAGAGATCTTAATGAAAACTTTCCAAAA
562327 TTTTGAG
1 TTTTGAG
562334 GTGTCCAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (32 bp):
TTTTGAGAGATCTTAATGAAAACTTTCCAAAA
Found at i:567762 original size:21 final size:20
Alignment explanation
Indices: 567738--567776 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
567728 ATTATATGAT
*
567738 GTAATTTACAATACATCTATA
1 GTAATATACAATAC-TCTATA
*
567759 GTAATATATAATACTCTA
1 GTAATATACAATACTCTA
567777 ATGTAAACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (20 bp):
GTAATATACAATACTCTATA
Found at i:570399 original size:32 final size:32
Alignment explanation
Indices: 570362--570425 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
570352 TGCTGAATGT
570362 GAAAGCCTTTAGGAGATGAAGTGGGAACACAA
1 GAAAGCCTTTAGGAGATGAAGTGGGAACACAA
570394 GAAAGCCTTTAGGAGATGAAGTGGGAACACAA
1 GAAAGCCTTTAGGAGATGAAGTGGGAACACAA
570426 TTAAGGTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.31, T:0.16
Consensus pattern (32 bp):
GAAAGCCTTTAGGAGATGAAGTGGGAACACAA
Found at i:585405 original size:11 final size:11
Alignment explanation
Indices: 585374--585405 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
585364 TTTTGAGTTT
585374 TTTTTAATA-A
1 TTTTTAATATA
585384 TTTTTAA-ATA
1 TTTTTAATATA
585394 TTTTTAATATA
1 TTTTTAATATA
585405 T
1 T
585406 ACATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 15 0.75
11 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:586759 original size:13 final size:13
Alignment explanation
Indices: 586741--586766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
586731 ATTTAGTATT
586741 CGTATACTGTTTA
1 CGTATACTGTTTA
586754 CGTATACTGTTTA
1 CGTATACTGTTTA
586767 AAGTAATAAT
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:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
CGTATACTGTTTA
Found at i:590501 original size:52 final size:52
Alignment explanation
Indices: 590423--590526 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
590413 AAAATAAAAA
* *
590423 TAAAAAATTTTCTTTGTCAATGTATAAAATAATTATTCGATTTAAAGCGAAC
1 TAAAAAATTTTCTTTATCAATGTATAAAATAATTATTCAATTTAAAGCGAAC
590475 TAAAAAATTTTCTTTATCAATGTATAAAATAATTATTCAATTTAAAGCGAAC
1 TAAAAAATTTTCTTTATCAATGTATAAAATAATTATTCAATTTAAAGCGAAC
590527 AGAAAGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (52 bp):
TAAAAAATTTTCTTTATCAATGTATAAAATAATTATTCAATTTAAAGCGAAC
Found at i:590502 original size:24 final size:25
Alignment explanation
Indices: 590422--590508 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 25
590412 AAAAATAAAA
*
590422 ATAAAA-AATTTTCTTTGTCAATGT
1 ATAAAATAATTTTCTTTATCAATGT
* *
590446 ATAAAATAATTATTCGATTTA--AAGCGA
1 ATAAAATAATT-TTC--TTTATCAA-TGT
590473 ACTAAAA-AATTTTCTTTATCAATGT
1 A-TAAAATAATTTTCTTTATCAATGT
590498 ATAAAATAATT
1 ATAAAATAATT
590509 ATTCAATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
24 15 0.31
25 10 0.20
26 10 0.20
27 6 0.12
28 8 0.16
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (25 bp):
ATAAAATAATTTTCTTTATCAATGT
Found at i:600266 original size:21 final size:21
Alignment explanation
Indices: 600232--600296 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
600222 CAGGACACCG
*
600232 ATTTGCC-AGTTCAACCAGTT
1 ATTTGCCTTGTTCAACCAGTT
* *
600252 TTTTGCCTTGTTCAACCAGTC
1 ATTTGCCTTGTTCAACCAGTT
600273 ATTTGCCTTGTTCAACCAGTT
1 ATTTGCCTTGTTCAACCAGTT
600294 ATT
1 ATT
600297 ACCATTTCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 6 0.15
21 33 0.85
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (21 bp):
ATTTGCCTTGTTCAACCAGTT
Found at i:606570 original size:2 final size:2
Alignment explanation
Indices: 606563--606587 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
606553 AATAAATGTG
606563 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
606588 GCGTAGAAAT
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:607049 original size:2 final size:2
Alignment explanation
Indices: 607037--607066 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
607027 CATATACATG
*
607037 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
607067 AGAAACATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:607966 original size:12 final size:12
Alignment explanation
Indices: 607951--608006 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
607941 AAAAGGGTTG
607951 TAAAAAAATAAA
1 TAAAAAAATAAA
607963 TAAAAAAATAAA
1 TAAAAAAATAAA
* *
607975 CAAACATAA-AAA
1 TAAA-AAAATAAA
*
607987 T-AAAAAAGAAA
1 TAAAAAAATAAA
607998 TAAAGAAAA
1 TAAA-AAAA
608007 AGTATACATG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 3 0.08
11 6 0.17
12 20 0.56
13 7 0.19
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:608945 original size:84 final size:85
Alignment explanation
Indices: 608813--608975 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 85
608803 GTTATGGTGT
* * * * * * *
608813 GATCCGCTCTACTTCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGTTTCATTGCAACTTT
1 GATCCGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTTCAATCCGCTCCACTGCAACTTC
608878 AG-GAGATAGGATTGGATGC
66 AGAGAGATAGGATTGGATGC
* * ** **
608897 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATATGTGGTTTCAATCCGCTCCACTGCAACTTC
1 GATCCGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTTCAATCCGCTCCACTGCAACTTC
608962 AGAGAGATAGGATT
66 AGAGAGATAGGATT
608976 TATAGCTTCT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
84 54 0.83
85 11 0.17
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (85 bp):
GATCCGCTCTACTGCAACTTCAGAGAGATAAGATACATCATTTCAATCCGCTCCACTGCAACTTC
AGAGAGATAGGATTGGATGC
Found at i:626019 original size:21 final size:21
Alignment explanation
Indices: 625995--626036 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
625985 TTTGCCTAAG
* *
625995 ATATGAATTGGATTGAATTGA
1 ATATAAATTGGATTAAATTGA
*
626016 ATATAAATTGTATTAAATTGA
1 ATATAAATTGGATTAAATTGA
626037 GCTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATAAATTGGATTAAATTGA
Found at i:629436 original size:15 final size:16
Alignment explanation
Indices: 629406--629444 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
629396 ATAGTAAAAT
629406 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
629423 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
629438 ATAATTT
1 ATAATTT
629445 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:633677 original size:51 final size:49
Alignment explanation
Indices: 633548--633736 Score: 243
Period size: 51 Copynumber: 3.8 Consensus size: 49
633538 TTATCATTCA
* * *
633548 ATACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CG
* *
633598 GTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTTCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAA-TTTTCG
* * * *
633649 ATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTT-TCG
*
633700 ATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTG
633737 TTCATCGATA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
50 40 0.33
51 76 0.63
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (49 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCG
