Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold331
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: 1033222
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.30
Warning! 83795 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:285657 original size:175 final size:175
Alignment explanation
Indices: 285421--285815 Score: 533
Period size: 175 Copynumber: 2.2 Consensus size: 175
285411 TCTTCCTGGT
* * *
285421 CAGCAGTGGAATAGGTTGAAGATTGT-GAATCC-TATCTCCCTGAGCAGCAGTGGAATAGGTTGA
1 CAGCAGTGG-AGAGGTTGAAGATTGTAG-A-CCTTATCTCCCTAAGCAGCAATGGAATAGGTTGA
* *
285484 AAATTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTTC
63 AAATTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCAAAGACGGCGAATCTCATCTTCC
285549 CAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAG
128 CAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAG
* *
285597 CAGCAGTGGAGAGGTTGAAGATTGTAGACCTTATCTCCCTAATCAGCAATGGAGTAGGTTGAAAA
1 CAGCAGTGGAGAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAATGGAATAGGTTGAAAA
* * * * * *
285662 TTACAGATCTTATCTTCGTAAGCAGTAGTGGAGCAGATCAAAGACGGTGATTCTTATCTTCCCAA
66 TTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCAAAGACGGCGAATCTCATCTTCCCAA
* * * *
285727 GGTAGTAGGGAAGCATATTTAAGCTACTAGTCTTATCTCTCTGAG
131 GGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAG
* * ** **
285772 CAGCAGTGGAGTAGGCTGAAAATTACAGATTTTATCTCCCTAAG
1 CAGCAGTGGAG-AGGTTGAAGATTGTAGACCTTATCTCCCTAAG
285816 TTGTAGTGGA
Statistics
Matches: 192, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 2 0.01
175 155 0.81
176 35 0.18
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (175 bp):
CAGCAGTGGAGAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAATGGAATAGGTTGAAAA
TTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCAAAGACGGCGAATCTCATCTTCCCAA
GGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAG
Found at i:285694 original size:44 final size:43
Alignment explanation
Indices: 285582--285694 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
285572 AAGCCACTAG
* * **
285582 CCTTATCTCCCTGAGCAGCAGTGGAGAGGTTGAAGATTGTAGA
1 CCTTATCTCCCTAAGCAGCAGTGGAGAGGTTGAAAATTACAGA
* *
285625 CCTTATCTCCCTAATCAGCAATGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTAAGCAGCAGTGGAG-AGGTTGAAAATTACAGA
* * * *
285669 TCTTATCTTCGTAAGCAGTAGTGGAG
1 CCTTATCTCCCTAAGCAGCAGTGGAG
285695 CAGATCAAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
43 23 0.40
44 34 0.60
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
CCTTATCTCCCTAAGCAGCAGTGGAGAGGTTGAAAATTACAGA
Found at i:285978 original size:44 final size:45
Alignment explanation
Indices: 285928--286030 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
285918 ATCGTATCAG
*
285928 GTCTTATCTCCCTGAGGTTGCAGCGGA-GCAGACTGAGAA-AGCAA
1 GTCTTATCTCCCTGAAGTTGCAG-GGAGGCAGACTGAGAATAGCAA
* * * *
285972 GTCTTATCCCCCTAAAGTTGTAGTGAGGCAGACTGAGAATAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGGGAGGCAGACTGAGAATAGCAA
*
286017 ATCTTA-CTTCCCTG
1 GTCTTATC-TCCCTG
286031 GCGGTGTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.04
44 32 0.67
45 14 0.29
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGGGAGGCAGACTGAGAATAGCAA
Found at i:286491 original size:22 final size:23
Alignment explanation
Indices: 286463--286506 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
286453 NNNNNNNNNN
286463 GATATGA-TATGCAATCTTAGAA
1 GATATGATTATGCAATCTTAGAA
* *
286485 GATATGATTTTGTAATCTTAGA
1 GATATGATTATGCAATCTTAGA
286507 GATTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (23 bp):
GATATGATTATGCAATCTTAGAA
Found at i:286754 original size:23 final size:23
Alignment explanation
Indices: 286710--286755 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
286700 TCTTATTTTG
* *
286710 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
286733 TTGATTTGTATATTGTTGATTTA
1 TTGATTTGTATATAATTGATTTA
286756 AAATCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:286935 original size:9 final size:9
Alignment explanation
Indices: 286915--286952 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
286905 AATATGTATA
286915 TTTATATTTT
1 TTTAT-TTTT
286925 TTTATTTTT
1 TTTATTTTT
286934 TTTATTTTT
1 TTTATTTTT
286943 TTTATTTTT
1 TTTATTTTT
286952 T
1 T
286953 ATAATTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:286992 original size:23 final size:22
Alignment explanation
Indices: 286963--287006 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
286953 ATAATTCACA
*
286963 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
286986 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
287007 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:287194 original size:3 final size:3
Alignment explanation
Indices: 287188--287217 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
287178 TTATCTTTTC
287188 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
287218 GTTCTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:294757 original size:17 final size:18
Alignment explanation
Indices: 294724--294768 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
294714 CGTTATGTCT
294724 GCGACCGCGA-C--AAAC
1 GCGACCGCGACCGAAAAC
294739 GCGA-CGCGACCGAAAAC
1 GCGACCGCGACCGAAAAC
294756 GCGACCGCGACCG
1 GCGACCGCGACCG
294769 CAATTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
17 8 0.31
18 8 0.31
ACGTcount: A:0.29, C:0.40, G:0.31, T:0.00
Consensus pattern (18 bp):
GCGACCGCGACCGAAAAC
Found at i:303116 original size:18 final size:18
Alignment explanation
Indices: 303093--303128 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
303083 GTGGACGTTA
303093 AGGAAAATTGAAAATGGC
1 AGGAAAATTGAAAATGGC
*
303111 AGGAAAATTGAAAGTGGC
1 AGGAAAATTGAAAATGGC
303129 TATACGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.17
Consensus pattern (18 bp):
AGGAAAATTGAAAATGGC
Found at i:303585 original size:13 final size:14
Alignment explanation
Indices: 303557--303586 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
303547 ATTAAAAAAT
303557 AATTAATTTCTAAA
1 AATTAATTTCTAAA
303571 AATTAATTT-TAAA
1 AATTAATTTCTAAA
303584 AAT
1 AAT
303587 ATTTTTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAATTTCTAAA
Found at i:316666 original size:19 final size:18
Alignment explanation
Indices: 316619--316654 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
316609 TGGTACTCCA
316619 TGAAATTCCAAAATACAG
1 TGAAATTCCAAAATACAG
316637 TGAAATTCCAAAATACAG
1 TGAAATTCCAAAATACAG
316655 ATATACTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (18 bp):
TGAAATTCCAAAATACAG
Found at i:318476 original size:61 final size:57
Alignment explanation
Indices: 318408--318522 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 57
318398 AGTGATTATC
* *
318408 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAATATTATA-TAATTTAATAGAT
* *
318469 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATAATTTAATA
318523 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 10 0.20
58 11 0.22
59 1 0.02
60 1 0.02
61 27 0.54
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (57 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATAATTTAATAGAT
Found at i:318542 original size:57 final size:60
Alignment explanation
Indices: 318410--318543 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 60
318400 TGATTATCTT
* * * *
318410 AATATTAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATA-ATTA
*
318471 AATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATA-TAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTA
*
318526 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
318544 ATAGTTGAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 5 0.08
56 1 0.02
57 21 0.32
58 11 0.17
59 1 0.02
60 1 0.02
61 25 0.38
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTA
Found at i:321924 original size:39 final size:39
Alignment explanation
Indices: 321881--321981 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
321871 ATTCACTTTT
* * * *
321881 AAGCATATATCAT-ATTACACATATAATCACCTAATATAC
1 AAGCATATATC-TCAATACACAAATAATCACATAACATAC
* *
321920 AAGCATATATCTCAATACTCAAATAATCACATAACATTC
1 AAGCATATATCTCAATACACAAATAATCACATAACATAC
* *
321959 AAGCATATATCCCAATACTCAAA
1 AAGCATATATCTCAATACACAAA
321982 AACACCTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.02
39 53 0.98
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (39 bp):
AAGCATATATCTCAATACACAAATAATCACATAACATAC
Found at i:337197 original size:16 final size:18
Alignment explanation
Indices: 337171--337203 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
337161 TAGAATTTGG
337171 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
337188 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
337204 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:341767 original size:26 final size:26
Alignment explanation
Indices: 341734--341809 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
341724 TTTTACTCTA
*
341734 GTAAAATTTTAATAATTTTACCCCAG
1 GTAAAATTTTAATGATTTTACCCCAG
**
341760 GTAAAATTTTAATGATTTTACCCTTG
1 GTAAAATTTTAATGATTTTACCCCAG
* *
341786 TTAAAATTTTAACGATTTTACCCC
1 GTAAAATTTTAATGATTTTACCCC
341810 TAATAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTAATGATTTTACCCCAG
Found at i:341816 original size:26 final size:26
Alignment explanation
Indices: 341735--341821 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
341725 TTTACTCTAG
* *
341735 TAAAATTTTAATAATTTTACCCC-AGG
1 TAAAATTTTAATGATTTTACCCCTA-A
* **
341761 TAAAATTTTAATGATTTTACCCTTGT
1 TAAAATTTTAATGATTTTACCCCTAA
*
341787 TAAAATTTTAACGATTTTACCCCTAA
1 TAAAATTTTAATGATTTTACCCCTAA
341813 TAAAATTTT
1 TAAAATTTT
341822 GAGAAATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (26 bp):
TAAAATTTTAATGATTTTACCCCTAA
Found at i:342790 original size:12 final size:12
Alignment explanation
Indices: 342773--342797 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
342763 CCGATATACT
342773 ATCAGTATAATC
1 ATCAGTATAATC
342785 ATCAGTATAATC
1 ATCAGTATAATC
342797 A
1 A
342798 GTCACATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCAGTATAATC
Found at i:359832 original size:23 final size:22
Alignment explanation
Indices: 359789--359832 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
359779 TTCTAAGTCG
359789 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
359812 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
359833 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:359934 original size:45 final size:45
Alignment explanation
Indices: 359879--359965 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
359869 CAGATACTCG
* *
359879 GTGGAGTCAACACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCA
*
359924 GTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
359966 TTGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:368274 original size:39 final size:39
Alignment explanation
Indices: 368210--368405 Score: 250
Period size: 39 Copynumber: 5.0 Consensus size: 39
368200 CAGCCTGTTA
* * *
368210 GGCACAAAGCCTACTAAGCATTTAGCCCGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
* *
368249 GGCACAAAGCCTGTTAGGTACTTAGCCCGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
* * * * *
368288 GGCACAATA-CTTGCTAGGCACTTAGCCTGAACATTCACT
1 GGCACAA-AGCCTGCTAGGCACTTAGCCCGAATAATCACC
* *
368327 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
**
368366 GATACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
368405 G
1 G
368406 TATTTCTGTT
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 134 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCACC
Found at i:373985 original size:26 final size:27
