Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 281 of 313
Found at i:85862989 original size:26 final size:26
Alignment explanation
Indices: 85862960--85863019 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
85862950 TATATTGATC
*
85862960 TAAAAAATAAAGTAATAATATTTT-AT-
1 TAAAAAATAAA--AAAAATATTTTAATA
*
85862986 TAAAAAACAAAAAAAATATTTTAATA
1 TAAAAAATAAAAAAAATATTTTAATA
85863012 TAAAAAAT
1 TAAAAAAT
85863020 GGAGTCGCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.34
25 2 0.07
26 17 0.59
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAAAAATAAAAAAAATATTTTAATA
Found at i:85866314 original size:13 final size:14
Alignment explanation
Indices: 85866296--85866325 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85866286 AAGTGAATGC
85866296 TTTACT-TTTTTTT
1 TTTACTCTTTTTTT
85866309 TTTACTCTTTTTTT
1 TTTACTCTTTTTTT
85866323 TTT
1 TTT
85866326 TTGGTTAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTACTCTTTTTTT
Found at i:85880638 original size:62 final size:62
Alignment explanation
Indices: 85880551--85880669 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 62
85880541 AACCAGTACT
*
85880551 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTGGTTATTCCGTCAACCACGCGA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCACGCGA
*
85880613 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCTTCAACCA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCA
85880670 GGCCAATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (62 bp):
ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCACGCGA
Found at i:85885911 original size:78 final size:77
Alignment explanation
Indices: 85885804--85885957 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 77
85885794 CAATGCTGAT
* *
85885804 TACATGTGCATGGCCACATATTGAATGGTTTATCTGATGGTTTGTTTGACACTTACCAAAACGAG
1 TACATGTGCATGGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGAG
85885869 GTCACCGCTAAC
66 GTCACCGCTAAC
*
85885881 TACATGTGCATGGGCCACATATTGTATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGA
1 TACATGTGCAT-GGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGA
85885946 GGTCACCGCTAA
65 GGTCACCGCTAA
85885958 AGAATTATGG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 11 0.15
78 62 0.85
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (77 bp):
TACATGTGCATGGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGAG
GTCACCGCTAAC
Found at i:85888627 original size:125 final size:125
Alignment explanation
Indices: 85888400--85888631 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 125
85888390 AAAACCTCTC
*
85888400 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATTATGCCCTAACGTGCTGGGTTTCGAT
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAACGTGCTGGGTTTCGAT
* * *
85888465 TTTCCGTTTGACCGAATAACTAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
66 TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
* * * * *
85888525 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCC-AATCGTGCTGGGTTTCGA
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAA-CGTGCTGGGTTTCGA
* *
85888589 TTTACCGTTCGACC-AGATAGCCAAATATCCTTTTGAAATTTCA
65 TTTACCGTTCGACCGA-ATAACCAAATATCCTTTCGAAATTTCA
85888632 AATGCATGAG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.03
125 91 0.97
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (125 bp):
AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAACGTGCTGGGTTTCGAT
TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
Found at i:85895089 original size:27 final size:28
Alignment explanation
Indices: 85895012--85895117 Score: 80
Period size: 28 Copynumber: 3.8 Consensus size: 28
85895002 AAATGATAAA
*
85895012 AAAAATTAATATTAAATAT-TAAAA-ATAT
1 AAAAATTAATA--AAATATATAAAACTTAT
* *
85895040 AAAAAGT-A-AAAATTTATATAAACTTAT
1 AAAAATTAATAAAATATATA-AAACTTAT
85895067 AAAAATTAATAAAATAT-TAAAACTT-T
1 AAAAATTAATAAAATATATAAAACTTAT
* *
85895093 CAATAAATTTATAAAAAATATAAAA
1 -AA-AAATTAATAAAATATATAAAA
85895118 AAATTCATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.08
25 2 0.03
26 5 0.08
27 18 0.29
28 22 0.35
29 11 0.17
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAATTAATAAAATATATAAAACTTAT
Found at i:85895129 original size:10 final size:9
Alignment explanation
Indices: 85895031--85895179 Score: 65
Period size: 9 Copynumber: 15.9 Consensus size: 9
85895021 TATTAAATAT
85895031 TAAAAA-TA
1 TAAAAATTA
*
85895039 TAAAAAGTA
1 TAAAAATTA
*
85895048 -AAAATTTA
1 TAAAAATTA
*
85895056 TATAAACTTA
1 TA-AAAATTA
85895066 TAAAAATTA
1 TAAAAATTA
85895075 -ATAAAA-TA
1 TA-AAAATTA
*
85895083 TTAAAACTT-
1 -TAAAAATTA
85895092 TCAATAAATTTA
1 T-AA-AAA-TTA
85895104 TAAAAAATATA
1 T-AAAAAT-TA
*
85895115 AAAAAATTCA
1 TAAAAATT-A
85895125 TAAAAACTTA
1 TAAAAA-TTA
*
85895135 TAAATATTA
1 TAAAAATTA
**
85895144 TAAAGCTTA
1 TAAAAATTA
*
85895153 TGAATAATTA
1 T-AAAAATTA
**
85895163 TAAAGCTTA
1 TAAAAATTA
85895172 TAAAAATT
1 TAAAAATT
85895180 TTAATAAGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
8 16 0.15
9 41 0.39
10 37 0.35
11 9 0.08
12 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:85895146 original size:19 final size:18
Alignment explanation
Indices: 85895127--85895175 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
85895117 AAAATTCATA
85895127 AAAACTTATAAATATTAT
1 AAAACTTATAAATATTAT
* *
85895145 AAAGCTTATGAATAATTAT
1 AAAACTTATAAAT-ATTAT
*
85895164 AAAGCTTATAAA
1 AAAACTTATAAA
85895176 AATTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAACTTATAAATATTAT
Found at i:85898683 original size:20 final size:20
Alignment explanation
Indices: 85898654--85898691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85898644 AAATATAAAT
85898654 ATTTTAAAAAATATTTATTA
1 ATTTTAAAAAATATTTATTA
* *
85898674 ATTTTTAAAATTATTTAT
1 ATTTTAAAAAATATTTAT
85898692 AAAATAAAAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAAAAATATTTATTA
Found at i:85898998 original size:15 final size:15
Alignment explanation
Indices: 85898960--85899008 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
85898950 AAATTGGAAA
*
85898960 AAAAAATT-AAGTAT
1 AAAAAATTAAAATAT
*
85898974 AGAAAA-TAAAATAT
1 AAAAAATTAAAATAT
*
85898988 AAAAAATTAAAATTT
1 AAAAAATTAAAATAT
85899003 AAAAAA
1 AAAAAA
85899009 GCACACGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 15 0.52
15 13 0.45
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAAAATTAAAATAT
Found at i:85904486 original size:19 final size:19
