Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 104 of 199
Found at i:29424988 original size:9 final size:9
Alignment explanation
Indices: 29424955--29424996 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
29424945 TAAAAATCTA
29424955 TAAAAAATAT
1 TAAAAAAT-T
* *
29424965 TTAAAATTT
1 TAAAAAATT
29424974 TAAAAAATT
1 TAAAAAATT
29424983 TAAAAAA-T
1 TAAAAAATT
29424991 TAAAAA
1 TAAAAA
29424997 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 7 0.25
9 15 0.54
10 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAAATT
Found at i:29424993 original size:17 final size:18
Alignment explanation
Indices: 29424957--29424996 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
29424947 AAAATCTATA
**
29424957 AAAAATATTTAAAATTTT
1 AAAAATATTTAAAAAATT
29424975 AAAAA-ATTTAAAAAATT
1 AAAAATATTTAAAAAATT
29424992 AAAAA
1 AAAAA
29424997 GTTGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATTTAAAAAATT
Found at i:29426124 original size:7 final size:7
Alignment explanation
Indices: 29426095--29426160 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
29426085 CAAAAATGAC
29426095 ATAAAAA
1 ATAAAAA
29426102 TATAAATAA
1 -ATAAA-AA
*
29426111 ATTAAAA
1 ATAAAAA
29426118 ATAAAAA
1 ATAAAAA
29426125 ACTAAAAA
1 A-TAAAAA
**
29426133 ATAAGTA
1 ATAAAAA
*
29426140 TTAAAAA
1 ATAAAAA
*
29426147 TTAAAAAA
1 AT-AAAAA
29426155 ATAAAA
1 ATAAAA
29426161 TATATCAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
7 23 0.49
8 22 0.47
9 2 0.04
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
ATAAAAA
Found at i:29426132 original size:15 final size:15
Alignment explanation
Indices: 29426095--29426160 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
29426085 CAAAAATGAC
29426095 ATAAAAATATAAATAA
1 ATAAAAA-ATAAATAA
*
29426111 ATTAAAAATAAA-AA
1 ATAAAAAATAAATAA
*
29426125 ACTAAAAAATAAGT-A
1 A-TAAAAAATAAATAA
* * *
29426140 TTAAAAATTAAAAAA
1 ATAAAAAATAAATAA
29426155 ATAAAA
1 ATAAAA
29426161 TATATCAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
14 12 0.31
15 21 0.54
16 6 0.15
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
ATAAAAAATAAATAA
Found at i:29426134 original size:22 final size:20
Alignment explanation
Indices: 29426095--29426160 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 20
29426085 CAAAAATGAC
29426095 ATAAAAATATAAATAAATTAAAA
1 ATAAAAA-ATAAA-AAA-TAAAA
*
29426118 ATAAAAAACTAAAAAATAAGTA
1 ATAAAAAA-TAAAAAATAA-AA
* *
29426140 TTAAAAATTAAAAAAATAAAA
1 ATAAAAAAT-AAAAAATAAAA
29426161 TATATCAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.14
22 20 0.56
23 11 0.31
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAAAATAAAAAATAAAA
Found at i:29426473 original size:19 final size:20
Alignment explanation
Indices: 29426449--29426487 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
29426439 AAAAGAATTC
29426449 TTTAAAAAATCTAAA-ATAT
1 TTTAAAAAATCTAAATATAT
*
29426468 TTTAAAAACTCTAAATATAT
1 TTTAAAAAATCTAAATATAT
29426488 ATATATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAAAAATCTAAATATAT
Found at i:29426667 original size:44 final size:44
Alignment explanation
Indices: 29426613--29426696 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
29426603 TCATAAATGT
* *
29426613 TAGTTTGTGTTTTAAACTGGTCTTCGTTATTTTCTTAAAGCCAC
1 TAGTTTGTGTTTTAAACTGATCTACGTTATTTTCTTAAAGCCAC
* *
29426657 TAGTTTGTGTTTTAAATTGATCTACTTTATTTTCTTAAAG
1 TAGTTTGTGTTTTAAACTGATCTACGTTATTTTCTTAAAG
29426697 TTGCAACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (44 bp):
TAGTTTGTGTTTTAAACTGATCTACGTTATTTTCTTAAAGCCAC
Found at i:29429337 original size:18 final size:16
Alignment explanation
Indices: 29429295--29429337 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
29429285 TGTTGTTCGT
29429295 TTTCAAAATATTATTCA
1 TTTC-AAATATTATTCA
29429312 TTTACAAATCATTATTCAA
1 TTT-CAAAT-ATTATTC-A
29429331 TTTCAAA
1 TTTCAAA
29429338 ATGTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTCAAATATTATTCA
Found at i:29429339 original size:19 final size:17
Alignment explanation
Indices: 29429295--29429339 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
29429285 TGTTGTTCGT
29429295 TTTCAAAATATTATTCA
1 TTTCAAAATATTATTCA
29429312 TTT-ACAAATCATTATTCAA
1 TTTCA-AAAT-ATTATTC-A
29429331 TTTCAAAAT
1 TTTCAAAAT
29429340 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 7 0.29
18 7 0.29
19 8 0.33
20 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:29431747 original size:17 final size:18
Alignment explanation
Indices: 29431715--29431749 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29431705 TCATTGTGTT
*
29431715 CGCCCGTGTGGGCCCACA
1 CGCCCATGTGGGCCCACA
29431733 CGCCCATGT-GGCCCACA
1 CGCCCATGTGGGCCCACA
29431750 TGACCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCATGTGGGCCCACA
Found at i:29434477 original size:161 final size:161
Alignment explanation
Indices: 29434205--29434527 Score: 567
Period size: 161 Copynumber: 2.0 Consensus size: 161
29434195 TAATCAATTT
* *
29434205 CATGAACATAAACATACTTTCGTTGAACATTACCTTTTTATTTCTTTTCATGGATTCTTGATATA
1 CATGAACATAAACATACTTTCATTGAACATTACCTTTTTATTTCTTTTCATGGATTCATGATATA
* *
29434270 AGTCCTTTGAATACTTACCTATCCCTTCCTTTTCATACCTGTTGAATCAAATGAAATAACATCGA
66 AGTCCTTTGAATACTTACCAATCCCTTCCTTTTCATACCCGTTGAATCAAATGAAATAACATCGA
*
29434335 ATAATGAAAATAATATTTTCCGTACAACTTA
131 ATAATGAAAATAATATTTTCAGTACAACTTA
*
29434366 CATGAACATAAACATACTTTCATTGAACATTACCTTTTTA-TTCTTTTTCATGGATTCATGATGT
1 CATGAACATAAACATACTTTCATTGAACATTACCTTTTTATTTC-TTTTCATGGATTCATGATAT
*
29434430 AAGTCCTTTGAATACTTACCAATCCCTTCCTTTTCATACCCGTTGAATCAAATGAAATAACATTG
65 AAGTCCTTTGAATACTTACCAATCCCTTCCTTTTCATACCCGTTGAATCAAATGAAATAACATCG
29434495 AATAATGAAAATAATATTTTCAGTACAACTTA
130 AATAATGAAAATAATATTTTCAGTACAACTTA
29434527 C
1 C
29434528 CTGATACAAT
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
160 3 0.02
161 151 0.98
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (161 bp):
CATGAACATAAACATACTTTCATTGAACATTACCTTTTTATTTCTTTTCATGGATTCATGATATA
AGTCCTTTGAATACTTACCAATCCCTTCCTTTTCATACCCGTTGAATCAAATGAAATAACATCGA
ATAATGAAAATAATATTTTCAGTACAACTTA
Found at i:29434598 original size:41 final size:40
Alignment explanation
Indices: 29434527--29434886 Score: 269
Period size: 41 Copynumber: 9.1 Consensus size: 40
29434517 GTACAACTTA
* * * *
29434527 CCTGATACAATAC-CATGACACGAAGACTGCTTGGCTCAAAG
1 CCTGATATAATACACA-G-CACGAAGCCTGCTAGGCACAAAG
** *
29434568 CCTGATATAATACATCAGCATAAATCCTGCTAGGCACAAAG
1 CCTGATATAATACA-CAGCACGAAGCCTGCTAGGCACAAAG
* * *
29434609 CCTAATATAATACACTGGCACGAAGCTTGCTAGGCACAAAG
1 CCTGATATAATACAC-AGCACGAAGCCTGCTAGGCACAAAG
* * *
29434650 CCTGACATAATACACCAACACGAAGCCTACTAGGCACAAAG
1 CCTGATATAATACA-CAGCACGAAGCCTGCTAGGCACAAAG
* *
29434691 CCTGATATAATACACCGACACTAAGCCTGCTAGGCACAAAG
1 CCTGATATAATACACAG-CACGAAGCCTGCTAGGCACAAAG
* *
29434732 CCTGATAT-AT-CACCGGCACAAAGCCTGCTAGGCACAAAG
1 CCTGATATAATACA-CAGCACGAAGCCTGCTAGGCACAAAG
* * *
29434771 -CTCGA-ATATTAC-CGGCAC-AATGCCTGCTAGGCACGAAG
1 CCT-GATATAATACACAGCACGAA-GCCTGCTAGGCACAAAG
* * * **
29434809 CCT-AAAT-AT-CACCGGCACAAAGCCTGCTAGGCACGGAG
1 CCTGATATAATACA-CAGCACGAAGCCTGCTAGGCACAAAG
* * * *
29434847 CCTGA-AT-AT-CACCGGTACAAAGCCTGCTAGGCACGAAG
1 CCTGATATAATACA-CAGCACGAAGCCTGCTAGGCACAAAG
29434885 CC
1 CC
29434887 CGAATATCAT
Statistics
Matches: 271, Mismatches: 32, Indels: 35
0.80 0.09 0.10
Matches are distributed among these distances:
36 1 0.00
37 4 0.01
38 86 0.32
39 32 0.12
40 7 0.03
41 137 0.51
42 2 0.01
43 2 0.01
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (40 bp):
CCTGATATAATACACAGCACGAAGCCTGCTAGGCACAAAG
Found at i:29434796 original size:38 final size:38
Alignment explanation
Indices: 29434593--29434935 Score: 337
Period size: 38 Copynumber: 8.8 Consensus size: 38
29434583 CAGCATAAAT
* * * *
29434593 CCTGCTAGGCACAAAGCCTAATATAATACACTGGCACGAAG
1 CCTGCTAGGCACGAAGCCTGA-AT-AT-CACCGGCACAAAG
* * ** *
29434634 CTTGCTAGGCACAAAGCCTGACATAATACACCAACACGAAG
1 CCTGCTAGGCACGAAGCCTGA-AT-AT-CACCGGCACAAAG
* * * *
29434675 CCTACTAGGCACAAAGCCTGATATAATACACCGACACTAAG
1 CCTGCTAGGCACGAAGCCTGA-AT-AT-CACCGGCACAAAG
*
29434716 CCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAG
1 CCTGCTAGGCACGAAGCCTGA-ATATCACCGGCACAAAG
* * *
29434755 CCTGCTAGGCACAAAG-CTCGAATATTACCGGCACAATG
1 CCTGCTAGGCACGAAGCCT-GAATATCACCGGCACAAAG
*
29434793 CCTGCTAGGCACGAAGCCTAAATATCACCGGCACAAAG
1 CCTGCTAGGCACGAAGCCTGAATATCACCGGCACAAAG
* *
29434831 CCTGCTAGGCACGGAGCCTGAATATCACCGGTACAAAG
1 CCTGCTAGGCACGAAGCCTGAATATCACCGGCACAAAG
* * *
29434869 CCTGCTAGGCACGAAGCCCGAATATCATCGGCATAAAG
1 CCTGCTAGGCACGAAGCCTGAATATCACCGGCACAAAG
* * **
29434907 CCTGCTAGGCATGGAGCCCAAATATCACC
1 CCTGCTAGGCACGAAGCCTGAATATCACC
29434936 ACGTTTCTAT
Statistics
Matches: 268, Mismatches: 32, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
38 141 0.53
39 31 0.12
40 2 0.01
41 94 0.35
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (38 bp):
CCTGCTAGGCACGAAGCCTGAATATCACCGGCACAAAG
Found at i:29434832 original size:76 final size:78
Alignment explanation
Indices: 29434545--29434917 Score: 353
Period size: 82 Copynumber: 4.7 Consensus size: 78
29434535 AATACCATGA
* * * * * * * *
29434545 CACGAAGACTGCTTGGCTCAAAGCCTGATATAATACATCAGCATAAATCCTGCTAGGCACAAAGC
1 CACGAAGCCTGCTAGGCACAAAGCCTGAAAT-AT-CACCGGCACAAAGCCTGCTAGGCACAAAGC
* *
29434610 CTAATATAATACACTGG
64 CTGA-AT-ATACACCGG
* * ** * *
29434627 CACGAAGCTTGCTAGGCACAAAGCCTGACATAATACACCAACACGAAGCCTACTAGGCACAAAGC
1 CACGAAGCCTGCTAGGCACAAAGCCTGAAAT-AT-CACCGGCACAAAGCCTGCTAGGCACAAAGC
*
29434692 CTGATATAATACACCGA
64 CTGA-AT-ATACACCGG
* *
29434709 CACTAAGCCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCCTGCTAGGCACAAAG-CT
1 CACGAAGCCTGCTAGGCACAAAGCCTGAAATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCT
*
29434773 CGAATAT-TACCGG
66 -GAATATACACCGG
* **
29434786 CAC-AATGCCTGCTAGGCACGAAGCCT-AAATATCACCGGCACAAAGCCTGCTAGGCACGGAGCC
1 CACGAA-GCCTGCTAGGCACAAAGCCTGAAATATCACCGGCACAAAGCCTGCTAGGCACAAAGCC
29434849 TGAATAT-CACCGG
65 TGAATATACACCGG
* * * * * *
29434862 TACAAAGCCTGCTAGGCACGAAGCCCG-AATATCATCGGCATAAAGCCTGCTAGGCA
1 CACGAAGCCTGCTAGGCACAAAGCCTGAAATATCACCGGCACAAAGCCTGCTAGGCA
29434918 TGGAGCCCAA
Statistics
Matches: 254, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
76 93 0.37
77 30 0.12
78 2 0.01
79 4 0.02
80 27 0.11
81 2 0.01
82 96 0.38
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (78 bp):
CACGAAGCCTGCTAGGCACAAAGCCTGAAATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCT
GAATATACACCGG
Found at i:29434879 original size:114 final size:115
Alignment explanation
Indices: 29434593--29434935 Score: 382
Period size: 114 Copynumber: 2.9 Consensus size: 115
29434583 CAGCATAAAT
* * * * *
29434593 CCTGCTAGGCACAAAGCCTAATATAATACACTGGCACGAAGCTTGCTAGGCACAAAGCCTGACAT
1 CCTGCTAGGCACAAAGCCTGATAT-AT-CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGA-AT
** * * * * *
29434658 AATACACCAACACGAAGCCTACTAGGCACAAAGCCTGATATAATACACCGACACTAAG
63 -AT-CACCGGCACAAAGCCTGCTAGGCACGAAGCCT-AAAT-AT-CACCGACACAAAG
* *
29434716 CCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCCTGCTAGGCACAAAGCTCGAATATT
1 CCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATC
* *
29434781 ACCGGCACAATGCCTGCTAGGCACGAAGCCTAAATATCACCGGCACAAAG
66 ACCGGCACAAAGCCTGCTAGGCACGAAGCCTAAATATCACCGACACAAAG
** * *
29434831 CCTGCTAGGCACGGAGCCTGA-ATATCACCGGTACAAAGCCTGCTAGGCACGAAGCCCGAATATC
1 CCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATC
* * * * *
29434895 ATCGGCATAAAGCCTGCTAGGCATGGAGCCCAAATATCACC
66 ACCGGCACAAAGCCTGCTAGGCACGAAGCCTAAATATCACC
29434936 ACGTTTCTAT
Statistics
Matches: 192, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
114 74 0.39
115 30 0.16
116 2 0.01
117 3 0.02
118 25 0.13
119 2 0.01
120 2 0.01
121 29 0.15
122 2 0.01
123 23 0.12
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (115 bp):
CCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATATC
ACCGGCACAAAGCCTGCTAGGCACGAAGCCTAAATATCACCGACACAAAG
Found at i:29437058 original size:21 final size:21
Alignment explanation
Indices: 29437034--29437073 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29437024 TTTAAACCAC
*
29437034 GTTGTGGATGAACCACTAATT
1 GTTGTAGATGAACCACTAATT
*
