Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 38 of 333
Found at i:10658377 original size:14 final size:14
Alignment explanation
Indices: 10658358--10658387 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10658348 GCACACCCTG
10658358 TAGAACGCACTTTC
1 TAGAACGCACTTTC
10658372 TAGAACGCACTTTC
1 TAGAACGCACTTTC
10658386 TA
1 TA
10658388 CCACTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (14 bp):
TAGAACGCACTTTC
Found at i:10684488 original size:92 final size:97
Alignment explanation
Indices: 10684376--10684566 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 97
10684366 CATGTGCTCA
*
10684376 ATACAAATTTATTATAGTACTA-CTCA-TGTTTCCT-CAAGTGTG-TTTT-TTTTGTTTGAATAA
1 ATACAAATTTATTATAGTACTATCTAATTGTTTCCTCCAA-TGTGCTTTTGTTTTG--T-AATAA
10684436 AGCATGTAT-AAGAG-TAGTATGC-TT-AATTGTGC
62 AGCATGTATGAAGAGTTAGTATGCTTTGAATTGTGC
* * *
10684468 ATACAGATTTATTATAGTACTATCTAATTGTTTCCTCCAATGTGCTTTTGTTTTGTACTGAAGCA
1 ATACAAATTTATTATAGTACTATCTAATTGTTTCCTCCAATGTGCTTTTGTTTTGTAATAAAGCA
*
10684533 TTTATGAAGAGTTAGTATGCTTTGAATTGTGC
66 TGTATGAAGAGTTAGTATGCTTTGAATTGTGC
10684565 AT
1 AT
10684567 TTGTATAAGT
Statistics
Matches: 85, Mismatches: 5, Indels: 13
0.83 0.05 0.13
Matches are distributed among these distances:
92 21 0.25
93 14 0.16
94 18 0.21
95 15 0.18
96 7 0.08
97 10 0.12
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.44
Consensus pattern (97 bp):
ATACAAATTTATTATAGTACTATCTAATTGTTTCCTCCAATGTGCTTTTGTTTTGTAATAAAGCA
TGTATGAAGAGTTAGTATGCTTTGAATTGTGC
Found at i:10704913 original size:40 final size:40
Alignment explanation
Indices: 10704822--10704991 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
10704812 TCCTCGTTCA
* * * * *
10704822 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10704861 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10704901 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
10704941 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10704981 AAGGCCTTCGG
1 AATGCCTTCGG
10704992 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10718730 original size:15 final size:13
Alignment explanation
Indices: 10718701--10718727 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10718691 GCTCGGTAGG
10718701 GACACGCCCGTGT
1 GACACGCCCGTGT
10718714 GACACGCCCGTGT
1 GACACGCCCGTGT
10718727 G
1 G
10718728 TGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10735814 original size:27 final size:27
Alignment explanation
Indices: 10735773--10735855 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
10735763 ATCTCATATC
* * *
10735773 TGTAGGCTAGCATTACTGGAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
10735800 TGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
**
10735827 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
10735854 TG
1 TG
10735856 GTTTATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:10735867 original size:27 final size:27
Alignment explanation
Indices: 10735837--10736030 Score: 169
Period size: 27 Copynumber: 7.2 Consensus size: 27
10735827 TGTAGGGTAG
* *
10735837 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
10735864 AATTACCAAAATACCCCT-AGTTTATAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
10735891 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
10735918 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * **
10735945 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * *
10735972 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
10735999 AATTACCAAAGTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
10736026 AATTA
1 AATTA
10736031 TCGTTTTACT
Statistics
Matches: 145, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 139 0.96
28 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:10735868 original size:54 final size:53
Alignment explanation
Indices: 10735818--10735932 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 53
10735808 AGAATTACTG
* * * * *
10735818 AAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGGTTTATAAAATTACCA
1 AAATACCCTAGT-GGATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
** *
10735872 AAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATA-CCCTAGTGGATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
10735926 AAATACC
1 AAATACC
10735933 TCTGATTTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
53 2 0.04
54 44 0.85
55 6 0.12
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (53 bp):
AAATACCCTAGTGGATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
Found at i:10736028 original size:54 final size:54
Alignment explanation
Indices: 10735837--10736355 Score: 221
Period size: 54 Copynumber: 9.6 Consensus size: 54
10735827 TGTAGGGTAG
* * * * ** *
10735837 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAGTTTATAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACTGAAATACCCTCGA-TTTATAA
* * ** ** * *
10735891 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAATTACCCTCGA-TTTACAAAATTACTGAAATACCCTC-GATTTATAA
* ** ** * *
10735945 AATTACTGAAA-TACCCTCGACCTGTAAAATTACTGAAATACCCTCGACTTGTAA
1 AATTAC-CAAATTACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAA
* *** * * *
10735999 AATTACCAAAGTACCCTCGATTTACAAAATTA-TCGTTTTACTCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACT-GAAATACCCTCGATTTATAA
* ** ** * *
10736053 AATTACTATTTTACCCTCGATTTACAAAATTA-TCG-TTTCACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACT-GAAAT-ACCCTCGATTTATAA
* ** ** * * *** *
10736107 CATTATTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAA
** * ***
10736161 AATTACCATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTATAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAA
** ** * * *
10736215 AATTACCATTTTACCCTCGATTTACAAAATTACT-ATTTTATCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACTGA-AATACCCTCGATTTATAA
**** * *** *
10736269 AATTACTGTTTTACCCTTGATTTA-AAGAATTACTGTTTTACCCTTGATTTA-AA
1 AATTACCAAATTACCCTCGATTTACAA-AATTACTGAAATACCCTCGATTTATAA
*** *
10736322 GAATTACCGTTTTACCCTCGATTTATAAAATTAC
1 -AATTACCAAATTACCCTCGATTTACAAAATTAC
10736356 CATTTTACCC
Statistics
Matches: 390, Mismatches: 59, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
53 12 0.03
54 362 0.93
55 16 0.04
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAAAATTACTGAAATACCCTCGATTTATAA
Found at i:10736044 original size:27 final size:26
Alignment explanation
Indices: 10736010--10736365 Score: 374
Period size: 27 Copynumber: 13.2 Consensus size: 26
10736000 ATTACCAAAG
10736010 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
10736037 TACTCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
10736064 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* ** **
10736091 CACCCTCGATTTACAGCATTATTATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* *
10736118 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
10736145 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*
10736172 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* *
10736199 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*
10736226 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* *
10736253 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
10736280 TACCCTTGATTTA-AAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTAC-GTTT
*
10736307 TACCCTTGATTTA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTA-CGTTT
* *
10736334 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
10736361 TACCC
1 TACCC
10736366 CTAGGGTGTT
Statistics
Matches: 286, Mismatches: 33, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.01
27 276 0.97
28 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACGTTT
Found at i:10736362 original size:54 final size:54
Alignment explanation
Indices: 10736010--10736365 Score: 434
Period size: 54 Copynumber: 6.6 Consensus size: 54
10736000 ATTACCAAAG
* * *
10736010 TACCCTCGATTTACAAAATTA-TCGTTTTACTCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTAAAGAATTACCATTT
* * * **
10736064 TACCCTCGATTTACAAAATTA-TCGTTTCACCCTCGATTTACAGCATTATTATTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTAAAGAATTACCATTT
* *
10736118 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAA-AATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA-AAGAATTACCATTT
*
10736172 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTATAA-AATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA-AAGAATTACCATTT
* * * **
10736226 TACCCTCGATTTACAAAATTACTATTTTATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAAAGAATTACCATTT
* * *
10736280 TACCCTTGATTTA-AAGAATTACTGTTTTACCCTTGATTTAAAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTACTGTTTTACCCTCGATTTAAAGAATTACCATTT
* **
10736334 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTGTTTTACCC
10736366 CTAGGGTGTT
Statistics
Matches: 267, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.01
54 260 0.97
55 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAAAGAATTACCATTT
Found at i:10736903 original size:31 final size:31
Alignment explanation
Indices: 10736868--10736977 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
10736858 TTGCACTCAC
*
10736868 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * **
10736899 ATTCTGATTCTAATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