Alignment explanation
Indices: 373956--374028 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
373946 CGATTACAAG
373956 TGGAATATAAGATTACCT-TGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
* * *
373982 TGGAATGTAAAATT-CATGTGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
*
374008 TGACAAAATATAAGATTACCT
1 TG---GAATATAAGATTACCT
374029 AAAAGTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.06
26 22 0.63
29 9 0.26
30 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGAATATAAGATTACCTGTGTTTGGT
Found at i:387972 original size:25 final size:25
Alignment explanation
Indices: 387884--388019 Score: 76
Period size: 25 Copynumber: 5.4 Consensus size: 25
387874 GGCAATCACA
* * * *
387884 AGCTTCTCATTATTTAGATCTCATG
1 AGCTTCCCATTATTTGGCTCGCATG
* * *
387909 AGCTTCCCGATTA-ATGGCTCTCTTG
1 AGCTTCCC-ATTATTTGGCTCGCATG
* * *
387934 AGCTTCTCAATATTTGGCTCGCAAG
1 AGCTTCCCATTATTTGGCTCGCATG
** **
387959 AGCTTCCCATTATTCAGCTCATATG
1 AGCTTCCCATTATTTGGCTCGCATG
* * * * **
387984 AGTTTCCCGTTATATGGCTCGGAAA
1 AGCTTCCCATTATTTGGCTCGCATG
388009 AGCTTCCCATT
1 AGCTTCCCATT
388020 TACATGAATT
Statistics
Matches: 80, Mismatches: 29, Indels: 4
0.71 0.26 0.04
Matches are distributed among these distances:
24 3 0.04
25 73 0.91
26 4 0.05
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (25 bp):
AGCTTCCCATTATTTGGCTCGCATG
Found at i:389385 original size:17 final size:16
Alignment explanation
Indices: 389352--389385 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
389342 GATTTGTTTC
*
389352 TGATATGAATGTTTGT
1 TGATATGAATGTCTGT
389368 TGATATGAAATGTCTGT
1 TGATATG-AATGTCTGT
389385 T
1 T
389386 ATTTGATCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (16 bp):
TGATATGAATGTCTGT
Found at i:394932 original size:25 final size:25
Alignment explanation
Indices: 394838--394984 Score: 91
Period size: 25 Copynumber: 5.9 Consensus size: 25
394828 ACAATTCTTG
* * *
394838 TGAGCGTCCCAATACTTGGCTCTCA
1 TGAGCTTCCCGATATTTGGCTCTCA
* * * *
394863 CGAGCTTCCTGATATTTAGCTCCCA
1 TGAGCTTCCCGATATTTGGCTCTCA
* * *
394888 TGAGCTTCTCGAT-TAATGGCTCTCT
1 TGAGCTTCCCGATAT-TTGGCTCTCA
394913 TGAGCTTCCCGATATTTGGCTCGT-A
1 TGAGCTTCCCGATATTTGGCTC-TCA
* * *** *
394938 AGAGCTTCCCGTTATACAGCTCACA
1 TGAGCTTCCCGATATTTGGCTCTCA
* * *
394963 TGAGCTTCTCGTTATATGGCTC
1 TGAGCTTCCCGATATTTGGCTC
394985 GGAAGAGCTT
Statistics
Matches: 91, Mismatches: 27, Indels: 8
0.72 0.21 0.06
Matches are distributed among these distances:
24 1 0.01
25 88 0.97
26 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (25 bp):
TGAGCTTCCCGATATTTGGCTCTCA
Found at i:394943 original size:50 final size:50
Alignment explanation
Indices: 394854--394997 Score: 137
Period size: 50 Copynumber: 2.9 Consensus size: 50
394844 TCCCAATACT
* * * * * *
394854 TGGCTCTCACGAGCTTCCTGATATTTAGCTCCCATGAGCTTCTCGATTA-A
1 TGGCTCTCATGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCCG-TTATA
* *
394904 TGGCTCTCTTGAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCCGTTATA
1 TGGCTCTCATGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCCGTTATA
** * * * * *
394954 CAGCTCACATGAGCTTCTCGTTATATGGCTCGGAAGAGCTTCCC
1 TGGCTCTCATGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCC
394998 ATTTATATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 3 0.04
50 74 0.96
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (50 bp):
TGGCTCTCATGAGCTTCCCGATATTTGGCTCGCAAGAGCTTCCCGTTATA
Found at i:394992 original size:25 final size:25
Alignment explanation
Indices: 394914--394997 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
394904 TGGCTCTCTT
* * *
394914 GAGCTTCCCGATATTTGGCTCGTAA
1 GAGCTTCCCGTTATATGGCTCGCAA
** * *
394939 GAGCTTCCCGTTATACAGCTCACAT
1 GAGCTTCCCGTTATATGGCTCGCAA
* *
394964 GAGCTTCTCGTTATATGGCTCGGAA
1 GAGCTTCCCGTTATATGGCTCGCAA
394989 GAGCTTCCC
1 GAGCTTCCC
394998 ATTTATATTT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGCAA
Found at i:399441 original size:25 final size:25
Alignment explanation
Indices: 399413--399469 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
399403 ACATTAAAGT
**
399413 AATTTAACGGAGATATGTTAATTCA
1 AATTTAAAAGAGATATGTTAATTCA
399438 AATTTAAAAGAGATATGTTAATTCA
1 AATTTAAAAGAGATATGTTAATTCA
399463 AATTTAA
1 AATTTAA
399470 GCAAAATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (25 bp):
AATTTAAAAGAGATATGTTAATTCA
Found at i:401123 original size:6 final size:6
Alignment explanation
Indices: 401112--401187 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
401102 ACACACAAGG
* * * *
401112 AAAGAA AAAGAAA AAAGAA GAAGAA GAAGAA GAAGAA GAAGAA AAAGAA
1 AAAGAA AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* *
401161 GAAGAGAA AAATAA GAAAGGA AAAGAA
1 -AA-AGAA AAAGAA -AAAGAA AAAGAA
401188 GTGAGGAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 42 0.70
7 14 0.23
8 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:401134 original size:3 final size:3
Alignment explanation
Indices: 401113--401165 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
401103 CACACAAGGA
* *
401113 AAG AAA AAG AA- AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
401159 AAG AAG A
1 AAG AAG A
401166 GAAAAATAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:403510 original size:50 final size:50
Alignment explanation
Indices: 403453--403553 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
403443 AATGCATACT
403453 TGGTTATTATCAGTTGCTAGTTAAAGATTGTGATATACTAAAAACTATTG
1 TGGTTATTATCAGTTGCTAGTTAAAGATTGTGATATACTAAAAACTATTG
403503 TGGTTATTATCAGTTGCTAGTTAAAGATTGTGATATACTAAAAACTATTG
1 TGGTTATTATCAGTTGCTAGTTAAAGATTGTGATATACTAAAAACTATTG
403553 T
1 T
403554 TCAAACTCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (50 bp):
TGGTTATTATCAGTTGCTAGTTAAAGATTGTGATATACTAAAAACTATTG
Found at i:404978 original size:311 final size:312
Alignment explanation
Indices: 404410--405031 Score: 1036
Period size: 311 Copynumber: 2.0 Consensus size: 312
404400 AAAGTAGCTG
* *
404410 AGTTATATGTATTAGAGATTGTCAGATTAAATAGAGTATCATTGTCTATTATTTTCGAACAAGAT
1 AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
*
404475 CTGGGATTCACCTCGAGATTTTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
66 CTGGGATTCACCTCGAGATTCTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
** * *
404540 CTGAGGATAAATTTTGCATTATTCGAGATTATCAGTTGATCATTATCTTTTATATTCCGTATTAC
131 CTGAGGATAAATTTTAAATTATTCGAGATTATCAGTAGATCATTATCTTTCATATTCCGTATTAC
*
404605 ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCATATTGTCTTCTCAAGTAAAA
196 ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCATATTGTCTTCACAAGTAAAA
* * *
404670 ATTTCGTGGATGAAATTTCCTAAGGG-GGAGAGTTGTAGCAATCTGTTTTCC
261 ATTTCGAGGACGAAATTTCCTAAGGGTGGAGAGTTGTAACAATCTGTTTTCC
*
404721 AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTTGAACAAGAT
1 AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
404786 CTGGGATTCACCTCGAGA-TCTGAGGGAAACTCTATGAGGCTTT-GGGATAGATTTGATTAGTGA
66 CTGGGATTCACCTCGAGATTCTG-GGGAAACTCTATGAGGCTTTAGGG-TAGATTTGATTAGTGA
* * *
404849 AACTGAGGGTAAATTTTAAATTATTCGAGATTGTCAGTAGATGATTATCTTTCATATTCCGTATT
129 AACTGAGGATAAATTTTAAATTATTCGAGATTATCAGTAGATCATTATCTTTCATATTCCGTATT
*
404914 AGATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACTCA-ATTGTCTTCACAAGTA
194 ACATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATAC-CATATTGTCTTCACAAGTA
*
404978 AAAATTTCGAGGACGAAATTTCCTAAGGGTGGAGAGTTGTAACAGTCTGTTTTC
258 AAAATTTCGAGGACGAAATTTCCTAAGGGTGGAGAGTTGTAACAATCTGTTTTC
405032 TAGTGGTATC
Statistics
Matches: 290, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
310 6 0.02
311 260 0.90
312 24 0.08
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.34
Consensus pattern (312 bp):
AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
CTGGGATTCACCTCGAGATTCTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
CTGAGGATAAATTTTAAATTATTCGAGATTATCAGTAGATCATTATCTTTCATATTCCGTATTAC
ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCATATTGTCTTCACAAGTAAAA
ATTTCGAGGACGAAATTTCCTAAGGGTGGAGAGTTGTAACAATCTGTTTTCC
Found at i:417153 original size:9 final size:9
Alignment explanation
Indices: 417139--417177 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
417129 AGTTCATATT
*
417139 AAAAAAAAC
1 AAAAAAATC
*
417148 AAAAAAATT
1 AAAAAAATC
417157 AAAAAAATC
1 AAAAAAATC
417166 AAAAAAATC
1 AAAAAAATC
417175 AAA
1 AAA
417178 GTCAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:417159 original size:18 final size:18
Alignment explanation
Indices: 417136--417173 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
417126 GTGAGTTCAT
417136 ATTAAAAAAAACAAAAAA
1 ATTAAAAAAAACAAAAAA
*
417154 ATTAAAAAAATCAAAAAA
1 ATTAAAAAAAACAAAAAA
417172 AT
1 AT
417174 CAAAGTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
ATTAAAAAAAACAAAAAA
Found at i:418052 original size:18 final size:18
Alignment explanation
Indices: 418023--418076 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
418013 AAATATATAT
*
418023 AAAAAATG--AATGAAAG
1 AAAAAATGAAAATGAAAA
418039 AAAAAATGAAAATGAAAA
1 AAAAAATGAAAATGAAAA
418057 AAAAAATGCAAAA-GAAAA
1 AAAAAATG-AAAATGAAAA
418075 AA
1 AA
418077 TGGAGAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.24
18 22 0.65
19 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAAAATGAAAATGAAAA
Found at i:419759 original size:46 final size:46
Alignment explanation
Indices: 419276--419751 Score: 657
Period size: 46 Copynumber: 10.4 Consensus size: 46
419266 ACAGATCAAT
* * **
419276 GAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * ** *
419322 GAAGATAGCAGATCTTATCTTCATGTATTTGGCAGCGGAGAAGAAC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
419368 GAGGATAGCAGATCTTGTCTTCCTATAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
419414 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* ** * *
419460 GAAGATAGTAGATCTTGTCTTCCTAAAATTGGCAGCGGAGGGGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* *
419506 GAAGATAGCAGATCTTGCCTTCCTATATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
419552 GAGGATAGCAGATTTTATCTTCCTGTATTTGGCAGTGGAGAGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * *
419598 GAAGATAACAGATCTTGTCTTCCTATAATTGGCAACGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
419644 GAAGATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGG-GGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
419689 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
419735 GAAGATAGTAGATCTTG
1 GAAGATAGCAGATCTTG
419752 CCATCCTGCA
Statistics
Matches: 378, Mismatches: 51, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 0.11
46 335 0.89
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (46 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
Found at i:419854 original size:88 final size:88
Alignment explanation
Indices: 419744--420227 Score: 797
Period size: 88 Copynumber: 5.5 Consensus size: 88
419734 CGAAGATAGT
* * *
419744 AGATCTTGCCATCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTATCGATTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
419809 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
419832 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
419897 TGGTGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
419920 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
* * *
419985 TGAGGGAGCTAGTTAAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
420008 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTTGAACACACAAACATTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
*
420073 TGATGGAGCTGATTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
420096 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACATTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