29437055 GTTGTAGATGAACTACTAA
1 GTTGTAGATGAACCACTAA
29437074 CGATAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
GTTGTAGATGAACCACTAATT
Found at i:29437202 original size:96 final size:96
Alignment explanation
Indices: 29437032--29437243 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
29437022 CCTTTAAACC
** * *
29437032 ACGTTGTGGATGAACCACTAATTGTTGTAGATGAACTACTAACGATAAGATTATTGGTGGGTGAA
1 ACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGGTGAA
*
29437097 CCAAACATCGGAGAAGATGAAAACTACTAGT
66 CCAAACATCGGAGAAGATCAAAACTACTAGT
*
29437128 ACGTTGTGGATGAACCACTGATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGGTGAA
1 ACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGGTGAA
** * ** *
29437193 CCATCCATCGGTGAAGATCAAAGTTGCTAGT
66 CCAAACATCGGAGAAGATCAAAACTACTAGT
*
29437224 ATGTTGTGGATGAACCACTA
1 ACGTTGTGGATGAACCACTA
29437244 GTCGTACAGA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (96 bp):
ACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGGTGAA
CCAAACATCGGAGAAGATCAAAACTACTAGT
Found at i:29445479 original size:27 final size:27
Alignment explanation
Indices: 29445440--29445507 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
29445430 ATAACATAAA
* * *
29445440 GCAT-ACAATCATTTTATAATATAGGG
1 GCATAACAGTCATTTTACAACATAGGG
* *
29445466 GCATAACAGTCATTTTACCACATGGGG
1 GCATAACAGTCATTTTACAACATAGGG
29445493 GCATAACAGTCATTT
1 GCATAACAGTCATTT
29445508 CATACCAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (27 bp):
GCATAACAGTCATTTTACAACATAGGG
Found at i:29447438 original size:34 final size:34
Alignment explanation
Indices: 29447391--29447464 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
29447381 TAAAATCATT
29447391 CATG-TTGTGACAAGTCAATACAGTAGCAATAAA
1 CATGCTTGTGACAAGTCAATACAGTAGCAATAAA
* *
29447424 CATGCTTGTGACAAGTCGATACAGTAGCAATTAA
1 CATGCTTGTGACAAGTCAATACAGTAGCAATAAA
29447458 CATGCTT
1 CATGCTT
29447465 ATAATAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (34 bp):
CATGCTTGTGACAAGTCAATACAGTAGCAATAAA
Found at i:29456469 original size:14 final size:14
Alignment explanation
Indices: 29456450--29456479 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29456440 AATGTCACAT
29456450 GTACTTGTCATGAC
1 GTACTTGTCATGAC
*
29456464 GTACTTTTCATGAC
1 GTACTTGTCATGAC
29456478 GT
1 GT
29456480 TTTAATCATT
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (14 bp):
GTACTTGTCATGAC
Found at i:29457934 original size:20 final size:20
Alignment explanation
Indices: 29457911--29457948 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29457901 TAATAGTTTA
*
29457911 TTTAAGTTAATAAAACTAAG
1 TTTAAGATAATAAAACTAAG
*
29457931 TTTAAGATAATTAAACTA
1 TTTAAGATAATAAAACTA
29457949 GATTAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (20 bp):
TTTAAGATAATAAAACTAAG
Found at i:29460028 original size:117 final size:117
Alignment explanation
Indices: 29459822--29460039 Score: 364
Period size: 117 Copynumber: 1.9 Consensus size: 117
29459812 CCCTGATTGC
* *
29459822 ACTTACGTGCCTCTATCGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTATCGTACTTCGG
1 ACTTACGTGCCCCTATCGTACTTCGATACCCCTGATCGCACTTACGTGCCCCTATCGTACTTCGG
*
29459887 TACCCTTGATCGCACTTATGTGCCCCTGTTGTACTTTGGCACCCCTAATCGG
66 TACCCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGCACCCCTAATCGG
* * * * *
29459939 ACTTACGTGCCCCTGTTGTACTTCGATACCCCTGATCGTACTTACGTGCCTCTATTGTACTTCGG
1 ACTTACGTGCCCCTATCGTACTTCGATACCCCTGATCGCACTTACGTGCCCCTATCGTACTTCGG
29460004 TACCCCTGATCGCACTTATGTGCCCCTGTTGTACTT
66 TACCCCTGATCGCACTTATGTGCCCCTGTTGTACTT
29460040 CGACACTATT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 93 1.00
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.33
Consensus pattern (117 bp):
ACTTACGTGCCCCTATCGTACTTCGATACCCCTGATCGCACTTACGTGCCCCTATCGTACTTCGG
TACCCCTGATCGCACTTATGTGCCCCTGTTGTACTTTGGCACCCCTAATCGG
Found at i:29460059 original size:39 final size:39
Alignment explanation
Indices: 29459812--29460041 Score: 307
Period size: 39 Copynumber: 5.9 Consensus size: 39
29459802 ATAATGATAT
* * * *
29459812 CCCTGATTGCACTTACGTGCCTCTATCGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* *
29459851 CCCTGATCGCACTTACGTGCCCCTATCGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * * *
29459890 CCTTGATCGCACTTATGTGCCCCTGTTGTACTTTGGCAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * *
29459929 CCCTAATCGGACTTACGTGCCCCTGTTGTACTTCGATAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
* * *
29459968 CCCTGATCGTACTTACGTGCCTCTATTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
*
29460007 CCCTGATCGCACTTATGTGCCCCTGTTGTACTTCG
1 CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCG
29460042 ACACTATTGA
Statistics
Matches: 167, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 167 1.00
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCCCTGTTGTACTTCGGTAC
Found at i:29468285 original size:22 final size:22
Alignment explanation
Indices: 29468257--29468299 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
29468247 TCGTACAGTG
29468257 AAGAACCGATCAAAATTATGGT
1 AAGAACCGATCAAAATTATGGT
29468279 AAGAACCGATCAAAATTATGG
1 AAGAACCGATCAAAATTATGG
29468300 CTCGAGAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (22 bp):
AAGAACCGATCAAAATTATGGT
Found at i:29469763 original size:38 final size:39
Alignment explanation
Indices: 29469585--29469812 Score: 235
Period size: 39 Copynumber: 5.9 Consensus size: 39
29469575 ATAATTATAT
* * *** *
29469585 CCCTGATCGGACTTACGTGCCCCTGGCATACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
** * * *
29469624 CTGTGATCGCACTTACGTGCCCTTGTCGTACTTTGGAAC
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
* * * * * * *
29469663 CCATTATCGAACTTACATGCCCTTCTAGTACTTTGGTAC
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
* *
29469702 TCCTGATCGCACTTACGTGCCCTTGTTGTACTTCAGTAC
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
29469741 CCCTGATCG-ACTTACGTGCCCTTGTTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
* * *
29469779 CCTTGATCGCACTTACGT-CCCCTATTGTACTTCG
1 CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCG
29469813 ATACTTTTGA
Statistics
Matches: 159, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 50 0.31
39 109 0.69
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTAC
Found at i:29469772 original size:19 final size:19
Alignment explanation
Indices: 29469712--29469772 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
29469702 TCCTGATCGC
29469712 ACTTACGTGCCCTTGTTGT
1 ACTTACGTGCCCTTGTTGT
* * *
29469731 ACTT-CAGTACCCCTGATCG-
1 ACTTAC-GTGCCCTTG-TTGT
29469750 ACTTACGTGCCCTTGTTGT
1 ACTTACGTGCCCTTGTTGT
29469769 ACTT
1 ACTT
29469773 CGGTACCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.09
19 26 0.81
20 3 0.09
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (19 bp):
ACTTACGTGCCCTTGTTGT
Found at i:29469781 original size:19 final size:18
Alignment explanation
Indices: 29469721--29469783 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
29469711 CACTTACGTG
29469721 CCCTTGTTGTACTTCAGTA
1 CCCTTGTTGTACTTC-GTA
* * *
29469740 CCCCTGATCG-ACTTACGTG
1 CCCTTG-TTGTACTT-CGTA
29469759 CCCTTGTTGTACTTCGGTA
1 CCCTTGTTGTACTTC-GTA
29469778 CCCTTG
1 CCCTTG
29469784 ATCGCACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 3 0.09
19 28 0.82
20 3 0.09
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.37
Consensus pattern (18 bp):
CCCTTGTTGTACTTCGTA
Found at i:29469823 original size:38 final size:39
Alignment explanation
Indices: 29469627--29469837 Score: 200
Period size: 38 Copynumber: 5.5 Consensus size: 39
29469617 TTGGTACCTG
* *
29469627 TGATCGCACTTACGTGCCCTTGTCGTACTTTGGA-ACCCAT
1 TGATCGCACTTACGTGCCCTTGTTGTAC-TTCGATACCC-T
* * * * * *
29469667 T-ATCGAACTTACATGCCCTTCTAGTACTTTGGTACTCC-
1 TGATCGCACTTACGTGCCCTTGTTGTACTTCGATAC-CCT
*
29469705 TGATCGCACTTACGTGCCCTTGTTGTACTTC-AGTACCCC
1 TGATCGCACTTACGTGCCCTTGTTGTACTTCGA-TACCCT
*
29469744 TGATCG-ACTTACGTGCCCTTGTTGTACTTCGGTACCCT
1 TGATCGCACTTACGTGCCCTTGTTGTACTTCGATACCCT
* * **
29469782 TGATCGCACTTACGT-CCCCTATTGTACTTCGATACTTT
1 TGATCGCACTTACGTGCCCTTGTTGTACTTCGATACCCT
* *
29469820 TGATAGCACTTTCGTGCC
1 TGATCGCACTTACGTGCC
29469838 GTGGTTACGT
Statistics
Matches: 142, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 72 0.51
39 67 0.47
40 3 0.02
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.36
Consensus pattern (39 bp):
TGATCGCACTTACGTGCCCTTGTTGTACTTCGATACCCT
Found at i:29469837 original size:77 final size:77
Alignment explanation
Indices: 29469627--29469811 Score: 194
Period size: 77 Copynumber: 2.4 Consensus size: 77
29469617 TTGGTACCTG
* * * ** * * * * *
29469627 TGATCGCACTTACGTGCCCTTGTCGTACTTTGGAACCCATTATCGAACTTACATGCCCTTCTAGT
1 TGATCGCACTTACGTGCCCCTATTGTACTTCAGTACCCCTGATAG-ACTTACGTGCCCTTCTAGT
*
29469692 ACTTTGGTACTCC
65 ACTTCGGTACTCC
* * * * *
29469705 TGATCGCACTTACGTGCCCTTGTTGTACTTCAGTACCCCTGATCGACTTACGTGCCCTTGTTGTA
1 TGATCGCACTTACGTGCCCCTATTGTACTTCAGTACCCCTGATAGACTTACGTGCCCTTCTAGTA
29469770 CTTCGGTAC-CC
66 CTTCGGTACTCC
29469781 TTGATCGCACTTACGT-CCCCTATTGTACTTC
1 -TGATCGCACTTACGTGCCCCTATTGTACTTC
29469812 GATACTTTTG
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 15 0.16
77 40 0.43
78 39 0.41
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (77 bp):
TGATCGCACTTACGTGCCCCTATTGTACTTCAGTACCCCTGATAGACTTACGTGCCCTTCTAGTA
CTTCGGTACTCC
Found at i:29476401 original size:27 final size:27
Alignment explanation
Indices: 29476361--29476486 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
29476351 TGCGATTCGG
*
29476361 AAAATTACCAAAATACCCTTGAAGTGT
1 AAAATTACCAAAATACCCTTGAAGGGT
*** *
29476388 AAAATTATTGAAATATCCC--AAAGGGT
1 AAAATTACCAAAATA-CCCTTGAAGGGT
** *
29476414 AAAATTACCAAAATAAACTCGAAGGGT
1 AAAATTACCAAAATACCCTTGAAGGGT
* * *
29476441 AAAATTATCGAAATACCCTTGAAAGGT
1 AAAATTACCAAAATACCCTTGAAGGGT
*
29476468 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
29476487 CAAAGGTTAA
Statistics
Matches: 76, Mismatches: 20, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
25 1 0.01
26 17 0.22
27 55 0.72
28 3 0.04
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGAAGGGT
Found at i:29476443 original size:53 final size:52
Alignment explanation
Indices: 29476361--29476482 Score: 147
Period size: 53 Copynumber: 2.3 Consensus size: 52
29476351 TGCGATTCGG
** * * *
29476361 AAAATTACCAAAATACCCTTGAAGTGTAAAATTATTGAAATATCCC-AAAGGGT
1 AAAATTACCAAAATAAACTCGAAGGGTAAAATTATCGAAATA-CCCTAAA-GGT
29476414 AAAATTACCAAAATAAACTCGAAGGGTAAAATTATCGAAATACCCTTGAAAGGT
1 AAAATTACCAAAATAAACTCGAAGGGTAAAATTATCGAAATACCC-T-AAAGGT
*
29476468 AAAATTACTAAAATA
1 AAAATTACCAAAATA
29476483 CCCTCAAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
52 3 0.05
53 37 0.62
54 17 0.28
55 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (52 bp):
AAAATTACCAAAATAAACTCGAAGGGTAAAATTATCGAAATACCCTAAAGGT
Found at i:29476511 original size:54 final size:54
Alignment explanation
Indices: 29476411--29476513 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 54
29476401 TATCCCAAAG
* * *
29476411 GGTAAAATTACCAAAATAAACTCGAAGGGTAAAATTATCGAAATACCCTTGAAA
1 GGTAAAATTACCAAAATAAACTCAAAGGGTAAAATGACCGAAATACCCTTGAAA
* ** * **
29476465 GGTAAAATTACTAAAATACCCTCAAAGGTTAAAATGACCGTTATACCCT
1 GGTAAAATTACCAAAATAAACTCAAAGGGTAAAATGACCGAAATACCCT
29476514 AGGAGATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (54 bp):
GGTAAAATTACCAAAATAAACTCAAAGGGTAAAATGACCGAAATACCCTTGAAA
Found at i:29476722 original size:26 final size:26
Alignment explanation
Indices: 29476693--29476791 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
29476683 TTTGCCACAA
* *
29476693 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
29476719 ATACTGATACTGGCAGCTCTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * * * *
29476745 TTACTGTTATTGGCAGCTTTGTTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
29476771 TTACTGATACTGG-AGCTTTGC
1 ATACTGATACTGGCAGCTTTGC
29476792 AACGATATTG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
25 7 0.11
26 54 0.89
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.39
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:29483558 original size:27 final size:27
Alignment explanation