10736930 ATTTTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
10736961 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
10736978 CATTTTAATT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 59 0.94
32 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:10736907 original size:6 final size:6
Alignment explanation
Indices: 10736868--10736977 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
10736858 TTGCACTCAC
* * *
10736868 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
10736917 -TCACCTA ATTTTG ATTTTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
10736967 ATTCTG ATTCT
1 ATTCTG ATTCT
10736978 CATTTTAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 66 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:10736938 original size:37 final size:37
Alignment explanation
Indices: 10736890--10736989 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
10736880 ATTCTGTTAC
*
10736890 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* * * *
10736927 TTGATTTTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* *
10736964 CTGATTCTGATTCTCATTTTAATTCT
1 CTGATTCTGATTCTGATTCTAATTCT
10736990 AGTTCTGATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:10753413 original size:27 final size:26
Alignment explanation
Indices: 10753365--10753445 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
10753355 GCGAGGCTGC
*
10753365 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
10753392 CAGATATTGTGCCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
10753418 CATATATATATGTGGCGAAGCCACCAGA
1 C--AGATAT-TGTGACGAAGCCACCAGA
10753446 TTGCAGCGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.05
27 21 0.49
28 5 0.12
29 15 0.35
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:10753507 original size:27 final size:26
Alignment explanation
Indices: 10753461--10753512 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
10753451 GCGAAGTTGC
10753461 CAGATATTGTGACGAAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
10753487 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
10753513 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:10753519 original size:67 final size:68
Alignment explanation
Indices: 10753392--10753531 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
10753382 TCACCAGATA
* * * *
10753392 CAGATATTGTGCCTAGGCCACCAGAACATATATATATGTGGCGAAGCCACCAGATTGCAGCGAAG
1 CAGATATTGTGACGAAGCCACCAGAACA-AGATATATGTGGCGAAGCCACCAGATTGCAGCGAAG
*
10753457 TTGC
65 CTGC
* *
10753461 CAGATATTGTGACGAAGCCACCAGAAC-AGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGC
10753525 TGC
66 TGC
10753528 CAGA
1 CAGA
10753532 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 40 0.62
69 24 0.38
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGC
TGC
Found at i:10754193 original size:27 final size:27
Alignment explanation
Indices: 10754163--10754307 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
10754153 AGGGCAAAAT
* * *
10754163 GGTAATTTTA-CCTCACAAGGGTATCTC
1 GGTAATTCTACCCT-ACAGGGGTATTTC
10754190 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
10754217 GATAATTCTATCCTACAGGGGT-TTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
10754243 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
10754270 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
10754297 AATAATTCTAC
1 GGTAATTCTAC
10754308 AACTTATCCA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 25 0.23
27 79 0.74
28 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:10754250 original size:53 final size:54
Alignment explanation
Indices: 10754192--10754307 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 54
10754182 GGTATCTCGG
* *
10754192 TAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCTACAGGGGT-TTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAA
*
10754245 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAA
10754299 TAATTCTAC
1 TAATTCTAC
10754308 AACTTATCCA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
53 45 0.76
54 14 0.24
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAA
Found at i:10768887 original size:23 final size:23
Alignment explanation
Indices: 10768857--10768901 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10768847 GTGGCTTAAG
10768857 TTAGTATACCCTACATGTTTGGT
1 TTAGTATACCCTACATGTTTGGT
10768880 TTAGTATACCCTACATGTTTGG
1 TTAGTATACCCTACATGTTTGG
10768902 CATGGCCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (23 bp):
TTAGTATACCCTACATGTTTGGT
Found at i:10773658 original size:26 final size:26
Alignment explanation
Indices: 10773622--10773731 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10773612 TGATACAAAT
*
10773622 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10773648 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10773674 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10773700 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10773726 TGATAA
1 TGATAA
10773732 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10775137 original size:28 final size:26
Alignment explanation
Indices: 10775095--10775169 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
10775085 AAAAGTAGCT
* * * *
10775095 AAATTACTATAATACCTCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
10775123 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
10775149 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
10775170 GGTTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.56
27 1 0.02
28 17 0.41
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:10775352 original size:54 final size:54
Alignment explanation
Indices: 10775270--10775381 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
10775260 ATGGAGGAAG
* *
10775270 TGTTCTGGTGGCTATGCCACAAATATCTG-ATCTTGTGGCTCTGCCACATATATC
1 TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACAT-TATC
* * * * *
10775324 TGTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATT
1 TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACATTATC
10775378 TGTT
1 TGTT
10775382 TTGGCAGCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (54 bp):
TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACATTATC
Found at i:10775375 original size:27 final size:27
Alignment explanation
Indices: 10775273--10775376 Score: 122
Period size: 27 Copynumber: 3.8 Consensus size: 27
10775263 GAGGAAGTGT
* *
10775273 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
*
10775300 TCTTGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
10775327 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
10775355 TCTGGTGACTCTGTCACATTAT
1 TCTGGTGGCTCTGCCACATTAT
10775377 TTGTTTTGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 49 0.73
28 17 0.25
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:10775844 original size:30 final size:30
Alignment explanation
Indices: 10775810--10775871 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
10775800 TTAAATGTAA
10775810 TAAGGCCGCTTATTTATTTTTGATGGTTTT
1 TAAGGCCGCTTATTTATTTTTGATGGTTTT
10775840 TAAGGCCGCTTATTTATTTTTGATGGTTTT
1 TAAGGCCGCTTATTTATTTTTGATGGTTTT
10775870 TA
1 TA
10775872 TATGTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.10, G:0.19, T:0.53
Consensus pattern (30 bp):
TAAGGCCGCTTATTTATTTTTGATGGTTTT
Found at i:10777447 original size:30 final size:30
Alignment explanation
Indices: 10777413--10777472 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10777403 CCTTAACTTG
10777413 AACTTTTGAAAAATTACAATTTTGCCCCTA
1 AACTTTTGAAAAATTACAATTTTGCCCCTA
* * * *
10777443 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACAATTTTGCCCCTA
10777473 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGAAAAATTACAATTTTGCCCCTA
Found at i:10779375 original size:15 final size:15
Alignment explanation
Indices: 10779343--10779388 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
10779333 AATTTAATTG
*
10779343 ATAAAGAAAAATAAA
1 ATAAACAAAAATAAA
* *
10779358 ATAAACAAATATATA
1 ATAAACAAAAATAAA
*
10779373 ATAAATAAAAATAAA
1 ATAAACAAAAATAAA
10779388 A
1 A
10779389 ATAGAATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
ATAAACAAAAATAAA
Found at i:10782005 original size:2 final size:2
Alignment explanation
Indices: 10781992--10782031 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10781982 AATTACACCA
*
10781992 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10782032 CTAACATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10782451 original size:34 final size:34
Alignment explanation
Indices: 10782387--10782451 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
10782377 AAAGGAAAAT
**
10782387 AGAAAACCATAAAAAATAATCAAATAACAATCTA
1 AGAAAACCATAAAAAATAAAAAAATAACAATCTA
* *
10782421 AGAAAATCATAAAAAATAAAAAAATTACAAT
1 AGAAAACCATAAAAAATAAAAAAATAACAAT
10782452 AATTTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (34 bp):
AGAAAACCATAAAAAATAAAAAAATAACAATCTA
Found at i:10782925 original size:13 final size:13
Alignment explanation
Indices: 10782907--10782932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10782897 AAACAATAAT
10782907 AATAAATTGTGGA
1 AATAAATTGTGGA
10782920 AATAAATTGTGGA
1 AATAAATTGTGGA
10782933 TTTTATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AATAAATTGTGGA
Found at i:10787667 original size:22 final size:21