Found at i:633730 original size:102 final size:101
Alignment explanation
Indices: 633548--633736 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 101
633538 TTATCATTCA
* * *
633548 ATACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCC
1 ATACACATAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGATACACGTAGTAGCC
*
633613 TTCACATAGTACTACACACGTGACCAAAACTTTTCG
66 TTCACACAGTACTACACACGTGACCAAAACTTTTCG
* * * * *
633649 ATACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATACACGTAGTAG
1 ATACACATAGTAGCCTCCACATAGTACTACACACGTGATCAAGT-TTTA-CGATACACGTAGTAG
633713 CCTTCACACAGTACTACACACGTG
64 CCTTCACACAGTACTACACACGTG
633737 TTCATCGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 3 0.04
101 38 0.49
102 36 0.47
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (101 bp):
ATACACATAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGATACACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAACTTTTCG
Found at i:637469 original size:21 final size:21
Alignment explanation
Indices: 637435--637483 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
637425 TTAACAGTTT
*
637435 AATAACTTAAATAAATTTTTTG
1 AATAA-TTAAATAAATATTTTG
* *
637457 AATAATTCAATAACTATTTTG
1 AATAATTAAATAAATATTTTG
637478 AA-AATT
1 AATAATT
637484 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.17
21 15 0.62
22 5 0.21
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
AATAATTAAATAAATATTTTG
Found at i:640219 original size:29 final size:29
Alignment explanation
Indices: 640164--640219 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
640154 ATAAAAGGTC
* * **
640164 AATAATTAATTAATTCTTCAATTAAATTA
1 AATAATTAATTAAGTCATCAAAAAAATTA
*
640193 AATATTTAATTAAGTCATCAAAAAAAT
1 AATAATTAATTAAGTCATCAAAAAAAT
640220 CAATTTTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (29 bp):
AATAATTAATTAAGTCATCAAAAAAATTA
Found at i:649614 original size:15 final size:15
Alignment explanation
Indices: 649586--649622 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
649576 AATTTTTTAC
649586 ACTTAATTTCTCAAT
1 ACTTAATTTCTCAAT
* *
649601 ACTTATTTTTTCAAT
1 ACTTAATTTCTCAAT
649616 ACTTAAT
1 ACTTAAT
649623 GTTTTAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (15 bp):
ACTTAATTTCTCAAT
Found at i:649965 original size:60 final size:60
Alignment explanation
Indices: 649831--649966 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 60
649821 TCCAAGATAG
* * *
649831 TTGGGAGGCTAAAAAAGACAAAATCAAATAGTTGAGTGACCATTTTGTAACGTTTCATAG
1 TTGGGTGGCTAAAAAAGACAAAATCAAATAGTTGAGTGACCATTTTATAACGTTTCATAA
* * * * * *
649891 TTGGTTGGCCAAAAAAGA-GAAATACTAATAGTTGGGTGACCATTTTATAACTTTTCATAA
1 TTGGGTGGCTAAAAAAGACAAAAT-CAAATAGTTGAGTGACCATTTTATAACGTTTCATAA
*
649951 TTGGGTGGTTAAAAAA
1 TTGGGTGGCTAAAAAA
649967 AAACCATAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
59 4 0.06
60 59 0.94
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (60 bp):
TTGGGTGGCTAAAAAAGACAAAATCAAATAGTTGAGTGACCATTTTATAACGTTTCATAA
Found at i:650547 original size:15 final size:16
Alignment explanation
Indices: 650523--650554 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
650513 AAATTCTTTT
650523 TATATAAATTCTAAAA
1 TATATAAATTCTAAAA
650539 TATAT-AATTCTAAAA
1 TATATAAATTCTAAAA
650554 T
1 T
650555 TCTCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATAAATTCTAAAA
Found at i:661788 original size:13 final size:13
Alignment explanation
Indices: 661769--661805 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
661759 ACAGGTTTGT
661769 ATATAGGGTTCAC
1 ATATAGGGTTCAC
* *
661782 ATCTAGGGTTCAT
1 ATATAGGGTTCAC
661795 ATATAGGGTTC
1 ATATAGGGTTC
661806 GCACATATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (13 bp):
ATATAGGGTTCAC
Found at i:665480 original size:85 final size:87
Alignment explanation
Indices: 665334--665530 Score: 265
Period size: 85 Copynumber: 2.3 Consensus size: 87
665324 TTCTCAAACT
*
665334 TTTTCAAAAAAAGCAATTAAGCCCCGCTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAA
1 TTTTCAAAAAAAGCAATTAAG-CCCGATTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAA
* *
665399 TGCATCAAAAAGGCCCTCAATCC
65 TACATCAAAAAGACCCTCAATCC
* * *
665422 TTTTCAAAACAAGCAATTAAG-CC-ATTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAAT
1 TTTTCAAAAAAAGCAATTAAGCCCGATTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAAT
*
665485 ACATCAAAAAGACCCTCAA-AC
66 ACATCAAAAAGACCCTCAATCC
* **
665506 TTTACAAAAATAAAAAATTAAGCCC
1 TTTTCAAAAA-AAGCAATTAAGCCC
665531 CTGCTTTTAT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 9 0.09
85 63 0.66
86 4 0.04
88 20 0.21
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (87 bp):
TTTTCAAAAAAAGCAATTAAGCCCGATTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAAT
ACATCAAAAAGACCCTCAATCC
Found at i:665555 original size:10 final size:10
Alignment explanation
Indices: 665537--665567 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
665527 GCCCCTGCTT
*
665537 TTATTAAAAA
1 TTATAAAAAA
665547 TTATAAAAAA
1 TTATAAAAAA
665557 TTATAAAAAA
1 TTATAAAAAA
665567 T
1 T
665568 AAAAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:665649 original size:10 final size:9
Alignment explanation
Indices: 665621--665663 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
665611 ATCATTTATT
665621 AAAAAT-TA
1 AAAAATGTA
*
665629 AAAAATATA
1 AAAAATGTA
665638 AAAAATCGTA
1 AAAAAT-GTA
665648 AAAAATTGTA
1 AAAAA-TGTA
665658 AAAAAT
1 AAAAAT
665664 TATAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 6 0.19
9 9 0.29
10 15 0.48
11 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
AAAAATGTA
Found at i:665664 original size:10 final size:10
Alignment explanation
Indices: 665627--665670 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
665617 TATTAAAAAT
665627 TAAAAAA-TA
1 TAAAAAATTA
**
665636 TAAAAAATCG
1 TAAAAAATTA
*
665646 TAAAAAATTG
1 TAAAAAATTA
665656 TAAAAAATTA
1 TAAAAAATTA
665666 TAAAA
1 TAAAA
665671 TATATAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:665669 original size:20 final size:19
Alignment explanation
Indices: 665627--665676 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
665617 TATTAAAAAT
*
665627 TAAAAAATATAAAAAATCG
1 TAAAAAATATAAAAAATCA
* *
665646 TAAAAAATTGTAAAAAATTA
1 TAAAAAA-TATAAAAAATCA
*
665666 TAAAATATATA
1 TAAAAAATATA
665677 GAAATATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAAATATAAAAAATCA
Found at i:665917 original size:19 final size:20
Alignment explanation
Indices: 665895--665943 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
665885 TTTTTTACGA
*
665895 TTTTATAAAAAATT-CTAAT
1 TTTTATAAAAAATTAATAAT
* *
665914 TTTTATTAAAATTTAATAAT
1 TTTTATAAAAAATTAATAAT
*
665934 TTTTCTAAAA
1 TTTTATAAAA
665944 TTTATTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATAAAAAATTAATAAT
Found at i:665944 original size:19 final size:20
Alignment explanation
Indices: 665910--665947 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
665900 TAAAAAATTC
*