Indices: 29483519--29483630 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
29483509 GATTCATGGG
* * *
29483519 AAAATTACTAAAATTCCCCCAAAAGGT
1 AAAATTACCAAAATACCCCCAAAGGGT
***
29483546 AAAATTACCAAAATACCCTTGAAGGGT
1 AAAATTACCAAAATACCCCCAAAGGGT
29483573 AAAATTACCAAAATA-CCCCAAAGGGT
1 AAAATTACCAAAATACCCCCAAAGGGT
** *
29483599 AAAATTACTGAAATACCCCCGAAGGGT
1 AAAATTACCAAAATACCCCCAAAGGGT
29483626 AAAAT
1 AAAAT
29483631 ATTTATATGA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 21 0.29
27 51 0.71
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCAAAGGGT
Found at i:29483601 original size:53 final size:54
Alignment explanation
Indices: 29483519--29483630 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 54
29483509 GATTCATGGG
* * **
29483519 AAAATTACTAAAATTCCCCCAAAAGGTAAAATTACCAAAATACCCTTGAAGGGT
1 AAAATTACCAAAATTACCCCAAAAGGTAAAATTACCAAAATACCCCCGAAGGGT
* **
29483573 AAAATTACCAAAA-TACCCCAAAGGGTAAAATTACTGAAATACCCCCGAAGGGT
1 AAAATTACCAAAATTACCCCAAAAGGTAAAATTACCAAAATACCCCCGAAGGGT
29483626 AAAAT
1 AAAAT
29483631 ATTTATATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 39 0.76
54 12 0.24
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (54 bp):
AAAATTACCAAAATTACCCCAAAAGGTAAAATTACCAAAATACCCCCGAAGGGT
Found at i:29483782 original size:26 final size:26
Alignment explanation
Indices: 29483753--29483879 Score: 115
Period size: 26 Copynumber: 5.1 Consensus size: 26
29483743 TTTGTCACAA
*
29483753 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
29483779 ATACTGATACTGGCAGCTCTGCTACG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * * *
29483805 TTACT-ACTACTGGTAGCTTAGTTGCG
1 ATACTGA-TACTGGCAGCTTTGCTGCG
*
29483831 ----T--TACTGGTAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
29483851 TTACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
29483877 ATA
1 ATA
29483880 TTGGTGTGTT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 17 0.21
22 1 0.01
24 1 0.01
25 1 0.01
26 61 0.75
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:29483837 original size:20 final size:20
Alignment explanation
Indices: 29483812--29483856 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
29483802 ACGTTACTAC
*
29483812 TACTGGTAGCTTAGTTGCGT
1 TACTGGTAGCTTAGCTGCGT
*
29483832 TACTGGTAGCTTTGCTGCGT
1 TACTGGTAGCTTAGCTGCGT
29483852 TACTG
1 TACTG
29483857 ATACTGGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.40
Consensus pattern (20 bp):
TACTGGTAGCTTAGCTGCGT
Found at i:29484026 original size:27 final size:27
Alignment explanation
Indices: 29483983--29484090 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 27
29483973 CTGCATTTGT
*
29483983 ACTGATTACTATTTTGGGCTAAGGCCAC
1 ACTG-TTACTATATTGGGCTAAGGCCAC
29484011 ACTGTTACTATATTGGGCTAAGGCCAAC
1 ACTGTTACTATATTGGGCTAAGGCC-AC
* * *
29484039 AAATTGTTTCTGTATTGGGCTAAGGCCCAC
1 --ACTGTTACTATATTGGGCTAAGG-CCAC
*
29484069 ACTCTGTTACTGTATTGGGCTA
1 A--CTGTTACTATATTGGGCTA
29484091 TGACCCACAC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
27 20 0.29
28 7 0.10
30 39 0.57
31 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (27 bp):
ACTGTTACTATATTGGGCTAAGGCCAC
Found at i:29484098 original size:30 final size:30
Alignment explanation
Indices: 29483996--29484127 Score: 137
Period size: 30 Copynumber: 4.5 Consensus size: 30
29483986 GATTACTATT
*
29483996 TTGGGCTAAGG-CCACA--CTGTTACTATA
1 TTGGGCTAAGGCCCACACTCTGTTACTGTA
* * *
29484023 TTGGGCTAAGGCCAACAAAT-TGTTTCTGTA
1 TTGGGCTAAGGCCCAC-ACTCTGTTACTGTA
29484053 TTGGGCTAAGGCCCACACTCTGTTACTGTA
1 TTGGGCTAAGGCCCACACTCTGTTACTGTA
* * * *
29484083 TTGGGCTATGACCCACACACTGCTACTGTA
1 TTGGGCTAAGGCCCACACTCTGTTACTGTA
* *
29484113 TAGGGCTCAGGCCCA
1 TTGGGCTAAGGCCCA
29484128 GATTGATTCT
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 11 0.13
28 3 0.03
29 3 0.03
30 69 0.80
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (30 bp):
TTGGGCTAAGGCCCACACTCTGTTACTGTA
Found at i:29484961 original size:18 final size:19
Alignment explanation
Indices: 29484926--29484962 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
29484916 CATGACATTG
29484926 AATGAAATGTATGTATACA
1 AATGAAATGTATGTATACA
29484945 AATG-AATGT-TGTGATACA
1 AATGAAATGTATGT-ATACA
29484963 TATGCTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGAAATGTATGTATACA
Found at i:29489532 original size:16 final size:16
Alignment explanation
Indices: 29489511--29489544 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
29489501 AGAAAGATTC
29489511 GATCTGGGTTATTATT
1 GATCTGGGTTATTATT
29489527 GATCTGGGTTATTATT
1 GATCTGGGTTATTATT
29489543 GA
1 GA
29489545 AAAATTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (16 bp):
GATCTGGGTTATTATT
Found at i:29491795 original size:40 final size:40
Alignment explanation
Indices: 29491701--29492016 Score: 293
Period size: 40 Copynumber: 7.9 Consensus size: 40
29491691 GTGCCGCTAC
* * * * * *
29491701 TTGTGCTTCGATACCCTTGATTGCACATTCGTGCCC-TGC
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCTTGT
29491740 TTGTACATT-GGTACCCCTGAATGCACATACGTGCCCTTGT
1 TTGTAC-TTCGGTACCCCTGAATGCACATACGTGCCCTTGT
* * * *
29491780 TTGTACTTCAGTACCCCT-AATTTCACATACACT-CCCCTGT
1 TTGTACTTCGGTACCCCTGAA-TGCACATAC-GTGCCCTTGT
* * * *
29491820 TTGTACTTCGGTACCCTTGATTGCACATCCGTGCCTTTGT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCTTGT
* * *
29491860 TTGTACTTCGGTACTCGTGAATGCACATACGTGCCTTTGT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCTTGT
* *
29491900 TTGTACTTCGGTACCCCTAAATGCACATACGT-ACCTCTGT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCT-TGT
* * *
29491940 TTGTATTTCGGTACCCCTAAATGCACATACATGACCC-TGT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTG-CCCTTGT
* * * * * *
29491980 TTGCACTTTGGTACCCTTGAAAGCACTTACATGCCCT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCT
29492017 GCTTATACTC
Statistics
Matches: 229, Mismatches: 37, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
39 38 0.17
40 187 0.82
41 2 0.01
42 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCTTGT
Found at i:29491918 original size:120 final size:119
Alignment explanation
Indices: 29491701--29492016 Score: 348
Period size: 120 Copynumber: 2.6 Consensus size: 119
29491691 GTGCCGCTAC
* * *
29491701 TTGTGCTTCGATACCCTTGATTGCACATTCGTGCCCTGCTTGTACATTGGTACCCCTGAATGCAC
1 TTGTACTTCGGTACCCTTGATTGCACATCCGTGCCCTGCTTGTACATTGGTACCCCTGAATGCAC
* *
29491766 ATACGTGCCCTTGTTTGTACTTCAGTACCCCTAATTTCACATACACT-CCCCTGT
66 ATACGTGCCCTTGTTTGTACTTCAGTACCCCTAAATGCACATAC-CTACCCCTGT
* * * *
29491820 TTGTACTTCGGTACCCTTGATTGCACATCCGTGCCTTTGTTTGTAC-TTCGGTACTCGTGAATGC
1 TTGTACTTCGGTACCCTTGATTGCACATCCGTGCC-CTGCTTGTACATT-GGTACCCCTGAATGC
* * * *
29491884 ACATACGTGCCTTTGTTTGTACTTCGGTACCCCTAAATGCACATACGTACCTCTGT
64 ACATACGTGCCCTTGTTTGTACTTCAGTACCCCTAAATGCACATACCTACCCCTGT
* * * * * * * * * * *
29491940 TTGTATTTCGGTACCCCTAAATGCACATACATGACCCTGTTTGCACTTTGGTACCCTTGAAAGCA
1 TTGTACTTCGGTACCCTTGATTGCACATCCGTG-CCCTGCTTGTACATTGGTACCCCTGAATGCA
* *
29492005 CTTACATGCCCT
65 CATACGTGCCCT
29492017 GCTTATACTC
Statistics
Matches: 165, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
119 35 0.21
120 126 0.76
121 4 0.02
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (119 bp):
TTGTACTTCGGTACCCTTGATTGCACATCCGTGCCCTGCTTGTACATTGGTACCCCTGAATGCAC
ATACGTGCCCTTGTTTGTACTTCAGTACCCCTAAATGCACATACCTACCCCTGT
Found at i:29495484 original size:23 final size:23
Alignment explanation
Indices: 29495419--29495484 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
29495409 ATCGATTCTG
* **
29495419 TGATGTCTTTGTAGCGTATTCTT
1 TGATGCCTTTGTAGCGTATTCCA
29495442 TGATGCCCTTATGT--CGTATTCCA
1 TGATG-CCTT-TGTAGCGTATTCCA
*
29495465 TGATGCCTTTGTAGCATATT
1 TGATGCCTTTGTAGCGTATT
29495485 TTGTAATGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.09
22 4 0.11
23 22 0.63
24 3 0.09
25 3 0.09
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (23 bp):
TGATGCCTTTGTAGCGTATTCCA
Found at i:29498529 original size:25 final size:25
Alignment explanation
Indices: 29498501--29498550 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
29498491 AGTTGTAGAC
*
29498501 CGGTATGCTCTCAAGAGCTATAAAT
1 CGGTATGCTCTCAAGAGATATAAAT
* *
29498526 CGGTATGCTTTCACGAGATATAAAT
1 CGGTATGCTCTCAAGAGATATAAAT
29498551 TGGCATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (25 bp):
CGGTATGCTCTCAAGAGATATAAAT
Found at i:29506444 original size:13 final size:13
Alignment explanation
Indices: 29506426--29506457 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
29506416 AAATTTATCC
29506426 AAATTTCTTAATA
1 AAATTTCTTAATA
29506439 AAATTTCTTAATA
1 AAATTTCTTAATA
29506452 AAATTT
1 AAATTT
29506458 TTCTCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTCTTAATA
Found at i:29512199 original size:27 final size:27
Alignment explanation
Indices: 29512157--29512335 Score: 168
Period size: 27 Copynumber: 6.6 Consensus size: 27
29512147 CCCGTGTAGG
*
29512157 GTAAAATTATCGAAATACCCTCAGTTT
1 GTAAAATTATCGAAATACCCTCAATTT
* *
29512184 GTAAAATTACCAAAATACTCCT-AATTT
1 GTAAAATTATCGAAATAC-CCTCAATTT
*
29512211 GTAAAATTATCGAAATACCCCCAATTT
1 GTAAAATTATCGAAATACCCTCAATTT
* *
29512238 TTAAAATCATCGAAATA-CCTCTAATTT
1 GTAAAATTATCGAAATACCCTC-AATTT
* * * * *
29512265 TTTAAATTATCGAAATACCTTTAGTTT
1 GTAAAATTATCGAAATACCCTCAATTT
* *
29512292 GCAAAATTA-CTGAAATACCCTCAGTTT
1 GTAAAATTATC-GAAATACCCTCAATTT
*
29512319 GCAAAATTA-CTGAAATA
1 GTAAAATTATC-GAAATA
29512336 TTGAAATACC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.05
27 117 0.91
28 5 0.04
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCAATTT
Found at i:29512221 original size:54 final size:53
Alignment explanation
Indices: 29512157--29512335 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 53
29512147 CCCGTGTAGG
*
29512157 GTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCAAAATACTCCTAATTT
1 GTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCGAAATAC-CCTAATTT
* * * * *
29512211 GTAAAATTATCGAAATACCCCCAATTTTTAAAATCATCGAAATACCTCTAATTT
1 GTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCGAAATACC-CTAATTT
* * * * * * *
29512265 TTTAAATTATCGAAATACCTTTAGTTTGCAAAATTACTGAAATACCCTCAGTTT
1 GTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCGAAATACCCT-AATTT
*
29512319 GCAAAATTA-CTGAAATA
1 GTAAAATTATC-GAAATA
29512336 TTGAAATACC
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
53 4 0.04
54 97 0.96
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (53 bp):
GTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCGAAATACCCTAATTT
Found at i:29512377 original size:27 final size:27
Alignment explanation
Indices: 29512338--29512426 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
29512328 CTGAAATATT
29512338 GAAATACCTCTGTAGGGTAGGATTACC
1 GAAATACCTCTGTAGGGTAGGATTACC
* * *
29512365 AAAATACCTCTGTAGGGTAAGATCACC
1 GAAATACCTCTGTAGGGTAGGATTACC
*
29512392 GAAATACCTCTGTAGGGTAGAATTACC
1 GAAATACCTCTGTAGGGTAGGATTACC
29512419 GAAATACC
1 GAAATACC
29512427 CCCAAAGGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCTCTGTAGGGTAGGATTACC
Found at i:29512781 original size:22 final size:22
Alignment explanation
Indices: 29512746--29512805 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
29512736 TTAATCTGAT
*
29512746 TATGGCTTTATGCCAACCTAAA
1 TATGGCTTTGTGCCAACCTAAA
* * * * *
29512768 TATGGCTCTGTGCCATCGTGAT
1 TATGGCTTTGTGCCAACCTAAA
29512790 TATGGCTTTGTGCCAA
1 TATGGCTTTGTGCCAA
29512806 TCGTTTTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (22 bp):
TATGGCTTTGTGCCAACCTAAA
Found at i:29514835 original size:16 final size:18
Alignment explanation
Indices: 29514807--29514853 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
29514797 GTGAAGAAGA
29514807 AAGGAGTTTCAAAAA-TT
1 AAGGAGTTTCAAAAACTT
29514824 AAGGAG-TTCAAAAACTT
1 AAGGAGTTTCAAAAACTT
* *
29514841 AAGAAATTTCAAA
1 AAGGAGTTTCAAA
29514854 TAATAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.31
17 12 0.46
18 6 0.23
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.26
Consensus pattern (18 bp):
AAGGAGTTTCAAAAACTT
Found at i:29520743 original size:19 final size:20
Alignment explanation
Indices: 29520712--29520769 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