Alignment explanation
Indices: 85904462--85904498 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
85904452 TATATAAGAT
85904462 TTTAATCTT-TGTAAAAATG
1 TTTAAT-TTGTGTAAAAATG
85904481 TTTAATTTGTGTAAAAAT
1 TTTAATTTGTGTAAAAAT
85904499 TAGGTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTAATTTGTGTAAAAATG
Found at i:85905086 original size:20 final size:20
Alignment explanation
Indices: 85905057--85905099 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
85905047 AGTAAAAGTC
*
85905057 TAATGTGATATCAAAATTTT
1 TAATGAGATATCAAAATTTT
*
85905077 TAATGAGATATCAATATTTT
1 TAATGAGATATCAAAATTTT
85905097 TAA
1 TAA
85905100 GGTGAAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (20 bp):
TAATGAGATATCAAAATTTT
Found at i:85905157 original size:20 final size:19
Alignment explanation
Indices: 85905110--85905157 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
85905100 GGTGAAACCG
* *
85905110 AAATTTCTAACCGTTACCA
1 AAATTTTTAACCGGTACCA
*
85905129 ACA-TTTTAACACGGTACCA
1 AAATTTTTAAC-CGGTACCA
85905148 AAATTTTTAA
1 AAATTTTTAA
85905158 AATGTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATTTTTAACCGGTACCA
Found at i:85905603 original size:12 final size:12
Alignment explanation
Indices: 85905586--85905611 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85905576 ACTTATTTTT
85905586 TTCCTAAAACAA
1 TTCCTAAAACAA
85905598 TTCCTAAAACAA
1 TTCCTAAAACAA
85905610 TT
1 TT
85905612 ATTTATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (12 bp):
TTCCTAAAACAA
Found at i:85908192 original size:20 final size:20
Alignment explanation
Indices: 85908166--85908211 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
85908156 CAATTATTCG
85908166 ATAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
*
85908186 CTAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
85908206 ATAACA
1 ATAACA
85908212 ATCATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (20 bp):
ATAACAGTCAGTATTTTTCA
Found at i:85908271 original size:22 final size:22
Alignment explanation
Indices: 85908227--85908271 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
85908217 TTAATCATTA
* **
85908227 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
85908249 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
85908271 T
1 T
85908272 CGGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:85908425 original size:6 final size:6
Alignment explanation
Indices: 85908406--85908440 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
85908396 ATACACCGTG
* *
85908406 ACAGTA ACAATA ACAGTA ACAGTA GCAGTA ACAGT
1 ACAGTA ACAGTA ACAGTA ACAGTA ACAGTA ACAGT
85908441 CAGATACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ACAGTA
Found at i:85916925 original size:12 final size:13
Alignment explanation
Indices: 85916902--85916930 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
85916892 CAAATGAATC
85916902 ATTTCTCATTTTT
1 ATTTCTCATTTTT
85916915 ATTTC-CATTTTT
1 ATTTCTCATTTTT
85916927 ATTT
1 ATTT
85916931 TTGAGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTCTCATTTTT
Found at i:85921658 original size:20 final size:19
Alignment explanation
Indices: 85921635--85921687 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
85921625 AAAAAAAGTC
85921635 AAATTCAAATTAAAATACTG
1 AAATTCAAA-TAAAATACTG
* * *
85921655 AAATTTAGGATAAAATGCTG
1 AAATTCA-AATAAAATACTG
85921675 AAATTCAAGATAA
1 AAATTCAA-ATAA
85921688 GAGTACTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (19 bp):
AAATTCAAATAAAATACTG
Found at i:85929890 original size:25 final size:25
Alignment explanation
Indices: 85929828--85929893 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
85929818 ACTTTAGCGC
*
85929828 GCTCTCTGATAATTAGCACATTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
85929853 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
85929878 GCTCTCTGTTTATTAG
1 GCTCTCTGATTATTAG
85929894 TGCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTAGT
Found at i:85933042 original size:15 final size:14
Alignment explanation
Indices: 85932991--85933043 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
85932981 TTTGGTTAAG
*
85932991 ATTAAAAATTTAAAA
1 ATTAAAAATAT-AAA
85933006 ATTTAAAAATATAAA
1 A-TTAAAAATATAAA
*
85933021 GACTAAAAATGATAAA
1 -ATTAAAAAT-ATAAA
85933037 ATTAAAA
1 ATTAAAA
85933044 TACATGTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (14 bp):
ATTAAAAATATAAA
Found at i:85935157 original size:3 final size:3
Alignment explanation
Indices: 85935149--85935252 Score: 94
Period size: 3 Copynumber: 35.3 Consensus size: 3
85935139 TCCATTTCGG
*
85935149 GAA GAA GAA -AA GAA -AA G-A GAA GAA GAA -AA GGAA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA
* *
85935191 GAA GGAA GAA GGA GAA GAA GGAA GGA GAA GAA GAA -AA GAAA GAA G-A
1 GAA -GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA G-AA GAA GAA
*
85935237 GAA GAA GAA GGA GAA G
1 GAA GAA GAA GAA GAA G
85935253 GAGTCGGCAG
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
2 12 0.14
3 60 0.72
4 11 0.13
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:85935197 original size:16 final size:16
Alignment explanation
Indices: 85935166--85935252 Score: 94
Period size: 16 Copynumber: 5.7 Consensus size: 16
85935156 AAAAGAAAAG
*
85935166 AGAAGAAGAA-AAGGA
1 AGAAGGAGAAGAAGGA
85935181 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
85935197 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
* *
85935213 AGGAGAAGAAGAA--A
1 AGAAGGAGAAGAAGGA
*
85935227 AGAA--AGAAGAGAAGA
1 AGAAGGAGAAGA-AGGA
85935242 AGAAGGAGAAG
1 AGAAGGAGAAG
85935253 GAGTCGGCAG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
12 6 0.10
13 1 0.02
14 4 0.06
15 14 0.23
16 32 0.52
17 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
AGAAGGAGAAGAAGGA
Found at i:85935221 original size:29 final size:31
Alignment explanation
Indices: 85935149--85935252 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 31
85935139 TCCATTTCGG
* *
85935149 GAAGAAGAA-AAGAAAAGAGAAGAAGAAAAGGAA
1 GAAGGAGAAGAAGAAAAGA-AAG-AGAGAA-GAA
*
85935182 GAAGGAGAAGAAG-GAAG-AAG-GAGAAGAA
1 GAAGGAGAAGAAGAAAAGAAAGAGAGAAGAA
85935210 GGAAGGAGAAGAAGAAAAGAAAGAAGAGAAGAA
1 -GAAGGAGAAGAAGAAAAGAAAG-AGAGAAGAA
85935243 GAAGGAGAAG
1 GAAGGAGAAG
85935253 GAGTCGGCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
28 3 0.05
29 17 0.28
30 3 0.05
31 6 0.10
32 10 0.16
33 19 0.31
34 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (31 bp):