665910 TAATTTTTATTAAAATTTAA
1 TAATTTTTACTAAAATTTAA
665930 TAATTTTT-CTAAAATTTA
1 TAATTTTTACTAAAATTTA
665948 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTACTAAAATTTAA
Found at i:665985 original size:10 final size:10
Alignment explanation
Indices: 665929--665994 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
665919 TTAAAATTTA
665929 ATAATTTTTCT
1 ATAATTTTT-T
* *
665940 AAAATTTATT
1 ATAATTTTTT
*
665950 ATTTATTATTTT
1 A-TAATT-TTTT
665962 ATAA-TTTTT
1 ATAATTTTTT
665971 ATAATTTTTT
1 ATAATTTTTT
* *
665981 CTAATTTTTA
1 ATAATTTTTT
665991 ATAA
1 ATAA
665995 GAGCAATGGC
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
9 8 0.19
10 19 0.44
11 12 0.28
12 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:666842 original size:34 final size:34
Alignment explanation
Indices: 666804--666903 Score: 173
Period size: 34 Copynumber: 2.9 Consensus size: 34
666794 TTTGGGCGGC
*
666804 AAAGATTGGGCATACTTCAGTGTTAGGGTTTGGT
1 AAAGATTGGGCATATTTCAGTGTTAGGGTTTGGT
*
666838 AAAGATTGGGCATATTTCATTGTTAGGGTTTGGT
1 AAAGATTGGGCATATTTCAGTGTTAGGGTTTGGT
*
666872 AAAGATTGGGCATATTTCAGGGTTAGGGTTTG
1 AAAGATTGGGCATATTTCAGTGTTAGGGTTTG
666904 ATATACGTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.24, C:0.07, G:0.32, T:0.37
Consensus pattern (34 bp):
AAAGATTGGGCATATTTCAGTGTTAGGGTTTGGT
Found at i:667036 original size:34 final size:34
Alignment explanation
Indices: 666991--667060 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
666981 GGTTAGACAG
*
666991 TAAAGATTAGGCATATTTCAATGTCAGGGTTTGA
1 TAAAAATTAGGCATATTTCAATGTCAGGGTTTGA
* *
667025 TAAAAATTAGGCATATTTCAGTGTTAGGGTTTGA
1 TAAAAATTAGGCATATTTCAATGTCAGGGTTTGA
667059 TA
1 TA
667061 TATTGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (34 bp):
TAAAAATTAGGCATATTTCAATGTCAGGGTTTGA
Found at i:668720 original size:14 final size:15
Alignment explanation
Indices: 668698--668774 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
668688 CAATCAAACA
668698 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
668712 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
668727 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
668747 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
668761 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
668775 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:668739 original size:20 final size:20
Alignment explanation
Indices: 668714--668753 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
668704 AATATTTTCC
*
668714 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
668734 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
668754 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:668759 original size:34 final size:35
Alignment explanation
Indices: 668702--668768 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
668692 CAAACACCAG
*
668702 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
668737 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
668769 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:669414 original size:2 final size:2
Alignment explanation
Indices: 669407--669434 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
669397 GTCCATTTTC
669407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
669435 GGAATGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:670606 original size:3 final size:3
Alignment explanation
Indices: 670598--670634 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
670588 ATGTACAACT
670598 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
670635 GTTTCAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:672018 original size:43 final size:44
Alignment explanation
Indices: 671970--672059 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 44
671960 ATACTTTTAT
*
671970 GTTTGTCAAAGATG-TAATTAAGTGGTCAGTAATCGAGCCTTGA
1 GTTTGTCAAAGATGATAATTAAGTGGTCAGTAAACGAGCCTTGA
672013 GTTTGTCAAAGATGTAATAATTAAGTGGTCAGTAAACGAGCCTTGA
1 GTTTGTCAAAGATG--ATAATTAAGTGGTCAGTAAACGAGCCTTGA
672059 G
1 G
672060 GAAGCTCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
43 14 0.33
46 29 0.67
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (44 bp):
GTTTGTCAAAGATGATAATTAAGTGGTCAGTAAACGAGCCTTGA
Found at i:685227 original size:104 final size:104
Alignment explanation
Indices: 685037--685380 Score: 483
Period size: 104 Copynumber: 3.3 Consensus size: 104
685027 CTAGCAATAA
* * * *
685037 CTAAAAGCCGCCAATTTTAAGCTGTAAACCCATAAATTTCTTCCATTGTTTAACAATCAACAATC
1 CTAAAA-CCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAACAATCAACAATC
*
685102 ACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAG
65 ACCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * **
685142 CTAAAACCACCAATTTTAAGCTGTAAACTCATAAAATTCCTCCATGGTTTAACAATCAATGATCA
1 CTAAAACCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAACAATCAACAATCA
*
685207 CCCCATTTCATTGATCCACTAGCAATTACTAAAATCCAG
66 CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * * *
685246 CT-AAGCTCACCAATTTTAAGCTGTCAACCCATAAAATTCCTACATAGTTTAACAATCAACAATA
1 CTAAAAC-CACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAACAATCAACAATC
* *
685310 ACCCCATTTCATTAATCCACTATCAATTACTAAAACCCAG
65 ACCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* ** *
685350 CTTAAGTCATCAATTTTAAGCTGTAAACCCA
1 CTAAAACCACCAATTTTAAGCTGTAAACCCA
685381 AAATTATCCT
Statistics
Matches: 214, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
103 3 0.01
104 202 0.94
105 9 0.04
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (104 bp):
CTAAAACCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAACAATCAACAATCA
CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
Found at i:685302 original size:208 final size:194
Alignment explanation
Indices: 684888--685380 Score: 637
Period size: 208 Copynumber: 2.5 Consensus size: 194
684878 CATAGTTTTA
* *
684888 AGTTTGAACAATCAATAATCACTCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAA
1 AGTTT-AACAATCAACAATCACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAA
* * *
684953 ACAACCAGTTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAATCAACAATTACCCCATTT
65 ACCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAATCAACAATTACCCCATTT
* * * *
685018 CATTATCCACTAGCAATAACTAAAAGCCGCCAATTTTAAGCTGTAAACCCATAAATTTCTTCCAT
130 CATTATCCACTAGCAATAACTAAAAGCCACCAATTTTAAGCTGTAAACCCATAAAATTCCTACAT
*
685083 TGTTTAACAATCAACAATCACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAAA
1 AGTTTAACAATCAACAATCACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAAA
* *
685148 CCACCAATTTTAAGCTGTAAACTCATAAAATTCCTCCATGGTTTAA-CAATCAATGATCACCCCA
66 CCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAATCAA-CAAT--T-ACCCCA
* *
685212 TTTCATTGATCCACTAGCAATTACTAAAATCCAGCTAAGCTCACCAATTTTAAGCTGTCAACCCA
127 TTTCATT-ATCCACTAGCAATAACT---A---A---AAGC-CACCAATTTTAAGCTGTAAACCCA
685277 TAAAATTCCTACAT
181 TAAAATTCCTACAT
* * * * * *
685291 AGTTTAACAATCAACAATAACCCCATTTCATTAATCCACTATCAATTACTAAAACCCAGCTTAAG
1 AGTTTAACAATCAACAATCACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAAA
* *
685356 TCATCAATTTTAAGCTGTAAACCCA
66 CCACCAATTTTAAGCTGTAAACCCA
685381 AAATTATCCT
Statistics
Matches: 259, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
193 3 0.01
194 103 0.40
195 4 0.02
196 1 0.00
197 13 0.05
198 16 0.06
201 1 0.00
204 1 0.00
207 4 0.02
208 113 0.44
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (194 bp):
AGTTTAACAATCAACAATCACCCCATTTCATTAATCCACTAGCAAATACTAAAATCCAGCTAAAA
CCACCAATTTTAAGCTGTAAACCCATAAAATTCCTCCATAGTTTAATCAACAATTACCCCATTTC
ATTATCCACTAGCAATAACTAAAAGCCACCAATTTTAAGCTGTAAACCCATAAAATTCCTACAT
Found at i:711149 original size:8 final size:8
Alignment explanation
Indices: 711136--711186 Score: 66
Period size: 8 Copynumber: 6.2 Consensus size: 8
711126 TTAGCTTGTA
711136 TGTATGTG
1 TGTATGTG
711144 TGTATGTG
1 TGTATGTG
711152 TGTTATGTG
1 TG-TATGTG
*
711161 TGCATGTG
1 TGTATGTG
*
711169 TGCATGTG
1 TGTATGTG
*
711177 TGTGTGTG
1 TGTATGTG
711185 TG
1 TG
711187 CGTGTATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
8 31 0.79
9 8 0.21
ACGTcount: A:0.10, C:0.04, G:0.39, T:0.47
Consensus pattern (8 bp):
TGTATGTG
Found at i:715870 original size:19 final size:17
Alignment explanation
Indices: 715848--715888 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
715838 TAAACTATGA
715848 TTTAAATTTTAAATTGATT
1 TTTAAATTTTAAA-T-ATT
715867 TTTAAATTTTAAATATT
1 TTTAAATTTTAAATATT
715884 TTTAA
1 TTTAA
715889 TTAAGTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAAATTTTAAATATT
Found at i:720403 original size:18 final size:18
Alignment explanation
Indices: 720374--720440 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
720364 TCCTCCTCCT
* *
720374 CCTCCTCCTCTTCTTCTT
1 CCTCCTCTTCTTCTTCTA
*
720392 CTTCCTCTTCTTCTTCTA
1 CCTCCTCTTCTTCTTCTA
* *
720410 CCTCCACTTCTTCATACT-
1 CCTCCTCTTCTTC-TTCTA
*
720428 CCACCTCTTCTTC
1 CCTCCTCTTCTTC
720441 CATAGTCTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 37 0.93
19 3 0.08
ACGTcount: A:0.07, C:0.46, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTCCTCTTCTTCTTCTA
Found at i:720419 original size:15 final size:15
Alignment explanation
Indices: 720386--720438 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
720376 TCCTCCTCTT
* **
720386 CTTCTTCTTCCTCTT
1 CTTCTTCTACCTCCA
720401 CTTCTTCTACCTCCA
1 CTTCTTCTACCTCCA
720416 CTTCTTCATA-CTCCA
1 CTTCTTC-TACCTCCA
*
720431 CCTCTTCT
1 CTTCTTCT
720439 TCCATAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 1 0.03
15 30 0.91
16 2 0.06
ACGTcount: A:0.09, C:0.43, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTCTTCTACCTCCA
Found at i:729607 original size:8 final size:8
Alignment explanation
Indices: 729596--729621 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
729586 TTTAATCCTT
729596 TAAAAATA
1 TAAAAATA
729604 TAAAAATA
1 TAAAAATA
729612 TAAAAATA
1 TAAAAATA
729620 TA
1 TA
729622 GACTACGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:732318 original size:100 final size:100
Alignment explanation
Indices: 732101--732597 Score: 608
Period size: 100 Copynumber: 5.0 Consensus size: 100
732091 AAATATATGG
* * * * * * * * *
732101 AAGTAATTAT-CCTGTATCACAGCCGTCACACGATATCTCTCAACGCAAGGGTCGATATCATCAA
1 AAGTAATAATCCCT-TATCACTGCCGTCACACAATTTCTCTCGAGGCAAGGATC-AAATGATCAA
* * *
732165 ATTAAAACTAC--ATTACATAACCATGACTCATATAG
64 ATTAAGACTACATATTACATAACCATGATTCATATAC
* * * *
732200 AAGTAATTATCCCGTATCACTGCCGTCACACGATTTCTCTTGAGGCAAGGATCAAATGATCAAAT
1 AAGTAATAATCCCTTATCACTGCCGTCACACAATTTCTCTCGAGGCAAGGATCAAATGATCAAAT
732265 TAAGACTACATATTACATAACCATGATTCATATAC
66 TAAGACTACATATTACATAACCATGATTCATATAC
* ** * * *
732300 AAGTAATAAGCCCTTATCAAGGCTGTCACACAATTTCTCTCGAGGCAAGGATCGAATGAGCAAAT
1 AAGTAATAATCCCTTATCACTGCCGTCACACAATTTCTCTCGAGGCAAGGATCAAATGATCAAAT
*
732365 TAAGACTACATATTACATAACCGTGATTCATATAC
66 TAAGACTACATATTACATAACCATGATTCATATAC
* * * ** *
732400 AAGTAA-ATATCCCATATCA-TCGCCATCACACAATTGCTCTTAAGGCGAGGATCAAATGATCAA
1 AAGTAATA-ATCCCTTATCACT-GCCGTCACACAATTTCTCTCGAGGCAAGGATCAAATGATCAA
* *
732463 ATCAAGACTACATATTACATAACCATGATTCATACAC
64 ATTAAGACTACATATTACATAACCATGATTCATATAC
* * * *
732500 AAGTAATAATCCCTTATCACCGCCGTCACACCATTTCTCTCGGGGCAAGGATCAAATGAGCAAAT
1 AAGTAATAATCCCTTATCACTGCCGTCACACAATTTCTCTCGAGGCAAGGATCAAATGATCAAAT
732565 TAAGACTACATATTACATAACCATGATTCATAT
66 TAAGACTACATATTACATAACCATGATTCATAT
732598 GCGAGTAAAT
Statistics
Matches: 342, Mismatches: 49, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
98 18 0.05
99 44 0.13
100 279 0.82
101 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (100 bp):
AAGTAATAATCCCTTATCACTGCCGTCACACAATTTCTCTCGAGGCAAGGATCAAATGATCAAAT
TAAGACTACATATTACATAACCATGATTCATATAC
Found at i:732455 original size:200 final size:200
Alignment explanation
Indices: 732122--732629 Score: 700
Period size: 200 Copynumber: 2.5 Consensus size: 200
732112 CTGTATCACA
* * * * * * * *
732122 GCCGTCACACGATATCTCTCAACGCAAGGGTCGATATCATCAAATTAAAACTAC--ATTACATAA
1 GCCGTCACACAATTTCTCTCGAGGCAAGGATCGA-ATGAGCAAATTAAGACTACATATTACATAA
* * * * * * *
732185 CCATGACTCATATAGAAGTAATTATCCCGTATCA-CTGCCGTCACACGATTTCTCTTGAGGCAAG
65 CCATGATTCATATACAAGTAAATATCCCGTATCATC-GCCATCACACAATTGCTCTTAAGGCAAG
* *
732249 GATCAAATGATCAAATTAAGACTACATATTACATAACCATGATTCATATACAAGTAATAAGCCCT
129 GATCAAATGATCAAATCAAGACTACATATTACATAACCATGATTCATACACAAGTAATAAGCCCT
*
732314 TATCAAG
194 TATCAAC
*
732321 GCTGTCACACAATTTCTCTCGAGGCAAGGATCGAATGAGCAAATTAAGACTACATATTACATAAC
1 GCCGTCACACAATTTCTCTCGAGGCAAGGATCGAATGAGCAAATTAAGACTACATATTACATAAC
* * *
732386 CGTGATTCATATACAAGTAAATATCCCATATCATCGCCATCACACAATTGCTCTTAAGGCGAGGA
66 CATGATTCATATACAAGTAAATATCCCGTATCATCGCCATCACACAATTGCTCTTAAGGCAAGGA
*
732451 TCAAATGATCAAATCAAGACTACATATTACATAACCATGATTCATACACAAGTAATAATCCCTTA
131 TCAAATGATCAAATCAAGACTACATATTACATAACCATGATTCATACACAAGTAATAAGCCCTTA
*
732516 TCACC
196 TCAAC
* * *
732521 GCCGTCACACCATTTCTCTCGGGGCAAGGATCAAATGAGCAAATTAAGACTACATATTACATAAC
1 GCCGTCACACAATTTCTCTCGAGGCAAGGATCGAATGAGCAAATTAAGACTACATATTACATAAC
* * *
732586 CATGATTCATATGCGAGTAAATAT-CCGTATCATCGCCACCACAC
66 CATGATTCATATACAAGTAAATATCCCGTATCATCGCCATCACAC
732630 GATTTCTATC
Statistics
Matches: 273, Mismatches: 33, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
198 16 0.06
199 46 0.17
200 210 0.77
201 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (200 bp):
GCCGTCACACAATTTCTCTCGAGGCAAGGATCGAATGAGCAAATTAAGACTACATATTACATAAC
CATGATTCATATACAAGTAAATATCCCGTATCATCGCCATCACACAATTGCTCTTAAGGCAAGGA
TCAAATGATCAAATCAAGACTACATATTACATAACCATGATTCATACACAAGTAATAAGCCCTTA
TCAAC
Found at i:732681 original size:200 final size:200
Alignment explanation
Indices: 732162--732695 Score: 594
Period size: 200 Copynumber: 2.7 Consensus size: 200
732152 TCGATATCAT
* * * * *
732162 CAAATTAAAACTAC--ATTACATAACCATGACTCATATAGAAGTAATTATCCCGTATCA-CTGCC
1 CAAATTAAGACTACATATTACATAACCATGATTCATATACAAGTAAATATCCCATATCATC-GCC
** * * * ** * * * * *
732224 GTCACACGATTTCTCTTGAGGCAAGGATCAAATGATCAAATTAAGACTACATATTACATAACCAT