420161 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
420184 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGGTCGAAGACAC
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACAC
420228 NNNNNNNNNN
Statistics
Matches: 370, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 370 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:425041 original size:88 final size:88
Alignment explanation
Indices: 424880--425591 Score: 1106
Period size: 88 Copynumber: 8.1 Consensus size: 88
424870 NNNNNNNNNN
* * * * *
424880 CGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGTTTGTGATTGAGCTTGTT-AAGGA-AAGT
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAA-GACAA-A
* *
424943 AGATCTTGCCTTCTTGCATTGACAG
64 AGATCTTGCCTTCCTGTATTGACAG
* * * * *
424968 CGCAGCAGGTCGAAGACACAAACTTTGCCTCCCTTGGTTGTGATGGAGCTGGTTGAAGACAACAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
425033 AT-TCTGCCTTCCTGTATTGACAG
66 ATCT-TGCCTTCCTGTATTGACAG
* * *
425056 CGAAGCAGGTCAAAGACGCAAACCTTGCCTCTCTCTGTTGTGATGGAGCTGGTTGAAGACAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
*
425121 ATCTTGCCTTCCTGTATTGACAA
66 ATCTTGCCTTCCTGTATTGACAG
* * *
425144 CGAAGCAGGTCTAAGACACAAACCTTGCCTTTCTCGGTTGTGATGGAGCTGGTTGAAGATAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
*
425209 ATCTTGCCTTCCTGCATTGACAG
66 ATCTTGCCTTCCTGTATTGACAG
*
425232 CGAAGCAGGTCGAAGACACAAACCTTGCCTTTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
*
425297 ATCTTGCCTTCCTGTATTGACAA
66 ATCTTGCCTTCCTGTATTGACAG
* *
425320 CGAAGCAGGTCTAAGACACAAACCTTGCCTTTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
* *
425385 ATTTTGCCTTTCTGTATTGACAG
66 ATCTTGCCTTCCTGTATTGACAG
* *
425408 CGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGATAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
*
425473 ATCTTGCCTTCCTGCATTGACAG
66 ATCTTGCCTTCCTGTATTGACAG
425496 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
1 CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
*
425561 ATCTTGCCTTCCTGTAATGACAG
66 ATCTTGCCTTCCTGTATTGACAG
425584 CGAAGCAG
1 CGAAGCAG
425592 ATAGAGGAAA
Statistics
Matches: 574, Mismatches: 46, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
87 1 0.00
88 568 0.99
89 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (88 bp):
CGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAG
ATCTTGCCTTCCTGTATTGACAG
Found at i:425696 original size:50 final size:50
Alignment explanation
Indices: 425618--425979 Score: 265
Period size: 50 Copynumber: 7.6 Consensus size: 50
425608 ATTGTAATTT
* ** * **
425618 AAAAGATTGAAGCCACAATGGCGAATCTTACTTTTCTAGCGTTGCAGTGG
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
* * * **
425668 AACAGATTGAAGCTACAACAGCAGATCTTGC--TTC-CCCG--GCAGTTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
* * * * *
425713 AAAAGATTGAAGCTACAACAGC-GAACTTGC--TTC---CCTGGAAGTTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
* * **
425757 AAAAGATTGAAGCTACAACAGCGGATCTTA-TATTCCTAGTGTTGCAGTGG
1 AAAAGATTGAAGCTACAACAGCGGATCTTACT-TTTCTAGCGTTGCAGTTA
* * * ** *
425807 AACAGATTGAAGCTATAACAGCGGATCTTGC--TTC-CCCG--ACAGTTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
* **
425852 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGG
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
* ** * *
425902 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAG-CGTTGCAGTTA
*
425952 AAAAGATTGAAGCTACAACAGCAGATCT
1 AAAAGATTGAAGCTACAACAGCGGATCT
425980 CACCCCCTAA
Statistics
Matches: 245, Mismatches: 51, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
42 1 0.00
44 38 0.16
45 63 0.26
47 7 0.03
48 7 0.03
49 1 0.00
50 128 0.52
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTAGCGTTGCAGTTA
Found at i:425725 original size:45 final size:45
Alignment explanation
Indices: 425671--425979 Score: 278
Period size: 50 Copynumber: 6.6 Consensus size: 45
425661 GCAGTGGAAC
*
425671 AGATTGAAGCTACAACAGCAGATCTTGCTTCCCCGGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAA
* * *
425716 AGATTGAAGCTACAACAGC-GAACTTGCTTCCCTGGAAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAA
** ** ** *
425760 AGATTGAAGCTACAACAGCGGATCTTATATTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTT-GCTTCC--CCG--GCAGTTAAAA
* *
425810 AGATTGAAGCTATAACAGCGGATCTTGCTTCCCCGACAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAA
* * ** *
425855 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CCG--GCAGTTAAAA
* * *
425905 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCC---C--GGCAGTTAAAA
*
425955 AGATTGAAGCTACAACAGCAGATCT
1 AGATTGAAGCTACAACAGCGGATCT
425980 CACCCCCTAA
Statistics
Matches: 214, Mismatches: 34, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
44 41 0.19
45 56 0.26
46 8 0.04
47 1 0.00
48 4 0.02
49 8 0.04
50 96 0.45
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAA
Found at i:425861 original size:95 final size:95
Alignment explanation
Indices: 425671--425979 Score: 382
Period size: 95 Copynumber: 3.3 Consensus size: 95
425661 GCAGTGGAAC
* * * ** *
425671 AGATTGAAGCTACAACAGCAGATCTTGC-TTCC--CCG--GCAGTTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
* *
425731 CAGC-GAACTTGCTTCCCTGGA-AGTTAAAA
66 CAGCGGATCTTGCTTCCC-CGACAGTTAAAA
* *
425760 AGATTGAAGCTACAACAGCGGATCTTA-TATTCCTAGTGTTGCAGTGGAACAGATTGAAGCTATA
1 AGATTGAAGCTACAACAGCGGATCTTACT-TTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACA
425824 ACAGCGGATCTTGCTTCCCCGACAGTTAAAA
65 ACAGCGGATCTTGCTTCCCCGACAGTTAAAA
425855 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
* *
425920 CAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
66 CAGCGGATCTTGCTTCCCCGACA--G---TTAAAA
*
425955 AGATTGAAGCTACAACAGCAGATCT
1 AGATTGAAGCTACAACAGCGGATCT
425980 CACCCCCTAA
Statistics
Matches: 191, Mismatches: 15, Indels: 17
0.86 0.07 0.08
Matches are distributed among these distances:
89 25 0.13
90 4 0.02
92 1 0.01
94 27 0.14
95 102 0.53
96 1 0.01
97 1 0.01
100 30 0.16
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAA
CAGCGGATCTTGCTTCCCCGACAGTTAAAA
Found at i:425868 original size:139 final size:139
Alignment explanation
Indices: 425618--425979 Score: 422
Period size: 139 Copynumber: 2.6 Consensus size: 139
425608 ATTGTAATTT
** *
425618 AAAAGATTGAAGCCACAATGGCGAATCTTACTTTTCTAGCGTTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTA
*
425683 CAACAGCAGATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCGAACTTGCTTCCC
66 CAACAGCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCGAACTTGCTTCCC
425748 TGGAAGTTA
131 TGGAAGTTA
* * *
425757 AAAAGATTGAAGCTACAACAGCGGATCTTA-TATTCCTAGTGTTGCAGTGGAACAGATTGAAGCT
1 AAAAGATTGAAGCCACAACAGCGAATCTTACT-TTCCTAGCGTTGCAGTGGAACAGATTGAAGCT
* * * *
425821 ATAACAGCGGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTT
65 ACAACAGCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGC-GAACTTGC-TT
* * **
425886 CCTAGCGTTGCAGTGG
128 CC---C-TGGAAGTTA
* * * * * * ** *
425902 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCT
1 AAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAG-CGTTGCAGTGGAACAGATTGAAGCT
425966 ACAACAGCAGATCT
65 ACAACAGCAGATCT
425980 CACCCCCTAA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
138 1 0.01
139 106 0.56
140 6 0.03
141 4 0.02
144 2 0.01
145 69 0.37
146 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (139 bp):
AAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTA
CAACAGCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCGAACTTGCTTCCC
TGGAAGTTA
Found at i:427709 original size:16 final size:16
Alignment explanation
Indices: 427673--427711 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
427663 CTTTAATTTA
427673 TATATATACATACTTT
1 TATATATACATACTTT
* **
427689 CATATATACATGTTTT
1 TATATATACATACTTT
427705 TATATAT
1 TATATAT
427712 TTCCATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:436702 original size:28 final size:28
Alignment explanation
Indices: 436644--436705 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
436634 AAAATAAATC
* *
436644 AATTATAAAAATTATTTAAAATTACTGA
1 AATTATAAAAATTATTTAAAAGTACTAA
* *
436672 AATTATTAAACTTATTTAAAAAGTA-TAA
1 AATTATAAAAATTATTT-AAAAGTACTAA
436700 AATTAT
1 AATTAT
436706 GAATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (28 bp):
AATTATAAAAATTATTTAAAAGTACTAA
Found at i:444664 original size:280 final size:280
Alignment explanation
Indices: 444163--444709 Score: 1040
Period size: 280 Copynumber: 2.0 Consensus size: 280
444153 ATACCCGTGT
*
444163 GAACTTAGTAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
1 GAACTTAATAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
444228 ATTTACATAATAGTATGAGATCTAATATTTGTTGTAGATTGTCAAGTTATACGTATCATTGGTTT
66 ATTTACATAATAGTATGAGATCTAATATTTGTTGTAGATTGTCAAGTTATACGTATCATTGGTTT
* *
444293 AACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCCTGTGTATCTAAT
131 AACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACATTCCTGTGTATCCAAT
*
444358 TTTGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTT
196 TTCGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTT
444423 GGATGTGGCATGTCATTAGG
261 GGATGTGGCATGTCATTAGG
444443 GAACTTAATAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
1 GAACTTAATAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
444508 ATTTACATAATAGTATGAGATCTAATATTTGTTGTAGATTGTCAAGTTATACGTATCATTGGTTT
66 ATTTACATAATAGTATGAGATCTAATATTTGTTGTAGATTGTCAAGTTATACGTATCATTGGTTT
*
444573 AACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACATTCTTGTGTATCCAAT
131 AACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACATTCCTGTGTATCCAAT
*
444638 TTCGTTGTACTATAGTTCTATTAGTTGAAACTAATCTAATGGAAGTGGAAATCTTAAAATGATTT
196 TTCGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTT
444703 GGATGTG
261 GGATGTG
444710 AATTACATAT
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
280 261 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (280 bp):
GAACTTAATAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
ATTTACATAATAGTATGAGATCTAATATTTGTTGTAGATTGTCAAGTTATACGTATCATTGGTTT
AACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACATTCCTGTGTATCCAAT
TTCGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTT
GGATGTGGCATGTCATTAGG
Found at i:446580 original size:45 final size:46
Alignment explanation
Indices: 446510--446607 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 46
446500 TGGACGACAA
* * *
446510 CAATGAAACAGTATGTCCCTGGAACTGTGGTCAGAATGTAGATTAT
1 CAATGCAACAGTATGTCCCTAGAACTGTGGTCAGAATGTAGACTAT
*
446556 C-ATGCAACAGTATGT-CCTCAGAACTGTGGTCAGGATGTAGACTAT
1 CAATGCAACAGTATGTCCCT-AGAACTGTGGTCAGAATGTAGACTAT
446601 CAATGCA
1 CAATGCA
446608 TGTGACTAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 3 0.07
45 37 0.80
46 6 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (46 bp):
CAATGCAACAGTATGTCCCTAGAACTGTGGTCAGAATGTAGACTAT
Found at i:456973 original size:110 final size:110
Alignment explanation
Indices: 456780--456999 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
456770 GCAGTTTCGT
456780 TTTTCTTTGTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTA
1 TTTTCTTTGTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTA
456845 GGAGGGAGGGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG
66 GGAGGGAGGGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG
456890 TTTTCTTTGTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTA
1 TTTTCTTTGTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTA
456955 GGAGGGAGGGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG
66 GGAGGGAGGGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG
457000 AGGGGGAGGG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.28, C:0.05, G:0.50, T:0.16
Consensus pattern (110 bp):
TTTTCTTTGTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTA
GGAGGGAGGGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG
Found at i:457053 original size:110 final size:109
Alignment explanation
Indices: 456788--457029 Score: 315
Period size: 110 Copynumber: 2.2 Consensus size: 109
456778 GTTTTTCTTT
**
456788 GTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTAGGAGGGAG
1 GTGGAGAGGGAGAGGGAGAGCAATGGGA-AGTGGGGGAGAGGGAAAGAATCAGAGTAGGAGGGAG
**** ***
456853 GGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATGTTTTCTTT
65 GGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATGGGGGCAGG
**
456898 GTGGAGAGGGAGAGGGTTAGCAATGGGACAGTGGGGGAGAGGGAAAGAATCAGAGTAGGAGGGAG
1 GTGGAGAGGGAGAGGGAGAGCAATGGGA-AGTGGGGGAGAGGGAAAGAATCAGAGTAGGAGGGAG
*
456963 GGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATGAGGGGGAGG
65 GGATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATG-GGGGCAGG
*
457009 GATGGTG-GGGAAGAGGGAGAG
1 G-TGGAGAGGG-AGAGGGAGAG
457030 GGATGGGAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
110 102 0.86
111 4 0.03
112 12 0.10
ACGTcount: A:0.29, C:0.05, G:0.54, T:0.13
Consensus pattern (109 bp):
GTGGAGAGGGAGAGGGAGAGCAATGGGAAGTGGGGGAGAGGGAAAGAATCAGAGTAGGAGGGAGG
GATGGTGGGGGAGAGGGGGGCAGAGAGAATCAGATGGGGGCAGG
Found at i:459173 original size:306 final size:301
Alignment explanation
Indices: 458787--459493 Score: 686
Period size: 306 Copynumber: 2.3 Consensus size: 301
458777 CCATTTGCAA
* *
458787 ATTTGTTATTGGGTTT-TGTT-AAATAAAAAGA-TAAAAGTACCTTTGAATAATATAACTTAATT
1 ATTT-TTATT-GGTTTATGTTAAAAGAAAAAGACT-AAAGTACC-TTAAATAATATAACTT-ATT
* * * *
458849 TCATTACAGAATGACATTTCTATAATTTTCCTAACCGAGTT-G-GTACTTGACTGACTCGTGACA
61 TTATTACAGAAGGACATTT-TGTAATTTTCCTAACCGAGTTAGTGT-C-CGACTGACTCGTGACA
** * *
458912 TTAATTCACTTAGAGACTTAAATAATAG-TAT-A-A-ATA-TACAATTGA-TAGAGATAATAAAT
123 ACAACTCAATTAGAGACTTAAATAATAGATATAATACATAGTACAATTGATTAGAGATAATAAAT
* * * *
458971 TGTGCATATTAAAATAAAAATGTATAAAATT-CATCAAAATGAAATTTTTGGTTGAGTGGTAAAT
188 TGTGCACAATAAAATAAAAATGTAT-AAATTACATCAAAATG-AAGTTTTGATTGAGTGGTAAAT
* * * * *
459035 TTTAGGATTTA-CCAACACAATTGGTGT-GTGTTTAAATCCTATCATATGCAT
251 TTAAGGATTTATCCAAC-CAATTAGTATAG-GTTCAAATCCTATCATATACAT
**
459086 ATTTTTATTTTTATTATTTTTTGTTAAAAGAAAAAAGACTAAAGTACTCTTAAATAATATAACTT
1 ATTTTTATTGGT-TTA-----TGTTAAAAG-AAAAAGACTAAAGTAC-CTTAAATAATATAACTT
* ** * **
459151 ATTTTAGTTACGGAAGGACATTTTCGTAATTTTTTTAATCGAGTTAGTGTCCGGTTGACTCGTGA
58 ATTTTA-TTACAGAAGGACATTTT-GTAATTTTCCTAACCGAGTTAGTGTCCGACTGACTCGTGA
* * *
459216 CAACAACTCAATTAGGGTCTTAAATAATAGTAAATATAGATACATATGTACAATTGATTGGAGAT
121 CAACAACTCAATTAGAGACTTAAATAATAG---ATATA-ATACATA-GTACAATTGATTAGAGAT
*
459281 AATAAATTGTGCACAATAAAATAAAAATGTATAAATTACATTAAAATGAAGTTTTGATTGAGTGG
181 AATAAATTGTGCACAATAAAATAAAAATGTATAAATTACATCAAAATGAAGTTTTGATTGAGTGG
* ** * *
459346 TAAATTTAAGGTTTTATTGATCTAATTAGTATAGGTTCAAATCCTATCATATACAT
246 TAAATTTAAGGATTTATCCAACCAATTAGTATAGGTTCAAATCCTATCATATACAT
* *
459402 ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTACCCTCAAATAATATAATTTATTTTAA
1 ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTA-CCTTAAATAATATAACTTATTTT-A
* *
459467 TTACAAAAGAACATTTTTGTAATTTTC
64 TTACAGAAGGACA-TTTTGTAATTTTC
459494 TAATCAAATT
Statistics
Matches: 332, Mismatches: 44, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
297 1 0.00
298 7 0.02
299 4 0.01
304 4 0.01
305 9 0.03
306 94 0.28
307 4 0.01
308 2 0.01
309 53 0.16
310 18 0.05
312 1 0.00
313 1 0.00
314 3 0.01
315 3 0.01
316 80 0.24
317 48 0.14
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (301 bp):
ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTACCTTAAATAATATAACTTATTTTATT
ACAGAAGGACATTTTGTAATTTTCCTAACCGAGTTAGTGTCCGACTGACTCGTGACAACAACTCA
ATTAGAGACTTAAATAATAGATATAATACATAGTACAATTGATTAGAGATAATAAATTGTGCACA
ATAAAATAAAAATGTATAAATTACATCAAAATGAAGTTTTGATTGAGTGGTAAATTTAAGGATTT
ATCCAACCAATTAGTATAGGTTCAAATCCTATCATATACAT
Found at i:465127 original size:25 final size:26
Alignment explanation
Indices: 465081--465142 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
465071 ATGAATTTTC
**
465081 TCAAAATTTTACCAAGGGT-AAATCA
1 TCAAAATTTTACCAAGAATAAAATCA
* *
465106 TTAAAATTTTACCAAGAATAAAATTA
1 TCAAAATTTTACCAAGAATAAAATCA
465132 TCAAAATTTTA
1 TCAAAATTTTA
465143 ACTAAGGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGAATAAAATCA
Found at i:465153 original size:26 final size:25
Alignment explanation
Indices: 465081--465156 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
465071 ATGAATTTTC
*
465081 TCAAAATTTTACCAAGGGT-AAATCA
1 TCAAAATTTTACCAA-GGTAAAATTA
* *
465106 TTAAAATTTTACCAAGAATAAAATTA
1 TCAAAATTTTACCAAG-GTAAAATTA
*
465132 TCAAAATTTTAACTAAGGTAAAATT
1 TCAAAATTTT-ACCAAGGTAAAATT
465157 GAGGTGAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
24 1 0.02
25 15 0.36
26 21 0.50
27 5 0.12
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (25 bp):
TCAAAATTTTACCAAGGTAAAATTA
Found at i:470575 original size:17 final size:19
Alignment explanation
Indices: 470542--470586 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
470532 AATAAAAAAC
*
470542 AAATAA-AAATCATAAA-T
1 AAATAAGAAATCAGAAATT
470559 AAATAAGAAAT-AGAAATT
1 AAATAAGAAATCAGAAATT
*
470577 AAAAAAGAAA
1 AAATAAGAAA
470587 AAAGTGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (19 bp):
AAATAAGAAATCAGAAATT
Found at i:477581 original size:23 final size:24
Alignment explanation
Indices: 477537--477581 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
477527 AGCTACATAG
* *
477537 GTCTGCCCTCTCTGGCATGTTTCT
1 GTCTGCCCTCTCTAGCAGGTTTCT
*
477561 GTCTG-CCTCTCTAGTAGGTTT
1 GTCTGCCCTCTCTAGCAGGTTT
477582 TAGGTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.07, C:0.29, G:0.22, T:0.42
Consensus pattern (24 bp):
GTCTGCCCTCTCTAGCAGGTTTCT
Found at i:498095 original size:30 final size:30
Alignment explanation
Indices: 498039--498101 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
498029 AAAAATGCTT
*
498039 AAATTAATTTATTATTTTTTAAAAAGGTTA
1 AAATTAATTTATTATTATTTAAAAAGGTTA
498069 AAATTAATTT-TT-TTATTTAATCAAAGGTTA
1 AAATTAATTTATTATTATTTAA--AAAGGTTA
498099 AAA
1 AAA
498102 GACCTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.07
30 21 0.70
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (30 bp):
AAATTAATTTATTATTATTTAAAAAGGTTA
Found at i:498741 original size:22 final size:22
Alignment explanation
Indices: 498711--498755 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
498701 AAAAGATAAA
* *
498711 TTTTTCTCTACTTTTTGGCACG
1 TTTTCCTCTACTCTTTGGCACG
*
498733 TTTTCCTCTGCTCTTTGGCACG
1 TTTTCCTCTACTCTTTGGCACG
498755 T
1 T
498756 CTCTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.27, G:0.16, T:0.51
Consensus pattern (22 bp):
TTTTCCTCTACTCTTTGGCACG
Found at i:503970 original size:15 final size:15
Alignment explanation
Indices: 503946--503975 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
503936 GAGGAAAATT
503946 GGATGATTGCTTTGG
1 GGATGATTGCTTTGG
*
503961 GGATGGTTGCTTTGG
1 GGATGATTGCTTTGG
503976 CTGGTGATGA
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:0.10, C:0.07, G:0.43, T:0.40
Consensus pattern (15 bp):
GGATGATTGCTTTGG
Found at i:504652 original size:45 final size:45
Alignment explanation
Indices: 504601--504695 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
504591 TAATAGACGT
* *
504601 GGTGAGGGTGGTGAGGTTGTTGGCAGTAAAT-ATGGTGAGGGTGAG
1 GGTGAGGGTGGTGAGGTTGTTGGCAAT-AATGATGCTGAGGGTGAG
*
504646 GGTGAGGGTGGTGAGGTTGTTGGCAATAATGGTGCTGAGGGTGAG
1 GGTGAGGGTGGTGAGGTTGTTGGCAATAATGATGCTGAGGGTGAG
504691 GGTGA
1 GGTGA
504696 AGGTAAGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 3 0.07
45 43 0.93
ACGTcount: A:0.19, C:0.03, G:0.52, T:0.26
Consensus pattern (45 bp):
GGTGAGGGTGGTGAGGTTGTTGGCAATAATGATGCTGAGGGTGAG
Found at i:504736 original size:51 final size:51
Alignment explanation
Indices: 504634--504739 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
504624 CAGTAAATAT
* * * * *
504634 GGTGAGGGTGAGGGTGAGGGTGGTGAGGTTGTTGGCAATAATGGTGCTGAG
1 GGTGAGGGTGAAGGTAAGAGTGGTGAGGTTGCTGGCAATAATGGTGATGAG
504685 GGTGAGGGTGAAGGTAAGAGTGGTGAGGTTGCTGG-AAGTACA-GGTGATGAG
1 GGTGAGGGTGAAGGTAAGAGTGGTGAGGTTGCTGGCAA-TA-ATGGTGATGAG
504736 GGTG
1 GGTG
504740 TTGAGGGTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.04
51 45 0.94
52 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.52, T:0.24
Consensus pattern (51 bp):
GGTGAGGGTGAAGGTAAGAGTGGTGAGGTTGCTGGCAATAATGGTGATGAG
Found at i:509734 original size:18 final size:17
Alignment explanation
Indices: 509707--509740 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
509697 ATTTGGGTCA
*
509707 TGTGGGCCACATGGGCG
1 TGTGGGCCACACGGGCG
509724 TGTGGGCCCACACGGGC
1 TGTGGG-CCACACGGGC
509741 AAACATTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCG
Found at i:510672 original size:19 final size:17
Alignment explanation
Indices: 510646--510709 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
510636 AATAAAACAT
510646 TTTGAAATTGAATAATGA
1 TTTGAAA-TGAATAATGA
*
510664 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAATGA
* *
510682 TTTGGAAACGAACGACATGA
1 TTT-GAAATGAA-TA-ATGA
510702 TTTGAAAT
1 TTTGAAAT
510710 TAACATAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 22 0.59
19 9 0.24
20 6 0.16
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.36
Consensus pattern (17 bp):
TTTGAAATGAATAATGA
Found at i:511146 original size:114 final size:113
Alignment explanation
Indices: 510991--511201 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 113
510981 TACACTAATA
* *
510991 TTCACGCATAGGAAAGAAATGTTTCATTAATATTCAATTAAAAAATAATAAAAAAATC-CCCAAT
1 TTCACGCATAGGAAAGAAATGTTTCATCAATATTCAATTAAAAAAT-A-AAAAAAATCACACAAT
511055 TTCTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCCGAATACAT
64 TTCTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCCGAATACAT
*
511105 TTCACGCATGGGAAAGAAATGTTTCATCAATATTCAATTAAAAAATAAAAAAAATCACACAATTT
1 TTCACGCATAGGAAAGAAATGTTTCATCAATATTCAATTAAAAAATAAAAAAAATCACACAATTT
*
511170 CTTATGAACCCTAAAACAAATTGGCTAAATAT
66 CTTATGAACCCTAAAACAAATCGGCTAAATAT
511202 ACAGTGACTA
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 9 0.10
113 39 0.42
114 44 0.48
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (113 bp):
TTCACGCATAGGAAAGAAATGTTTCATCAATATTCAATTAAAAAATAAAAAAAATCACACAATTT
CTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCCGAATACAT
Found at i:511291 original size:8 final size:9
Alignment explanation
Indices: 511276--511310 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
511266 GACACAATAA
511276 TAAAAAAAT
1 TAAAAAAAT
511285 TAAAAAAAT
1 TAAAAAAAT
511294 TAAAAAAAT
1 TAAAAAAAT
511303 TAAAAAAA
1 TAAAAAAA
511311 AATCAATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:511722 original size:17 final size:17
Alignment explanation
Indices: 511700--511746 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
511690 TAGTTAAGGG
511700 TTTTAAATGT-TTTTTAA
1 TTTTAAAT-TATTTTTAA
511717 TTTT-AATTATTTTTAA
1 TTTTAAATTATTTTTAA
*
511733 GTTTAAATTCATTT
1 TTTTAAATT-ATTT
511747 GCTGACGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.50
17 8 0.31
18 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTAAATTATTTTTAA
Found at i:513765 original size:20 final size:20
Alignment explanation
Indices: 513740--513783 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
513730 CGATATTCTA
*
513740 AAATAT-TTATTACAAAACTC
1 AAATATATTA-TACAAAACCC
*
513760 AAATATATTATACTAAACCC
1 AAATATATTATACAAAACCC
513780 AAAT
1 AAAT
513784 CCAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATATATTATACAAAACCC
Found at i:521663 original size:17 final size:18
Alignment explanation
Indices: 521638--521678 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
521628 GCTATTGTTG
*
521638 TTTTATTTATTT-GTTTA
1 TTTTTTTTATTTGGTTTA
521655 TTTTTTTTATTTGGTTTA
1 TTTTTTTTATTTGGTTTA
521673 TTTTTT
1 TTTTTT
521679 GTTTGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTTTTTATTTGGTTTA
Found at i:522095 original size:44 final size:44
Alignment explanation
Indices: 522047--522266 Score: 114
Period size: 44 Copynumber: 5.0 Consensus size: 44
522037 ATTTTAATTC
*
522047 GCTCCACTGCAACTTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTACTAGCTTCAATCT
* ** * **
522091 GCTCCACTACTGCTT-AGGGAGATAAGATCTGTAATTA--TTCGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-T-ACTAGCTTCAATCT
** * * * * * *
522136 GCTCCGTTGCAACTTTAGGGAGATATGA--CCT-GATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTACTAGCTTCAATCT
* * * * * *
522177 ACTCTACTGCAACTTCAGAGAGATAAGATCT-CTTA-TTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TAC-TAGCTTCAATCT
* * *
522221 GCTCCACTGCAACTTCAAGGAGATAGGATTACTGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTACTAGCTTCAATCT
522265 GC
1 GC
522267 CATCTTTGAT
Statistics
Matches: 124, Mismatches: 38, Indels: 28
0.65 0.20 0.15
Matches are distributed among these distances:
40 1 0.01
41 27 0.22
43 14 0.11
44 50 0.40
45 17 0.14
46 12 0.10
47 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTACTAGCTTCAATCT
Found at i:522215 original size:174 final size:171
Alignment explanation
Indices: 521877--522501 Score: 752
Period size: 188 Copynumber: 3.5 Consensus size: 171
521867 TTCAACCTAG
* ** * *
521877 TCCACTGCAACTTCAGGAAGATAATATTA-TCGGCTTCAATCTACTCCACTACTACTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTACT-GGCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * ** * *
521941 TAAGATCTGTCATCTTTGATCTGC-CC-CACTACTGATTAAGGAGATAAGACCTGATGTGATCTA
65 TAAGATCTGTAAT-TTTGGTCTGCTCCGTGCAACT--TTAAGGAGATAAGACCTGATGCGATCTA
* *
522004 CTCTACCGCAACTTCAGAGAGATAAGATCTTTTATTTTAATTCGC
127 CTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
*
522049 TCCACTGCAACTTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
1 TCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
* *
522114 AAGATCTGTAATTATTCGGTCTGCTCCGTTGCAACTTTAGGGAGATATGACCTGATGCGATCTAC
66 AAGATCTGTAATT-TT-GGTCTGCTCCG-TGCAACTTTAAGGAGATAAGACCTGATGCGATCTAC
*
522179 TCTACTGCAACTTCAGAGAGATAAGATCTCTTATTTTAATCCGC
128 TCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
*
522223 TCCACTGCAACTTCAAGGAGATAGGATTACTGGCTTCAATCTGCCATCTTTGATCTGCTCCACTA
1 TCCACTGCAACTTCAGGGAGATAGGATTACTGG---C--T-T--CA------ATCTGCTCCACTA
* * *
522288 CTGCTTAGGGAGATAAGATCTATAATTCTTTGGTCTGCTCCGCTGCAACTTCATGGAGATAAGAC
52 CTGCTTAGGGAGATAAGATCTGTAA-T-TTTGGTCTGCTCCG-TGCAACTTTAAGGAGATAAGAC
*
522353 CTGATGCGATATACTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
114 CTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
** * *
522411 TCCACCACAACTTCAGGGAGATAGGATTACTGGTTTCAATTTGCTCCACTACTGCTTAGGGAGAT
1 TCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
* *
522476 AAGATCTGTCATCTTTGATCTGCTCC
66 AAGATCTGTAAT-TTTGGTCTGCTCC
522502 ACTACTGCTT
Statistics
Matches: 397, Mismatches: 34, Indels: 43
0.84 0.07 0.09
Matches are distributed among these distances:
171 1 0.00
172 70 0.18
173 21 0.05
174 135 0.34
176 4 0.01
177 1 0.00
179 1 0.00
180 3 0.01
182 3 0.01
183 1 0.00
188 153 0.39
189 3 0.01
190 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (171 bp):
TCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
AAGATCTGTAATTTTGGTCTGCTCCGTGCAACTTTAAGGAGATAAGACCTGATGCGATCTACTCT
ACTGCAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
Found at i:522500 original size:44 final size:43
Alignment explanation
Indices: 522268--522747 Score: 216
Period size: 44 Copynumber: 11.0 Consensus size: 43
522258 TCAATCTGCC
*
522268 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * ** * *
522311 AATTCTTTGGTCTGCTCCGCTGCAACTTCATGGAGATAAGACCTG-
1 -A-TCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGT
* * * * ** * *
522356 ATGC---GATATACTCTACTGCAACTTCAGAGAGATAAGATCTTTT
1 AT-CTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATC-TGT
* * * ** *
522399 AT-TTTAATCCGCTCCACCACAACTTCAGGGAGATAGGATTACTG-
1 ATCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGA-T-CTGT
* ** *
522443 GT-TTCAATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
*
522485 CATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGT
1 -ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* ** *
522529 AATTCTTTGATCTGCTCCGCTACAACTTCAGGGAGATAAGACCTG-
1 -A-TCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGT
* * * ** * *
522574 ATGC---GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTTTT
1 AT-CTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATC-TGT
* ** * *
522617 AT-TTTAAT-TCGCTCCACTACAACTTTAGGAAGATAGGATTACTG-
1 ATCTTTGATCT-GCTCCACTACTGC-TTAGGGAGATAAGA-T-CTGT
* ** * * *
522661 -GCTTCAATCTGCTCCACTACTGCTTATGGAGATAAGATCCGCC
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-T
*
522704 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
522747 A
1 A
522748 ATTTTTCAAC
Statistics
Matches: 332, Mismatches: 74, Indels: 61
0.71 0.16 0.13
Matches are distributed among these distances:
41 61 0.18
42 4 0.01
43 31 0.09
44 158 0.48
45 49 0.15
46 29 0.09
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
Found at i:522653 original size:218 final size:218
Alignment explanation
Indices: 522261--522750 Score: 836
Period size: 218 Copynumber: 2.2 Consensus size: 218
522251 ACTGGCTTCA
* *
522261 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTCTTTGGTCTGC
1 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTTTGATCTGC
* *
522326 TCCGCTGCAACTTCATGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAGAGAGATAA
66 TCCGCTACAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAGAGAGATAA
* * *
522391 GATCTTTTATTTTAATCCGCTCCACCACAACTTCAGGGAGATAGGATTACTGGTTTCAATTTGCT
131 GATCTTTTATTTTAATCCGCTCCACCACAACTTCAGGAAGATAGGATTACTGGCTTCAATCTGCT
522456 CCACTACTGCTTAGGGAGATAAG
196 CCACTACTGCTTAGGGAGATAAG
* *
522479 ATCTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGTAATTCTTTGATCTGC
1 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTTTGATCTGC
*
522544 TCCGCTACAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAA
66 TCCGCTACAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAGAGAGATAA
* * *
522609 GATCTTTTATTTTAATTCGCTCCACTACAACTTTAGGAAGATAGGATTACTGGCTTCAATCTGCT
131 GATCTTTTATTTTAATCCGCTCCACCACAACTTCAGGAAGATAGGATTACTGGCTTCAATCTGCT
*
522674 CCACTACTGCTTATGGAGATAAG
196 CCACTACTGCTTAGGGAGATAAG
* *
522697 ATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
522751 TTTCAACCTA
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 254 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (218 bp):
ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTTTGATCTGC
TCCGCTACAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAGAGAGATAA
GATCTTTTATTTTAATCCGCTCCACCACAACTTCAGGAAGATAGGATTACTGGCTTCAATCTGCT
CCACTACTGCTTAGGGAGATAAG
Found at i:523939 original size:42 final size:42
Alignment explanation
Indices: 523874--523969 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
523864 ATATACCCAA
* * *
523874 ATCAAAATTTGAACAGCTTAGATCACCTCATGCCTCATTCTG
1 ATCAATATTTGAACAGCTCAGATCACCTCATGCCCCATTCTG
* * *
523916 ATCAATATTTGAGCCGCTCAGATCATCTCATGCCCCATTCTG
1 ATCAATATTTGAACAGCTCAGATCACCTCATGCCCCATTCTG
523958 ATCAATATTTGA
1 ATCAATATTTGA
523970 CCCCCCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (42 bp):
ATCAATATTTGAACAGCTCAGATCACCTCATGCCCCATTCTG
Found at i:529716 original size:10 final size:10
Alignment explanation
Indices: 529701--529725 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
529691 ACTAATGAGT
529701 CTTTCAACTA
1 CTTTCAACTA
529711 CTTTCAACTA
1 CTTTCAACTA
529721 CTTTC
1 CTTTC
529726 TTGAAGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTTCAACTA
Found at i:536074 original size:22 final size:23
Alignment explanation
Indices: 536047--536089 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
536037 CTACTATTGT
536047 TGTTTTTTTATTT-GTTTATTTG
1 TGTTTTTTTATTTGGTTTATTTG
536069 T-TTTTTTTATTTGGTTTATTT
1 TGTTTTTTTATTTGGTTTATTT
536090 TTTGTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (23 bp):
TGTTTTTTTATTTGGTTTATTTG
Found at i:536102 original size:17 final size:16
Alignment explanation
Indices: 536053--536102 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
536043 TTGTTGTTTT
536053 TTTATTTGTTTATTT-G
1 TTTATTT-TTTATTTGG
536069 -TT-TTTTTTATTTGG
1 TTTATTTTTTATTTGG
*
536083 TTTATTTTTTGTTTGTG
1 TTTATTTTTTATTTG-G
536100 TTT
1 TTT
536103 TTGGGCTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 4 0.14
16 10 0.34
17 4 0.14
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTATTTGG
Found at i:539312 original size:50 final size:50
Alignment explanation
Indices: 539080--539734 Score: 425
Period size: 50 Copynumber: 13.1 Consensus size: 50
539070 TGTAGCTTCT
* * * * *
539080 ATCTTTTTAACTGCAATGTCGAGGACGCAAGATACATCGTCGTGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * * * * * *
539130 ATCTGTTCT-GCTGC-ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTA
1 ATCT-TTTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * *
539180 ATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* ** * * *** *
539230 ATCTGTTCT-GTTGC-ATCGCCTGGGGAA-TAAGATTCGTTGTTGTAGCTTTA
1 ATCT-TTTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGTTGTGGCTTTA
539280 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATT-TGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG-TTGTGGCTTTA
* ** * * * * * *
539330 ATCTTCTCCACTGC-ATCGCCAGAGAAGTAAGATTCGCCGCTGTGGCTTTA
1 ATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* *
539380 ATCTTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTA
1 ATC-TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * * * * * **
539431 ATCTTCTCT-GCTGC-ATCGCCAGAGAAGTAAGATTCGTCGTTGTGGCTTTA
1 ATCTT-TTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * *
539481 ATCTTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
** *** * * * * * ** * *
539531 ATCTGCTCCGCCGC-ATCGCCAGAGAAGTAAGATTTGCAGTTGTAGCTTTA
1 ATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * *
539581 ATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCGATGTGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
** ** * * ** * *
539631 ATCTGCTCCACTGC-ATCGCCAGATAAGTAAGATTCACCGCTGTGGCTTTA
1 ATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
* * *
539681 ATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCAACGATGTGGCTTTA
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
539731 ATCT
1 ATCT
539735 GCTCCACTGC
Statistics
Matches: 445, Mismatches: 135, Indels: 50
0.71 0.21 0.08
Matches are distributed among these distances:
49 30 0.07
50 348 0.78
51 65 0.15
52 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTA
Found at i:539629 original size:301 final size:300
Alignment explanation
Indices: 539080--539735 Score: 987
Period size: 301 Copynumber: 2.2 Consensus size: 300
539070 TGTAGCTTCT
* * * *
539080 ATCTTTTTAACTGCAATGTCGAGGACGCAAGATACATCG-TCGTGGCTTTAATCTGTTCTGCTGC
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCAACGAT-GTGGCTTTAATCTGTTCTGCTGC
* * * *
539144 ATCGCCTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGGAAGCA
65 ATCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGAAAGCA
* * ** * * **
539209 AGATTCACCGATGTGGCTTTAATCTGTTCTGTTGCATCGCCTGGGGAATAAGATTCGTTGTTGTA