Alignment explanation
Indices: 10787617--10787667 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
10787607 TTAAATAATT
*
10787617 AATTATATTATTAAATATAAA
1 AATTATATTAATAAATATAAA
*
10787638 TATGTATACTTAAT-AATATTAAA
1 AAT-TATA-TTAATAAATA-TAAA
10787661 AATTATA
1 AATTATA
10787668 ATATTTGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 12 0.50
23 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTATATTAATAAATATAAA
Found at i:10789258 original size:3 final size:3
Alignment explanation
Indices: 10789250--10789287 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10789240 CTCCGCCTTT
10789250 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10789288 GGAGGATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10791364 original size:10 final size:10
Alignment explanation
Indices: 10791338--10791371 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10791328 AAATATTAAT
10791338 ATTTATAAAA
1 ATTTATAAAA
10791348 ATATTATAAAA
1 AT-TTATAAAA
*
10791359 ATTTATTAAA
1 ATTTATAAAA
10791369 ATT
1 ATT
10791372 CAGTCCAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTATAAAA
Found at i:10796030 original size:14 final size:15
Alignment explanation
Indices: 10796011--10796051 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
10796001 TTTCAATTTT
10796011 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
10796025 ATTTTAA-AATAATA
1 ATTTTAATAATAATA
*
10796039 ATGTTAAGTAATA
1 ATTTTAA-TAATA
10796052 TTCTTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
16 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:10796104 original size:15 final size:15
Alignment explanation
Indices: 10796084--10796140 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 15
10796074 ATTCAATATT
10796084 AATATTTTAATAATA
1 AATATTTTAATAATA
10796099 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
*
10796118 AATATATTAATAATA
1 AATATTTTAATAATA
10796133 AATATTTT
1 AATATTTT
10796141 GCAGTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 19 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 12 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10796113 original size:19 final size:18
Alignment explanation
Indices: 10796089--10796139 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 18
10796079 ATATTAATAT
10796089 TTTAATAATAAATATTTA
1 TTTAATAATAAATATTTA
10796107 TTATAATAATAAATA--TA
1 TT-TAATAATAAATATTTA
10796124 -TTAATAATAAATATTT
1 TTTAATAATAAATATTT
10796140 TGCAGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 3 0.10
18 2 0.07
19 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAATAAATATTTA
Found at i:10804157 original size:39 final size:39
Alignment explanation
Indices: 10804106--10804226 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
10804096 AATTATATTA
*
10804106 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* * *
10804145 GCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
* * *
10804184 CCAGCACGAAGCCTGCAGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
10804223 CCAG
1 CCAG
10804227 TGTCTTGCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATCT
Found at i:10810083 original size:22 final size:22
Alignment explanation
Indices: 10810055--10810176 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
10810045 TTCCACATCC
10810055 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
10810077 ATCACATATATACACTTTC-TCATT
1 ATCACAT-T-GGC-CATTCGGCCTT
10810101 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
10810124 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
10810148 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
10810171 ATCACA
1 ATCACA
10810177 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:10810090 original size:47 final size:47
Alignment explanation
Indices: 10810027--10810330 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
10810017 CCCTTCGGGA
* * *
10810027 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
10810074 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
10810121 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10810168 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10810215 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
10810262 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
10810311 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
10810331 GTACATCAAT
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:10816514 original size:22 final size:22
Alignment explanation
Indices: 10816471--10816510 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
10816461 TAGATGTGTA
10816471 TTTATAGTATTTTTAATAAATT
1 TTTATAGTATTTTTAATAAATT
10816493 TTTATA-T-TTTTTAATAAA
1 TTTATAGTATTTTTAATAAA
10816511 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTATAGTATTTTTAATAAATT
Found at i:10816918 original size:21 final size:21
Alignment explanation
Indices: 10816894--10816934 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10816884 ATTTAATAAC
10816894 TAAAATATTATAATAAAAAAT
1 TAAAATATTATAATAAAAAAT
10816915 TAAAATATTATAATAAAAAA
1 TAAAATATTATAATAAAAAA
10816935 ACTTTGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATATTATAATAAAAAAT
Found at i:10817453 original size:55 final size:56
Alignment explanation
Indices: 10817369--10817480 Score: 217
Period size: 55 Copynumber: 2.0 Consensus size: 56
10817359 AACAAACATG
10817369 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAAT-ACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
10817424 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
1 AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
10817480 A
1 A
10817481 CAAAAGTTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 46 0.82
56 10 0.18
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
AAAGATGAAATTTCTTATTTGATTAAGAGTTAATATGGTTGAAAATAACTCAACTT
Found at i:10828214 original size:39 final size:40
Alignment explanation
Indices: 10828114--10828298 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
10828104 TCGAATGATG
* * *
10828114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
10828153 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
10828194 TTCGGGCTAAG-CCCGAAGGCATTGGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
10828233 TCCGGGTTAAGTCCCAAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
10828272 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
10828299 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 33 0.28
40 74 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:10828320 original size:79 final size:79
Alignment explanation
Indices: 10828170--10828321 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
10828160 CTAAGATCCG
** **
10828170 AAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGCGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
10828235 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * * *
10828249 AAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
10828312 ATCC-GGTTAA
63 ATCCGGGTTAA
10828322 ATTCCGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.03
79 35 0.57
80 24 0.39
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:10836472 original size:39 final size:40
Alignment explanation
Indices: 10836282--10836465 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
10836272 TCGAATGATG
* * * * *
10836282 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
10836322 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10836362 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10836401 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10836442 -CCGGGCTATGTCCC-AAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10836466 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 44 0.36
40 69 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10836472 original size:79 final size:78
Alignment explanation
Indices: 10836335--10836498 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 78
10836325 GGACTAAGAT
* **
10836335 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
10836399 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
10836414 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCC-AAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
10836477 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
10836492 CCGAAGG
1 CCGAAGG
10836499 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 18 0.25
79 52 0.71
80 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:10844160 original size:38 final size:38
Alignment explanation
Indices: 10844109--10844186 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
10844099 CTCTAAAAAA
10844109 GTTCTACAAGGGTAGACACACGGGCATGTGTCTAGGCC
1 GTTCTACAAGGGTAGACACACGGGCATGTGTCTAGGCC
* *
10844147 GTTCTACACGGGTAGACACATGGGCATGTGTCTAGGCC
1 GTTCTACAAGGGTAGACACACGGGCATGTGTCTAGGCC
10844185 GT
1 GT
10844187 GTGTGACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (38 bp):
GTTCTACAAGGGTAGACACACGGGCATGTGTCTAGGCC
Found at i:10863204 original size:39 final size:40
Alignment explanation
Indices: 10863161--10863284 Score: 128
Period size: 39 Copynumber: 3.2 Consensus size: 40
10863151 ACCATCTCGA
* * * *
10863161 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
* *