65 ACCACACAATTGCTATCAAAGCAAAGACCAAATGATCAAATCAAAACTACATATTACATAACCAT
* * * *
732289 GATTCATATACAAGTAATAAGCCCTTATCAAGGCTGTCACACAATTTCTCTCGAGGCAAGGATCG
130 GATTCATACACAAGTAATAAGCCCTTATCAACGCCGTCACACAATTTCTCTCGAGGCAAGGATCA
732354 AATGAG
195 AATGAG
*
732360 CAAATTAAGACTACATATTACATAACCGTGATTCATATACAAGTAAATATCCCATATCATCGCCA
1 CAAATTAAGACTACATATTACATAACCATGATTCATATACAAGTAAATATCCCATATCATCGCCA
* * * * * * * *
732425 TCACACAATTGCTCTTAAGGCGAGGATCAAATGATCAAATCAAGACTACATATTACATAACCATG
66 CCACACAATTGCTATCAAAGCAAAGACCAAATGATCAAATCAAAACTACATATTACATAACCATG
* * * *
732490 ATTCATACACAAGTAATAATCCCTTATCACCGCCGTCACACCATTTCTCTCGGGGCAAGGATCAA
131 ATTCATACACAAGTAATAAGCCCTTATCAACGCCGTCACACAATTTCTCTCGAGGCAAGGATCAA
732555 ATGAG
196 ATGAG
* * *
732560 CAAATTAAGACTACATATTACATAACCATGATTCATATGCGAGTAAATAT-CCGTATCATCGCCA
1 CAAATTAAGACTACATATTACATAACCATGATTCATATACAAGTAAATATCCCATATCATCGCCA
* * ** ** *
732624 CCACACGATTTCTATCAAAGCAAAGACCGATACA-G-TTGAATCAAAACTATGTATTACATAACT
66 CCACACAATTGCTATCAAAGCAAAGACC-A-A-ATGATCAAATCAAAACTACATATTACATAACC
732687 ATGATTCAT
128 ATGATTCAT
732696 TAACACTCGA
Statistics
Matches: 291, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
198 13 0.04
199 32 0.11
200 242 0.83
201 3 0.01
202 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (200 bp):
CAAATTAAGACTACATATTACATAACCATGATTCATATACAAGTAAATATCCCATATCATCGCCA
CCACACAATTGCTATCAAAGCAAAGACCAAATGATCAAATCAAAACTACATATTACATAACCATG
ATTCATACACAAGTAATAAGCCCTTATCAACGCCGTCACACAATTTCTCTCGAGGCAAGGATCAA
ATGAG
Found at i:741636 original size:43 final size:43
Alignment explanation
Indices: 741588--741670 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
741578 ACTTCTATGA
* *
741588 TTATTAAAATGGGTAATTAAAAGCCAAAATTCAGATTCTTTGG
1 TTATTAAAATGGATAATTAAAAGCAAAAATTCAGATTCTTTGG
741631 TTATTAAAATGGATAATTAAAAGCAAAAATTCAGATTCTT
1 TTATTAAAATGGATAATTAAAAGCAAAAATTCAGATTCTT
741671 GTAAATTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (43 bp):
TTATTAAAATGGATAATTAAAAGCAAAAATTCAGATTCTTTGG
Found at i:741765 original size:16 final size:15
Alignment explanation
Indices: 741744--741790 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
741734 TTATGGAGAT
741744 TTTTAAAATATTAATA
1 TTTTAAAAT-TTAATA
741760 TTTTAAAATTT-ATCA
1 TTTTAAAATTTAAT-A
*
741775 ATTTAAAATGTTAATA
1 TTTTAAAAT-TTAATA
741791 AGTATAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.07
15 11 0.41
16 12 0.44
17 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTTAAAATTTAATA
Found at i:742463 original size:43 final size:43
Alignment explanation
Indices: 742402--742487 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
742392 TACAAATACA
*
742402 TAAGGCAACCAATTTGATGCCTTTTCCAGCTTGATACCCAACC
1 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
*
742445 TAAGGCAACCAATTTGATGTCTTTTCCAACTTGATACCCAACC
1 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
742488 AATTCCTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (43 bp):
TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
Found at i:757239 original size:2 final size:2
Alignment explanation
Indices: 757232--757257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
757222 GTGTTATCTA
757232 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
757258 TAATTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:775411 original size:2 final size:2
Alignment explanation
Indices: 775404--775428 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
775394 TCTGTCCTTT
775404 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
775429 TTACAATTCA
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:778108 original size:49 final size:49
Alignment explanation
Indices: 778036--778129 Score: 188
Period size: 49 Copynumber: 1.9 Consensus size: 49
778026 TTTTGAAGTT
778036 AAATATAATCTTAATTGATAGTTCAGTAACCTTCAATATAATTTAACTA
1 AAATATAATCTTAATTGATAGTTCAGTAACCTTCAATATAATTTAACTA
778085 AAATATAATCTTAATTGATAGTTCAGTAACCTTCAATATAATTTA
1 AAATATAATCTTAATTGATAGTTCAGTAACCTTCAATATAATTTA
778130 CCCATTTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (49 bp):
AAATATAATCTTAATTGATAGTTCAGTAACCTTCAATATAATTTAACTA
Found at i:789513 original size:2 final size:2
Alignment explanation
Indices: 789506--789530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
789496 GTTGTTTGTT
789506 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
789531 TTGATGAAAA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:791848 original size:18 final size:18
Alignment explanation
Indices: 791822--791856 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
791812 ATGCTGGTAT
*
791822 TATACTTTTTTTTTTGGC
1 TATACTTTTGTTTTTGGC
*
791840 TATAGTTTTGTTTTTGG
1 TATACTTTTGTTTTTGG
791857 GGTCTATTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.66
Consensus pattern (18 bp):
TATACTTTTGTTTTTGGC
Found at i:793420 original size:13 final size:13
Alignment explanation
Indices: 793402--793426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
793392 ATGAAATGTG
793402 ATTTCAATTTTAA
1 ATTTCAATTTTAA
793415 ATTTCAATTTTA
1 ATTTCAATTTTA
793427 TAGGGATTGA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTCAATTTTAA
Found at i:794118 original size:151 final size:148
Alignment explanation
Indices: 793840--794357 Score: 634
Period size: 151 Copynumber: 3.5 Consensus size: 148
793830 TTGAACACTC
*
793840 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTAGTTTGCATTTTGTGTT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
* * * *
793905 TGAAATTGAAGTTTGAGATCGAAGTTGGTAAGAATATGGTTCTGTATATTTGGGAGCT-GAGTGT
66 CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATA-AGTTCTGT-TATTTGGGAG-TGGAGTGT
793969 TGAGATGGGAAGTACTTCCCGA
128 TG-GATGGGAAGTACTTCCCGA
** * *
793991 TTGGTATGAATTCGTAATCTTAAACCATCACGTTTCGAAAGTTAACTTGGTTTGCATTGTGTGTT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
*
794056 CGAAATCGAAGTTTGAGATCAAAGTTGTTAAGAATACAGTTCTGTTTATTTGGGAGTGGAGTGTT
66 CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATA-AGTTCTG-TTATTTGGGAGTGGAGTGTT
794121 GGGATGGGAAGTACTTCCCGA
129 -GGATGGGAAGTACTTCCCGA
* * *
794142 TTGGTATGAATTCGTAAT-TATAAATGATCGTGTTTCGAATGTTAACTAGGTTTGCATTTTGTGT
1 TTGGTATGAATTCGTAATCT-TAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGT
* * *
794206 TCGAAA-CTGAAGTTTGAGTTTGAAGTTGTTAAGAAT-A--TC--------GGGAGCGGAGTGTT
65 TCGAAATC-GAAGTTTGAGATCGAAGTTGTTAAGAATAAGTTCTGTTATTTGGGAGTGGAGTGTT
*
794259 GGAATGGGAAGTACTTCCTGA
129 GG-ATGGGAAGTACTTCCCGA
* * *
794280 TTGGTATGAATTTGTAATCATAAATGATTATGTTTC-AAATGTTAACTTGGTTTGCATTTTGTGT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAA-GTTAACTTGGTTTGCATTTTGTGT
* *
794344 TTGAAATTGAAGTT
65 TCGAAATCGAAGTT
794358 AAGAATCCGG
Statistics
Matches: 327, Mismatches: 31, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
137 4 0.01
138 95 0.29
147 2 0.01
149 1 0.00
150 3 0.01
151 220 0.67
152 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (148 bp):
TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATAAGTTCTGTTATTTGGGAGTGGAGTGTTGG
ATGGGAAGTACTTCCCGA