GAAGGAGAAGAAGAAAAGAAAGAGAGAAGAA
Found at i:85936883 original size:29 final size:28
Alignment explanation
Indices: 85936822--85936883 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
85936812 AATCTATTTG
85936822 TAAAATTTTATAAATATTTTTAATAAAA
1 TAAAATTTTATAAATATTTTTAATAAAA
*
85936850 TAAAA-TTTA-AAATATATATTATAATTAAA
1 TAAAATTTTATAAATAT-T-TT-TAATAAAA
85936879 TAAAA
1 TAAAA
85936884 ATGTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.20
27 5 0.17
28 7 0.23
29 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAATTTTATAAATATTTTTAATAAAA
Found at i:85936885 original size:30 final size:28
Alignment explanation
Indices: 85936822--85936885 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
85936812 AATCTATTTG
*
85936822 TAAAATTTTATAAATATTTTTAATAAAA
1 TAAAAATTTATAAATATTTTTAATAAAA
*
85936850 T-AAAATTTA-AAATATATATTATAATTAAA
1 TAAAAATTTATAAATAT-T-TT-TAATAAAA
85936879 TAAAAAT
1 TAAAAAT
85936886 GTTTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.20
27 8 0.27
28 3 0.10
29 8 0.27
30 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAAATTTATAAATATTTTTAATAAAA
Found at i:85940042 original size:19 final size:19
Alignment explanation
Indices: 85940004--85940048 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
85939994 ATTGAAAATT
* *
85940004 GAAAATTGGACCTGAGATA
1 GAAAATTGGACCTAACATA
*
85940023 GGAAATTGGACCTAACATA
1 GAAAATTGGACCTAACATA
85940042 GAAAATT
1 GAAAATT
85940049 AAACCCGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
GAAAATTGGACCTAACATA
Found at i:85941855 original size:13 final size:13
Alignment explanation
Indices: 85941837--85941861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85941827 AAAATGTTTA
85941837 ATATATAAAAATT
1 ATATATAAAAATT
85941850 ATATATAAAAAT
1 ATATATAAAAAT
85941862 ATCAAACAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATAAAAATT
Found at i:85942322 original size:5 final size:6
Alignment explanation
Indices: 85942304--85942329 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
85942294 GAGCCTCAAC
85942304 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
85942330 AAGGTTAAAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:85943349 original size:18 final size:19
Alignment explanation
Indices: 85943318--85943368 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
85943308 AAAAATATAA
*
85943318 ATTTTGGAATTTTTACAAA-T
1 ATTTT-GAA-TTTTAAAAATT
*
85943338 ATTTTTAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
85943357 ATTTTGAATTTT
1 ATTTTGAATTTT
85943369 TGAAAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:85943349 original size:19 final size:20
Alignment explanation
Indices: 85943318--85943375 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
85943308 AAAAATATAA
*
85943318 ATTTTGGAATTTTTACAAA-T
1 ATTTT-GAATTTTTAAAAATT
*
85943338 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
85943357 ATTTTGAATTTTTGAAAAT
1 ATTTTGAATTTTTAAAAAT
85943376 CAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 14 0.44
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:85943868 original size:29 final size:30
Alignment explanation
Indices: 85943835--85943923 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
85943825 TTGATTTAAT
85943835 GTACAATTGTATACATG-AACTTTAATTTG
1 GTACAATTGTATACATGAAACTTTAATTTG
* * *
85943864 GTACAGTTATACACATGAAACTTTAATTGTG
1 GTACAATTGTATACATGAAACTTTAATT-TG
* * * *
85943895 GTTCAAATGTATACTTGAAATTTTAATTT
1 GTACAATTGTATACATGAAACTTTAATTT
85943924 TGATTTAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 14 0.29
30 11 0.23
31 23 0.48
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (30 bp):
GTACAATTGTATACATGAAACTTTAATTTG
Found at i:85944112 original size:29 final size:30
Alignment explanation
Indices: 85944065--85944123 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
85944055 GAATTGGATC
*
85944065 AAATCAAAATTTCTTGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
85944095 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
85944124 TTAAACAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:85947254 original size:24 final size:24
Alignment explanation
Indices: 85947227--85947278 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
85947217 TTAGTAAGTC
*
85947227 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
85947251 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
85947275 AAAT
1 AAAT
85947279 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:85952584 original size:60 final size:60
Alignment explanation
Indices: 85952512--85952631 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
85952502 CATCCACATA
* * *
85952512 AACTAAAACATACAAGTAGAGGTAGGCGTAACACGAAAAAACAAGGGCATATCAGACTTT
1 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
*
85952572 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAACAAACAAGGACACATCAGACTTT
1 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
85952632 GACAAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (60 bp):
AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
Found at i:85952650 original size:60 final size:60
Alignment explanation
Indices: 85952512--85952652 Score: 176
Period size: 60 Copynumber: 2.4 Consensus size: 60
85952502 CATCCACATA
* * * * *
85952512 AACTAAAACATACAAGTAGAGGTAGGCGTAACACGAAAAAACAAGGGCATATCAGACTTT
1 AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
* * *
85952572 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAACAAACAAGGACACATCAGACTTT
1 AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
* *
85952632 GAC-AAAAGAAAACTAGTAGAG
1 AACTAAAA-AAAACAAGTAGAG
85952653 AGAAGAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 4 0.06
60 68 0.94
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (60 bp):
AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
Found at i:85957347 original size:61 final size:61
Alignment explanation
Indices: 85957280--85957397 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
85957270 TTTTTTAAAA
* ** * **
85957280 TTTTTAGAATTAGAACTAAGTTGACAAATTTTGTAAATGTTGAGGGCTAAATTTATTCAAT
1 TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTCAAT
* *
85957341 TTTTTAGTATTCGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATT
1 TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATT
85957398 ATTAGACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (61 bp):
TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTCAAT
Found at i:85961480 original size:19 final size:19
Alignment explanation
Indices: 85961449--85961505 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
85961439 AAAAATATAA
85961449 ATTTTGGAATTTTTAGAAAT
1 ATTTT-GAATTTTTAGAAAT
* *
85961469 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAGAAA-T
85961488 ATTTTGAATTTTT-GAAAT
1 ATTTTGAATTTTTAGAAAT
85961506 CAAATTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
ATTTTGAATTTTTAGAAAT
Found at i:85962356 original size:29 final size:29
Alignment explanation
Indices: 85962324--85962381 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
85962314 GAATTGGATC
*
85962324 AAATCAAAACTTCTTGTA-AAAATTGCACA
1 AAATCAAAA-TTCATGTATAAAATTGCACA
*
85962353 AAATCAAAATTCATGTATACAATTGCACA
1 AAATCAAAATTCATGTATAAAATTGCACA
85962382 TTAAACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTGCACA
Found at i:85970022 original size:5 final size:5
Alignment explanation
Indices: 85970012--85970050 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
85970002 AAATTTGTGA
85970012 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
85970051 ATAATAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:85971073 original size:312 final size:312
Alignment explanation
Indices: 85970507--85971111 Score: 1016
Period size: 312 Copynumber: 1.9 Consensus size: 312
85970497 TTTTAAAAGT
* *
85970507 AAAAAAAATTAAAATTAAACAGGTATACAACTTACACAAAATATAGGTTCTAATAGCATAAATTA
1 AAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATAGGGTCTAATAGCATAAATTA
85970572 ACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGAAAAGCCCTCCTAGGTTGT
66 ACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGAAAAGCCCTCCTAGGTTGT
* *
85970637 CTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAAAAAGATAAAAATGTCGTG
131 CTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAAAAAGATAAAAATGACGTA
*
85970702 GGGATAAGATATGACTTGGTGAAAATGAAAGACCAACAAAAGTCTGTTTCAACAAATACACAAGA
196 GGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTCTGTTTCAACAAATACACAAGA
85970767 AATTTATTGTTTCATCACTGTTCCAAAACACTTTTCAAATTCTAAAAGTTAA
261 AATTTATTGTTTCATCACTGTTCCAAAACACTTTTCAAATTCTAAAAGTTAA
* * * * *
85970819 AAAAAAAAATGAAGTTAAACAGGTCTACAATTTATACAAAATATAGGGTCTAATAGCATAAATTA
1 AAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATAGGGTCTAATAGCATAAATTA
*
85970884 ACACAAAATTTATATGAATGTTACTCA-TGAATTTGTATGAATTAAGAAAAGCCCTCCTAGGTTG
66 ACACAAAATTTATATGAATGTTACCCAGTG-ATTTGTATGAATTAAGAAAAGCCCTCCTAGGTTG
* *
85970948 TCTTCAACTATATATTTCTTAAATTTATGTTGTCCTTTTCTTATCAAAAAAGA-AAAACATGACG
130 TCTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAAAAAGATAAAA-ATGACG
* * * *
85971012 TAGTGATACGATATGACTTGGCGAAAATGAAAGACCGACAAAAGTCTGTTTCAATAAATACACAA
194 TAGGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTCTGTTTCAACAAATACACAA
*
85971077 GAAATTTATTGTTTCATCATTGTTCCAAAACACTT
259 GAAATTTATTGTTTCATCACTGTTCCAAAACACTT
85971112 CTCTTCAAAA
Statistics
Matches: 273, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
311 6 0.02
312 267 0.98
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (312 bp):
AAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATAGGGTCTAATAGCATAAATTA
ACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGAAAAGCCCTCCTAGGTTGT
CTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAAAAAGATAAAAATGACGTA
GGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTCTGTTTCAACAAATACACAAGA
AATTTATTGTTTCATCACTGTTCCAAAACACTTTTCAAATTCTAAAAGTTAA
Found at i:85974484 original size:12 final size:12
Alignment explanation
Indices: 85974431--85974477 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
85974421 TTCCTGGTTC
85974431 TTTTGATTTTTTA
1 TTTT-ATTTTTTA
85974444 TTTTTATTTATTTA
1 -TTTTATTT-TTTA
*
85974458 -TTTATTTTGTA
1 TTTTATTTTTTA
85974469 TTTTATTTT
1 TTTTATTTT
85974478 ATTTTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.10
12 15 0.50
13 4 0.13
14 8 0.27
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:85975562 original size:19 final size:19
Alignment explanation
Indices: 85975538--85975575 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
85975528 TTTACATTGG
85975538 TTTTGT-TGTATTGTATATT
1 TTTTGTATGTATT-TATATT
*
85975557 TTTTGTATTTATTTATATT
1 TTTTGTATGTATTTATATT
85975576 ATTATTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (19 bp):
TTTTGTATGTATTTATATT
Found at i:85975747 original size:28 final size:27
Alignment explanation
Indices: 85975646--85975747 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
85975636 TTTACACTAT
*
85975646 TATACATATTGTTTATTTTGAAACTTTTA
1 TATACATATTATTTATTTT-AAA-TTTTA
85975675 TATACAT-TT-TTGTATTTTAAATTATTA
1 TATACATATTATT-TATTTTAAATT-TTA
* *
85975702 TGT--ATATTATTTACTTTAATATTTTA
1 TATACATATTATTTATTTTAA-ATTTTA
*
85975728 TATATATATTATTTATTTTA
1 TATACATATTATTTATTTTA
85975748 GACCTTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
25 2 0.03
26 16 0.26
27 15 0.24
28 22 0.35
29 7 0.11
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TATACATATTATTTATTTTAAATTTTA
Found at i:85975759 original size:28 final size:27
Alignment explanation
Indices: 85975617--85975769 Score: 80
Period size: 27 Copynumber: 5.6 Consensus size: 27
85975607 TATTATTTTA
* * * *
85975617 TTTTACATATGTTATTT-CTTTTACAC
1 TTTTATATATATTATTTACTTTAACAT
* * * * *
85975643 TATTATACATATTGTTTATTTTGAA-AC
1 TTTTATATATATTATTTACTTT-AACAT
* * *
85975670 TTTTATATACATTTTTGTATTTTAA-AT
1 TTTTATATATATTATT-TACTTTAACAT
* * *
85975697 TATTATGTATATTATTTACTTTAATAT
1 TTTTATATATATTATTTACTTTAACAT
* *
85975724 TTTATATATATATTATTTATTTTAGACCT
1 TTT-TATATATATTATTTACTTTA-ACAT
85975753 TTTTATAT-TATTCATTT
1 TTTTATATATATT-ATTT
85975770 CAAATCGCTT
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
26 19 0.19
27 40 0.41
28 34 0.35
29 5 0.05
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTATATATATTATTTACTTTAACAT
Found at i:85977723 original size:20 final size:21
Alignment explanation
Indices: 85977698--85977745 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
85977688 TACTGTTAAG
85977698 AAAAAA-ACTCATTACCATTT
1 AAAAAACACTCATTACCATTT
* *
85977718 AAAAAACCCTTATTACCATTT
1 AAAAAACACTCATTACCATTT
85977739 AAAAAAC
1 AAAAAAC
85977746 CCATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAACACTCATTACCATTT
Found at i:85977732 original size:21 final size:21
Alignment explanation
Indices: 85977708--85977747 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