29520702 ACTTGTTTTT
29520712 AAAATAGTTTAAC-TGATTG
1 AAAATAGTTTAACTTGATTG
29520731 AAAA-AGTTCTAACTTGATTG
1 AAAATAGTT-TAACTTGATTG
*
29520751 -AAATCATTTTAACTTGATT
1 AAAAT-AGTTTAACTTGATT
29520770 AAAGGTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 4 0.12
19 11 0.32
20 16 0.47
21 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAATAGTTTAACTTGATTG
Found at i:29523253 original size:23 final size:23
Alignment explanation
Indices: 29523209--29523347 Score: 145
Period size: 23 Copynumber: 6.0 Consensus size: 23
29523199 CTTAATATAT
* *
29523209 TTTTAAATTTATCAT-CAATATTA
1 TTTT-AATTTATCATGTATTATTA
* *
29523232 TTTTAATTTATAATATATTATTA
1 TTTTAATTTATCATGTATTATTA
*
29523255 TTTTAAGTTTATCATGTATTTTTA
1 TTTTAA-TTTATCATGTATTATTA
* *
29523279 TTTAAAGTTATCATGTATTATTA
1 TTTTAATTTATCATGTATTATTA
* * *
29523302 TTTTGAACTTATCATCTATGATTA
1 TTTT-AATTTATCATGTATTATTA
*
29523326 TTTAAATTTATCATGTATTATT
1 TTTTAATTTATCATGTATTATT
29523348 TTATGCATTC
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
22 9 0.09
23 49 0.51
24 38 0.40
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTAATTTATCATGTATTATTA
Found at i:29523257 original size:47 final size:46
Alignment explanation
Indices: 29523209--29523347 Score: 161
Period size: 47 Copynumber: 3.0 Consensus size: 46
29523199 CTTAATATAT
* * *
29523209 TTTTAAATTTATCATCAATATTATTTTAATTTATAATATATTATTA
1 TTTTAAATTTATCATCAATATTATTTAAATTTATCATGTATTATTA
* * * * *
29523255 TTTTAAGTTTATCATGTATTTTTATTTAAAGTTATCATGTATTATTA
1 TTTTAAATTTATCAT-CAATATTATTTAAATTTATCATGTATTATTA
* * *
29523302 TTTTGAACTTATCATCTATGATTATTTAAATTTATCATGTATTATT
1 TTTTAAATTTATCATCAAT-ATTATTTAAATTTATCATGTATTATT
29523348 TTATGCATTC
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
46 15 0.20
47 60 0.80
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (46 bp):
TTTTAAATTTATCATCAATATTATTTAAATTTATCATGTATTATTA
Found at i:29523624 original size:12 final size:12
Alignment explanation
Indices: 29523607--29523636 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29523597 ACTTTTTACC
29523607 TATATTATTATA
1 TATATTATTATA
*
29523619 TATATTATTATC
1 TATATTATTATA
29523631 TATATT
1 TATATT
29523637 GAGTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTATA
Found at i:29530908 original size:51 final size:51
Alignment explanation
Indices: 29530828--29531065 Score: 257
Period size: 51 Copynumber: 4.7 Consensus size: 51
29530818 CGAATCTTTT
* * * * * *
29530828 TTTCCCTAGCATTGCAGTGGAACAAATTAAAGCTGAAAGTAGCAAATTTTA
1 TTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTA
*
29530879 TTTCCCTGGCGTTATAGTGGAACAGATTAAAGCT-AAAGGCAGCGAAA-CTTA
1 TTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAA-GCAGC-AAATCTTA
* * * *
29530930 TTTCCCTGGCATTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTT
1 TTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTA
* * * * * *
29530981 TTTCCCTAGTC-TTGCGGTGGAACGGATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCCT-GGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTA
* *
29531032 TTTCCCTGGCGTTGCAGTGGAACAGGTTAAAGCT
1 TTTCCCTGGCGTTACAGTGGAACAGATTAAAGCT
29531066 ACAAATTATG
Statistics
Matches: 160, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
50 7 0.04
51 146 0.91
52 7 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (51 bp):
TTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTA
Found at i:29530959 original size:102 final size:102
Alignment explanation
Indices: 29530828--29531065 Score: 309
Period size: 102 Copynumber: 2.3 Consensus size: 102
29530818 CGAATCTTTT
* * *
29530828 TTTCCCTAGCATTGCAGTGGAACAAATTAAAGCTGAAAGTAGCAAAT-TTTATTTCCCT-GGCGT
1 TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTT-TTTCCCTAGGC-T
*
29530891 TATAGTGGAACAGATTAAAGCTAAAGGCAGCGAAACTTA
64 TACAGTGGAACAGATTAAAGCTAAAGGCAGCGAAACTTA
* * * * *
29530930 TTTCCCTGGCATTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTAGTCTTG
1 TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTTTTTCCCTAGGCTTA
* * * *
29530995 CGGTGGAACGGATTAAAGCTGAAGGCAGCGAATCTTA
66 CAGTGGAACAGATTAAAGCTAAAGGCAGCGAAACTTA
* *
29531032 TTTCCCTGGCGTTGCAGTGGAACAGGTTAAAGCT
1 TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
29531066 ACAAATTATG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
102 113 0.96
103 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (102 bp):
TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTTTTTCCCTAGGCTTA
CAGTGGAACAGATTAAAGCTAAAGGCAGCGAAACTTA
Found at i:29531308 original size:193 final size:191
Alignment explanation
Indices: 29530969--29531532 Score: 752
Period size: 193 Copynumber: 2.9 Consensus size: 191
29530959 AAGCTGAAGG
* * *
29530969 CAGCGAATCTTTTTTCCCTAGTCTTGCGGTGGAACGGATTAAAGCTGAAGGCAGCGAATCTTATT
1 CAGCGAATCTTTTTTCCCTAG-CTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATATTATT
*
29531034 TCCCTGGCGTTGCAGTGGAACAGGTTAAAGCTACAAATTATGGCGGATTTTATCTTCCTGAAGTT
65 TCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC-GATTTTATCTTCCTGAAGTT
* * * * *
29531099 GCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTTCTTGAAGTTACAGCAGAGCAGATTGAAA
129 GCAATGGAGTAGATTGAAGCCACCAGCCTTATCTCCATGAAGTTACAGCAGAGCAGATTGAAA
* * * * *
29531162 TAGCGAATCTTTTTTCCCTAGCGTTGTAATGGAACAGATTAAAGTTGAAGGCAGCGACTATTATT
1 CAGCGAATCTTTTTTCCCTAGC-TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATATTATT
* * * **
29531227 TCCCTGGCGTTACAGTGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCCCAAAGTT
65 TCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC-GATTTTATCTTCCTGAAGTT
* * * **
29531292 GCAATGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA
129 GCAATGGAGTAGATTGAAGCCACCAGCCTTATCTCCATGAAGTTACAGCAGAGCAGATTGAAA
* * * *
29531355 CAACGAATCTTTTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCT-AAGGGCAGCGAATTTTAT
1 CAGCGAATCTTTTTTCCCTAGC-TTGCAGTGGAACAGATTAAAGCTGAA-GGCAGCGAATATTAT
* * *
29531419 TTCCCTGGCGTTGCAGTGGAACAAATTAAAGTTACAAGTTATGGCGAATTTTATCTTCCTGAAGT
64 TTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCG-ATTTTATCTTCCTGAAGT
* * *
29531484 TGTAATGGAGTGGATTGAAGCCACCAGCTTTATCTCCATGAAGTTACAG
128 TGCAATGGAGTAGATTGAAGCCACCAGCCTTATCTCCATGAAGTTACAG
29531533 TGGATTGAAT
Statistics
Matches: 320, Mismatches: 48, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
192 4 0.01
193 316 0.99
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (191 bp):
CAGCGAATCTTTTTTCCCTAGCTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATATTATTT
CCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGATTTTATCTTCCTGAAGTTGC
AATGGAGTAGATTGAAGCCACCAGCCTTATCTCCATGAAGTTACAGCAGAGCAGATTGAAA
Found at i:29531373 original size:44 final size:44
Alignment explanation
Indices: 29531275--29531373 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
29531265 TATGGCAGAT
* * * *
29531275 CTTATCTTCCC-AAAGTTGCAATGGAGTAGATTGAAGCCACCAGC
1 CTTAT-TTCCCTAAAGTTGCAATGGAGCAGATTGAAACAACCAAC
* * * *
29531319 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACAACGAAT
1 CTTATTTCCCTAAAGTTGCAATGGAGCAGATTGAAACAACCAAC
*
29531363 CTTTTTTCCCT
1 CTTATTTCCCT
29531374 GGCATTGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
43 4 0.09
44 40 0.91
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTATTTCCCTAAAGTTGCAATGGAGCAGATTGAAACAACCAAC
Found at i:29532993 original size:23 final size:22
Alignment explanation
Indices: 29532958--29533049 Score: 71
Period size: 23 Copynumber: 4.0 Consensus size: 22
29532948 TGTTTAAGCT
*
29532958 TAATA-TATTTTTAAATTTATCG
1 TAATATTA-TTTTAAATTTATCA
*
29532980 TCAATATTATTTTAATATATAAT-A
1 T-AATATTATTTTAA-AT-TTATCA
* *
29533004 TATTATTATTTTAAGTTTATCA
1 TAATATTATTTTAAATTTATCA
* *
29533026 TTAAAATTATTTTAAGTTTATCA
1 -TAATATTATTTTAAATTTATCA
29533049 T
1 T
29533050 GTATTTTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 42 0.74
24 5 0.09
25 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (22 bp):
TAATATTATTTTAAATTTATCA
Found at i:29533035 original size:46 final size:47
Alignment explanation
Indices: 29532966--29533072 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 47
29532956 CTTAATATAT
* * *
29532966 TTTTAAATTTATCGTCAATATTATTTTAA-TATATAATATATTATTA
1 TTTTAAGTTTATCATCAAAATTATTTTAAGTATATAATATATTATTA
* * * * *
29533012 TTTTAAGTTTATCATTAAAATTATTTTAAGTTTATCATGTATTTTTA
1 TTTTAAGTTTATCATCAAAATTATTTTAAGTATATAATATATTATTA
*
29533059 TTTAAAG-TTATCAT
1 TTTTAAGTTTATCAT
29533073 GTATTATTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 32 0.63
47 19 0.37
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (47 bp):
TTTTAAGTTTATCATCAAAATTATTTTAAGTATATAATATATTATTA
Found at i:29533062 original size:23 final size:24
Alignment explanation
Indices: 29532984--29533085 Score: 120
Period size: 23 Copynumber: 4.4 Consensus size: 24
29532974 TTATCGTCAA
* * *
29532984 TATTATTTTAA-TATATAATATAT
1 TATTATTTTAAGTTTATCATGTAT
*
29533007 TATTATTTTAAGTTTATCAT-TAA
1 TATTATTTTAAGTTTATCATGTAT
*
29533030 AATTATTTTAAGTTTATCATGTAT
1 TATTATTTTAAGTTTATCATGTAT
* *
29533054 TTTTATTTAAAG-TTATCATGTAT
1 TATTATTTTAAGTTTATCATGTAT
29533077 TATTATTTT
1 TATTATTTT
29533086 GACCTTATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 50 0.75
24 17 0.25
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (24 bp):
TATTATTTTAAGTTTATCATGTAT
Found at i:29533082 original size:47 final size:46
Alignment explanation
Indices: 29532963--29533085 Score: 126
Period size: 47 Copynumber: 2.7 Consensus size: 46
29532953 AAGCTTAATA
* *
29532963 TATT-TTTAAA-TTTATCGTCAATATTATTTTAATATATAATATAT
1 TATTATTTAAAGTTTATCATTAATATTATTTTAATATATAATATAT
* * * * *
29533007 TATTATTTTAAGTTTATCATTAAAATTATTTTAAGTTTATCATGTAT
1 TATTATTTAAAGTTTATCATTAATATTATTTTAA-TATATAATATAT
* *
29533054 TTTTATTTAAAG-TTATCATGTATTATTATTTT
1 TATTATTTAAAGTTTATCAT-TAATATTATTTT
29533086 GACCTTATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
44 4 0.06
45 5 0.08
46 26 0.41
47 29 0.45
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (46 bp):
TATTATTTAAAGTTTATCATTAATATTATTTTAATATATAATATAT
Found at i:29533391 original size:12 final size:12
Alignment explanation
Indices: 29533374--29533403 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29533364 ACTTTTTACC
29533374 TATATTATTATA
1 TATATTATTATA
*
29533386 TATATTATTATC
1 TATATTATTATA
29533398 TATATT
1 TATATT
29533404 GAGTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTATA
Found at i:29533604 original size:27 final size:28
Alignment explanation
Indices: 29533559--29533617 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
29533549 ATTTTTAATC
* **
29533559 TATTTCAAACTTTCTTATATATATTATT
1 TATTTCAAAATTTCTTATATATACAATT
*
29533587 TATTTTAAAATTT-TTATATATACAATT
1 TATTTCAAAATTTCTTATATATACAATT
29533614 TATT
1 TATT
29533618 GATTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTTCAAAATTTCTTATATATACAATT
Found at i:29539716 original size:19 final size:17
Alignment explanation
Indices: 29539671--29539719 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 17
29539661 GTGTCGTTCG
29539671 TTTCTAAAATATTATTCA
1 TTTC-AAAATATTATTCA
29539689 TTT-ACAAATCATTATTCAA
1 TTTCA-AAAT-ATTATTC-A
29539708 TTTCAAAATATT
1 TTTCAAAATATT
29539720 TTCTTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 13 0.48
19 8 0.30
20 1 0.04
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:29549980 original size:20 final size:22
Alignment explanation
Indices: 29549955--29549996 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29549945 ATGTTGAAAA
29549955 GTTGAA-AAA-CTTGAAGCAAT
1 GTTGAAGAAATCTTGAAGCAAT
*
29549975 GTTGAAGAAATCTTGATGCAAT
1 GTTGAAGAAATCTTGAAGCAAT
29549997 AGTGTTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (22 bp):
GTTGAAGAAATCTTGAAGCAAT
Found at i:29550203 original size:20 final size:20
Alignment explanation
Indices: 29550159--29550229 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
29550149 AAAACTTGAC
29550159 AGGTATCAAT-ATTTT-TAA
1 AGGTATCAATAATTTTATAA
*
29550177 GCGGGTATCAATAATTTTATAA
1 --AGGTATCAATAATTTTATAA
*
29550199 AGGTATCAACAATTTTA-AA
1 AGGTATCAATAATTTTATAA
*
29550218 ATAGTATCAATA
1 A-GGTATCAATA
29550230 CCAAATCACA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.07
20 32 0.74
21 5 0.12