10863200 AGCCTGC-GGACCTTAAGTCCGAATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
* * * *
10863239 AGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
*
10863278 AACCTGC
1 AGCCTGC
10863285 ATACCCTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 3 0.04
39 72 0.96
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
AGCCTGCGGGACCTTAAGCCCGAACATAATTCCAGCACAT
Found at i:10863291 original size:39 final size:39
Alignment explanation
Indices: 10863179--10863304 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
10863169 GGACTTTAGC
* * * *
10863179 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
10863218 CCGAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* **
10863257 CCGGATATAATTCCAGCACATAACCTGCATACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
10863296 CTGGATATA
1 CCGGATATA
10863305 CATCACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:10868961 original size:59 final size:59
Alignment explanation
Indices: 10868871--10869006 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
10868861 CAGTGTTAAC
*
10868871 TGGGCCTTAGCCCATATCAATATTAACCTGGGCCATAGCCC-TTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAACCTGGGCCATAGCCCATTACAAG--TCGAGA-TATAT
* * *
10868931 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAACCTGGGCCATAGCCC-ATTACAAGTCGAGATATAT
*
10868991 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
10869007 TAACATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
59 30 0.45
60 28 0.42
61 7 0.10
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAACCTGGGCCATAGCCCATTACAAGTCGAGATATAT
Found at i:10868970 original size:28 final size:27
Alignment explanation
Indices: 10868870--10868970 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 27
10868860 TCAGTGTTAA
* * *
10868870 CTGGGCCTTAGCCCATATCAATATTAAC
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
10868898 CTGGGCCATAGCCCTTA-CAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATATCAGTATC--A--AT
*
10868929 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
10868957 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
10868971 TATTACAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
27 11 0.19
28 23 0.40
29 1 0.02
30 1 0.02
31 9 0.16
32 13 0.22
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:10871240 original size:3 final size:3
Alignment explanation
Indices: 10871232--10871256 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10871222 ATTTAATTAC
10871232 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
10871257 TTCATAAACA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10882510 original size:12 final size:12
Alignment explanation
Indices: 10882493--10882601 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
10882483 TTTTTCCTTG
10882493 TATATTATTTAT
1 TATATTATTTAT
10882505 TATATTA-TTA-
1 TATATTATTTAT
*
10882515 TAAATTA-TT-T
1 TATATTATTTAT
*
10882525 TATATTATGTTACC
1 TATATTAT-TTA-T
*
10882539 TATATTTTATTAT
1 TATATTAT-TTAT
10882552 ATATATTATTT-T
1 -TATATTATTTAT
*
10882564 ATATATTACTTAT
1 -TATATTATTTAT
* *
10882577 CATATTGTTTA-
1 TATATTATTTAT
*
10882588 TATTATTATATAT
1 TA-TATTATTTAT
10882601 T
1 T
10882602 TCGTTTATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
10 14 0.19
11 4 0.05
12 35 0.47
13 4 0.05
14 17 0.23
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:10882582 original size:21 final size:18
Alignment explanation
Indices: 10882493--10882602 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 18
10882483 TTTTTCCTTG
10882493 TATATTATTTATTATATTAT
1 TATA-TATTT-TTATATTAT
*
10882513 TATAAATTATTTTATATTAT
1 TATATA-T-TTTTATATTAT
*
10882533 GT-TACCTATATTT-TATTAT
1 -TATA--TATTTTTATATTAT
10882552 ATATATTATTTTATATATTACT
1 -TATA-TATTTT-TATATTA-T
10882574 TATCATATTGTTTATATTAT
1 TAT-ATATT-TTTATATTAT
10882594 TATATATTT
1 TATATATTT
10882603 CGTTTATAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.01
19 18 0.25
20 26 0.36
21 23 0.32
22 5 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTTATATTAT
Found at i:10882607 original size:21 final size:21
Alignment explanation
Indices: 10882565--10882610 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10882555 TATTATTTTA
10882565 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
10882586 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
10882607 TATA
1 TATA
10882611 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:10895031 original size:220 final size:220
Alignment explanation
Indices: 10894665--10895212 Score: 812
Period size: 220 Copynumber: 2.5 Consensus size: 220
10894655 TGACCTTCGG
* * *
10894665 GTGTTTACGCTGAAGCAGATCTATGATGATTTGGTATCTCTGTATTGTCAGAGAACAAATCGAAA
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
*
10894730 AAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCA
66 AAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCA
* * * *
10894795 GATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAATGAGCAGATCG
131 GATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGAATCCTTACGTTTACAAGGAGCAGATCG
10894860 AAGACATAGCAGATTTGGCTTTCAC
196 AAGACATAGCAGATTTGGCTTTCAC
*
10894885 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
* * * *
10894950 AAACATATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGTAGATTTAACCTTCG
66 AAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCA
** ** *
10895015 GATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGAATTTTTACGTTTACAAGGAGCATATCG
131 GATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGAATCCTTACGTTTACAAGGAGCAGATCG
*
10895080 AAGACGTAGCAGATTTGGCTTTCAC
196 AAGACATAGCAGATTTGGCTTTCAC
* * *
10895105 GTGTTTACACTAAAGC-GAATCTAAGATGATTGGGCATCTCTGTATTGTCAG-GAAACAAATCGA
1 GTGTTTACGCTGAAGCAG-ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG-AACAAATCGA
* * ** * *
10895168 AGAAGCAAATTTGGCGTCTCTGTGTTCGACGGAGAGCAGATCGAA
64 AGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAA
10895213 ATATCAACAT
Statistics
Matches: 297, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
219 2 0.01
220 295 0.99
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (220 bp):
GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
AAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCA
GATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGAATCCTTACGTTTACAAGGAGCAGATCG
AAGACATAGCAGATTTGGCTTTCAC
Found at i:10896685 original size:11 final size:12
Alignment explanation
Indices: 10896669--10896702 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10896659 TTTTTCAGAA
10896669 ATTTTTAATTTC
1 ATTTTTAATTTC
*
10896681 ATTTTTAATTTT
1 ATTTTTAATTTC
*
10896693 ATTTTAAATT
1 ATTTTTAATT
10896703 GGCCCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTAATTTC
Found at i:10896996 original size:12 final size:12
Alignment explanation
Indices: 10896979--10897087 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
10896969 TTTTTCTTTG
10896979 TATATTATTTAT
1 TATATTATTTAT
10896991 TATATTA-TTA-
1 TATATTATTTAT
*
10897001 TAAATTA-TTA-
1 TATATTATTTAT
*
10897011 TATATTATGTTACC
1 TATATTAT-TTA-T
*
10897025 TATATTTTATTAT
1 TATATTAT-TTAT
10897038 ATATATTATTT-T
1 -TATATTATTTAT
*
10897050 ATATATTACTTAT
1 -TATATTATTTAT
* *
10897063 CATATTGTTTA-
1 TATATTATTTAT
*
10897074 TATTATTATATAT
1 TA-TATTATTTAT
10897087 T
1 T
10897088 TCGTTTATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
10 15 0.20
11 4 0.05
12 36 0.47
13 4 0.05
14 17 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:10897054 original size:26 final size:28
Alignment explanation
Indices: 10897004--10897056 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
10896994 ATTATTATAA
10897004 ATTATTATATATTATGTTACCTATATTTT
1 ATTATTATATATTATGTTA-CTATATTTT
*
10897033 ATTA-TATATATTATTTTA-TATATT
1 ATTATTATATATTATGTTACTATATT
10897057 ACTTATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTATTATATATTATGTTACTATATTTT
Found at i:10897067 original size:28 final size:27
Alignment explanation
Indices: 10897009--10897067 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
10896999 TATAAATTAT
*
10897009 TATATATTATGTTACCTATATTTTATTA
1 TATATATTATGTTA-CTATATTTTATCA
*
10897037 TATATATTATTTTA-TATATTACTTATCA
1 TATATATTATGTTACTATATT--TTATCA
10897065 TAT
1 TAT
10897068 TGTTTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
28 21 0.78
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATATTATGTTACTATATTTTATCA
Found at i:10897068 original size:21 final size:18
Alignment explanation
Indices: 10896979--10897088 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 18
10896969 TTTTTCTTTG
10896979 TATATTATTTATTATATTAT
1 TATA-TATTT-TTATATTAT
*
10896999 TATAAATTATTATATATTAT
1 TATATATT-TT-TATATTAT
*
10897019 GT-TACCTATATTT-TATTAT
1 -TATA--TATTTTTATATTAT
10897038 ATATATTATTTTATATATTACT
1 -TATA-TATTTT-TATATTA-T
10897060 TATCATATTGTTTATATTAT
1 TAT-ATATT-TTTATATTAT
10897080 TATATATTT
1 TATATATTT
10897089 CGTTTATAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.01
19 21 0.29
20 23 0.32
21 22 0.30
22 6 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
TATATATTTTTATATTAT
Found at i:10897093 original size:21 final size:21
Alignment explanation
Indices: 10897051--10897096 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10897041 TATTATTTTA
10897051 TATATTACTTATCATATTGTT
1 TATATTACTTATCATATTGTT