Found at i:794325 original size:138 final size:138
Alignment explanation
Indices: 794107--794357 Score: 403
Period size: 138 Copynumber: 1.8 Consensus size: 138
794097 CTGTTTATTT
* * * *
794107 GGGAGTGGAGTGTTGGGATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATTATAAATGATCG
1 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
*
794172 TGTTTCGAATGTTAACTAGGTTTGCATTTTGTGTTCGAAACTGAAGTTTGAGTTTGAAGTTGTTA
66 TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAACTGAAGTTTGAGTTTGAAGTTGTTA
794237 AGAATATC
131 AGAATATC
* * *
794245 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCTGATTGGTATGAATTTGTAATCATAAATGATTA
1 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
* * *
794310 TGTTTCAAATGTTAACTTGGTTTGCATTTTGTGTTTGAAATTGAAGTT
66 TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAACTGAAGTT
794358 AAGAATCCGG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.38
Consensus pattern (138 bp):
GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAACTGAAGTTTGAGTTTGAAGTTGTTA
AGAATATC
Found at i:799042 original size:30 final size:30
Alignment explanation
Indices: 799006--799108 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
798996 TTTCTCATAG
*
799006 AGGGTTCGCACGTATAGGGTTTGCCCATCT
1 AGGGTTCGCACGTATAGGGTTTGCACATCT
* * * **
799036 AGGGTTCGCATGTTTAGGGGGTCTATACATCT
1 AGGGTTCGCACGTATA--GGGTTTGCACATCT
* * * *
799068 AAGGTTCACATGTATAGGGTTTGCACGTCT
1 AGGGTTCGCACGTATAGGGTTTGCACATCT
*
799098 AGGATTCGCAC
1 AGGGTTCGCAC
799109 ATAAAGAGTT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
30 31 0.57
32 23 0.43
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (30 bp):
AGGGTTCGCACGTATAGGGTTTGCACATCT
Found at i:799176 original size:23 final size:23
Alignment explanation
Indices: 799150--799269 Score: 84
Period size: 23 Copynumber: 5.3 Consensus size: 23
799140 GTAAGCATAC
*
799150 AGGGTTCGCATAGTAAACCAAGT
1 AGGGTTCGCATAGTAAAACAAGT
* * *
799173 AGGGTTCGCAT-GTTTAGACATGT
1 AGGGTTCGCATAG-TAAAACAAGT
* * *
799196 AAGGTTCACATATTAAAACAAGT
1 AGGGTTCGCATAGTAAAACAAGT
* *
799219 AGGGTTCACATA-TCAAAACAAAT
1 AGGGTTCGCATAGT-AAAACAAGT
* * *
799242 AGGGTTAGCAT-GTTAAACATGT
1 AGGGTTCGCATAGTAAAACAAGT
*
799264 AAGGTT
1 AGGGTT
799270 TCGCGAAAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 9
0.74 0.18 0.09
Matches are distributed among these distances:
22 13 0.17
23 62 0.83
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (23 bp):
AGGGTTCGCATAGTAAAACAAGT
Found at i:802774 original size:10 final size:10
Alignment explanation
Indices: 802759--802789 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
802749 TAAATCCCGG
802759 AATCTATATT
1 AATCTATATT
802769 AATCTATATT
1 AATCTATATT
802779 AATCTATATT
1 AATCTATATT
802789 A
1 A
802790 CTGTAAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (10 bp):
AATCTATATT
Found at i:808496 original size:12 final size:12
Alignment explanation
Indices: 808479--808505 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
808469 TAATAACCTC
808479 GCATGGCCAGTT
1 GCATGGCCAGTT
808491 GCATGGCCAGTT
1 GCATGGCCAGTT
808503 GCA
1 GCA
808506 GCGATGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (12 bp):
GCATGGCCAGTT
Found at i:809616 original size:2 final size:2
Alignment explanation
Indices: 809609--809633 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
809599 TCTCTTGTTG
809609 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
809634 GGTTAAAATG
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:810251 original size:17 final size:17
Alignment explanation
Indices: 810229--810263 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
810219 CCCAATAAGT
810229 TAGGACACGATCTCCTC
1 TAGGACACGATCTCCTC
810246 TAGGACACGATCTCCTC
1 TAGGACACGATCTCCTC
810263 T
1 T
810264 TAATTCCCTA
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:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (17 bp):
TAGGACACGATCTCCTC
Found at i:811079 original size:3 final size:3
Alignment explanation
Indices: 811064--811121 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
811054 AAAGGTATAC
*
811064 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
811112 ATA ATA ATA A
1 ATA ATA ATA A
811122 GAGTACAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:813487 original size:10 final size:10
Alignment explanation
Indices: 813486--813530 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
813476 TTAATTAAGG
813486 TTAAGGTTAA
1 TTAAGGTTAA
*
813496 TTAA-TTTAA
1 TTAAGGTTAA
813505 TTAA--TTAA
1 TTAAGGTTAA
813513 TTAAGGTTAA
1 TTAAGGTTAA
813523 TTAAGGTT
1 TTAAGGTT
813531 TAATCTAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (10 bp):
TTAAGGTTAA
Found at i:816014 original size:24 final size:25
Alignment explanation
Indices: 815987--816038 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
815977 TAACAGGTAA
* *
815987 CTCTGAAGAGCTAT-TATCAGGAAG
1 CTCTGAAGAGCCATATATCAAGAAG
* *
816011 CTCTGGATAGCCATATATCAAGAAG
1 CTCTGAAGAGCCATATATCAAGAAG
816036 CTC
1 CTC
816039 AAGCGGGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
CTCTGAAGAGCCATATATCAAGAAG
Found at i:819093 original size:27 final size:28
Alignment explanation
Indices: 819038--819095 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
819028 TAACCACTCT
* *
819038 TTTTTTCTTTCTCGATTTCTTAAACCAA
1 TTTTTTCTCTCTCGATTGCTTAAACCAA
819066 TTTTTTCTCTCTCGTATTGC-TAAA-CAA
1 TTTTTTCTCTCTCG-ATTGCTTAAACCAA
819093 TTT
1 TTT
819096 CTTAGCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 17 0.63
29 4 0.15
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTTTTCTCTCTCGATTGCTTAAACCAA
Found at i:835838 original size:17 final size:19
Alignment explanation
Indices: 835809--835857 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
835799 TATGCTTTTT
*
835809 TTTAA-ATTTTTTTAAATA
1 TTTAATATTTTTTAAAATA
835827 TTT-ATATTTTTTAAAAATA
1 TTTAATATTTTTT-AAAATA
835846 TTTAATATTTTT
1 TTTAATATTTTT
835858 ATATTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 8 0.30
20 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATATTTTTTAAAATA
Found at i:835858 original size:19 final size:19
Alignment explanation
Indices: 835809--835858 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
835799 TATGCTTTTT
**
835809 TTTAA-ATTTTTTTAAATA
1 TTTAATATTTTTAAAAATA
835827 TTT-ATATTTTTTAAAAATA
1 TTTAATA-TTTTTAAAAATA
835846 TTTAATATTTTTA
1 TTTAATATTTTTA
835859 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 19 0.70
20 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATATTTTTAAAAATA
Found at i:838030 original size:19 final size:19
Alignment explanation
Indices: 838006--838043 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
837996 TAAGAATGCA
838006 TTGCAAGTCAACCAATTAT
1 TTGCAAGTCAACCAATTAT
838025 TTGCAAGTCAACCAATTAT
1 TTGCAAGTCAACCAATTAT
838044 AACATGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
TTGCAAGTCAACCAATTAT
Found at i:841597 original size:17 final size:16
Alignment explanation
Indices: 841549--841598 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