85977698 AAAAAAACTC
85977708 ATTACCATTTAAAAAACCCTT
1 ATTACCATTTAAAAAACCCTT
85977729 ATTACCATTTAAAAAACCC
1 ATTACCATTTAAAAAACCC
85977748 ATTAAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTACCATTTAAAAAACCCTT
Found at i:85977854 original size:19 final size:20
Alignment explanation
Indices: 85977805--85977855 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
85977795 ATAAAAATAG
85977805 AAATAAATTAAAATTTCTAA
1 AAATAAATTAAAATTTCTAA
*
85977825 AAATAAA-TAAAAGTTT-T-T
1 AAATAAATTAAAA-TTTCTAA
85977843 AAATAAATTAAAA
1 AAATAAATTAAAA
85977856 ATAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAAATTAAAATTTCTAA
Found at i:85977863 original size:20 final size:18
Alignment explanation
Indices: 85977826--85977876 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
85977816 AATTTCTAAA
* *
85977826 AATAAATAAAAGT-TTTT
1 AATAAATAAAAATAATTT
85977843 AAATAAATTAAAAATAATTT
1 -AATAAA-TAAAAATAATTT
*
85977863 AATTAATAAAAATA
1 AATAAATAAAAATA
85977877 TAATAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 11 0.39
20 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAAATAAAAATAATTT
Found at i:85982666 original size:71 final size:71
Alignment explanation
Indices: 85982550--85982694 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
85982540 TAACTCTTCT
85982550 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
85982615 TTATAC
66 TTATAC
85982621 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
85982686 TTATAC
66 TTATAC
85982692 TAA
1 TAA
85982695 CTTAAATTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (71 bp):
TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
TTATAC
Found at i:85983134 original size:25 final size:25
Alignment explanation
Indices: 85983104--85983161 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
85983094 ACACTTGCAG
*
85983104 CAGAATACACGAGAAGTAGCAGCAA
1 CAGAATACACGAGAAGTAGCAACAA
*
85983129 CAGAATACACGAGAAGTAGCAATAA
1 CAGAATACACGAGAAGTAGCAACAA
85983154 CAGAATAC
1 CAGAATAC
85983162 GATGGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (25 bp):
CAGAATACACGAGAAGTAGCAACAA
Found at i:85985613 original size:254 final size:254
Alignment explanation
Indices: 85985164--85985671 Score: 1016
Period size: 254 Copynumber: 2.0 Consensus size: 254
85985154 GGAAGTCAAA
85985164 AATCAATCGTGTTTTCGAAGGTATAAAGGATCGTGTCATATCGTGTTGAATGTGATGCTGTATTT
1 AATCAATCGTGTTTTCGAAGGTATAAAGGATCGTGTCATATCGTGTTGAATGTGATGCTGTATTT
85985229 CTTTGAAACAAGAGAATTTTGACAACCAACTTAAGCCATTCAAATGTTTTAAAAGGAATCATATT
66 CTTTGAAACAAGAGAATTTTGACAACCAACTTAAGCCATTCAAATGTTTTAAAAGGAATCATATT
85985294 TAAAAATATATTTTTAAAAATTTTAGACATAAGGACAGTACTTAATCAATTTGGTACCAATTTTG
131 TAAAAATATATTTTTAAAAATTTTAGACATAAGGACAGTACTTAATCAATTTGGTACCAATTTTG
85985359 GGCGTAATGAGGGTGTTTGCCCTTTCTCATACGTAACCGACTCCTGAACCCTTTTTTTT
196 GGCGTAATGAGGGTGTTTGCCCTTTCTCATACGTAACCGACTCCTGAACCCTTTTTTTT
85985418 AATCAATCGTGTTTTCGAAGGTATAAAGGATCGTGTCATATCGTGTTGAATGTGATGCTGTATTT
1 AATCAATCGTGTTTTCGAAGGTATAAAGGATCGTGTCATATCGTGTTGAATGTGATGCTGTATTT
85985483 CTTTGAAACAAGAGAATTTTGACAACCAACTTAAGCCATTCAAATGTTTTAAAAGGAATCATATT
66 CTTTGAAACAAGAGAATTTTGACAACCAACTTAAGCCATTCAAATGTTTTAAAAGGAATCATATT
85985548 TAAAAATATATTTTTAAAAATTTTAGACATAAGGACAGTACTTAATCAATTTGGTACCAATTTTG
131 TAAAAATATATTTTTAAAAATTTTAGACATAAGGACAGTACTTAATCAATTTGGTACCAATTTTG
85985613 GGCGTAATGAGGGTGTTTGCCCTTTCTCATACGTAACCGACTCCTGAACCCTTTTTTTT
196 GGCGTAATGAGGGTGTTTGCCCTTTCTCATACGTAACCGACTCCTGAACCCTTTTTTTT
85985672 TCAAATTTAC
Statistics
Matches: 254, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 254 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (254 bp):
AATCAATCGTGTTTTCGAAGGTATAAAGGATCGTGTCATATCGTGTTGAATGTGATGCTGTATTT
CTTTGAAACAAGAGAATTTTGACAACCAACTTAAGCCATTCAAATGTTTTAAAAGGAATCATATT
TAAAAATATATTTTTAAAAATTTTAGACATAAGGACAGTACTTAATCAATTTGGTACCAATTTTG
GGCGTAATGAGGGTGTTTGCCCTTTCTCATACGTAACCGACTCCTGAACCCTTTTTTTT
Found at i:85987732 original size:46 final size:47
Alignment explanation
Indices: 85987611--85987832 Score: 154
Period size: 47 Copynumber: 4.7 Consensus size: 47
85987601 ACATTATGAG
* ** * * *
85987611 AGCCAGTGTAACACCATTTCTGGGACATGGCATCGG-CATTGAGACGAG
1 AGCCAGTGTAAGACCATGCCTAGGACATGGCATCGGAC-TCGAGAC-AT
* * * * *
85987659 AGCTACTGTAAGA-CAAGTCT-GGAACAT-GCATCGGTCTCGAGACAT
1 AGCCAGTGTAAGACCATGCCTAGG-ACATGGCATCGGACTCGAGACAT
* *
85987704 AAGCCAGTGTAAGA-CATGCCTAGGACAT-GCAT-TGACTACGAGATGAT
1 -AGCCAGTGTAAGACCATGCCTAGGACATGGCATCGGACT-CGAGA-CAT
* * * * * *
85987751 AGTCAGTGTAAGACCATGTCTGGGACATGGCA-CCGACTTGAGATAT
1 AGCCAGTGTAAGACCATGCCTAGGACATGGCATCGGACTCGAGACAT
85987797 GAGCCAGTGTAAGACCATGCCTAGGACATGGCATCG
1 -AGCCAGTGTAAGACCATGCCTAGGACATGGCATCG
85987833 ACACCTTACC
Statistics
Matches: 139, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
45 4 0.03
46 58 0.42
47 59 0.42
48 18 0.13
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGCCTAGGACATGGCATCGGACTCGAGACAT
Found at i:85987794 original size:47 final size:48
Alignment explanation
Indices: 85987696--85987834 Score: 169
Period size: 47 Copynumber: 3.0 Consensus size: 48
85987686 GCATCGGTCT
* * *
85987696 CGAGACATAAGCCAGTGTAAGA-CATGCCTAGGACAT-GCATTGACTA
1 CGAGATATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGACTA
* * * *
85987742 CGAGATGAT-AGTCAGTGTAAGACCATGTCTGGGACATGGCACCGACT-
1 CGAGAT-ATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGACTA
*
85987789 TGAGATATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGAC
1 CGAGATATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGAC
85987835 ACCTTACCCA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
46 19 0.24
47 52 0.67
48 7 0.09
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (48 bp):
CGAGATATGAGCCAGTGTAAGACCATGCCTAGGACATGGCATCGACTA
Found at i:85991634 original size:83 final size:83
Alignment explanation
Indices: 85991430--85991842 Score: 693
Period size: 83 Copynumber: 5.0 Consensus size: 83
85991420 TGTCAAATCA
* * * * *
85991430 TCTTGAGTCTGTTTGAGATCATTTGAGAGTCATATCTACAAGGTCCTCGACTTGTTCCTTGTAAG
1 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
** **
85991495 CACAAGGATGTTTAAACCA
66 CACAAGGATG-CCAAACTG
85991514 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
1 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
85991579 CACAAGGATGCCAAACTG
66 CACAAGGATGCCAAACTG
85991597 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
1 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