10897072 TATATTA-TTAT-ATATTTCGTT
1 TATATTACTTATCATA-TT-GTT
10897093 TATA
1 TATA
10897097 AATTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATTACTTATCATATTGTT
Found at i:10897208 original size:26 final size:27
Alignment explanation
Indices: 10897143--10897214 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
10897133 TCTTATATAC
* *
10897143 TTTTATTTTATTATAAAATATATATTA
1 TTTTATTTTATTATTAAATACATATTA
** * *
10897170 TTTTA-TTGCTTATTAATTACATA-TG
1 TTTTATTTTATTATTAAATACATATTA
10897195 TTTTATTTTATTATTAAATA
1 TTTTATTTTATTATTAAATA
10897215 AATTTGTGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
25 6 0.17
26 24 0.69
27 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTTATTTTATTATTAAATACATATTA
Found at i:10898882 original size:14 final size:14
Alignment explanation
Indices: 10898860--10898898 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10898850 AAAAAGTTAA
*
10898860 TTAAATTATTTTAT
1 TTAATTTATTTTAT
*
10898874 TTAATTTATATTAT
1 TTAATTTATTTTAT
10898888 TTAATTATATT
1 TTAATT-TATT
10898899 GTACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTATTTTAT
Found at i:10904448 original size:14 final size:14
Alignment explanation
Indices: 10904410--10904452 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
10904400 CAAAATGTAC
10904410 AATATAATTAAA-T
1 AATATAATTAAATT
10904423 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
10904438 AA-ATAATTTAATT
1 AATATAATTAAATT
10904451 AA
1 AA
10904453 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:10909157 original size:30 final size:29
Alignment explanation
Indices: 10909110--10909175 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
10909100 ACTTATTTTA
*
10909110 TTGTTAATTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTTTATTATTTTAAAAACAT
10909139 TTGTTAATTTTATTATTATTTTAAAAACAT
1 TTGTTAATTTT-TTATTATTTTAAAAACAT
10909169 TTGTTAA
1 TTGTTAA
10909176 GTTATTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (29 bp):
TTGTTAATTTTTTATTATTTTAAAAACAT
Found at i:10910445 original size:14 final size:16
Alignment explanation
Indices: 10910426--10910462 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
10910416 TTTCTTTTCG
10910426 TGGTTTT-ATGTTAT-
1 TGGTTTTAATGTTATA
*
10910440 TGGTTTTAATGTTTTA
1 TGGTTTTAATGTTATA
10910456 TGGTTTT
1 TGGTTTT
10910463 GCTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 7 0.35
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.65
Consensus pattern (16 bp):
TGGTTTTAATGTTATA
Found at i:10910468 original size:22 final size:22
Alignment explanation
Indices: 10910428--10910469 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10910418 TCTTTTCGTG
*
10910428 GTTTTATGTTATTGGTTTTAAT
1 GTTTTATGTTATTGCTTTTAAT
10910450 GTTTTATGGTT-TTGCTTTTA
1 GTTTTAT-GTTATTGCTTTTA
10910470 TTTGTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.14, C:0.02, G:0.19, T:0.64
Consensus pattern (22 bp):
GTTTTATGTTATTGCTTTTAAT
Found at i:10915064 original size:2 final size:2
Alignment explanation
Indices: 10915057--10915084 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10915047 TTATACATCG
10915057 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10915085 TATATATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10915770 original size:43 final size:42
Alignment explanation
Indices: 10915678--10915793 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
10915668 TATCACATAT
* * *
10915678 CAATGCCACTGTCTTAGACAGGGTCTTACACGAAATCGATTAA
1 CAATGCCAATGTCTCAGACATGGTCTTACACGAAATC-ATTAA
* **
10915721 CGATGCCAATGTCTCAGACATGGTCTTACACGTGATC-TTAATA
1 CAATGCCAATGTCTCAGACATGGTCTTACACGAAATCATT-A-A
*
10915764 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCTCAGACATGGTCTTACA
10915794 TGTAATAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 60 0.95
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
CAATGCCAATGTCTCAGACATGGTCTTACACGAAATCATTAA
Found at i:10922164 original size:46 final size:47
Alignment explanation
Indices: 10922111--10922328 Score: 154
Period size: 47 Copynumber: 4.7 Consensus size: 47
10922101 ATTATTGGCT
*
10922111 AGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGG-CACATTATGAGAGCC
* * *
10922157 AGTGTAAGACCATGTCTGGGACCTAGTATC-G-ACATTGA-GACGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACATT-ATGA-GA--GCC
* * * *
10922205 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACAT--TATGAGAGCC
*
10922251 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGA-GATATGAGCC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACATT-ATG--A-GAGCC
* *
10922298 AGTGTAAGACCGTGTCTAGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACATAGCATCG
10922329 ACACTTTACC
Statistics
Matches: 135, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
44 1 0.01
45 8 0.06
46 28 0.21
47 74 0.55
48 22 0.16
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGGCACATTATGAGAGCC
Found at i:10922265 original size:47 final size:48
Alignment explanation
Indices: 10922148--10922330 Score: 205
Period size: 47 Copynumber: 3.9 Consensus size: 48
10922138 CGGCCACATT
* * *
10922148 ATGAGAGCCAGTGTAAGACCATGTCTGGGACCTAGTATCGAC-ATTGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTA-TGAG
* ** * *
10922196 ACGAGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
* *
10922242 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
* *
10922289 AT-ATGAGCCAGTGTAAGACCGTGTCTAGGACATAGCATCGAC
1 ATGAT-AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGAC
10922331 ACTTTACCCA
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
46 25 0.22
47 67 0.58
48 23 0.20
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAG
Found at i:10922268 original size:94 final size:93
Alignment explanation
Indices: 10922107--10922289 Score: 260
Period size: 94 Copynumber: 2.0 Consensus size: 93
10922097 GGTTATTATT
*
10922107 GGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 GGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGT
* *
10922172 CTGGGACCTAGTATCGACATTGAGACGAG
66 CTGGGACATAGCATCGAC-TTGAGACGAG
* * * * *
10922201 GGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAGTCAGTGTAAGACCATG
1 GGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCA-CATGATGAGAGCCAGTGTAAGACCATG
*
10922265 TCTGGGACATGGCATCGACTTGAGA
65 TCTGGGACATAGCATCGACTTGAGA
10922290 TATGAGCCAG
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 6 0.08
94 72 0.91
95 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
GGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGT
CTGGGACATAGCATCGACTTGAGACGAG
Found at i:10922314 original size:94 final size:94
Alignment explanation
Indices: 10922111--10922328 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 94
10922101 ATTATTGGCT
* *
10922111 AGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
10922176 GACCTAGTATCGACATTGAGACGAGGGCT
66 GACATAGCATCGACATTGAGACGAGAGCC
* * * *
10922205 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAGAGCCAGTGTAAGACCATGTCTG
* *
10922269 GGACATGGCATCGAC-TTGAGA-TATGAGCC
65 GGACATAGCATCGACATTGAGACGA-GAGCC
* *
10922298 AGTGTAAGACCGTGTCTAGGACATAGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
10922329 ACACTTTACC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 1 0.01
93 18 0.17
94 80 0.75
95 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATAGCATCGACATTGAGACGAGAGCC
Found at i:10935033 original size:13 final size:13
Alignment explanation
Indices: 10935015--10935039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10935005 TGCCCTGTTT
10935015 CCACATGGCCGTA
1 CCACATGGCCGTA
10935028 CCACATGGCCGT
1 CCACATGGCCGT
10935040 GTCTCCTCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
CCACATGGCCGTA
Found at i:10940138 original size:30 final size:30
Alignment explanation
Indices: 10940051--10940124 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
10940041 CACGGCCATG
10940051 ACACACGGGCATGTGGTCTACCCGTGTGTC
1 ACACACGGGCATGTGGTCTACCCGTGTGTC
*
10940081 ACACACGGGCAAGTGGTCTACCCGTGTGTC
1 ACACACGGGCATGTGGTCTACCCGTGTGTC
10940111 ACACACGGGCATGT
1 ACACACGGGCATGT
10940125 AGATCACCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (30 bp):
ACACACGGGCATGTGGTCTACCCGTGTGTC
Found at i:10943651 original size:16 final size:15
Alignment explanation
Indices: 10943626--10943655 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10943616 TAATAATAAG
10943626 TAAAAAGTAAGGAAC
1 TAAAAAGTAAGGAAC
10943641 TAAATAAGTAAGGAA
1 TAAA-AAGTAAGGAA
10943656 TTATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (15 bp):
TAAAAAGTAAGGAAC
Found at i:10946270 original size:15 final size:15
Alignment explanation
Indices: 10946250--10946279 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10946240 GTGCTAGGGT
10946250 TGAAGGACGGATGAC
1 TGAAGGACGGATGAC
10946265 TGAAGGACGGATGAC
1 TGAAGGACGGATGAC
10946280 CTGTATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.40, T:0.13
Consensus pattern (15 bp):
TGAAGGACGGATGAC
Found at i:10950435 original size:6 final size:6
Alignment explanation
Indices: 10950399--10950455 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
10950389 ATAAGTCTTC
* **
10950399 AAAAAT AAATAAG AGAAAAT -AAAAT TTAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
10950448 -AAAAT AAA
1 AAAAAT AAA
10950456 GGGACTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.24