130 AGATTCACCGATGTGGCTTTAATCTGCTCCGCCGCATCGCCTAGAGAATAAGATTCGCAGTTGTA
* * *
539274 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATTTGGCTTTAATCTTCTCC
195 GCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCC
*
539339 ACTGCATCGCCAGAGAAGTAAGATTCGCCGCTGTGGCTTTA
260 ACTGCATCGCCAGAGAAGTAAGATTCACCGCTGTGGCTTTA
* *
539380 ATCTTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCT-TCTCTGCTG
1 ATC-TTTTTAACTGCAATGTCGGGGAAGCAAGATTCAACGATGTGGCTTTAATCTGT-TCTGCTG
* *
539444 CATCGCCAGAGAAGTAAGATTCG-TCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGAAAG
64 CATCGCCAGAGAAGTAAGATTCGCT-GTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGAAAG
*
539508 CAAGATTCACCGATGTGGCTTTAATCTGCTCCGCCGCATCGCC-AGAGAAGTAAGATTTGCAGTT
128 CAAGATTCACCGATGTGGCTTTAATCTGCTCCGCCGCATCGCCTAGAGAA-TAAGATTCGCAGTT
*
539572 GTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGC
192 GTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGC
*
539637 TCCACTGCATCGCCAGATAAGTAAGATTCACCGCTGTGGCTTTA
257 TCCACTGCATCGCCAGAGAAGTAAGATTCACCGCTGTGGCTTTA
*
539681 ATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCAACGATGTGGCTTTAATCTG
1 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCAACGATGTGGCTTTAATCTG
539736 CTCCACTGCA
Statistics
Matches: 321, Mismatches: 29, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
300 57 0.18
301 263 0.82
302 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (300 bp):
ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCAACGATGTGGCTTTAATCTGTTCTGCTGCA
TCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGAGAAAGCAA
GATTCACCGATGTGGCTTTAATCTGCTCCGCCGCATCGCCTAGAGAATAAGATTCGCAGTTGTAG
CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
CTGCATCGCCAGAGAAGTAAGATTCACCGCTGTGGCTTTA
Found at i:539763 original size:100 final size:99
Alignment explanation
Indices: 539069--539745 Score: 883
Period size: 100 Copynumber: 6.8 Consensus size: 99
539059 GATTCGTAGC
* * *
539069 TTGTAGCTTCT-ATCTTTTTAACTGCAATGTCGAGGACGCAAGATACATCG-TCGTGGCTTTAAT
1 TTGTAGCTT-TAATCTTTTTAACTGCAATGTCG-GGAAGCAAGATTCACCGAT-GTGGCTTTAAT
* * * * * *
539132 CTGTTCTGCTGCATCGCCTGGGGAGTAAGATTCGCTG
63 CTGCTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
*
539169 TTGTAGCTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCG-GGAAGCAAGATTCACCGATGTGGCTTTAATCT
* * * * * **
539234 GTTCTGTTGCATCGCCTGGGGAA-TAAGATTCGTTG
65 GCTCCGCTGCATCGCC-AGAGAAGTAAGATTCGCCG
*
539269 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATTTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCT
* *
539334 TCTCCACTGCATCGCCAGAGAAGTAAGATTCGCCG
65 GCTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
* * *
539369 CTGTGGCTTTAATCTTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATC
1 TTGTAGCTTTAATC-TTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATC
* * *
539434 TTCTCTGCTGCATCGCCAGAGAAGTAAGATTCGTCG
64 TGCTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
* *
539470 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCG-GGAAGCAAGATTCACCGATGTGGCTTTAATCT
* * *
539535 GCTCCGCCGCATCGCCAGAGAAGTAAGATTTGCAG
65 GCTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
*
539570 TTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCT
* * *
539635 GCTCCACTGCATCGCCAGATAAGTAAGATTCACCG
65 GCTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
* * *
539670 CTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCAACGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCT
*
539735 GCTCCACTGCA
65 GCTCCGCTGCA
539746 CCTCTTGGGA
Statistics
Matches: 521, Mismatches: 48, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
99 6 0.01
100 414 0.79
101 101 0.19
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (99 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG
CTCCGCTGCATCGCCAGAGAAGTAAGATTCGCCG
Found at i:541158 original size:8 final size:8
Alignment explanation
Indices: 541147--541188 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
541137 CTATTTTTAC
541147 TTTTTCAT
1 TTTTTCAT
541155 TTTTTCA-
1 TTTTTCAT
541162 TTTTT-A-
1 TTTTTCAT
541168 TTTTTCAT
1 TTTTTCAT
541176 TTTTTCAT
1 TTTTTCAT
541184 TTTTT
1 TTTTT
541189 TGACTGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 20 0.62
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCAT
Found at i:541171 original size:13 final size:13
Alignment explanation
Indices: 541155--541179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
541145 ACTTTTTCAT
541155 TTTTTCATTTTTA
1 TTTTTCATTTTTA
541168 TTTTTCATTTTT
1 TTTTTCATTTTT
541180 TCATTTTTTT
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCATTTTTA
Found at i:541171 original size:21 final size:22
Alignment explanation
Indices: 541139--541187 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
541129 TAGCCTCTCT
541139 ATTTTTACTTTTTCATTTTTTC
1 ATTTTTACTTTTTCATTTTTTC
541161 ATTTTTA-TTTTTCATTTTTTC
1 ATTTTTACTTTTTCATTTTTTC
541182 ATTTTT
1 ATTTTT
541188 TTGACTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTACTTTTTCATTTTTTC
Found at i:542019 original size:6 final size:6
Alignment explanation
Indices: 542008--542071 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
541998 TTTATATCAT
* * * * *
542008 TTTTTA TTTTTA TTTTGA TTTTGA TTTTTC TTCTTT- TTTTTC TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA
*
542056 TTTTGA TTTTT- TTTTT
1 TTTTTA TTTTTA TTTTT
542072 GAATTGGATC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
5 8 0.16
6 39 0.78
7 3 0.06
ACGTcount: A:0.08, C:0.06, G:0.05, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:551838 original size:82 final size:82
Alignment explanation
Indices: 551737--552046 Score: 358
Period size: 80 Copynumber: 3.7 Consensus size: 82
551727 AGTCTTCTTG
* * *
551737 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATTGGAATAAATCCTGAAATAA-AT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTTGGAATAAATCCCGAAATAAGAT
551801 TATTCAATTTAATTCTA
66 TATTCAATTTAATTCTA
* * *
551818 TTTTGGAAACAAAATTAAAATCAAATAAAATATGTTAAACGGCTGGAATAAAT-CCTAAA-AAGA
1 -TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTTGGAATAAATCCCGAAATAAGA
*
551881 TTATTCAATTTAATTTTA
65 TTATTCAATTTAATTCTA
* * * *
551899 TTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGTAGAAATAAATCCCGAAA-CAGAT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTTGGAATAAATCCCGAAATAAGA-
* *
551963 TTTATTTAATTTTAATTTCTCG
65 -TTATTCAA-TTTAA-TTCT-A
* * * * * *
551985 TTTGGAAACAAAATAAAAAATGGAATCAAATATGTTGATCGGTGGGAATAAATCCCGAAATA
1 TTTGGAAACAAAAT-TAAAATCGAATAAAATATGTTAAACGGTTGGAATAAATCCCGAAATA
552047 GATATTACTC
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 49 0.25
81 30 0.16
82 48 0.25
83 7 0.04
84 5 0.03
85 3 0.02
86 14 0.07
87 37 0.19
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (82 bp):
TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTTGGAATAAATCCCGAAATAAGAT
TATTCAATTTAATTCTA
Found at i:551905 original size:162 final size:167
Alignment explanation
Indices: 551737--552039 Score: 402
Period size: 162 Copynumber: 1.8 Consensus size: 167
551727 AGTCTTCTTG
* * * *
551737 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATTGGAATAAATCCTGAAATA-A-A
1 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATAGAAATAAATCCCGAAACAGATA
* *
551800 TTATTCAA-TTTAA-TTCTATTTTGGAAACAAAAT-TAAAATCAAATAAAATATGTTAAACGGCT
66 TTATTCAATTTTAATTTCTAGTTTGGAAACAAAATAAAAAATCAAATAAAATATGTTAAACGG-T
551862 -GGAATAAATCCTAAAAAGATTATTCAATTTAATTTTA
130 GGGAATAAATCCTAAAAAGATTATTCAATTTAATTTTA
* * * *
551899 TTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGTAGAAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATAGAAATAAATCCCGAAACAGATA
* * ** * * *
551964 TTATTTAATTTTAATTTCTCGTTTGGAAACAAAATAAAAAATGGAATCAAATATGTTGATCGGTG
66 TTATTCAATTTTAATTTCTAGTTTGGAAACAAAATAAAAAATCAAATAAAATATGTTAAACGGTG
552029 GGAATAAATCC
131 GGAATAAATCC
552040 CGAAATAGAT
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
162 54 0.46
163 1 0.01
164 7 0.06
165 5 0.04
166 19 0.16
167 32 0.27
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (167 bp):
TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATAGAAATAAATCCCGAAACAGATA
TTATTCAATTTTAATTTCTAGTTTGGAAACAAAATAAAAAATCAAATAAAATATGTTAAACGGTG
GGAATAAATCCTAAAAAGATTATTCAATTTAATTTTA
Found at i:551934 original size:80 final size:80
Alignment explanation
Indices: 551737--552039 Score: 340
Period size: 82 Copynumber: 3.7 Consensus size: 80
551727 AGTCTTCTTG
* * *
551737 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATTGGAATAAATCCTGAAATAA-AT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTAGGAATAAATCCT-AAA-AAGAT
*
551801 TATTCAATTTAATTCTA
64 TATTCAATTTAATTTTA
*
551818 TTTTGGAAACAAAATTAAAATCAAATAAAATATGTTAAACGGCT-GGAATAAATCCTAAAAAGAT
1 -TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGG-TAGGAATAAATCCTAAAAAGAT
551882 TATTCAATTTAATTTTA
64 TATTCAATTTAATTTTA
* * * *
551899 TTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGTAGAAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTAGGAATAAAT-CCTAAAAAGA--
* *
551964 TTATTTAATTTTAATTTCTCG
63 TTATTCAA-TTTAATTT-T-A
* * * * * *
551985 TTTGGAAACAAAATAAAAAATGGAATCAAATATGTTGATCGGTGGGAATAAATCC
1 TTTGGAAACAAAAT-TAAAATCGAATAAAATATGTTAAACGGTAGGAATAAATCC
552040 CGAAATAGAT
Statistics
Matches: 192, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
79 1 0.01
80 49 0.26
81 29 0.15
82 50 0.26
83 8 0.04
84 8 0.04
85 1 0.01
86 16 0.08
87 30 0.16
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (80 bp):
TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGTAGGAATAAATCCTAAAAAGATTA
TTCAATTTAATTTTA
Found at i:552727 original size:20 final size:20
Alignment explanation
Indices: 552684--552727 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
552674 AGAGGCAATT
*
552684 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATA
*
552704 AAATCAAATTT-ATTAGAATA
1 AAATC-AATTTGATTAAAATA
552724 AAAT
1 AAAT
552728 AAAACCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATA
Found at i:554298 original size:27 final size:27
Alignment explanation
Indices: 554259--554364 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
554249 GGTATAACAG
554259 TCATTTTACCCTATGAGGGTATTTCGAA
1 TCATTTTACCCTATGAGGGTATTTCG-A
554287 TCATTTTA-CCTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTCGA
* * * *
554313 TCATTCTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
* * *
554340 TTATTTTACCCTAAGGGGGTATTTC
1 TCATTTTACCCTATGAGGGTATTTC
554365 AGTCATTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
26 9 0.13
27 50 0.75
28 8 0.12
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:554371 original size:54 final size:54
Alignment explanation
Indices: 554245--554371 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
554235 TTTCATCTCC
** *
554245 TAGGGGTATAACAGTCATTTTACCCTATGAGGGTATTTCGAATCATTTTACCTA
1 TAGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGAATCATTTTACCTA
* * * *
554299 TAGGGGTATTTC-GATCATTCTACCTTATGGGGGTATTTCG-GTTATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTCTACCCTATGAGGGTATTTCGAATCATTTTA-CCTA
554353 -AGGGGGTATTTCAGTCATT
1 TA-GGGGTATTTCAGTCATT
554372 ATTTTAGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 9 0.15
54 52 0.84
55 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGAATCATTTTACCTA
Found at i:554408 original size:26 final size:27
Alignment explanation
Indices: 554371--554442 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
554361 TTTCAGTCAT
*
554371 TATTTTAGTCATTTTACCTTAT-GGGG
1 TATTTCAGTCATTTTACCTTATGGGGG
*
554397 TATTTC-GATCATTTTACCCTATGGGGG
1 TATTTCAG-TCATTTTACCTTATGGGGG
*
554424 TATTTCAGTTATTTTACCT
1 TATTTCAGTCATTTTACCT