22 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
AGGTATCAATAATTTTATAA
Found at i:29554132 original size:49 final size:49
Alignment explanation
Indices: 29554067--29554161 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
29554057 ATTAGGTATA
* * *
29554067 TTTAGCTTGGGATAGTCGTGTC-AAAATTTATGCCTAAAAGTAGAATATG
1 TTTAACTTAGGATAGTCGTG-CGAAAATTGATGCCTAAAAGTAGAATATG
29554116 TTTAACTTAGGATAGTCGTGCGAAAATTGATGCCTAAAAGTAGAAT
1 TTTAACTTAGGATAGTCGTGCGAAAATTGATGCCTAAAAGTAGAAT
29554162 GACCTAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (49 bp):
TTTAACTTAGGATAGTCGTGCGAAAATTGATGCCTAAAAGTAGAATATG
Found at i:29555678 original size:21 final size:21
Alignment explanation
Indices: 29555640--29555679 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29555630 CATCATCAAC
* **
29555640 AGAAGCTCGAAAGTGCTGAAA
1 AGAAGCTCAAAAAAGCTGAAA
29555661 AGAAGCTCAAAAAAGCTGA
1 AGAAGCTCAAAAAAGCTGA
29555680 TCCACCCGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.25, T:0.12
Consensus pattern (21 bp):
AGAAGCTCAAAAAAGCTGAAA
Found at i:29569131 original size:3 final size:3
Alignment explanation
Indices: 29569123--29569148 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29569113 CATGAAATCA
29569123 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
29569149 GGTGCCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:29569913 original size:3 final size:3
Alignment explanation
Indices: 29569905--29569939 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
29569895 ACTCCACTAT
29569905 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
29569940 TAGTAGTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:29569944 original size:3 final size:3
Alignment explanation
Indices: 29569938--29569981 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
29569928 CAGCAGCAGC
29569938 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
29569982 GTTGAATAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:29576176 original size:20 final size:20
Alignment explanation
Indices: 29576151--29576190 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29576141 AACTTTAAAT
29576151 CAACACATTTACCTTCCTCA
1 CAACACATTTACCTTCCTCA
29576171 CAACACATTTACCTTCCTCA
1 CAACACATTTACCTTCCTCA
29576191 TCTTTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (20 bp):
CAACACATTTACCTTCCTCA
Found at i:29582554 original size:24 final size:24
Alignment explanation
Indices: 29582497--29582547 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
29582487 TTTAAATATA
*
29582497 TTTTTTAGTTTTTAGTTTTTAAAG
1 TTTTTTAATTTTTAGTTTTTAAAG
29582521 TTTTTTAATTTTTA-TTTTTAAA-
1 TTTTTTAATTTTTAGTTTTTAAAG
29582543 TTTTT
1 TTTTT
29582548 ATGAATTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 13 0.50
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTTTAATTTTTAGTTTTTAAAG
Found at i:29586005 original size:16 final size:16
Alignment explanation
Indices: 29585984--29586035 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
29585974 TGGTTCGCTA
*
29585984 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGCG
* *
29586000 TAATGGAACAGATGCG
1 TAATGGAATAGAGGCG
29586016 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
29586032 TAAT
1 TAAT
29586036 AGGTAATTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:29586099 original size:44 final size:46
Alignment explanation
Indices: 29586017--29586109 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
29586007 ACAGATGCGT
* *
29586017 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTTGAATGG
29586063 AATGAAATAGAGGCGTAAT-GGT-ATTCTTATGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTTGAATGG
29586107 AAT
1 AAT
29586110 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 3 0.07
46 18 0.40
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTTGAATGG
Found at i:29586105 original size:39 final size:44
Alignment explanation
Indices: 29586017--29586122 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 44
29586007 ACAGATGCGT
*
29586017 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTT--ATGG
*
29586063 AATGAAATAGAGGCGTAAT-GGT-ATTCTTATGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTTATGG
*
29586102 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
29586123 CCTAAGGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.05
46 18 0.33
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTATGTTTGGTTATGG
Found at i:29586290 original size:17 final size:17
Alignment explanation
Indices: 29586268--29586320 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
29586258 AATTATTATT
29586268 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
29586285 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
* *
29586302 ATATATGAATTTACTAAA
1 AAATAT-AATTTAATAAA
29586320 A
1 A
29586321 TCATAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:29586358 original size:17 final size:18
Alignment explanation
Indices: 29586268--29586358 Score: 68
Period size: 17 Copynumber: 5.1 Consensus size: 18
29586258 AATTATTATT
29586268 AAATATAATTTAATAA-A
1 AAATATAATTTAATAATA
29586285 AAATATAATTTAATAA-A
1 AAATATAATTTAATAATA
* *
29586302 ATATATGAA-TT--TACTA
1 AAATAT-AATTTAATAATA
29586318 AAATCATAATATATAATACTATA
1 AAAT-ATAAT-T-TAATA--ATA
29586341 AAATATAATTTAA-AATA
1 AAATATAATTTAATAATA
29586358 A
1 A
29586359 TTATTATTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.03
16 6 0.10
17 30 0.50
18 3 0.05
19 2 0.03
20 3 0.05
21 3 0.05
22 5 0.08
23 6 0.10
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (18 bp):
AAATATAATTTAATAATA
Found at i:29605895 original size:20 final size:20
Alignment explanation
Indices: 29605865--29605925 Score: 90
Period size: 19 Copynumber: 3.1 Consensus size: 20
29605855 ATATGGTTGT
*
29605865 AAAAT-AAAATTAATTTTAA
1 AAAATAAAAATTAAATTTAA
29605884 AAAATAAAAATTAAATTTAA
1 AAAATAAAAATTAAATTTAA
*
29605904 AATA-AAAAATTAAATTTAA
1 AAAATAAAAATTAAATTTAA
29605923 AAA
1 AAA
29605926 TCAAGAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAAAAATTAAATTTAA
Found at i:29609211 original size:14 final size:13
Alignment explanation
Indices: 29609192--29609224 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
29609182 ATAAGCACTC
29609192 AGAAAAAGATAAAA
1 AGAAAAAGA-AAAA
29609206 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
29609219 AGAAAA
1 AGAAAA
29609225 GGGAACAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:29612284 original size:14 final size:14
Alignment explanation
Indices: 29612265--29612301 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
29612255 ATAATAAAAA
29612265 TATAATTTTATATT
1 TATAATTTTATATT
29612279 TATAATTTTATATT
1 TATAATTTTATATT
29612293 TATAATTTT
1 TATAATTTT
29612302 TTAAAANNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATAATTTTATATT
Found at i:29624830 original size:19 final size:19
Alignment explanation
Indices: 29624793--29624855 Score: 92
Period size: 20 Copynumber: 3.3 Consensus size: 19
29624783 CTATTTCTTG
29624793 ATTTTTAAATTTAATTTTTT
1 ATTTTTAAATTTAA-TTTTT
29624813 ATTTTTAAATTTAATTTTT
1 ATTTTTAAATTTAATTTTT
*
29624832 ATTTTTTAAAATTAA-TTTT
1 A-TTTTTAAATTTAATTTTT
29624851 ATTTT
1 ATTTT
29624856 ACAACCATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 4 0.10
19 11 0.27
20 26 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTAAATTTAATTTTT
Found at i:29626064 original size:16 final size:16
Alignment explanation
Indices: 29626043--29626098 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
29626033 CGTTTGGTTC
*
29626043 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
29626059 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* * *
29626075 GGTATAATGGAATAAA
1 GCTGTAATGGAATAGA
*
29626091 ACTGTAAT
1 GCTGTAAT
29626099 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:29626352 original size:18 final size:17
Alignment explanation
Indices: 29626331--29626365 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
29626321 ATATTATTAA
29626331 ATATAATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29626349 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29626366 TCTTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29626456 original size:10 final size:10
Alignment explanation
Indices: 29626441--29626465 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29626431 AGGAATACAA
29626441 TTAAAACATT
1 TTAAAACATT
29626451 TTAAAACATT
1 TTAAAACATT
29626461 TTAAA
1 TTAAA
29626466 GATTTAATTA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAAACATT
Found at i:29631344 original size:140 final size:138
Alignment explanation
Indices: 29631134--29631676 Score: 623
Period size: 140 Copynumber: 4.0 Consensus size: 138
29631124 CTAAGACAAT
* ** *
29631134 ACTTTTGGGCCGACACTTTTCTTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCTACTC
1 ACTTTTGGGCCGACAC-TTTCCTAAGTGTTGGGATAGACTTGCTGACATACACTTTGGCCAACTC
* * * *
29631199 TTTGTATAAGGGTTGGGATATGCATGTCTAAGACAACGCTTAAATAAGAGTTGCCTTTGCCCAAC
65 TTTGTATAAGGGTTGGGATATGCATGCCTAAG-CAATGCTTAAATAAGAGTAG-CTTTGTCCAAC
29631264 ACTATGCCGAC
128 ACTATGCCGAC
* * * *
29631275 ACTTTTGGGCCAACACTTTCCTAAGTGTCGGGATAGACTTGCTGACATACGCTTTGGCCAACTCA
1 ACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATACACTTTGGCCAACTCT
* * *
29631340 TTGTATAAGGGTTGGGATATGCATGCCTAAGGCAATGTTTAAATAAGAGCCAGCTTTTTCCAACA
66 TTGTATAAGGGTTGGGATATGCATGCCTAA-GCAATGCTTAAATAAGAG-TAGCTTTGTCCAACA
29631405 CTATGCCGAC
129 CTATGCCGAC
* * *
29631415 ACTTATGGGCCGACACTTTCCTAACTGTTGGGATAGACTTG-TCGAAATACACTTTGGCCAACTC
1 ACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCT-GACATACACTTTGGCCAACTC
* *
29631479 TTTGTATAAGGGTTGGGATATGCATGCCTAATGCAATGCTTAAATAAAAGTCGACTTTGTCCAAC
65 TTTGTATAAGGGTTGGGATATGCATGCCTAA-GCAATGCTTAAATAAGAGTAG-CTTTGTCCAAC
29631544 ACTATGCCG--
128 ACTATGCCGAC
* * *
29631553 A----T--------ACTTTCCTAAGTTTTGGGATAGACTTGAC-GACATACGCTTTGGTCAACTC
1 ACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTG-CTGACATACACTTTGGCCAACTC
* * * * *
29631605 TTTGTATAAGGGTTGAGATATGCATGTCTATGGCAATACTTAAATAAGAGTTGGCTTTGTCCAAC
65 TTTGTATAAGGGTTGGGATATGCATGCCTA-AGCAATGCTTAAATAAGAG-TAGCTTTGTCCAAC
29631670 ACTATGC
128 ACTATGC
29631677 TTAAGGAAAC
Statistics
Matches: 355, Mismatches: 39, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
126 105 0.30
127 2 0.01
134 1 0.00
138 1 0.00
139 2 0.01
140 227 0.64
141 17 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (138 bp):
ACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCTGACATACACTTTGGCCAACTCT
TTGTATAAGGGTTGGGATATGCATGCCTAAGCAATGCTTAAATAAGAGTAGCTTTGTCCAACACT
ATGCCGAC
Found at i:29631648 original size:126 final size:126
Alignment explanation
Indices: 29631423--29631676 Score: 375
Period size: 126 Copynumber: 2.0 Consensus size: 126
29631413 ACACTTATGG
*
29631423 GCCGACACTTTCCTAACTGTTGGGATAGACTTGTCGAAATACACTTTGGCCAACTCTTTGTATAA
1 GCCGACACTTTCCTAACTGTTGGGATAGACTTGACGAAATACACTTTGGCCAACTCTTTGTATAA
* *
29631488 GGGTTGGGATATGCATGCCTAATGCAATGCTTAAATAAAAGTCGACTTTGTCCAACACTAT
66 GGGTTGAGATATGCATGCCTAATGCAATACTTAAATAAAAGTCGACTTTGTCCAACACTAT
* * * * * *
29631549 GCCGATACTTTCCTAAGTTTTGGGATAGACTTGACGACATACGCTTTGGTCAACTCTTTGTATAA
1 GCCGACACTTTCCTAACTGTTGGGATAGACTTGACGAAATACACTTTGGCCAACTCTTTGTATAA
* * * *
29631614 GGGTTGAGATATGCATGTCT-ATGGCAATACTTAAATAAGAGTTGGCTTTGTCCAACACTAT
66 GGGTTGAGATATGCATGCCTAAT-GCAATACTTAAATAAAAGTCGACTTTGTCCAACACTAT
29631675 GC
1 GC
29631677 TTAAGGAAAC
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 2 0.02
126 112 0.98
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTCCTAACTGTTGGGATAGACTTGACGAAATACACTTTGGCCAACTCTTTGTATAA
GGGTTGAGATATGCATGCCTAATGCAATACTTAAATAAAAGTCGACTTTGTCCAACACTAT
Found at i:29633818 original size:13 final size:13
Alignment explanation
Indices: 29633792--29633828 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
29633782 TCAATTTATA
29633792 TTAATTAA-ATCT
1 TTAATTAATATCT
29633804 TTAATTAATATCT
1 TTAATTAATATCT
29633817 TTAATTAATATC
1 TTAATTAATATC
29633829 ATTTCAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATTAATATCT
Found at i:29634001 original size:35 final size:35
Alignment explanation
Indices: 29633939--29634388 Score: 370
Period size: 35 Copynumber: 12.4 Consensus size: 35