85991662 CACAAGGATGCCAAACTG
66 CACAAGGATGCCAAACTG
85991680 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
1 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
85991745 CACAAGGATGCCAAACTG
66 CACAAGGATGCCAAACTG
*
85991763 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTGAA
1 TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGT-AA
* *
85991828 -CACAAGAATACCAAA
65 GCACAAGGATGCCAAA
85991843 TCATCTTGGA
Statistics
Matches: 316, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
83 244 0.77
84 72 0.23
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (83 bp):
TCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAG
CACAAGGATGCCAAACTG
Found at i:85991985 original size:119 final size:119
Alignment explanation
Indices: 85991774--85992246 Score: 768
Period size: 119 Copynumber: 4.0 Consensus size: 119
85991764 CTTGAGTCTG
* * * * *
85991774 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
85991839 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
* * * *
85991893 TTTGAGAACGTTTGAGAGTTAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
85991958 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATTTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
*
85992012 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
85992077 CAAATCATCTTGAATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
* *
85992131 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTCGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
85992196 CAAATCATCTTGGATCTGTTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGT-TAGATCTGCT
85992247 GTCTTCAATT
Statistics
Matches: 330, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 2 0.01
119 328 0.99
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
Found at i:86004403 original size:46 final size:41
Alignment explanation
Indices: 86004312--86004405 Score: 98
Period size: 46 Copynumber: 2.2 Consensus size: 41
86004302 CATAACATTT
* *
86004312 ATATAAAAAAAGTAATATAAAAATGAAACATAATAAAGATT
1 ATATAAAAAAAGTAATATAAAAATGAAAAATAATAAAGATA
* * *
86004353 ATATAATAAAATGTAATATAAACATATAAGAAAAATAATAGATATA
1 ATATAA-AAAAAGTAATATAAA-A-AT--GAAAAATAATAAAGATA
86004399 ATATAAA
1 ATATAAA
86004406 GTAACACATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 6 0.14
42 14 0.33
43 1 0.02
44 2 0.05
45 1 0.02
46 19 0.44
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (41 bp):
ATATAAAAAAAGTAATATAAAAATGAAAAATAATAAAGATA
Found at i:86004563 original size:16 final size:17
Alignment explanation
Indices: 86004532--86004565 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
86004522 AATAATATTA
86004532 AAAATAATACTTATAAT
1 AAAATAATACTTATAAT
*
86004549 AAAATAAT-TTTATAAT
1 AAAATAATACTTATAAT
86004565 A
1 A
86004566 TATAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATAATACTTATAAT
Found at i:86007273 original size:44 final size:44
Alignment explanation
Indices: 86007210--86007297 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
86007200 TATATCCTAT
86007210 ATAATTTAAATGTCATGCATGCCTAAGTAAATACCGTAAACTAA
1 ATAATTTAAATGTCATGCATGCCTAAGTAAATACCGTAAACTAA
*
86007254 ATAATTTAAATGTCATGCATGCCTAAGTAAATACTGTAAACTAA
1 ATAATTTAAATGTCATGCATGCCTAAGTAAATACCGTAAACTAA
86007298 GCTCCATGCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (44 bp):
ATAATTTAAATGTCATGCATGCCTAAGTAAATACCGTAAACTAA
Found at i:86010329 original size:20 final size:20
Alignment explanation
Indices: 86010306--86010344 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
86010296 TATCAATCCT
*
86010306 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGGTATCGATATA
86010326 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
86010345 TCCTGCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGGTATCGATATA
Found at i:86015876 original size:29 final size:29
Alignment explanation
Indices: 86015835--86015897 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
86015825 AATTTAAAAC
*
86015835 AAAA-TAGGGATTTAGACAATTTTAGTTG
1 AAAATTAGGGATTTAGACAATTTTAGTCG
* *
86015863 AAAATTAGGGATTTAGACTATTTTTGTCG
1 AAAATTAGGGATTTAGACAATTTTAGTCG
86015892 AAAATT
1 AAAATT
86015898 CGCCGCATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (29 bp):
AAAATTAGGGATTTAGACAATTTTAGTCG
Found at i:86025112 original size:50 final size:50
Alignment explanation
Indices: 86025037--86025137 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
86025027 TTTTCCTCTT
*
86025037 TCCCTTTTCTAATAGGGGCATTCAGAAATTGTGAACTATATATGCTGGGA
1 TCCCTTTTCTAACAGGGGCATTCAGAAATTGTGAACTATATATGCTGGGA
86025087 TCCCTTTTCTAACAGGGGCATTCAGAAATTGTGAACTATATATGCTGGGA
1 TCCCTTTTCTAACAGGGGCATTCAGAAATTGTGAACTATATATGCTGGGA
86025137 T
1 T
86025138 GCAAACGGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (50 bp):
TCCCTTTTCTAACAGGGGCATTCAGAAATTGTGAACTATATATGCTGGGA
Found at i:86033290 original size:24 final size:23
Alignment explanation
Indices: 86033258--86033302 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
86033248 TTGTTCAAGT
86033258 TTCTCTCTTGAGTTTTGCTTTTAG
1 TTCTCTCTTG-GTTTTGCTTTTAG
* *
86033282 TTCTTTCTTGTTTTTGCTTTT
1 TTCTCTCTTGGTTTTGCTTTT
86033303 GTGTTAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.04, C:0.16, G:0.13, T:0.67
Consensus pattern (23 bp):
TTCTCTCTTGGTTTTGCTTTTAG
Found at i:86035393 original size:18 final size:17
Alignment explanation
Indices: 86035370--86035403 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
86035360 ACATTTATGA
86035370 TGTATTTGAGACATTATT
1 TGTATTT-AGACATTATT
*
86035388 TGTATTTAGATATTAT
1 TGTATTTAGACATTAT
86035404 GTAAGGACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (17 bp):
TGTATTTAGACATTATT
Found at i:86037286 original size:22 final size:21
Alignment explanation
Indices: 86037243--86037288 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
86037233 TATTTAGTAA
*
86037243 TTAATTTTTATAATGGATGTT
1 TTAATTTTTATAATGAATGTT
86037264 TTAATTCTTTGATAAT-AATGTT
1 TTAATT-TTT-ATAATGAATGTT
86037286 TTA
1 TTA
86037289 TTTCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TTAATTTTTATAATGAATGTT
Found at i:86037970 original size:33 final size:30
Alignment explanation
Indices: 86037906--86037971 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
86037896 CTTAACGAGC
*
86037906 AAATACCTCTAAAATAATAAAAAATTTAAT
1 AAATACCTCTAAAATAATAAAAAATTCAAT
* *
86037936 AAATGCCTTTAAAATAATAATAAAATTAACAAT
1 AAATACCTCTAAAATAATAA-AAAATT--CAAT
86037969 AAA
1 AAA