6 25 0.60
7 5 0.12
8 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:10966075 original size:46 final size:45
Alignment explanation
Indices: 10966022--10966189 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 45
10966012 ATTGTTGGCT
*
10966022 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * *
10966068 AGTGTAAGACTATGTCTGGGACCTAGCATCGG--CATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT---ATGAGAGCC
**
10966116 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATGAGAGCC
10966162 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
10966190 AACTACGAGA
Statistics
Matches: 103, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
45 4 0.04
46 48 0.47
47 25 0.24
48 24 0.23
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:10966247 original size:47 final size:46
Alignment explanation
Indices: 10966019--10966285 Score: 213
Period size: 47 Copynumber: 5.7 Consensus size: 46
10966009 GTTATTGTTG
* * * *
10966019 GCTAGTGTAAGACATGTCTGGGACATGCATTGGC-C-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGAT-A-A
* * * * * *
10966065 GCCAGTGTAAGACTATGTCTGGGACCTAGCATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGAC-TCGAGATGATAA
* *
10966113 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-CATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATGATAA
* *
10966159 GCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGATAA
* * * *
10966205 GTTAATGTAAGATCATGTCTGGGACATGGCATCGACTTGAGAT-ATGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATGATAA
* *
10966252 GCTAGTGTAAGACCGTGTTTGGGACATGACATCG
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCG
10966286 GCACCTTACC
Statistics
Matches: 180, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 71 0.39
47 75 0.42
48 28 0.16
51 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGATAA
Found at i:10972390 original size:9 final size:8
Alignment explanation
Indices: 10972364--10972389 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10972354 GCAAACGTTA
10972364 TTCTTTTT
1 TTCTTTTT
10972372 TTCTTTTT
1 TTCTTTTT
10972380 TTCTTTTT
1 TTCTTTTT
10972388 TT
1 TT
10972390 TAGCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:10972929 original size:15 final size:16
Alignment explanation
Indices: 10972899--10972931 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10972889 ATGTGTATCT
10972899 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
10972915 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
10972930 TT
1 TT
10972932 ATAGTCCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:10987610 original size:26 final size:26
Alignment explanation
Indices: 10987565--10987638 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
10987555 TTTTCTCACC
*
10987565 CAATTTTA-CCTTAATCAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
*
10987590 CAATTTTACCCTTAGTAAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
** **
10987616 TGATTTTACCCCCAATAAAATTT
1 CAATTTTACCCTTAATAAAATTT
10987639 CGAGAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (26 bp):
CAATTTTACCCTTAATAAAATTTTGA
Found at i:10989198 original size:26 final size:26
Alignment explanation
Indices: 10989162--10989213 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10989152 GTGTGGAGTA
10989162 TTCTGTAACAGAGTATTCGGTGAAGC
1 TTCTGTAACAGAGTATTCGGTGAAGC
10989188 TTCTGTAACAGAGTATTCGGTGAAGC
1 TTCTGTAACAGAGTATTCGGTGAAGC
10989214 CCGTGTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
TTCTGTAACAGAGTATTCGGTGAAGC
Found at i:10989274 original size:38 final size:38
Alignment explanation
Indices: 10989201--10989274 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
10989191 TGTAACAGAG
* * **
10989201 TATTCGGTGAAGCCCGTGTGGAGTATTTTGTAATGACA
1 TATTCGGTGAAGCCCATGTGGAGTATTCTAAAATGACA
* *
10989239 TATTCGGTGAAGCTCATGTGGCGTATTCTAAAATGA
1 TATTCGGTGAAGCCCATGTGGAGTATTCTAAAATGA
10989275 TATTGTAACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (38 bp):
TATTCGGTGAAGCCCATGTGGAGTATTCTAAAATGACA
Found at i:10990144 original size:180 final size:180
Alignment explanation
Indices: 10989832--10990197 Score: 565
Period size: 180 Copynumber: 2.0 Consensus size: 180
10989822 TAGCTGGAGC
*
10989832 TACGGAACTCCAAATTAAGATCTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
* *
10989897 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTC
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGTTACCCATATTTC
* * *
10989962 ACTAT-TCAATAATTCCGACCTCTCTTCAGTAAAAATTATTTATCTCATGG
131 ACTGTCT-AACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
* * *
10990012 TACGGGACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCAT
1 TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
* *
10990077 AAAATTTTTAGAATTTTTGGTTTATCCAATTAGTACAATTTATTCATTAAA-TATACCCATGTTT
66 AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGT-TACCCATATTT
* * * *
10990141 CACTGTCTGACAGTTCCGATCTTTCTTCACTAAAAATTATTTATCTCATGG
130 CACTGTCTAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
10990192 TACGGA
1 TACGGA
10990198 TCTCAGATGC
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
179 1 0.01
180 166 0.99
181 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.38
Consensus pattern (180 bp):
TACGGAACTCCAAATTAAGAACTGTTAATTTTCCCAAAAACCAAACTCACATATATTCTTACCAT
AAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAGTTACCCATATTTC
ACTGTCTAACAATTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGG
Found at i:10990841 original size:50 final size:50
Alignment explanation
Indices: 10990787--10991220 Score: 390
Period size: 50 Copynumber: 8.6 Consensus size: 50
10990777 CTGGTATCCA
* * *
10990787 TAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * *
10990837 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * ** * *
10990887 TAGTAGTCTGCATTTAGTACTACACACGTGATCAAAGTTAA-C-GAGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTG-GTACACG
* * ** * *
10990938 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTATATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * *
10990988 TAGTAGCCTGCACTTAGTACTACACATGTAACCTAACCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * *
10991038 TAGTAGCCCGCACTTAGTACTACACATGTGATCTAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAATCTGGTACACG
* * ** *
10991089 TAATAGCCTGCACTTAGCACTACACATGCAACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * *
10991139 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AAACTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTG--GT--ACACG
*
10991191 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
10991221 TTCTCACAAC
Statistics
Matches: 309, Mismatches: 65, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
48 5 0.02
49 3 0.01
50 193 0.62
51 74 0.24
52 34 0.11
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:10991055 original size:151 final size:151
Alignment explanation
Indices: 10990785--10991216 Score: 578
Period size: 151 Copynumber: 2.8 Consensus size: 151
10990775 CTCTGGTATC
*
10990785 CATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
* * * * *
10990850 TTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGTCTGCATTTAGTACTACACACG
66 TTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
*
10990915 TGATC-AAAGTTAACGAGTACG
131 TGATCTAAA-CTAACGAGTACG
* * ** *
10990936 CGTAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTATATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
* * * *
10991001 TTAGTACTACACATGTAACCTAACCATCTGATACACATAGTAGCCCGCACTTAGTACTACACATG
66 TTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
* *
10991066 TGATCTAAACTATCGGGTACG
131 TGATCTAAACTAACGAGTACG
* * * * *
10991087 CATAATAGCCTGCACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
** * * *
10991152 TTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
66 TTAGTACTACACACGTGACCT--AACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
10991217 TGTGTTCTCA
Statistics
Matches: 242, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
151 203 0.84
152 3 0.01
153 36 0.15
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (151 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
TTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
TGATCTAAACTAACGAGTACG
Found at i:10991099 original size:101 final size:102
Alignment explanation
Indices: 10990991--10991219 Score: 307
Period size: 101 Copynumber: 2.3 Consensus size: 102
10990981 GTATATGTAG
*
10990991 TAGCCTGCACTTAGTACTACACATGTAACCTAACCATCTGATACACATAGTAGCCCGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACATAGTAGCCCGCACTTAGT
* * ** *
10991056 ACTACACATGTGATCT-AAACTATCGGGTACGCATAA
66 ACTACACACGTGACCTAAAACTATCGGAAACACATAA
* * * * *
10991092 TAGCCTGCACTTAGCACTACACATGCAACCTAACAATCTGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACATAGTAGCCCGCACTTAGT
* ** *
10991157 ACTACACACGTGACCTAAAACTGTCTTAAACACATAG
66 ACTACACACGTGACCTAAAACTATCGGAAACACATAA
*
10991194 TAGCCTGCACATAGTACTACACATGT
1 TAGCCTGCACTTAGTACTACACATGT
10991220 GTTCTCACAA
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
101 73 0.67
102 36 0.33
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (102 bp):
TAGCCTGCACTTAGTACTACACATGTAACCTAACAATCTGATACACATAGTAGCCCGCACTTAGT
ACTACACACGTGACCTAAAACTATCGGAAACACATAA