29633929 TGAGACAAGA
* * *
29633939 TCTATCCTAA-CTTTTTAAGTTTGCCTTAGATAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG
* * *
29633973 TCTACCCCAACCTTTTTAGGGTTTCCTTAGACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG
* *
29634008 TCTA-CTCTAACCTTTTTAGGGTTGCCTTAGAC-GTG
1 TCTATC-CCAACCTTTTTAAGGTTGCCTTAGACAG-G
* **
29634043 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATGGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG
* *
29634078 TCTATCCCAATCGTTTTTAAAGGTTGCCTTAGACGGG
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGACAGG
* * *
29634115 TTTATCCCAACCTTTTTTAAAGGTTG-TTGTAG-CTAAGA
1 TCTATCCCAACC-TTTTT-AAGGTTGCCT-TAGAC--AGG
* * * *
29634153 TTTATCCCAACATTTTTAAGGTTACTTTAGACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGG
* *
29634189 TCTATCCCAACTTTTTTTATAAGTTGCCTTAGACAAGG
1 TCTATCCCAAC-CTTTTTA-AGGTTGCCTTAGAC-AGG
*
29634227 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG
* * *
29634262 TCTATCCTAACCTTTTTTTAAAGGTTTCCTTAAACAAGG
1 TCTATCCCAACC--TTTTT-AAGGTTGCCTTAGAC-AGG
** *
29634301 TCTATCCCAATATTTTTAAGGTTGCCTTTGACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGG
* * * *
29634337 TCTATCCCAACTTTTTTTAAAAGTTTCCTTAGACAAGA
1 TCTATCCCAAC-CTTTTT-AAGGTTGCCTTAGAC-AGG
*
29634375 TTTATCCCAACCTT
1 TCTATCCCAACCTT
29634389 AGACAAGATT
Statistics
Matches: 347, Mismatches: 48, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
34 10 0.03
35 99 0.29
36 72 0.21
37 79 0.23
38 76 0.22
39 11 0.03
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGG
Found at i:29634363 original size:74 final size:73
Alignment explanation
Indices: 29633931--29634385 Score: 441
Period size: 74 Copynumber: 6.3 Consensus size: 73
29633921 ATGGGACCTG
* * * * * * *
29633931 AGACAAGATCTATCCTAAC-TTTTTAAGTTTGCCTTAGATAGGTCTACCCCAAC-CTTTTT-AGG
1 AGACAAGGTCTATCCCAACATTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACTTTTTTTAAAG
29633993 GTTTCCTT
66 GTTTCCTT
* * *
29634001 AGAC-AGGTCTA-CTCTAACCTTTTTAGGGTTGCCTTAGAC-GTGTCTATCCCAAC-TTTTTT-A
1 AGACAAGGTCTATC-CCAACATTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACTTTTTTTAA
*
29634061 AGGTTGCCTT
64 AGGTTTCCTT
** * * * *
29634071 AGA-TGGGTCTATCCCAATCGTTTTTAAAGGTTGCCTTAGACGGGTTTATCCCAACCTTTTTTAA
1 AGACAAGGTCTATCCCAA-CATTTTT-AAGGTTGCCTTAGACAGGTCTATCCCAACTTTTTTTAA
29634135 AGGTTGT--TGT
64 AGGTT-TCCT-T
* * * *
29634145 AG-CTAAGATTTATCCCAACATTTTTAAGGTTACTTTAGACAAGGTCTATCCCAACTTTTTTTAT
1 AGAC-AAGGTCTATCCCAACATTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACTTTTTTTA-
*
29634209 AA-GTTGCCTT
63 AAGGTTTCCTT
* * *
29634219 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCTAACCTTTTTTTAAA
1 AGACAAGGTCTATCCCAACATTTTTAAGGTTGCCTTAGACAGGTCTATCCCAA-CTTTTTTTAAA
29634284 GGTTTCCTT
65 GGTTTCCTT
* * *
29634293 AAACAAGGTCTATCCCAATATTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAACTTTTTTTAAA
1 AGACAAGGTCTATCCCAACATTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACTTTTTTTAAA
*
29634358 AGTTTCCTT
65 GGTTTCCTT
* *
29634367 AGACAAGATTTATCCCAAC
1 AGACAAGGTCTATCCCAAC
29634386 CTTAGACAAG
Statistics
Matches: 319, Mismatches: 44, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
68 1 0.00
69 12 0.04
70 58 0.18
71 7 0.02
72 25 0.08
73 34 0.11
74 157 0.49
75 25 0.08
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
AGACAAGGTCTATCCCAACATTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACTTTTTTTAAAG
GTTTCCTT
Found at i:29634388 original size:22 final size:22
Alignment explanation
Indices: 29634363--29634410 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
29634353 TTAAAAGTTT
29634363 CCTTAGACAAGATTTATCCCAA
1 CCTTAGACAAGATTTATCCCAA
29634385 CCTTAGACAAGATTTATCCCAA
1 CCTTAGACAAGATTTATCCCAA
29634407 CCTT
1 CCTT
29634411 TTTAAGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.29
Consensus pattern (22 bp):
CCTTAGACAAGATTTATCCCAA
Found at i:29634443 original size:58 final size:60
Alignment explanation
Indices: 29634325--29634445 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 60
29634315 TTTAAGGTTG
* * * * *
29634325 CCTTTGACAAGGTCTATCCCAACTTTTTTTAAAAGTTTCCTTAGACAAGATTTATCCCAA
1 CCTTAGACAAGATCTATCCCAACTCTTTTTAAAAGTTGCCTTAGACAAGATCTATCCCAA
* * *
29634385 CCTTAGACAAGATTTATCCCAAC-CTTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAA
1 CCTTAGACAAGATCTATCCCAACTCTTTTTAAAAGTTGCCTTAGACAAGATCTATCCCAA
29634443 CCT
1 CCT
29634446 GTATAAGCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 28 0.53
59 5 0.09
60 20 0.38
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (60 bp):
CCTTAGACAAGATCTATCCCAACTCTTTTTAAAAGTTGCCTTAGACAAGATCTATCCCAA
Found at i:29640016 original size:26 final size:26
Alignment explanation
Indices: 29639987--29640042 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
29639977 TTTTCAATTG
29639987 ATGAATGAGGTTGCTTCTTAAAGTTT
1 ATGAATGAGGTTGCTTCTTAAAGTTT
*
29640013 ATGAATGAGGTTGCTTCTTAAATTTT
1 ATGAATGAGGTTGCTTCTTAAAGTTT
29640039 ATGA
1 ATGA
29640043 TGAAATATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (26 bp):
ATGAATGAGGTTGCTTCTTAAAGTTT
Found at i:29643125 original size:35 final size:37
Alignment explanation
Indices: 29643055--29643136 Score: 114
Period size: 36 Copynumber: 2.2 Consensus size: 37
29643045 TAAACAAACT
*
29643055 TTTTTAAAGCTTGCCTTAGACAAGGTCTATCCCAACC
1 TTTTTAAAGCTTGCCTTAGACAAGCTCTATCCCAACC
* *
29643092 TTTTT-AAGGTTGCCTTAGACGA-CTCTATCCCAACC
1 TTTTTAAAGCTTGCCTTAGACAAGCTCTATCCCAACC
29643127 TTTTTTAAAG
1 -TTTTTAAAG
29643137 GTCAGCCTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
35 12 0.30
36 20 0.50
37 8 0.20
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTTTTAAAGCTTGCCTTAGACAAGCTCTATCCCAACC
Found at i:29650050 original size:339 final size:339
Alignment explanation
Indices: 29649430--29650110 Score: 1362
Period size: 339 Copynumber: 2.0 Consensus size: 339
29649420 AAATATTATA
29649430 ATGAGAAGTGGGAGGAGAAACCAAAGTGTTTCATCCTTACTTCTCCATTGCCGAAACTAGAAGAA
1 ATGAGAAGTGGGAGGAGAAACCAAAGTGTTTCATCCTTACTTCTCCATTGCCGAAACTAGAAGAA
29649495 AGAAAGAAGAAAAACTCTTGTTGAATTTCGGCTAAGGTGTTTTGATACAAAAAGGTATGTTTTAT
66 AGAAAGAAGAAAAACTCTTGTTGAATTTCGGCTAAGGTGTTTTGATACAAAAAGGTATGTTTTAT
29649560 GCCACTCTTGAAAATGTATGCATAATTTGGAGGATTGGTTTAAAAGCTACTTGAATCTTGGATTG
131 GCCACTCTTGAAAATGTATGCATAATTTGGAGGATTGGTTTAAAAGCTACTTGAATCTTGGATTG
29649625 AAATTAGGTTATTTATGAGGGTTGAATTTCGGCCTAGGAGCTTAAAATTTTTAGTAGAAGTTTTG
196 AAATTAGGTTATTTATGAGGGTTGAATTTCGGCCTAGGAGCTTAAAATTTTTAGTAGAAGTTTTG
29649690 ATGACATTAGATGGATAGTTAGGTTGGATGTGTTAAATTGTTAATTGTTTTAGCTTGAAAGTTAA
261 ATGACATTAGATGGATAGTTAGGTTGGATGTGTTAAATTGTTAATTGTTTTAGCTTGAAAGTTAA
29649755 GGTTAATATGGCTT
326 GGTTAATATGGCTT
29649769 ATGAGAAGTGGGAGGAGAAACCAAAGTGTTTCATCCTTACTTCTCCATTGCCGAAACTAGAAGAA
1 ATGAGAAGTGGGAGGAGAAACCAAAGTGTTTCATCCTTACTTCTCCATTGCCGAAACTAGAAGAA
29649834 AGAAAGAAGAAAAACTCTTGTTGAATTTCGGCTAAGGTGTTTTGATACAAAAAGGTATGTTTTAT
66 AGAAAGAAGAAAAACTCTTGTTGAATTTCGGCTAAGGTGTTTTGATACAAAAAGGTATGTTTTAT
29649899 GCCACTCTTGAAAATGTATGCATAATTTGGAGGATTGGTTTAAAAGCTACTTGAATCTTGGATTG
131 GCCACTCTTGAAAATGTATGCATAATTTGGAGGATTGGTTTAAAAGCTACTTGAATCTTGGATTG
29649964 AAATTAGGTTATTTATGAGGGTTGAATTTCGGCCTAGGAGCTTAAAATTTTTAGTAGAAGTTTTG
196 AAATTAGGTTATTTATGAGGGTTGAATTTCGGCCTAGGAGCTTAAAATTTTTAGTAGAAGTTTTG
29650029 ATGACATTAGATGGATAGTTAGGTTGGATGTGTTAAATTGTTAATTGTTTTAGCTTGAAAGTTAA
261 ATGACATTAGATGGATAGTTAGGTTGGATGTGTTAAATTGTTAATTGTTTTAGCTTGAAAGTTAA
29650094 GGTTAATATGGCTT
326 GGTTAATATGGCTT
29650108 ATG
1 ATG
29650111 GGATTGCCGA
Statistics
Matches: 342, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
339 342 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (339 bp):
ATGAGAAGTGGGAGGAGAAACCAAAGTGTTTCATCCTTACTTCTCCATTGCCGAAACTAGAAGAA
AGAAAGAAGAAAAACTCTTGTTGAATTTCGGCTAAGGTGTTTTGATACAAAAAGGTATGTTTTAT
GCCACTCTTGAAAATGTATGCATAATTTGGAGGATTGGTTTAAAAGCTACTTGAATCTTGGATTG
AAATTAGGTTATTTATGAGGGTTGAATTTCGGCCTAGGAGCTTAAAATTTTTAGTAGAAGTTTTG
ATGACATTAGATGGATAGTTAGGTTGGATGTGTTAAATTGTTAATTGTTTTAGCTTGAAAGTTAA
GGTTAATATGGCTT
Found at i:29651676 original size:40 final size:40
Alignment explanation
Indices: 29651621--29651849 Score: 368
Period size: 40 Copynumber: 5.7 Consensus size: 40
29651611 TGAGCATTGG
29651621 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
29651661 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
29651701 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
29651741 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
29651781 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
29651821 GATATGTCCGGGTTAAAACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
29651850 ATGTGTTTGC
Statistics
Matches: 176, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:29655304 original size:3 final size:3
Alignment explanation
Indices: 29655296--29655326 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
29655286 TAATATTTCC
29655296 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
29655327 GTTTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:29660161 original size:12 final size:12
Alignment explanation
Indices: 29660140--29660236 Score: 52
Period size: 12 Copynumber: 7.8 Consensus size: 12
29660130 TTCAATAAAA
*
29660140 AAAATCAAAATC
1 AAAATAAAAATC
*
29660152 AAAATAAAAAAC
1 AAAATAAAAATC
* **
29660164 AAAA-AGAGAAGA
1 AAAATA-AAAATC
*
29660176 AAAATCAAAATC
1 AAAATAAAAATC
* * *
29660188 AAAGTCAAAAGC
1 AAAATAAAAATC
*
29660200 AAAAAAGAAAAAATC
1 --AAAA-TAAAAATC
*
29660215 AAAATAAAAATG
1 AAAATAAAAATC
29660227 AAAATAAAAA
1 AAAATAAAAA
29660237 GGAGAAAAAG
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
11 1 0.02
12 50 0.79
13 4 0.06
14 3 0.05
15 5 0.08
ACGTcount: A:0.74, C:0.08, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:29660166 original size:18 final size:18
Alignment explanation
Indices: 29660138--29660190 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
29660128 GATTCAATAA
*
29660138 AAAAAATCAAAATCAAAAT
1 AAAAAA-CAAAATCAAAAG
** *
29660157 AAAAAACAAAAAGAGAAG
1 AAAAAACAAAATCAAAAG
*
29660175 AAAAATCAAAATCAAA
1 AAAAAACAAAATCAAA
29660191 GTCAAAAGCA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAACAAAATCAAAAG
Found at i:29663449 original size:44 final size:44
Alignment explanation
Indices: 29663400--29663511 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
29663390 CTAATCCACT
* * * *
29663400 CCACTACAACTTTATGGAGATAGGA-TTTGTTCATTCAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTTCTT-ACTCAGTCTGCC
* *
29663444 CCACTACAA-TTTCAGGGGGATAAGACTTTCTTACTCAGTCTGCT
1 CCACTACAACTTT-AGGGAGATAAGACTTTCTTACTCAGTCTGCC
* *
29663488 CCACTGCAACTTCAGGGAGATAAG
1 CCACTACAACTTTAGGGAGATAAG
29663512 CCAGATGCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.05
44 46 0.82
45 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CCACTACAACTTTAGGGAGATAAGACTTTCTTACTCAGTCTGCC
Found at i:29663695 original size:44 final size:44
Alignment explanation
Indices: 29663632--29663727 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
29663622 CAACTTCAGA
* *
29663632 GAGATAAGATTCTCAATCTTCAACCTATTCCTCTGCTGACCAGG
1 GAGATAAGATTCTCAATCTTCAACCTATTCCACTGCTGACAAGG
*
29663676 GAGATAGGATTCAT-AATCTTCAACCTATTCCACTGCTGACAAGG
1 GAGATAAGATTC-TCAATCTTCAACCTATTCCACTGCTGACAAGG
29663720 GAGATAAG
1 GAGATAAG
29663728 GCTAGGGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
GAGATAAGATTCTCAATCTTCAACCTATTCCACTGCTGACAAGG
Found at i:29663825 original size:44 final size:44
Alignment explanation
Indices: 29663750--29663833 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
29663740 GATCTGCTCC
* **
29663750 ACTACTGCTTAGGGAGACAAGATATGTAATTTTCAACCTACTCT
1 ACTACTGCTCAGGGAGACAAGATATACAATTTTCAACCTACTCT
* *
29663794 ACTACTGCTCAGGGAGACATGAT-TCACAATTTTTAACCTA
1 ACTACTGCTCAGGGAGACAAGATAT-ACAATTTTCAACCTA
29663834 TTCCACTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 33 0.97
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (44 bp):
ACTACTGCTCAGGGAGACAAGATATACAATTTTCAACCTACTCT
Found at i:29664067 original size:88 final size:88
Alignment explanation
Indices: 29663902--29664742 Score: 1252
Period size: 88 Copynumber: 9.6 Consensus size: 88
29663892 AGGGAGATAG
* * * *