86037972 ATAAGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 18 0.60
31 6 0.20
33 6 0.20
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAAAAAATTCAAT
Found at i:86045280 original size:141 final size:141
Alignment explanation
Indices: 86045022--86045299 Score: 421
Period size: 141 Copynumber: 2.0 Consensus size: 141
86045012 GTGACTCGTA
* *
86045022 TACTTTGATGTAAGTAAAAGCCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
1 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * * * * *
86045087 TACGACTTCTGTAGTATGTAGTGCCATTCACAATAATGGAATTTATAGCCCGAGACATGATTAAA
66 TACGACTTCTGCAGTATGTAGCGCAATTCACAACAATGGAATTTATAACCCGAGACATGAGTAAA
86045152 TGATATCATTT
131 TGATATCATTT
* * * *
86045163 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGGAATCGAAAGTTGGTGCGTTGGGTA
1 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * *
86045228 TATGACTTCTGCAGTATGTAGCGCAATTCACAACAGTGGAATTTATAACCCGAGACATGCGTAAA
66 TACGACTTCTGCAGTATGTAGCGCAATTCACAACAATGGAATTTATAACCCGAGACATGAGTAAA
86045293 TGATATC
131 TGATATC
86045300 CTTTCATTAG
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
141 122 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (141 bp):
TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
TACGACTTCTGCAGTATGTAGCGCAATTCACAACAATGGAATTTATAACCCGAGACATGAGTAAA
TGATATCATTT
Found at i:86047190 original size:18 final size:18
Alignment explanation
Indices: 86047167--86047215 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
86047157 AATTAATGAT
*
86047167 TTGAAATAGAAAATGGTA
1 TTGAAATAGAAAATGCTA
* *
86047185 TTGAAAT-GACAATGCTT
1 TTGAAATAGAAAATGCTA
*
86047202 TTGAAATAGCAAAT
1 TTGAAATAGAAAAT
86047216 AAGATGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (18 bp):
TTGAAATAGAAAATGCTA
Found at i:86054262 original size:28 final size:28
Alignment explanation
Indices: 86054231--86054299 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
86054221 AGTTCCCGCG
* **
86054231 GACTCTTGCTTGAAAGATAGTCCATGTA
1 GACTCTTACTTGAAAGATAGTCCATACA
* *
86054259 GACTCTTACTTGAAATATAGTTCATACA
1 GACTCTTACTTGAAAGATAGTCCATACA
86054287 GACTCTTACTTGA
1 GACTCTTACTTGA
86054300 TAACAGTCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (28 bp):
GACTCTTACTTGAAAGATAGTCCATACA
Found at i:86056810 original size:23 final size:23
Alignment explanation
Indices: 86056778--86056829 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 23
86056768 TAAATCCCAT
86056778 TAAATTGAGTTTAATTAGAGTACC
1 TAAA-TGAGTTTAATTAGAGTACC
86056802 TAAATGAGTTTAATTAGAGTACC
1 TAAATGAGTTTAATTAGAGTACC
86056825 TAAAT
1 TAAAT
86056830 TATACTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (23 bp):
TAAATGAGTTTAATTAGAGTACC
Found at i:86058154 original size:5 final size:5
Alignment explanation
Indices: 86058144--86058168 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
86058134 GTGGTAAGAT
86058144 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
86058169 TAGGCCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:86063068 original size:22 final size:20
Alignment explanation
Indices: 86063029--86063076 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
86063019 GAAGCGAAGT
86063029 ATTTTTTTTTTAAAACGA-A
1 ATTTTTTTTTTAAAACGAGA
86063048 AGTTTTTTTTTTAAGATACGAGA
1 A-TTTTTTTTTTAA-A-ACGAGA
86063071 ATTTTT
1 ATTTTT
86063077 GAAAACACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 1 0.04
22 9 0.36
23 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTTTTTTTTAAAACGAGA
Found at i:86063075 original size:18 final size:18
Alignment explanation
Indices: 86063065--86063494 Score: 120
Period size: 18 Copynumber: 24.0 Consensus size: 18
86063055 TTTTTAAGAT
86063065 ACGAGAATTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
*
86063083 ACGAGAA--TTTGTAAAC
1 ACGAGAATTTTTGAAAAC
* *
86063099 ACGAAAATTTTAG-AAAC
1 ACGAGAATTTTTGAAAAC
* *
86063116 ACGAAAATTTTTGGAAAAA
1 ACGAGAATTTTT-GAAAAC
*
86063135 ACGA-AATTTTCTTAAAAC
1 ACGAGAATTTT-TGAAAAC
* *
86063153 ACGACATTTTTTTTTTTG-AAAC
1 ACGAGA-----ATTTTTGAAAAC
*
86063175 ACGGGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* * *
86063192 AAGACATTTTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
* *
86063210 AC-A-ATTTTTTCTTAAAA-
1 ACGAGA-ATTTT-TGAAAAC
* *
86063227 A--A-AAATTTT--AAAT
1 ACGAGAATTTTTGAAAAC
86063240 ACGAGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
*
86063257 ACGAAAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* *
86063274 ACGGAAATATTTTTTTTTTTAAAAC
1 AC-GAGA-A-----TTTTTGAAAAC
*
86063299 ACGAAAATTTTTTCTGAAAAC
1 ACGAGAA--TTTT-TGAAAAC
* *
86063320 AAGAAAATTTTTG-AAAC
1 ACGAGAATTTTTGAAAAC
*
86063337 ACTAGAA-TTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
86063354 ACGA-AGATTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
*
86063371 ATGAGAATTTTT-AAAAGC
1 ACGAGAATTTTTGAAAA-C
* * *
86063389 ACGAGGATTATTGAAAGC
1 ACGAGAATTTTTGAAAAC
* *
86063407 ACGAAAATTTGT-AAAA-
1 ACGAGAATTTTTGAAAAC
* *
86063423 ACGACAATTTTTG-AAAT
1 ACGAGAATTTTTGAAAAC
*
86063440 ACGAGAAATTTTT-TAAAC
1 ACGAG-AATTTTTGAAAAC
* * **
86063458 GCGAAAATTTTTTTCAAAC
1 ACGAGAA-TTTTTGAAAAC
* *
86063477 ACGAAAACTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
86063495 GCGAAAATTC
Statistics
Matches: 319, Mismatches: 50, Indels: 86
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 1 0.00
15 4 0.01
16 48 0.15
17 92 0.29
18 95 0.30
19 27 0.08
20 6 0.02
21 12 0.04
22 8 0.03
23 2 0.01
24 13 0.04
25 7 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
ACGAGAATTTTTGAAAAC
Found at i:86063093 original size:16 final size:16
Alignment explanation
Indices: 86063074--86063125 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
86063064 TACGAGAATT
*
86063074 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
86063090 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
*
86063106 TTTTAGAAACACGAAAA
1 TTTGA-AAACACGAAAA
86063123 TTT
1 TTT
86063126 TTGGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:86063265 original size:17 final size:17
Alignment explanation
Indices: 86063227--86063503 Score: 153
Period size: 17 Copynumber: 15.4 Consensus size: 17
86063217 TTTCTTAAAA
* *
86063227 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
86063243 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
86063260 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
86063278 AAATATTTTTTTTTTTAAAACACG
1 AAA-A------TTTTTAAAACACG
*
86063302 AAAATTTTTTCTGAAAACAAG