Found at i:10992502 original size:38 final size:37
Alignment explanation
Indices: 10992450--10992550 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 37
10992440 TATTACAGAT
* *
10992450 ATATTTAGTGAAGCCAGTGTGGCGTATCCTATAATGCC
1 ATATTTGGTGAAGCCA-TGTGGCATATCCTATAATGCC
* * * * *
10992488 GTATTTGGTGAAGCCCATATGGTATATTCTATAATGGC
1 ATATTTGGTGAAG-CCATGTGGCATATCCTATAATGCC
*
10992526 ATATTCGGTGAAGCCAATGTGGCAT
1 ATATTTGGTGAAGCC-ATGTGGCAT
10992551 GCTATGTAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 2 0.04
38 45 0.90
39 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (37 bp):
ATATTTGGTGAAGCCATGTGGCATATCCTATAATGCC
Found at i:10993305 original size:50 final size:51
Alignment explanation
Indices: 10993232--10993334 Score: 199
Period size: 50 Copynumber: 2.0 Consensus size: 51
10993222 AGATTTGCCG
10993232 AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGTA
1 AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGTA
10993283 AAAG-AAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGTA
1 AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGTA
10993333 AA
1 AA
10993335 GGATATAAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (51 bp):
AAAGTAAATTTCATATGGGTAGTCTTCTGAGAAATGTATCTGTTTTTGGTA
Found at i:10994130 original size:30 final size:32
Alignment explanation
Indices: 10994075--10994137 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
10994065 ATTGCAGCAG
* * *
10994075 TTCCTACTTTTCCCTTTTATTTTCTCTGGTTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
10994107 TTCCTAC-TTT-CCTTTCATCTTCTCTGATTC
1 TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
10994137 T
1 T
10994138 AAAATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 18 0.64
31 3 0.11
32 7 0.25
ACGTcount: A:0.08, C:0.30, G:0.05, T:0.57
Consensus pattern (32 bp):
TTCCTACTTTTCCCTTTCATCTTCTCTGATTC
Found at i:10994652 original size:11 final size:12
Alignment explanation
Indices: 10994635--10994666 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10994625 AATAAGCGAA
10994635 AAAAAGAAAGAG
1 AAAAAGAAAGAG
10994647 -AAAAGAAA-AG
1 AAAAAGAAAGAG
10994657 AAAAAGAAAG
1 AAAAAGAAAG
10994667 CATAATGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.11
11 16 0.89
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:11007731 original size:28 final size:27
Alignment explanation
Indices: 11007692--11007749 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
11007682 TCAGCTTGAA
*
11007692 TAATTATTACATGAT-TTTAATGTGTTT
1 TAATTATTACAT-ATCTTTAATATGTTT
11007719 TAATCTATTACATATCTTTAATATGTTT
1 TAAT-TATTACATATCTTTAATATGTTT
11007747 TAA
1 TAA
11007750 CCGAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTATTACATATCTTTAATATGTTT
Found at i:11007927 original size:46 final size:46
Alignment explanation
Indices: 11007875--11008028 Score: 173
Period size: 46 Copynumber: 3.3 Consensus size: 46
11007865 GCATGGGATA
*
11007875 GCATTAAAGGAGCTGCTGAAGCATTAAGGCAAAGCATGCATGGACG
1 GCATTAAAGGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
* * * *
11007921 GCATTAAATGATCTGCTGAAGCATTAAAGCAAAACATGCATGGATG
1 GCATTAAAGGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
* * * * * * *
11007967 ACATTAAATGAGTTGCTGAAGCGTTAAAGAAAAGCATGCTTGGATCA
1 GCATTAAAGGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGA-CG
* *
11008014 GCAATAAAGTAGCTG
1 GCATTAAAGGAGCTG
11008029 ATGATTACTC
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
46 78 0.89
47 10 0.11
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
GCATTAAAGGAGCTGCTGAAGCATTAAAGCAAAGCATGCATGGACG
Found at i:11012135 original size:19 final size:20
Alignment explanation
Indices: 11012106--11012148 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
11012096 ATTGCTGCAA
*
11012106 CAAACAACACCTTCAAGTAG
1 CAAACAACACCTTCAAGCAG
11012126 CAAA-AACACCTTCAAGCAG
1 CAAACAACACCTTCAAGCAG
11012145 CAAA
1 CAAA
11012149 GAGAGTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.49, C:0.30, G:0.09, T:0.12
Consensus pattern (20 bp):
CAAACAACACCTTCAAGCAG
Found at i:11022075 original size:5 final size:6
Alignment explanation
Indices: 11022048--11022073 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11022038 CTGTTAAGTC
11022048 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
11022074 CTACTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:11031843 original size:25 final size:25
Alignment explanation
Indices: 11031796--11031843 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11031786 GTCTAAAAGT
*
11031796 TGTTATATAATATAAATATGTGTAC
1 TGTTATATAATATAAATAGGTGTAC
*
11031821 TGTTATATACAT-TATATAGGTGT
1 TGTTATATA-ATATAAATAGGTGT
11031844 TTATGGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (25 bp):
TGTTATATAATATAAATAGGTGTAC
Found at i:11032433 original size:15 final size:15
Alignment explanation
Indices: 11032413--11032446 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11032403 TCACTGAATT
11032413 GAACTGA-TGATATGC
1 GAACTGATTGA-ATGC
11032428 GAACTGATTGAATGC
1 GAACTGATTGAATGC
11032443 GAAC
1 GAAC
11032447 CACCTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (15 bp):
GAACTGATTGAATGC
Found at i:11034897 original size:31 final size:31
Alignment explanation
Indices: 11034862--11034937 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
11034852 TCACATAATT
** *
11034862 AAAAAATTATAATTT-CTTTATTGAATTATTC
1 AAAAAATT-TAATTTAAATTATTGAACTATTC
*
11034893 AAAAAATTTTATTTAAATTATTGAACTATTC
1 AAAAAATTTAATTTAAATTATTGAACTATTC
* *
11034924 AAAAATTTTTATTT
1 AAAAAATTTAATTT
11034938 GTCATTGCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (31 bp):
AAAAAATTTAATTTAAATTATTGAACTATTC
Found at i:11038229 original size:17 final size:16
Alignment explanation
Indices: 11038209--11038251 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11038199 TATAATTTAA
11038209 TAATTTAATAAATTTTT
1 TAATTTAATAAA-TTTT
*
11038226 TAATATAA-AAATTTT
1 TAATTTAATAAATTTT
*
11038241 TATTTTAATAA
1 TAATTTAATAA
11038252 TTTCTTACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTTAATAAATTTT
Found at i:11038401 original size:22 final size:23
Alignment explanation
Indices: 11038349--11038395 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11038339 TTCTTTTAAA
11038349 AAATATTTTATAGTATAAAATAT
1 AAATATTTTATAGTATAAAATAT
*
11038372 AAATATTTTA-ATTATATAAATAT
1 AAATATTTTATAGTATA-AAATAT
11038395 A
1 A
11038396 TTATTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATATTTTATAGTATAAAATAT
Found at i:11040149 original size:3 final size:3
Alignment explanation
Indices: 11040141--11040169 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11040131 CAATATTTTT
11040141 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
11040170 TTTGTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:11042766 original size:26 final size:26
Alignment explanation
Indices: 11042729--11042804 Score: 64
Period size: 32 Copynumber: 2.7 Consensus size: 26
11042719 ATATTAAAAG
*
11042729 TATTACTA-TAAATATAATAAATGTTT
1 TATTA-TATTAAATATAATAAATATTT
11042755 TATTATATTAAAAATAAAAATAATAAATATTT
1 TATTATATT--AAAT----ATAATAAATATTT
*
11042787 TATTGTATTAAATATAAT
1 TATTATATTAAATATAAT
11042805 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
25 2 0.05
26 11 0.27
28 4 0.10
30 4 0.10
32 20 0.49
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (26 bp):
TATTATATTAAATATAATAAATATTT
Found at i:11042772 original size:32 final size:32
Alignment explanation
Indices: 11042736--11042803 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
11042726 AAGTATTACT
* *
11042736 ATAAATATAATAAATGTTTTATTATATTAAAA
1 ATAAAAATAATAAATATTTTATTATATTAAAA
* *
11042768 ATAAAAATAATAAATATTTTATTGTATTAAAT
1 ATAAAAATAATAAATATTTTATTATATTAAAA
11042800 ATAA
1 ATAA
11042804 TTTTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
ATAAAAATAATAAATATTTTATTATATTAAAA
Found at i:11045665 original size:17 final size:17
Alignment explanation
Indices: 11045612--11045746 Score: 162
Period size: 17 Copynumber: 7.6 Consensus size: 17
11045602 AATCATATCT
*
11045612 TCTAAGATTGTATATCATG
1 TCTAAGATTG--TATCATA
* *
11045631 TCTAATATTGCAATCATA
1 TCTAAGATTG-TATCATA
11045649 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
11045666 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
11045684 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
11045701 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
11045718 TCTAAGATTCCATATCACA
1 TCTAAGATT--GTATCATA
11045737 TCTAAGATTG
1 TCTAAGATTG
11045747 CATATCATTG
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
17 48 0.47
18 30 0.29
19 24 0.24
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:11045670 original size:35 final size:35
Alignment explanation
Indices: 11045612--11045754 Score: 189
Period size: 35 Copynumber: 4.0 Consensus size: 35
11045602 AATCATATCT
* *
11045612 TCTAAGATTGTATATCATGTCTAATATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
11045649 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
11045684 TCTAAGATTGTATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
11045718 TCTAAGATTCCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATT--GTATCATATCTAAGATTGCA-ATCAT
11045755 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
34 15 0.16
35 50 0.52
36 16 0.17
37 10 0.10