29663902 GGCTGG-GTCATCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCCATTTTAAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
29663966 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * *
29663989 GGTTGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATTTCTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
29664054 TCCACTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
29664077 GGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAATATTTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
29664142 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
29664165 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTAAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
29664230 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* ** * * * * * * *
29664253 GGTTGGCATCTTTGATCTGCTTCGCTGTCAGTGTAGGAAGACAATATCTGCTATTTGTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
29664318 TCCACTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
29664341 GACTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
29664406 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
29664429 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
29664494 TTCACTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
29664517 GGCTGGTGTCTTCGATCTACTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
29664582 TCCGCTGGAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
29664605 GGTTAGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAACTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
29664670 TCTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
29664693 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
29664743 TTATCTTCAC
Statistics
Matches: 674, Mismatches: 79, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
87 5 0.01
88 669 0.99
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:29666368 original size:17 final size:16
Alignment explanation
Indices: 29666344--29666385 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
29666334 CCAGTAGAGT
29666344 TTTTTTTTGCGCCATC
1 TTTTTTTTGCGCCATC
29666360 TTTTCTTTTGCGCCATC
1 TTTT-TTTTGCGCCATC
29666377 TTTTTTTTG
1 TTTTTTTTG
29666386 GGAAATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.05, C:0.21, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTTTTTTGCGCCATC
Found at i:29673044 original size:20 final size:19
Alignment explanation
Indices: 29673019--29673070 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
29673009 ATTCGTATGT
29673019 ATATAAATGATAAAAAATAA
1 ATATAAATG-TAAAAAATAA
*
29673039 ATATAACA-GTAGAAAATAA
1 ATATAA-ATGTAAAAAATAA
*
29673058 ATAAAAATTGTAA
1 ATATAAA-TGTAA
29673071 GTAACAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 10 0.38
21 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
ATATAAATGTAAAAAATAA
Found at i:29674090 original size:13 final size:13
Alignment explanation
Indices: 29674074--29674100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29674064 AAAAAGAATG
29674074 GAAAAATGAAAAT
1 GAAAAATGAAAAT
29674087 GAAAAATGAAAAT
1 GAAAAATGAAAAT
29674100 G
1 G
29674101 GAGAGGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (13 bp):
GAAAAATGAAAAT
Found at i:29675636 original size:128 final size:128
Alignment explanation
Indices: 29675464--29676385 Score: 1400
Period size: 128 Copynumber: 7.2 Consensus size: 128
29675454 AAGATACTAG
* * * *
29675464 CCTATCTCCCTAGTCAGCAGTGGAAT-GTGTTATAAATTACAGATCTTGTTTCCTTAAGCAGTAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAG-GTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
29675528 CGGAGCAGATCGAAGACGGCGAATCTTATTTTCAAGAGTAAGGAAGGAGATTTAAGCCACAAGT
65 CGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
*
29675592 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCTGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* * * *
29675657 GGAGCCGATCGAAGA-TGCAAATCTTATCTTCAAGAGTAAGGAAGTAGATTTAAGCCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * * * *
29675719 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTGCCTCCCTATGGAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* * *
29675784 GGAGCAGATTGAAGACGGTGAATCTTATCTTCAAGAGTAATGAAGCAGATTTAAGCCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * * * *
29675847 CCTATCTCCCTAGTCAGTAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
*
29675912 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAACAGATTTAAGCCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * * *
29675975 CCTATCTCCCTGGTCAGTAGTGGAATAGGTCAAAAATTACAGTTCTTGTCTCCCTAAGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* *
29676040 GGAGCAGATCAAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * * * ** *
29676103 CCTATCTCCCTGGTCAGTAGTGGAATGGGTTGGAAATTGCAGATCTTGTCTCTTTAGGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
*
29676168 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGGCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * * *
29676231 CC-ATCTCCCTTGTCAGTAGTGGAATAAGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* *
29676295 AGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
*
29676358 TCTATCTCCCTGGTCAGCAGTGGAATAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAG
29676386 ATTGAAGATT
Statistics
Matches: 719, Mismatches: 72, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
127 229 0.32
128 489 0.68
129 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (128 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
Found at i:29675915 original size:255 final size:256
Alignment explanation
Indices: 29675464--29676402 Score: 1409
Period size: 255 Copynumber: 3.7 Consensus size: 256
29675454 AAGATACTAG
* * * * *
29675464 CCTATCTCCCTAGTCAGCAGTGGAAT-GTGTTATAAATTACAGATCTTGTTTCCTTAAGCAGTAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAG-GTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
29675528 CGGAGCAGATCGAAGACGGCGAATCTTATTTTCAAGAGTAAGGAAGGAGATTTAAGCCACAAGTC
65 CGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTC
* * * *
29675593 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCTGTAGCG
130 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGCG
* * * *
29675658 GAGCCGATCGAAGA-TGCAAATCTTATCTTCAAGAGTAAGGAAGTAGATTTAAGCCACAAGT
195 GAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
** * * * *
29675719 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTGCCTCCCTATGGAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* * *
29675784 GGAGCAGATTGAAGACGGTGAATCTTATCTTCAAGAGTAATGAAGCAGATTTAAGCCACAAGTCC
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
* *
29675849 TATCTCCCTAGTCAGTAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGCGG
131 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGCGG
*
29675914 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAACAGATTTAAGCCACAAGT
196 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * *
29675975 CCTATCTCCCTGGTCAGTAGTGGAATAGGTCAAAAATTACAGTTCTTGTCTCCCTAAGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* *
29676040 GGAGCAGATCAAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
* * * * **
29676105 TATCTCCCTGGTCAGTAGTGGAATGGGTTGGAAATTGCAGATCTTGTCTCTTTAGGCAGTAGCGG
131 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGCGG
*
29676170 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGGCACAAGT
196 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * *
29676231 CC-ATCTCCCTTGTCAGTAGTGGAATAAGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* * *
29676295 AGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTTC
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
* *
29676360 TATCTCCCTGGTCAGCAGTGGAATAGATT-GAAGATTGCAAATC
131 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAA-ATTACAAATC
29676403 CTATCCCCCT
Statistics
Matches: 623, Mismatches: 58, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
254 3 0.00
255 340 0.55
256 280 0.45
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (256 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGCGG
AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
Found at i:29676239 original size:383 final size:383
Alignment explanation
Indices: 29675464--29676385 Score: 1472
Period size: 383 Copynumber: 2.4 Consensus size: 383
29675454 AAGATACTAG
* * * *
29675464 CCTATCTCCCTAGTCAGCAGTGGAAT-GTGTTATAAATTACAGATCTTGTTTCCTTAAGCAGTAG
1 CCTATCTCCCTAGTCAGTAGTGGAATAG-GTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
29675528 CGGAGCAGATCGAAGACGGCGAATCTTATTTTCAAGAGTAAGGAAGGAGATTTAAGCCACAAGTC
65 CGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTC
* * *
29675593 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCTGTAGCG
130 CTATCTCCCTGGTCAGCAGTGGAATAGGTCAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCG
* * *
29675658 GAGCCGATCGAAGATGCAAATCTTATCTTCAAGAGTAAGGAAGTAGATTTAAGCCACAAGTCCTA
195 GAGCAGATCAAAGATGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
*
29675723 TCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTGCCTCCCTATGGAGTAGCGGAG
260 TCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGCCTCCCTATGGAGTAGCGGAG
* * *
29675788 CAGATTGAAGACGGTGAATCTTATCTTCAAGAGTAATGAAGCAGATTTAAGCCACAAGT
325 CAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * *
29675847 CCTATCTCCCTAGTCAGTAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAGGCAGTAGC
1 CCTATCTCCCTAGTCAGTAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
*
29675912 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAACAGATTTAAGCCACAAGTCC
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
* *
29675977 TATCTCCCTGGTCAGTAGTGGAATAGGTCAAAAATTACAGTTCTTGTCTCCCTAAGCAGTAGCGG
131 TATCTCCCTGGTCAGCAGTGGAATAGGTCAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
*
29676042 AGCAGATCAAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
196 AGCAGATCAAAGAT-GCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTA
* * * * **
29676107 TCTCCCTGGTCAGTAGTGGAATGGGTTGGAAATTGCAGATCTTGTCTCTTTA-GGCAGTAGCGGA
260 TCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGCCTCCCTATGG-AGTAGCGGA
*
29676171 GCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGGCACAAGT
324 GCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
* * *
29676231 CC-ATCTCCCTTGTCAGTAGTGGAATAAGTCAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
1 CCTATCTCCCTAGTCAGTAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
* * *
29676295 AGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTTC
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
29676360 TATCTCCCTGGTCAGCAGTGGAATAG
131 TATCTCCCTGGTCAGCAGTGGAATAG
29676386 ATTGAAGATT
Statistics
Matches: 495, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
383 334 0.67
384 161 0.33
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (383 bp):
CCTATCTCCCTAGTCAGTAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
GGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCC
TATCTCCCTGGTCAGCAGTGGAATAGGTCAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
AGCAGATCAAAGATGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTAT
CTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGCCTCCCTATGGAGTAGCGGAGC
AGATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGT
Found at i:29676624 original size:44 final size:45
Alignment explanation
Indices: 29676573--29676692 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
29676563 TCGCATCAGG
*
29676573 TCTTATCTCCCTGAGGTTGCAGTGGAGCAAA-CTAAAGAAG-CAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAAATC-AAAGAAGACAAA
* ** * * * *
29676617 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGACAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAAATCAAAGAAGACAAA
*
29676661 TTTTATCTCCCTGAGGTTGCAGTGGAGCAAAT
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAAAT
29676693 TGAAGCCGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
43 18 0.31
44 27 0.46
45 14 0.24
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAAATCAAAGAAGACAAA
Found at i:29678366 original size:3 final size:3
Alignment explanation
Indices: 29678358--29678382 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29678348 TAATATTTCC