841539 GTCAAGATAC
*
841549 ATAAAATATTTTATAAA
1 ATAAAATAATTTAT-AA
* *
841566 AGAAAATAAATTATAA
1 ATAAAATAATTTATAA
841582 ATAAAATAATTGTATAA
1 ATAAAATAATT-TATAA
841599 TATTAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
ATAAAATAATTTATAA
Found at i:842627 original size:36 final size:37
Alignment explanation
Indices: 842574--842655 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 37
842564 TATACTAAAT
*
842574 GAGTGTCTGAAAATTGGGCTTGTAGATCCATGACTAAG
1 GAGTGTCT-AAAATTGGGCTTGTAAATCCATGACTAAG
*
842612 GAGTGTCT-AAATTGGGCTTGTAAATCCATGATTAAG
1 GAGTGTCTAAAATTGGGCTTGTAAATCCATGACTAAG
842648 GAGTGTCT
1 GAGTGTCT
842656 TATTCATGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 34 0.81
38 8 0.19
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (37 bp):
GAGTGTCTAAAATTGGGCTTGTAAATCCATGACTAAG
Found at i:843610 original size:2 final size:2
Alignment explanation
Indices: 843603--843635 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
843593 GTTTCTTCTT
*
843603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
843636 TCTCATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:851937 original size:78 final size:77
Alignment explanation
Indices: 851850--852014 Score: 251
Period size: 78 Copynumber: 2.1 Consensus size: 77
851840 TCTGCTTGGA
*
851850 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTAAT-TTTCTGGGTTTCTTTTTGGTGTTTGTT
1 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTT-ATCTTTCTGGGTTTCTTTTTGGTGCTTGTT
*
851914 TGGTGAAAAAAATG
65 TGATG-AAAAAATG
* *
851928 GAGGTAAAGTAAATTCTGGGTGTTTCTTTGATTTTTCTTTCTGGGTTTCTTTTTGGTGCTTGTTT
1 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTATCTTTCTGGGTTTCTTTTTGGTGCTTGTTT
*
851993 GATGAGAAAATG
66 GATGAAAAAATG
*
852005 AAGGTAAAGT
1 GAGGTAAAGT
852015 TTAACAATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
77 17 0.21
78 63 0.79
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.46
Consensus pattern (77 bp):
GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTATCTTTCTGGGTTTCTTTTTGGTGCTTGTTT
GATGAAAAAATG
Found at i:852733 original size:31 final size:32
Alignment explanation
Indices: 852698--852761 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
852688 CTTTTTGTTA
852698 TAAACCAGTC-GGGACATGACTTGGTTATTAC
1 TAAACCAGTCGGGGACATGACTTGGTTATTAC
852729 TAAACCAGTCGGGGACATGACTTGGTTATTAC
1 TAAACCAGTCGGGGACATGACTTGGTTATTAC
852761 T
1 T
852762 GAGTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (32 bp):
TAAACCAGTCGGGGACATGACTTGGTTATTAC
Found at i:855423 original size:13 final size:13
Alignment explanation
Indices: 855407--855431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
855397 TCAATTTTAG
855407 GTTATTTTGTCAA
1 GTTATTTTGTCAA
855420 GTTATTTTGTCA
1 GTTATTTTGTCA
855432 GTCATGTCAG
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:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (13 bp):
GTTATTTTGTCAA
Found at i:863755 original size:15 final size:16
Alignment explanation
Indices: 863725--863757 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
863715 ACTAAATCAA
863725 TTTTAAATAATATTAT
1 TTTTAAATAATATTAT
*
863741 TTTTTAATAAT-TTAT
1 TTTTAAATAATATTAT
863756 TT
1 TT
863758 AATTAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAATAATATTAT
Found at i:865344 original size:15 final size:15
Alignment explanation
Indices: 865324--865356 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
865314 TGATAACATG
865324 TTTGTTGTATCGTAT
1 TTTGTTGTATCGTAT
865339 TTTGTTGTATCGTAT
1 TTTGTTGTATCGTAT
865354 TTT
1 TTT
865357 TGGAAATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (15 bp):
TTTGTTGTATCGTAT
Found at i:867217 original size:8 final size:8
Alignment explanation
Indices: 867204--867233 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
867194 TATATATACT
867204 AAACTCTA
1 AAACTCTA
867212 AAACTCTAA
1 AAACTCT-A
867221 AAACTCTA
1 AAACTCTA
867229 AAACT
1 AAACT
867234 TTATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (8 bp):
AAACTCTA
Found at i:867242 original size:2 final size:2
Alignment explanation
Indices: 867235--867271 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
867225 TCTAAAACTT
867235 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
867272 GCACGAATAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:868054 original size:15 final size:15
Alignment explanation
Indices: 868034--868072 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
868024 ATAATAATCT
*
868034 AATTAAAATTCTTCA
1 AATTAAAATTCGTCA
*
868049 AATTAAAATTGGTCA
1 AATTAAAATTCGTCA
868064 AATTAAAAT
1 AATTAAAAT
868073 ATAGGGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (15 bp):
AATTAAAATTCGTCA
Found at i:870139 original size:120 final size:118
Alignment explanation
Indices: 869994--870223 Score: 329
Period size: 120 Copynumber: 1.9 Consensus size: 118
869984 TTTACTATAT
* *
869994 TTTAAAATTTTAAAAGTGCTTTATTTTCAATGGTTTGTCTGATTTGCCTT-TTCGAATGAG-ACT
1 TTTAAAATTTTAAAAGTACTTTATTTTCAATGGTTTGTCTGATTTGCCTTCTCCGAATG-GCACT
** ** *
870057 TGAATCCACTTCTTTTTAATTGTTGCAACAACAACAATGATATCAATAGAGTTTAAG
65 CAAATCCACGACTTTTTAATTATTG---CAACAACAATGATATCAATAGAGTTTAAG
*
870114 TTTAAAATTTTGAAAGTACTTTATTTTCAATGGTTTGTCTGATTTGCCTTCTCCGAATGGCACTC
1 TTTAAAATTTTAAAAGTACTTTATTTTCAATGGTTTGTCTGATTTGCCTTCTCCGAATGGCACTC
*
870179 AAATCCACGACTTTTTAATTATTGCAACAGCAATGATATCAATAG
66 AAATCCACGACTTTTTAATTATTGCAACAACAATGATATCAATAG
870224 GGTTAAGGCT
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
118 20 0.20
120 49 0.49
121 30 0.30
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (118 bp):
TTTAAAATTTTAAAAGTACTTTATTTTCAATGGTTTGTCTGATTTGCCTTCTCCGAATGGCACTC
AAATCCACGACTTTTTAATTATTGCAACAACAATGATATCAATAGAGTTTAAG
Found at i:870754 original size:20 final size:20
Alignment explanation
Indices: 870729--870767 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
870719 ACAAAGAAAT
*
870729 TAAGTTTAAGTACTTAATTG
1 TAAGTTCAAGTACTTAATTG
870749 TAAGTTCAAGTACTTAATT
1 TAAGTTCAAGTACTTAATT
870768 AGATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
TAAGTTCAAGTACTTAATTG
Found at i:873627 original size:23 final size:24
Alignment explanation
Indices: 873585--873629 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
873575 CCTTTAACTA
* *
873585 TTATTTATTTATTAATAAATAAGT
1 TTATTTAGTTATTAAAAAATAAGT
873609 TTATTTAGTT-TTAAAAAATAA
1 TTATTTAGTTATTAAAAAATAA
873630 AAAAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTATTTAGTTATTAAAAAATAAGT
Found at i:874178 original size:32 final size:31
Alignment explanation
Indices: 874120--874181 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
874110 GAAAGAATTT
874120 TTTAACATAAAGAGATAAATTTTCTATTTTA
1 TTTAACATAAAGAGATAAATTTTCTATTTTA
* *
874151 TTTATCATACAAGA-ATTAATTTATCTATTTT
1 TTTAACATA-AAGAGATAAATTT-TCTATTTT
874182 TTGAACAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTAACATAAAGAGATAAATTTTCTATTTTA
Found at i:876020 original size:202 final size:200
Alignment explanation
Indices: 875665--876263 Score: 724