38 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:11045704 original size:52 final size:54
Alignment explanation
Indices: 11045612--11045754 Score: 209
Period size: 52 Copynumber: 2.7 Consensus size: 54
11045602 AATCATATCT
* * *
11045612 TCTAAGATTGTATATCATGTCTAATATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
11045666 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
* *
11045718 TCTAAGATTCCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
11045755 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
52 34 0.43
53 29 0.37
54 11 0.14
55 5 0.06
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:11045761 original size:36 final size:36
Alignment explanation
Indices: 11045605--11045766 Score: 178
Period size: 35 Copynumber: 4.6 Consensus size: 36
11045595 ATTACAAAAT
* *
11045605 CATATC-T-TCTAAGATTGTATATCATGTCTAATATTG
1 CATATCATATCTAAGA-T-TATATCATATCTAAGATTG
*
11045641 CA-ATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTATATCATATCTAAGATTG
*
11045676 CA-ATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTATATCATATCTAAGATTG
*
11045711 --TATCATATCTAAGATTCCATATCACATCTAAGATTG
1 CATATCATATCTAAGATT--ATATCATATCTAAGATTG
*
11045747 CATATCAT-T-GAAGATTATAT
1 CATATCATATCTAAGATTATAT
11045767 TTCCATATGA
Statistics
Matches: 113, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
34 19 0.17
35 54 0.48
36 26 0.23
37 8 0.07
38 6 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (36 bp):
CATATCATATCTAAGATTATATCATATCTAAGATTG
Found at i:11046614 original size:207 final size:207
Alignment explanation
Indices: 11046146--11047273 Score: 1990
Period size: 207 Copynumber: 5.5 Consensus size: 207
11046136 AAATCTGCTT
*
11046146 CTTCAATTTGTTC-CTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAACA
1 CTTCAATTTGTTCTC-TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
* * *
11046210 CGCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * ** * *
11046275 TGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
11046339 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
11046352 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
11046417 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
11046482 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
11046547 GGAGACGCCAAA
196 GGAGACGCCAAA
*
11046559 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTCGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
11046624 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
11046689 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
11046754 GGAGATGCCAAA
196 GGAGACGCCAAA
*
11046766 CTTCAATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
11046831 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
11046896 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCTTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
11046961 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
11046973 CTTCGATTTGTTCTCTGAAAATAAAGAGATGCCATATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
11047038 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
11047103 AGATCTTGCTTCAATATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCTGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
11047168 GGAGACGGCAAA
196 GGAGACGCCAAA
*
11047180 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
11047245 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
11047274 CTGCTCTCCG
Statistics
Matches: 886, Mismatches: 34, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
206 128 0.14
207 758 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:11047557 original size:87 final size:84
Alignment explanation
Indices: 11047405--11047606 Score: 291
Period size: 87 Copynumber: 2.4 Consensus size: 84
11047395 TACTTTAACT
*
11047405 TGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCCACTACTGCTTAGGGAGAT
11047470 AAGATCTGCAATTTT-GACC
66 AAGATCTGCAATTTTAG-CC
* * * *
11047489 TGTTACCCTACTGCTTAGGGGATTAAGGTG-AGTCGTCGTTGATCTATTCCACTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TC-T--TCGATCTACTCCACTACTGCTTAGGG
*
11047553 AGATAAGATCTGTAATTTTAGCC
62 AGATAAGATCTGCAATTTTAGCC
11047576 TGTTACCCTACTGCTTAGGGGGTTAAGGCGC
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCGC
11047607 TGAATTTTGT
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
83 1 0.01
84 30 0.29
85 1 0.01
87 71 0.68
88 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (84 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCCACTACTGCTTAGGGAGAT
AAGATCTGCAATTTTAGCC
Found at i:11047595 original size:43 final size:43
Alignment explanation
Indices: 11047453--11047595 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
11047443 ATCTGCTCCA
*
11047453 CTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* ** ** * * *
11047496 CTACTGCTTAGGG-GATTAAGGTGAGTCGTCGTTGATCTATT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGTAAT-TTTGACCTGTTACC
11047539 ACTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTGTTACC
11047583 CTACTGCTTAGGG
1 CTACTGCTTAGGG
11047596 GGTTAAGGCG
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.04
43 41 0.53
44 31 0.40
45 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
Found at i:11055208 original size:16 final size:16
Alignment explanation
Indices: 11055189--11055219 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11055179 ATACATACCT
11055189 TATTTCATAATACTCG
1 TATTTCATAATACTCG
11055205 TATTTCATAATACTC
1 TATTTCATAATACTC
11055220 ATATAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTTCATAATACTCG
Found at i:11062249 original size:19 final size:19
Alignment explanation
Indices: 11062225--11062264 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11062215 TCAGAGAACG
11062225 TCTTACATATTTGAGTACA
1 TCTTACATATTTGAGTACA
11062244 TCTTACATATTTGAGTACA
1 TCTTACATATTTGAGTACA
11062263 TC
1 TC
11062265 ATAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TCTTACATATTTGAGTACA
Found at i:11062393 original size:42 final size:42
Alignment explanation
Indices: 11062313--11062393 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
11062303 TGCTAAACAG
* * * *
11062313 AAACCCGTAAAGGTTAAACGGAAGCTCAGAGGAGCTGAACGA
1 AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
* * *
11062355 AAACCCATAACGGTTAAACTAAAGCTCAAAAGATCTGAA
1 AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAA
11062394 AAGCTCGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (42 bp):
AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
Found at i:11064350 original size:42 final size:42
Alignment explanation
Indices: 11064291--11064371 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
11064281 TGCTAAACAG
* * * * *
11064291 AAACCCGTAAGGGTTAAACGGAAGCTCAGAGGAGCTGAACGA
1 AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
*
11064333 AAACCCATAACGGTTAAACTAAAGCTCAAAAGAGCTGAA
1 AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAA
11064372 TTGAAACCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (42 bp):
AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
Found at i:11064379 original size:42 final size:41
Alignment explanation
Indices: 11064290--11064381 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
11064280 GTGCTAAACA
* * * * *
11064290 GAAACCCGTAAGGGTTAAACGGAAGCTCAGAGGAGCTGAAC
1 GAAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAAC
* *
11064331 GAAAACCCATAACGGTTAAACTAAAGCTCAAAAGAGCTGAATT
1 G-AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAA-C
11064374 GAAACCCA
1 GAAACCCA
11064382 GAAAGGTTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 40 0.95
43 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (41 bp):
GAAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAAC
Found at i:11068094 original size:27 final size:27
Alignment explanation
Indices: 11068054--11068105 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
11068044 ACAATTCATT
11068054 TTAATTATATTAAAA-AATAATTTAAC
1 TTAATTATATTAAAATAATAATTTAAC
11068080 TTAATTTATATTAAAATAATAATTTA
1 TTAA-TTATATTAAAATAATAATTTA
11068106 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 4 0.17
27 11 0.46
28 9 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATTATATTAAAATAATAATTTAAC
Found at i:11071544 original size:18 final size:18
Alignment explanation
Indices: 11071513--11071555 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11071503 TTACATACAA
* *
11071513 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
11071531 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
11071549 TTT-TATA
1 TTTATATA
11071556 AACATGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:11071591 original size:19 final size:19
Alignment explanation
Indices: 11071567--11071655 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
11071557 ACATGTAAAA
11071567 ATTATTATATATTATTTTT
1 ATTATTATATATTATTTTT
*
11071586 ATTATT-TATCAAGTTATTTGT
1 ATTATTATAT--A-TTATTTTT
*
11071607 ATT-TTAT-TA-TA-TATT
1 ATTATTATATATTATTTTT
*
11071622 -TTATTACATATTATATTTT
1 ATTATTATATATTAT-TTTT
11071641 ATTA-TATATATTATT
1 ATTATTATATATTATT
11071656 CCCTATATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
14 2 0.04
15 5 0.09
16 4 0.07
17 2 0.04
18 5 0.09
19 18 0.33
20 7 0.13
21 11 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTATATATTATTTTT
Done.