554443 ATTTTGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 18 0.46
27 19 0.49
28 1 0.03
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (27 bp):
TATTTCAGTCATTTTACCTTATGGGGG
Found at i:554443 original size:26 final size:25
Alignment explanation
Indices: 554371--554444 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 25
554361 TTTCAGTCAT
*
554371 TATTTTAGTCATTTTACCTTATGGGG
1 TATTTCAGTCATTTTACC-TATGGGG
554397 TATTTC-GATCATTTTACCCTATGGGGG
1 TATTTCAG-TCATTTTA-CCTAT-GGGG
*
554424 TATTTCAGTTATTTTACCTAT
1 TATTTCAGTCATTTTACCTAT
554445 TTTGAGGTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.02
26 21 0.50
27 19 0.45
28 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (25 bp):
TATTTCAGTCATTTTACCTATGGGG
Found at i:554711 original size:19 final size:19
Alignment explanation
Indices: 554676--554713 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
554666 GTGTGGGGCC
*
554676 CACGAGCCCATTGAGCCCA
1 CACGAGCCCATTCAGCCCA
554695 CACG-GCCCATTTCAGCCCA
1 CACGAGCCCA-TTCAGCCCA
554714 ACATGGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCAGCCCA
Found at i:563864 original size:27 final size:27
Alignment explanation
Indices: 563822--563885 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
563812 GAGACTGATA
*
563822 GGCGGCACCAAAGGTGCCATTCCCATG
1 GGCGGCACCAAAGGTGCCATTCCAATG
* *
563849 GGCGGCACCGATGGTGCCATTCCAATG
1 GGCGGCACCAAAGGTGCCATTCCAATG
*
563876 GGCAGCACCA
1 GGCGGCACCA
563886 CTTGTGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.14
Consensus pattern (27 bp):
GGCGGCACCAAAGGTGCCATTCCAATG
Found at i:564207 original size:42 final size:41
Alignment explanation
Indices: 564149--564281 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 41
564139 TAGATGTTAC
*
564149 TTAG-TATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTTATTATTTTTAGTAAAAAACTA-TATTATTATTATGG
** * *
564190 TTAGTTATTATTTTTAGTAAAACCCTA-ATTATTATTGTTAG
1 TTAGTTATTATTTTTAGTAAAAAACTATATTATTATT-ATGG
* * * *
564231 TTA-CTATTATTTTGAGTATAAAACTATTATTATTTTTATTGTG
1 TTAGTTATTATTTTTAGTAAAAAACTA-TATTATTATTA-TG-G
564274 TTAGTTAT
1 TTAGTTAT
564282 CAGGATTAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
40 27 0.38
41 9 0.13
42 28 0.39
43 4 0.06
44 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (41 bp):
TTAGTTATTATTTTTAGTAAAAAACTATATTATTATTATGG
Found at i:564239 original size:40 final size:36
Alignment explanation
Indices: 564179--564264 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
564169 AAACTAGTAT
* * *
564179 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
564215 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
564255 TATTATTATT
1 TATTATTATT
564265 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:582384 original size:44 final size:44
Alignment explanation
Indices: 582329--582706 Score: 228
Period size: 44 Copynumber: 8.1 Consensus size: 44
582319 TCCCTAAGCA
* *
582329 ACAGTGGAGCAGATCGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
582373 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** * *
582417 ACAGTGGAGCGGATT-AAAATAAAGAATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATTGAAGCTAGA-AATCTTATCTCCCTGAGA-TT
* * *
582461 ACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTAAGATT
1 ACAGT---G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * *
582515 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* ** **
582559 ACAGTGAAGCAGATT-AAAATA-AAGGATCTTATCTAACTGA-AGTT
1 ACAGTGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
*
582603 ACAGCAGAGTAG-ATCGCATCAAATCGAAGCTAGAAATCTTATCTCCCTGAGATT
1 ACAG-TG-G-AGCA--G-AT----T-GAAGCTAGAAATCTTATCTCCCTGAGATT
* * * * *
582657 ATAGTGGAGCAAATTGAAGCTAGTAACCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
582701 ACAGTG
1 ACAGTG
582707 AAGCGAATTA
Statistics
Matches: 254, Mismatches: 48, Indels: 64
0.69 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 10 0.04
44 163 0.64
45 2 0.01
46 1 0.00
47 4 0.02
48 1 0.00
49 8 0.03
51 4 0.02
52 2 0.01
53 2 0.01
54 43 0.17
55 11 0.04
56 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (44 bp):
ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:582561 original size:98 final size:97
Alignment explanation
Indices: 582382--582563 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 97
582372 TACAGCGGAG
* ** * * *
582382 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGAATCTT
1 CAGATTGAAGCCAAAAATCCTATCTCCCTAAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
582447 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
582480 CAGATTGAAGCCAAAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAAAAATCCTATCTCCCTAAGATTACAGCGGAGCAGATT-AAAATAAG-AATCC
582544 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
582564 GAAGCAGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 4 0.06
98 64 0.90
99 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAAAAATCCTATCTCCCTAAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:582599 original size:142 final size:141
Alignment explanation
Indices: 582338--582766 Score: 669
Period size: 142 Copynumber: 3.0 Consensus size: 141
582328 AACAGTGGAG
582338 CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
582403 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGAAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
582468 AGTAGATCGCAT
130 AGTAGATCGCAT
* * *
582480 CAGATTGAAGCCAAAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
** *
582545 ATCTCCCTGAGATTACAGTGAAGCAGATTAAAATAAAGGATCTTATCTAACTGAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGAAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
582610 AGTAGATCGCAT
130 AGTAGATCGCAT
* * * * * *
582622 CAAATCGAAGCTAGAAATCTTATCTCCCTGAGATTATAGTGGAGCAAATTGAAGCTAGTAACCCT
1 CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
582687 ATCTCCCTGAGATTACAGTGAAGCGAATTAAGATAAAGGATCTTATCTCTCTGAAGTCACAGTAG
66 ATCTCCCTGAGATTACAGTGAAGCG-ATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
582752 AGAAGATCGCAT
130 AGTAGATCGCAT
582764 CAG
1 CAG
582767 GTCTTATCTC
Statistics
Matches: 260, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 1 0.00
142 259 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (141 bp):
CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGAAGCGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCAT
Found at i:582735 original size:44 final size:44
Alignment explanation
Indices: 582622--582721 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
582612 TAGATCGCAT
* * * * *
582622 CAAATCGAAGCTAGAAATCTTATCTCCCTGAGATTATAGTGGAG
1 CAAATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGAAG
* * *
582666 CAAATTGAAGCTAGTAACCCTATCTCCCTGAGATTACAGTGAAG
1 CAAATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGAAG
*
582710 CGAATT-AAGATA
1 CAAATTGAAGATA
582722 AAGGATCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.10
44 43 0.90
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (44 bp):
CAAATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTGAAG
Found at i:584419 original size:18 final size:18
Alignment explanation
Indices: 584396--584438 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
584386 TATACGTATG
584396 TTATTTACATTAT-TATTA
1 TTATTTACATTATATA-TA
* *
584414 TTATTTTCTTTATATATA
1 TTATTTACATTATATATA
584432 TTATTTA
1 TTATTTA
584439 TCTAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTACATTATATATA
Found at i:585744 original size:28 final size:28
Alignment explanation
Indices: 585713--585779 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
585703 AAAGATGAAA
** * *
585713 TATATAAAAATGGCTTTTAAAAGTATAT
1 TATATAAAAAAAGCTATTAAAAATATAT
585741 TATA-AAATAAAAGCTATTAAAAATATAT
1 TATATAAA-AAAAGCTATTAAAAATATAT
585769 TATATAAAAAA
1 TATATAAAAAA
585780 TAATTCGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (28 bp):
TATATAAAAAAAGCTATTAAAAATATAT
Found at i:586717 original size:5 final size:5
Alignment explanation
Indices: 586707--586734 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
586697 AGCCGAATTG
586707 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
586735 TCAAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:587020 original size:26 final size:27
Alignment explanation
Indices: 586991--587041 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
586981 CCACATTAGC
*
586991 TGGGCTAGGTTAATTGGGT-TTTGGTT
1 TGGGATAGGTTAATTGGGTATTTGGTT
587017 TGGGATAGGTTAATTGGGTATTTGG
1 TGGGATAGGTTAATTGGGTATTTGG
587042 GATCTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.43
Consensus pattern (27 bp):
TGGGATAGGTTAATTGGGTATTTGGTT
Found at i:587666 original size:46 final size:47
Alignment explanation
Indices: 587590--587681 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 47
587580 AGATAAGGTC
* *
587590 TGTAATTTCTTCGGTCTATTCCACTATAATCTCAGGGGGATAAGACA
1 TGTAATTTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGACA
* *
587637 TGTAA-TTCTTCGGTTTATTCCACTGTAATCTCAGAGAGATAAGAC
1 TGTAATTTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGAC
587682 CTGATGCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 36 0.88
47 5 0.12
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (47 bp):
TGTAATTTCTTCGGTCTATTCCACTATAATCTCAGAGAGATAAGACA
Found at i:592792 original size:180 final size:181
Alignment explanation
Indices: 592431--592792 Score: 618
Period size: 181 Copynumber: 2.0 Consensus size: 181
592421 CTCATAATTT
*
592431 CTAATGATTCCTTATGAGGTAGGATTTGTTTATCCTCTTGTTCCACCATTCTCAACAAGTCCGGA
1 CTAATGATTCCTTATGAGGTAGGATTTGTTTATCCTCTTGCTCCACCATTCTCAACAAGTCCGGA
* *
592496 GATACACCACAGTCTTCGTTATTTTCAAAGTCATAAGATCCTTCCAAACACATGTCTTGCTCAAA
66 GATACACCACAGTCTTCATCATTTTCAAAGTCATAAGATCCTTCCAAACACATGTCTTGCTCAAA
592561 AAGAGACTCCGTGTTTGAAACAACATCACTCATGTCATTGATATCTGAGGA
131 AAGAGACTCCGTGTTTGAAACAACATCACTCATGTCATTGATATCTGAGGA
* * * *
592612 CTAATGGTTCCTTATGATGTAGGATTTGTTTATCCTCTTGCTCCACCATTCTCAATAAGTCTGGA
1 CTAATGATTCCTTATGAGGTAGGATTTGTTTATCCTCTTGCTCCACCATTCTCAACAAGTCCGGA
* * *
592677 GATACACCATAGTCTTCATCATTTTCAAAGTCA-GAGATCCTTCCGAACACATGTCTTGCTCAAA
66 GATACACCACAGTCTTCATCATTTTCAAAGTCATAAGATCCTTCCAAACACATGTCTTGCTCAAA
*
592741 AAGAGACTCCGTGTTTGAAACAACATCACTCATGTCATTGATATTTGAGGA
131 AAGAGACTCCGTGTTTGAAACAACATCACTCATGTCATTGATATCTGAGGA
592792 C
1 C
592793 CTATGGGGAT
Statistics
Matches: 170, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
180 80 0.47
181 90 0.53
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (181 bp):
CTAATGATTCCTTATGAGGTAGGATTTGTTTATCCTCTTGCTCCACCATTCTCAACAAGTCCGGA
GATACACCACAGTCTTCATCATTTTCAAAGTCATAAGATCCTTCCAAACACATGTCTTGCTCAAA
AAGAGACTCCGTGTTTGAAACAACATCACTCATGTCATTGATATCTGAGGA
Found at i:600373 original size:17 final size:17
Alignment explanation
Indices: 600345--600380 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
600335 AAATTACTTT
600345 TAAAAGTATATTATAAAA
1 TAAAAGTATATTA-AAAA
600363 TAAAAGT-TATTAAAAA
1 TAAAAGTATATTAAAAA
600379 TA
1 TA
600381 TATTATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAAGTATATTAAAAA
Found at i:601705 original size:15 final size:15
Alignment explanation
Indices: 601685--601716 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
601675 GGTTATTGGG
601685 CTATCTGTAAATGGA
1 CTATCTGTAAATGGA
601700 CTATCTGTAAATGGA
1 CTATCTGTAAATGGA
601715 CT
1 CT
601717 TAGCTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (15 bp):
CTATCTGTAAATGGA
Found at i:604046 original size:14 final size:14
Alignment explanation
Indices: 604027--604056 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
604017 CTGAATTTTT
604027 AAAAAATTTAGTAA
1 AAAAAATTTAGTAA
*
604041 AAAAAATTTTGTAA
1 AAAAAATTTAGTAA
604055 AA
1 AA