Period size: 218 Copynumber: 2.9 Consensus size: 200
875655 AGTAAAGTTC
* * * * *
875665 AATACATTTGGATCCATAATTTAG-ATTTTT-TTTTTGAT-AATTCAGTTGATCTCAATGCTTAT
1 AATACATTTGGATACAGAATTTAGTTTTTTTATTTTTTATAAATTAAGTTGATCTCAATGCTTAT
* * * * *
875727 GTTATTGTTTCGCAACGAATTAAATGGTTTGAAAAGAGTAAGGTTAATCGATTAGGAGGATTCT-
66 ATTATTGTTTCGTAACGAGTTAAATGGTTCG-AAGGAGTAAGGTTAATCGATTAGGAGGATT-TA
875791 GTGTTTTATGTTTGATTCTAGATTTTGATTTTCAGGGAAATTTTGAATTTTTTGTTTTGTTTTGT
129 GTGTTTTATGTTTGATTCTAGATTTTGATTTTCAGGGAAATTTTGAATTTTTTGTTTTGTTTTGT
875856 TCGAATT
194 TCGAATT
875863 AATACATTTGGATACAGAATTTAGTTTTTTTATTATTATTATAAATTAAGTTGATCTCAATGCTT
1 AATACATTTGGATACAGAATTTAGTTTTTTTATT-TT-TTATAAATTAAGTTGATCTCAATGCTT
* *
875928 ATATTATTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTA
64 ATATTATTGTTTCGTAACGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAGGAGGATTTA
* * *
875993 GTGTTTCATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGT
129 GTGTTTTATGTTTGATTCTAGATTTTGATTTTCAGGGAAATTTTGAATTTTTTGTTTTGTTTTGT
876058 TCGAATT
194 TCGAATT
* * ** ***
876065 AGATGCTTGAATTAGTAAAGTTCAATACATTTGAATACAGAATTTAGATATTTTTTATAAATTAA
1 A-ATAC----ATT--T---G---GATACA---GAATTTAG--TTTTTTTATTTTTTATAAATTAA
876130 GTTGATCTCAATGCTTATATTATTGTTTCGTAACGAGTTAAATGG-TCTGAAGGAGTAAGGTTAA
48 GTTGATCTCAATGCTTATATTATTGTTTCGTAACGAGTTAAATGGTTC-GAAGGAGTAAGGTTAA
* *
876194 TTGATTAGGAGGATTTAGTGTTTTATGTTTGATAT-TAGATTTTTATTTTCAGGGAAATTTTGAA
112 TCGATTAGGAGGATTTAGTGTTTTATGTTTGAT-TCTAGATTTTGATTTTCAGGGAAATTTTGAA
876258 TTTTTT
176 TTTTTT
876264 TTTGGTTGAA
Statistics
Matches: 346, Mismatches: 29, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
198 22 0.06
199 5 0.01
200 2 0.01
201 3 0.01
202 101 0.29
203 52 0.15
207 3 0.01
209 1 0.00
212 1 0.00
215 5 0.01
217 2 0.01
218 139 0.40
219 3 0.01
220 7 0.02
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (200 bp):
AATACATTTGGATACAGAATTTAGTTTTTTTATTTTTTATAAATTAAGTTGATCTCAATGCTTAT
ATTATTGTTTCGTAACGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAGGAGGATTTAGT
GTTTTATGTTTGATTCTAGATTTTGATTTTCAGGGAAATTTTGAATTTTTTGTTTTGTTTTGTTC
GAATT
Found at i:876324 original size:218 final size:214
Alignment explanation
Indices: 875901--876318 Score: 641
Period size: 218 Copynumber: 1.9 Consensus size: 214
875891 TTTATTATTA
875901 TTATAAATTAAGTTGATCTCAATGCTTATATTATTGTTTCGTAAAGAGTTAAATGGTTCGAAGGA
1 TTATAAATTAAGTTGATCTCAATGCTTATATTATTGTTTCGTAAAGAGTTAAATGGTTCGAAGGA
875966 GTAAGGTTAATCGATTAAGAGGATTTAGTGTTTCATGTTTGATTCTAGATTTTGATTTTCAGGGA
66 GTAAGGTTAATCGATTAAGAGGATTTAGTGTTTCATGTTTGATTCTAGATTTTGATTTTCAGGGA
*
876031 AAATTTGAATTTTTGGTTTTGTTTTGTTCGAATTAGATGCTTGAATTAGTAAAGTTCAATACATT
131 AAATTTGAATTTTT-GTTTTG---TGTTCGAAATAGATGCTTGAATTAGTAAAGTTCAATACATT
876096 TGAATACAGAATTTAGATATTTT
192 TGAATACAGAATTTAGATATTTT
*
876119 TTATAAATTAAGTTGATCTCAATGCTTATATTATTGTTTCGTAACGAGTTAAATGG-TCTGAAGG
1 TTATAAATTAAGTTGATCTCAATGCTTATATTATTGTTTCGTAAAGAGTTAAATGGTTC-GAAGG
* * * *
876183 AGTAAGGTTAATTGATTAGGAGGATTTAGTGTTTTATGTTTGATAT-TAGATTTTTATTTTCAGG
65 AGTAAGGTTAATCGATTAAGAGGATTTAGTGTTTCATGTTTGAT-TCTAGATTTTGATTTTCAGG
* *
876247 GAAATTTTGAATTTTT-TTTTG-GTT-GAAATAGATGTTTGAATTAGTAAAGTTTC-ATACATTT
129 GAAAATTTGAATTTTTGTTTTGTGTTCGAAATAGATGCTTGAATTAGTAAAG-TTCAATACATTT
* *
876308 GGATATAGAAT
193 GAATACAGAAT
876319 ACAGAAGAAT
Statistics
Matches: 187, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
211 40 0.21
212 6 0.03
216 5 0.03
217 2 0.01
218 133 0.71
219 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.44
Consensus pattern (214 bp):
TTATAAATTAAGTTGATCTCAATGCTTATATTATTGTTTCGTAAAGAGTTAAATGGTTCGAAGGA
GTAAGGTTAATCGATTAAGAGGATTTAGTGTTTCATGTTTGATTCTAGATTTTGATTTTCAGGGA
AAATTTGAATTTTTGTTTTGTGTTCGAAATAGATGCTTGAATTAGTAAAGTTCAATACATTTGAA
TACAGAATTTAGATATTTT
Found at i:880085 original size:4 final size:4
Alignment explanation
Indices: 880058--880104 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
880048 TTAGAGCTTC
* * * *
880058 CATA CATA CGTA CATG CATG CATA CATA CATA CAAA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
880105 GGTAAAAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:881769 original size:22 final size:22
Alignment explanation
Indices: 881734--881775 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
881724 TTAGAAATTG
* *
881734 ATTAAAAAATCAATATATTACC
1 ATTAAAAAACCAATAAATTACC
*
881756 ATTAAAAACCCAATAAATTA
1 ATTAAAAAACCAATAAATTA
881776 TGAGTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTAAAAAACCAATAAATTACC
Found at i:882213 original size:13 final size:13
Alignment explanation
Indices: 882180--882204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
882170 TAACAAAAAT
882180 TAAAAAAAAATTC
1 TAAAAAAAAATTC
882193 TAAAAAAAAATT
1 TAAAAAAAAATT
882205 TATGAAAAAT
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAAAATTC
Found at i:891089 original size:24 final size:25
Alignment explanation
Indices: 891061--891107 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
891051 TTATGTATTT
*
891061 TATATTATATTAAAAT-TAAATATA
1 TATATAATATTAAAATGTAAATATA
*
891085 TATATAATATTATAATGTAAATA
1 TATATAATATTAAAATGTAAATA
891108 AAACTCCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TATATAATATTAAAATGTAAATATA
Found at i:908151 original size:16 final size:16
Alignment explanation
Indices: 908107--908152 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
908097 AATAATTTAA
908107 AAAATTATAAAATATTC
1 AAAATTATAAAA-ATTC
*
908124 ATAAAATA-AAAAATTC
1 A-AAATTATAAAAATTC
908140 AAAATTATAAAAA
1 AAAATTATAAAAA
908153 AGATAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 5 0.20
18 5 0.20
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATTATAAAAATTC
Found at i:911723 original size:5 final size:5
Alignment explanation
Indices: 911713--911741 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
911703 CTAGTCAGAT
911713 TTAGC TTAGC TTAGC TTAGC TTAGC TTAG
1 TTAGC TTAGC TTAGC TTAGC TTAGC TTAG
911742 TATATAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (5 bp):
TTAGC
Found at i:912837 original size:19 final size:19
Alignment explanation
Indices: 912800--912836 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
912790 GTCAATAAAT
912800 TATTTAAAAATTATAAAAA
1 TATTTAAAAATTATAAAAA
912819 TATTTAAAAATT-TAAAAA
1 TATTTAAAAATTATAAAAA
912837 AAAGCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTTAAAAATTATAAAAA
Found at i:915631 original size:59 final size:59
Alignment explanation
Indices: 915535--915658 Score: 194
Period size: 59 Copynumber: 2.1 Consensus size: 59
915525 TGACCAAAAC
* *
915535 ATAAATTCACTAATAGTTTAGCGACTTTGAATGTAGTTTACCCATAATTAAAACGATCT
1 ATAAATTCACTAATAGTTTAGCGACTTTAAATCTAGTTTACCCATAATTAAAACGATCT
* * * *
915594 ATAAATTTATTAATAGTTTAGCGACTTTAAATCTAGTTTATCCATAATTAGAACGATCT
1 ATAAATTCACTAATAGTTTAGCGACTTTAAATCTAGTTTACCCATAATTAAAACGATCT
915653 ATAAAT
1 ATAAAT
915659 ATTAGATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (59 bp):
ATAAATTCACTAATAGTTTAGCGACTTTAAATCTAGTTTACCCATAATTAAAACGATCT
Done.