29678358 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
29678383 GTTTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:29679791 original size:23 final size:22
Alignment explanation
Indices: 29679764--29679807 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
29679754 ACTTCCATAA
*
29679764 TGTAATTATTTTTATTTTTTATT
1 TGTAATTATTTTT-TTATTTATT
29679787 TGTAATTATTTTTTTATTTAT
1 TGTAATTATTTTTTTATTTAT
29679808 ATATATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (22 bp):
TGTAATTATTTTTTTATTTATT
Found at i:29694822 original size:23 final size:23
Alignment explanation
Indices: 29694791--29694889 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
29694781 GGTGTTATTG
*
29694791 ATCACTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
29694814 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
29694837 TTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
29694860 AACAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
29694883 ATCAGTG
1 ATCAGTG
29694890 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:29700631 original size:44 final size:43
Alignment explanation
Indices: 29700579--29701391 Score: 384
Period size: 44 Copynumber: 18.7 Consensus size: 43
29700569 GATCGCATCT
*
29700579 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* * * **
29700623 AGTCTTATC-CTTCTGAAGTTGCAAT-CAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * *
29700668 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAACA
* * * * *
29700713 A-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* ** * * * * * * *
29700755 GGATCTTATCTCTTTGAAATTGTAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
* *
29700796 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* * **
29700840 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGAATGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * ** *
29700885 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAACA
* * * *
29700930 A-TCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAA-AACCTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTAAGAAAC--A
* * * * * * *
29700973 GGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
*
29701013 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* * **
29701057 AGTCTTATC-CTCCTAAATTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * * **
29701102 AATATTATCTCCCTGAAGTTGTAGTGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * *
29701145 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AATCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
29701189 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
*
29701230 AGTCTTATCTCCCTGAAGTGGCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
*
29701274 AGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGAA-A
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA---AACA
* * * **
29701320 A-TCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * *
29701362 TAATCCTATCTCCCTGAAGTTGCAGAGGAG
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAG
29701392 TAGATTGAAG
Statistics
Matches: 594, Mismatches: 117, Indels: 116
0.72 0.14 0.14
Matches are distributed among these distances:
40 60 0.10
41 26 0.04
42 16 0.03
43 41 0.07
44 304 0.51
45 131 0.22
46 14 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
Found at i:29700832 original size:217 final size:217
Alignment explanation
Indices: 29700451--29701391 Score: 1542
Period size: 217 Copynumber: 4.3 Consensus size: 217
29700441 GGTGGCCAAT
* * * * **
29700451 AATCTTATCTTCCTAAAGTTGTAGTGGAGCATATTAAAGCTGATAATCCTATCTCTTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
29700516 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCT-TCGAAGTTGCAGAGAGCAGATCGCATCTA
66 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCT-GAAGTTGCAGAGAGCAGATCGCATCTA
* * *
29700580 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAACAAGTCTTATCCTTCTGAAGTTGC
130 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGC
* *
29700645 AATCAGGCAGACTGAAGATGGCA
195 AGTGAGGCAGACTGAAGATGGCA
* **
29700668 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
* * *
29700733 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTTTGAAATTGTAGAGAGCAGATCGCATCTAG
66 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* *
29700798 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
131 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGCA
*
29700863 GTGAGGCAGAATGAAGATGGCA
196 GTGAGGCAGACTGAAGATGGCA
*
29700885 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
* *
29700950 CAGTGGAGAGGATTAAAACCTTGGGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* *
29701015 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAATTTGCA
131 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGCA
29701080 GTGAGGCAGACTGAAGATGGCA
196 GTGAGGCAGACTGAAGATGGCA
*
29701102 AATATTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
* *
29701167 CAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* * *
29701232 TCTTATCTCCCTGAAGTGGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGTA
131 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGCA
*
29701297 GTGAGGCAGACTGAAGATGGAA
196 GTGAGGCAGACTGAAGATGGCA
* * *
29701319 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
*
29701384 CAGAGGAG
66 CAGTGGAG
29701392 TAGATTGAAG
Statistics
Matches: 677, Mismatches: 46, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
217 676 1.00
218 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (217 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTCCTAAAGTTGCA
GTGAGGCAGACTGAAGATGGCA
Found at i:29701062 original size:84 final size:85
Alignment explanation
Indices: 29700553--29701391 Score: 319
Period size: 89 Copynumber: 9.7 Consensus size: 85
29700543 TTATCTCTTC
* *
29700553 GAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAA
1 GAAGTTGCAGTAGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
*
29700616 GTAAACAAGTCTTATC-CTTCT
66 G-AAACAAGTCTTATCTC-CCT
* * * *
29700637 GAAGTTGCAATCAG-GCAGACTGAAG-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 GAAGTTGCAGT-AGAGCAGA-T-TAGCAT--CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
29700700 ATTAAAGCAAATAA-TCCTATCTCCCT
61 ACT-AAG-AAACAAGTCTTATCTCCCT
* * ** * * ** * * *
29700726 GAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTTTGAAATTGTAG-AGAGCAGA-T
1 GAAGTTGCAGTAGAGCAGATTAGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * *
29700789 -CGCATCTAGTCTTATCTCCCT
64 AAGAAACAAGTCTTATCTCCCT
* * * * * * *
29700810 GAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGA
1 GAAGTTGCAGTAGAGCAGA-TTAG-CATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA
* ** *
29700873 ATGAAGATGGCAAATCTTATCTCCCT
62 CT-AAGA-AACAAGTCTTATCTCCCT
* * * * *
29700899 GAAGTTGTAGTGGAGCAGATTAAAGC-TGATAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGA
1 GAAGTTGCAGTAGAGCAGATT--AGCAT-CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GA
* * ** *
29700962 TTAA-AACCTTGGGTCTTATCTCTCT
62 CTAAGAAAC--AAGTCTTATCTCCCT
*
29700987 GAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
1 GAAGTTGCAGTAGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
*
29701050 GTAAGCAAGTCTTATC-CTCCT
66 G-AAACAAGTCTTATCTC-CCT
* * * * * * *
29701071 AAATTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATATTATCTCCCTGAAGTTGTAGTGGAGCAG
1 GAAGTTGCAGTAGA-GCAGA-T-TAGCAT--CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* ** * *
29701134 ATTAA-AGCCGATAATCCTATCTCCCT
61 ACTAAGAAAC-A-AGTCTTATCTCCCT
* ** * * *
29701160 GAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T
1 GAAGTTGCAGTAGAGCAGATTAGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * *
29701223 -CGCATCTAGTCTTATCTCCCT
64 AAGAAACAAGTCTTATCTCCCT
* * * * * * *
29701244 GAAGTGGCAGTGGAGCAGACTAAGTAAACAAGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGA
1 GAAGTTGCAGTAGAGCAGA-TTAG-CATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA
29701307 CTGAAGATGGAA-AA-TCTTATCTCCCT
62 CT-AAGA---AACAAGTCTTATCTCCCT
* * * *** * * *
29701333 GAGGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAG
1 GAAGTTGCAGTAGAGCAGATT--AGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
29701392 TAGATTGAAG
Statistics
Matches: 556, Mismatches: 133, Indels: 127
0.68 0.16 0.16
Matches are distributed among these distances:
83 5 0.01
84 160 0.29
85 28 0.05
86 20 0.04
87 30 0.05
88 73 0.13
89 216 0.39
90 23 0.04
91 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (85 bp):
GAAGTTGCAGTAGAGCAGATTAGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GAAACAAGTCTTATCTCCCT
Found at i:29701392 original size:44 final size:44
Alignment explanation
Indices: 29700449--29701402 Score: 367
Period size: 44 Copynumber: 22.0 Consensus size: 44
29700439 TCGGTGGCCA
* * * * *
29700449 ATAATCTTATCTTCCTAAAGTTGTAGTGGAGCATATTAAAGCTG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* ** * *
29700493 ATAATCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * * **
29700536 TTGGATCTTATCT-CTTCGAAGTTGCAG-AGAGCAGA-T--CGCAT
1 AT-AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * ***
29700577 CTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTAA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * * *
29700620 ACAAGTCTTATC-CTTCTGAAGTTGCAAT-CAGGCAGACTGAAGATGGC-
1 ATAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCG
**
29700667 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * *
29700710 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * ** * * * * **
29700753 TTGGATCTTATCTCTTTGAAATTGTAG-AGAGCAGA-T--CGCAT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * *
29700794 CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAG-C-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCG
* * * *
29700839 A-AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGAATGAAGATGGC-
1 ATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG-ATTAA-A-GCCG
* *
29700884 A-AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* *
29700927 ATAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCCG
* ** * * * **
29700970 TTGGGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCAT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * *
29701011 CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCG
* * * * *
29701056 A-AGTCTTATC-CTCCTAAATTTGCAGT-GAGGCAGACTGAAGATGGC-
1 ATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCG
* *
29701101 A-AATATTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* **
29701144 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * * **
29701187 TTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCAT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * ***
29701228 CTAGTCTTATCTCCCTGAAGTGGCAGTGGAGCAGACT-AAGTAA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * **
29701271 ACAAGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGG
1 ATAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-CCG
* * *
29701317 AAAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGCCG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * *
29701361 ATAATCCTATCTCCCTGAAGTTGCAGAGGAGTAGATTGAAGC
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
29701403 ACTAGTTCTT
Statistics
Matches: 686, Mismatches: 155, Indels: 138
0.70 0.16 0.14
Matches are distributed among these distances:
40 80 0.12
41 33 0.05
42 12 0.02
43 56 0.08
44 376 0.55
45 106 0.15
46 18 0.03
47 4 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
Found at i:29708324 original size:27 final size:27
Alignment explanation
Indices: 29708293--29708470 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29708283 TAAATTGTAC
29708293 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29708320 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29708346 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29708374 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29708402 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29708429 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29708456 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29708471 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.