604057 CACTCTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAAAATTTAGTAA
Found at i:604569 original size:19 final size:19
Alignment explanation
Indices: 604545--604678 Score: 82
Period size: 19 Copynumber: 6.8 Consensus size: 19
604535 CCCCTCTTCT
604545 TCTTCTTCTTCTTTTTTTC
1 TCTTCTTCTTCTTTTTTTC
*
604564 TCTTCTCCTTTCCTTTTCTTTC
1 TCTTCTTC-TT-CTTTT-TTTC
* *
604586 -CTTCTTTTTCTTTCTTTTT
1 TCTTCTTCTTCTTT-TTTTC
*
604605 TCTTCTTCTCCTTTCATTTTC
1 TCTTCTTCTTCTTT--TTTTC
*
604626 T-TTCCTTCTT-TTTCTTTC
1 TCTT-CTTCTTCTTTTTTTC
*
604644 T-TTCTTTCTAT-TTTCTTTC
1 TCTTC-TTCT-TCTTTTTTTC
604663 T-TTCTTTCTTCTTTTT
1 TCTTC-TTCTTCTTTTT
604679 CCCTCTCCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
17 1 0.01
18 12 0.13
19 36 0.38
20 21 0.22
21 20 0.21
22 4 0.04
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTCTTCTTCTTTTTTTC
Found at i:604599 original size:4 final size:4
Alignment explanation
Indices: 604578--604676 Score: 79
Period size: 4 Copynumber: 25.8 Consensus size: 4
604568 CTCCTTTCCT
*
604578 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC -TTC TTCTCC TTTC ATTTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTTC --TTTC
* *
604626 TTTC CTTC -TT- TTTC TTTC TTTC TTTC TAT- TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
604671 -TTC TTT
1 TTTC TTT
604677 TTCCCTCTCC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
3 19 0.24
4 51 0.65
5 2 0.03
6 7 0.09
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:604616 original size:44 final size:45
Alignment explanation
Indices: 604543--604679 Score: 175
Period size: 44 Copynumber: 3.2 Consensus size: 45
604533 CTCCCCTCTT
* *
604543 CTTCTTCTTC-TTCTTTTTT-TCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTATCTTCTCCTTTCCTTTTCTTTC
*
604586 CTTCTTTTTCTTTCTTTTTTCT-TCTTCTCCTTTCATTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTATCTTCTCCTTTCCTTTTCTTTC
604630 CTTCTTTTTCTTTCTTTCTTTCTAT-TT-T-CTTT-C-TTTCTTT-
1 CTTCTTTTTCTTTCTTT-TTTCTATCTTCTCCTTTCCTTTTCTTTC
604670 CTTCTTTTTC
1 CTTCTTTTTC
604680 CCTCTCCATC
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
40 10 0.11
41 7 0.08
43 13 0.15
44 48 0.55
45 8 0.09
46 1 0.01
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (45 bp):
CTTCTTTTTCTTTCTTTTTTCTATCTTCTCCTTTCCTTTTCTTTC
Found at i:604638 original size:77 final size:77
Alignment explanation
Indices: 604515--604676 Score: 181
Period size: 77 Copynumber: 2.1 Consensus size: 77
604505 CTACCTTTTC
*
604515 TTTCTTTCTTTTTCCTTCCTCCCCTCTTCTTCTTCTTCTTCTTTTTTTCTCTTC-TCCTTTC-CT
1 TTTCTTTCTTTTTCCTTCCTCCCCTCTTCTTCTTCTTCTTC-TTTTTTCT-TTCTTCCTTTCTAT
604578 TTTCTTTCCTTCTT
64 TTTCTTTCCTTCTT
* * * *
604592 TTTCTTTCTTTTTTCTTCTTCTCCT-TTCATT-TTCTTTCCTTC-TTTTTCTTTCTTTCTTTCTA
1 TTTCTTTCTTTTTCCTTCCTCCCCTCTTC-TTCTTC-TT-CTTCTTTTTTCTTTCTTCCTTTCTA
*
604654 TTTTCTTTCTTTCTT
63 TTTTCTTTCCTTCTT
604669 TCTTCTTT
1 T-TTCTTT
604677 TTCCCTCTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
75 3 0.04
76 19 0.26
77 41 0.56
78 10 0.14
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (77 bp):
TTTCTTTCTTTTTCCTTCCTCCCCTCTTCTTCTTCTTCTTCTTTTTTCTTTCTTCCTTTCTATTT
TCTTTCCTTCTT
Found at i:604762 original size:27 final size:27
Alignment explanation
Indices: 604732--604796 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
604722 TATATGGGTA
* *
604732 GTGCCGCCCATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAAAGACACCATCG
* * *
604759 GTGCCGCCTATGGGAAAGACACCTTTG
1 GTGCCGCCCATGGGAAAGACACCATCG
604786 GTGCCGCCCAT
1 GTGCCGCCCAT
604797 AGGGTATCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (27 bp):
GTGCCGCCCATGGGAAAGACACCATCG
Found at i:607592 original size:22 final size:21
Alignment explanation
Indices: 607567--607613 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
607557 TTTAAAGCAC
*
607567 AAAAATATATATACATAAAAAT
1 AAAAAAATATAT-CATAAAAAT
*
607589 AAAAAAATGTATCATAAAAAT
1 AAAAAAATATATCATAAAAAT
607610 AAAA
1 AAAA
607614 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAAATATATCATAAAAAT
Found at i:609488 original size:51 final size:50
Alignment explanation
Indices: 609322--609565 Score: 181
Period size: 51 Copynumber: 4.8 Consensus size: 50
609312 TCGGGAAAGC
* * *
609322 AAGATTCACCGTTGTGGCTTTAATCTGCTCCACTACACTACCTGGGAGAGT
1 AAGATTCACTGTTGTGGCTTTAATCTGCTCCACTGCACT-GCTGGGAGAGT
* * * * ** * * *
609373 AAGATTC-GTCATTGTGACTTTAATCCT-TTTAACTGCAATG-TCGGGAAAGC
1 AAGATTCACT-GTTGTGGCTTTAAT-CTGCTCCACTGCACTGCT-GGGAGAGT
* *
609423 AAAATTCACTGTTGTGGCTTTAATCTGCTCCATTGCACTGCATGGGAGAGT
1 AAGATTCACTGTTGTGGCTTTAATCTGCTCCACTGCACTGC-TGGGAGAGT
* ** ** * * *
609474 AAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA-AGC
1 AAGATTCACTGTTGTGGCTTTAATCTGCTCCACTGCACTG-CTGGGAGAGT
* * *
609524 ATGATTCGCTGTTGTGGCTTTAATCTGCTCCACTACACTGCT
1 AAGATTCACTGTTGTGGCTTTAATCTGCTCCACTGCACTGCT
609566 TGAAAGATAA
Statistics
Matches: 142, Mismatches: 43, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
49 4 0.03
50 65 0.46
51 69 0.49
52 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (50 bp):
AAGATTCACTGTTGTGGCTTTAATCTGCTCCACTGCACTGCTGGGAGAGT
Found at i:609549 original size:50 final size:50
Alignment explanation
Indices: 609282--609549 Score: 198
Period size: 50 Copynumber: 5.3 Consensus size: 50
609272 AAGATTTGTC
* * * * *
609282 GTTGTGACTTTAATCCTTTTAAATGCAATGTCGGGAAAGCAAGATTCACC
1 GTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACT
** ** * * ** * * *
609332 GTTGTGGCTTTAATCTGCTCCACTACACTACCTGGGAGAGTAAGATTC-GT
1 GTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGA-AGCAAGATTCACT
* * * * *
609382 CATTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAAATTCACT
1 -GTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACT
** ** * * * *
609433 GTTGTGGCTTTAATCTGCTCCATTGCACTG-CATGGGAGAGTAAGATTCACT
1 GTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGGA-AGCAAGATTCACT
* * *
609484 GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCT
1 GTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACT
609534 GTTGTGGCTTTAATCT
1 GTTGTGGCTTTAATCT
609550 GCTCCACTAC
Statistics
Matches: 155, Mismatches: 57, Indels: 12
0.69 0.25 0.05
Matches are distributed among these distances:
49 1 0.01
50 81 0.52
51 72 0.46
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (50 bp):
GTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACT
Found at i:609564 original size:101 final size:101
Alignment explanation
Indices: 609188--609562 Score: 472
Period size: 101 Copynumber: 3.7 Consensus size: 101
609178 GTAACTCGTA
** * * * * * *
609188 ACTTTAAT-CTGTTTAACTGTGATGTCAAGG-AAGCAAGACTCGCTGTTGTAGCTTCAATCTGTT
1 ACTTTAATCCT-TTTAACTGCAATGTC-GGGAAAGCAAGATTCACTGTTGTGGCTTTAATCTGCT
* *
609251 CCACTACACCACCTGGGA-AGTAAGATTTGTCGTTGTG
64 CCACTACACTACCTGGGAGAGTAAGATTCGTCGTTGTG
* *
609288 ACTTTAATCCTTTTAAATGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCC
1 ACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTGTGGCTTTAATCTGCTCC
*
609353 ACTACACTACCTGGGAGAGTAAGATTCGTCATTGTG
66 ACTACACTACCTGGGAGAGTAAGATTCGTCGTTGTG
*
609389 ACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAAATTCACTGTTGTGGCTTTAATCTGCTCC
1 ACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTGTGGCTTTAATCTGCTCC
* * * * *
609454 ATTGCACTGCATGGGAGAGTAAGATTC-ACTGTTGT-
66 ACTACACTACCTGGGAGAGTAAGATTCGTC-GTTGTG
* * * *
609489 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGCTC
1 A-CTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTGTGGCTTTAATCTGCTC
609554 CACTACACT
65 CACTACACT
609563 GCTTGAAAGA
Statistics
Matches: 241, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
99 2 0.01
100 66 0.27
101 173 0.72
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (101 bp):
ACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTGTGGCTTTAATCTGCTCC
ACTACACTACCTGGGAGAGTAAGATTCGTCGTTGTG
Found at i:609728 original size:44 final size:44
Alignment explanation
Indices: 609680--609841 Score: 209
Period size: 44 Copynumber: 3.7 Consensus size: 44
609670 ATTTTAATAC
* * * * **
609680 GCTCCACTGTAATCTCAGGGAAATAGGATTACTGAATTCAATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCT
* *
609724 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCT
*
609768 GCTCCAC-GATAACCTCAGGGAGATAAGATTTCTGGCTTCAATTT
1 GCTCCACTG-TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCT
* *
609812 GCTCCACCGTAACCTCAGGGGGATAAGATT
1 GCTCCACTGTAACCTCAGGGAGATAAGATT
609842 CACCATTTTC
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
43 1 0.01
44 104 0.98
45 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (44 bp):
GCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCT
Found at i:610048 original size:128 final size:128
Alignment explanation
Indices: 609892--610320 Score: 684
Period size: 128 Copynumber: 3.4 Consensus size: 128
609882 AATTTGGAAT
* *
609892 TCTTCGGTCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * *
609957 GACCAAGGAGATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCG
66 GACCAGGGACATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTGCCG
* * *
610020 TCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCATTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* *
610085 AACCAGGGACATAGGACGTGTGGCTTAAAT-TTGCTTCCTTACACTTGAAGATAAGATTTGCCG
66 GACCAGGGACATAGGACTTGTGGCTTAAATCTT-CTTCCTTACACTTGAAGATAAGATTTGCCG
* *
610148 TCTTCGATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTGTTCCACTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* *
610213 GACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTACTTACTA-TTGAAGATAAGATTTGCCG
66 GACCAGGGACATAGGACTTGTGGCTTAAATCTTCTTCCTTAC-ACTTGAAGATAAGATTTGCCG
610276 -CTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT
1 TC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT
610321 ATTCACTGAT
Statistics
Matches: 277, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
127 3 0.01
128 272 0.98
129 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (128 bp):
TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
GACCAGGGACATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTGCCG
Found at i:611459 original size:42 final size:42
Alignment explanation
Indices: 611376--611459 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
611366 GGCATAGCAA
**
611376 GATCACCACATGCCCCAATATGATCAAAATTCGAGTTGCTCT
1 GATCACCACATGCCCCAATATGATCAAAATTCGAGCCGCTCT
* * * * * *
611418 GATCACCTCATGCCTCATTTTGATCAATATTTGAGCCGCTCT
1 GATCACCACATGCCCCAATATGATCAAAATTCGAGCCGCTCT
611460 TTTCGGGTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (42 bp):
GATCACCACATGCCCCAATATGATCAAAATTCGAGCCGCTCT
Found at i:611547 original size:7 final size:7
Alignment explanation
Indices: 611526--611580 Score: 60
Period size: 7 Copynumber: 7.6 Consensus size: 7
611516 CCTTAGCCTC
611526 TTCATTT
1 TTCATTT
611533 TT-ACTTT
1 TTCA-TTT
611540 TTCATTTTT
1 TTCA--TTT
611549 TTCATTT
1 TTCATTT
611556 TTC-TTT
1 TTCATTT
611562 TTCATTTT
1 TTCA-TTT
611570 TTCATTT
1 TTCATTT
611577 TTCA
1 TTCA
611581 CATTTTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
6 7 0.17
7 20 0.48
8 8 0.19
9 7 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCATTT
Found at i:611551 original size:9 final size:8
Alignment explanation
Indices: 611537--611588 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 8
611527 TCATTTTTAC
611537 TTTTTCATT
1 TTTTTCA-T
611546 TTTTTCA-
1 TTTTTCAT
611553 TTTTTC--
1 TTTTTCAT
611559 TTTTTCAT
1 TTTTTCAT
611567 TTTTTCAT
1 TTTTTCAT
*
611575 TTTTCACAT
1 TTTT-TCAT
611584 TTTTT
1 TTTTT
611589 TGACTCAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 12 0.32
9 14 0.37
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Done.