1 AAAA--TTTT-T-AAAACACG
* *
86063323 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
86063340 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
86063357 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
86063374 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
86063392 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
*
86063410 AAAATTTGTAAAA-ACG
1 AAAATTTTTAAAACACG
* * *
86063426 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
86063443 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
86063461 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
86063480 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
86063498 AAAATT
1 AAAATT
86063504 CGAAAATTTC
Statistics
Matches: 202, Mismatches: 42, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
16 20 0.10
17 74 0.37
18 48 0.24
19 31 0.15
20 1 0.00
21 11 0.05
23 1 0.00
24 4 0.02
25 12 0.06
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:86063295 original size:25 final size:23
Alignment explanation
Indices: 86063264--86063311 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 23
86063254 AACACGAAAA
86063264 TTTTTAAAACACGGAAATATTTTTT
1 TTTTTAAAACAC-GAAA-ATTTTTT
86063289 TTTTTAAAACACGAAAATTTTTT
1 TTTTTAAAACACGAAAATTTTTT
86063312 CTGAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.30
24 4 0.17
25 12 0.52
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (23 bp):
TTTTTAAAACACGAAAATTTTTT
Found at i:86063499 original size:18 final size:19
Alignment explanation
Indices: 86063454--86063502 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
86063444 GAAATTTTTT
* **
86063454 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATCTTTTGA
*
86063473 AAACACGAAAA-CTTTTGA
1 AAACGCGAAAATCTTTTGA
86063491 AAACGCGAAAAT
1 AAACGCGAAAAT
86063503 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATCTTTTGA
Found at i:86063547 original size:18 final size:17
Alignment explanation
Indices: 86063498--86063548 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
86063488 TGAAAACGCG
86063498 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
86063515 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
86063533 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
86063549 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:86064072 original size:26 final size:26
Alignment explanation
Indices: 86064033--86064089 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
86064023 CTTTTTTTTT
*
86064033 CTGCTGCAGGATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
*
86064059 CTGCTGCCGAATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
86064085 CTGCT
1 CTGCT
86064090 TGGTCTGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.07, C:0.30, G:0.42, T:0.21
Consensus pattern (26 bp):
CTGCTGCAGAATTCGGGCCTGGGGGC
Found at i:86064221 original size:20 final size:19
Alignment explanation
Indices: 86064196--86064239 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
86064186 TGGCTGTGGC
86064196 CTGCTTCTATTTTATTTTTT
1 CTGCTT-TATTTTATTTTTT
* *
86064216 CTGCTTTGTTTTGTTTTTT
1 CTGCTTTATTTTATTTTTT
*
86064235 TTGCT
1 CTGCT
86064240 GCTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (19 bp):
CTGCTTTATTTTATTTTTT
Found at i:86064232 original size:19 final size:21
Alignment explanation
Indices: 86064196--86064249 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
86064186 TGGCTGTGGC
*
86064196 CTGCTTCTATTTTA-TTTTTT-
1 CTGCTT-TGTTTTATTTTTTTG
*
86064216 CTGCTTTGTTTTGTTTTTTTTG
1 CTGCTTTGTTTT-ATTTTTTTG
86064238 CTGCTTTGTTTT
1 CTGCTTTGTTTT
86064250 TTTCAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 6 0.21
22 12 0.41
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (21 bp):
CTGCTTTGTTTTATTTTTTTG
Found at i:86064251 original size:19 final size:19
Alignment explanation
Indices: 86064205--86064252 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
86064195 CCTGCTTCTA
*
86064205 TTTTATTTTTTCTGCTTTG
1 TTTTTTTTTTTCTGCTTTG
86064224 TTTTGTTTTTTTTGCTGCTTTG
1 -TTT-TTTTTTTT-CTGCTTTG
86064246 TTTTTTT
1 TTTTTTT
86064253 CAAAAACCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTTTCTGCTTTG
Found at i:86064804 original size:59 final size:60
Alignment explanation
Indices: 86064706--86064823 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 60
86064696 CATGTTTATG
86064706 GCCTGAAAATCTGGGAAGTGAGTGCCCCAAATCACGTAACTTGTCTGAAGGACCAAATCA
1 GCCTGAAAATCTGGGAAGTGAGTGCCCCAAATCACGTAACTTGTCTGAAGGACCAAATCA
* *
86064766 GCCTGAAAATCT-GGAAGTGGGTGCCCCAAATCATGTAACTTGTCTGAAGGACCAAATC
1 GCCTGAAAATCTGGGAAGTGAGTGCCCCAAATCACGTAACTTGTCTGAAGGACCAAATC
86064824 GCAAATGCAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 44 0.79
60 12 0.21
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (60 bp):
GCCTGAAAATCTGGGAAGTGAGTGCCCCAAATCACGTAACTTGTCTGAAGGACCAAATCA
Found at i:86064896 original size:29 final size:29
Alignment explanation
Indices: 86064863--86064979 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
86064853 TGTAATTTTT
*
86064863 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
86064892 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
86064922 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
86064951 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
86064980 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:86064918 original size:30 final size:30
Alignment explanation
Indices: 86064878--86064979 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
86064868 ATTTAGGATT
*
86064878 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
86064908 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
86064938 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
86064968 AAAATGCAATTT
1 AAAATGAAATTT
86064980 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:86065001 original size:15 final size:16
Alignment explanation
Indices: 86064975--86065011 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
86064965 GTCAAAATGC
86064975 AATTTTTATTTTTTAA
1 AATTTTTATTTTTTAA
*
86064991 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTAA
86065006 AATTTT
1 AATTTT
86065012 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTTATTTTTTAA
Found at i:86065137 original size:150 final size:152
Alignment explanation
Indices: 86064957--86065260 Score: 558
Period size: 154 Copynumber: 2.0 Consensus size: 152
86064947 TTTAGGAAAA
86064957 GTTTAGGGGTCAAAATGCAATTTTTATTTTTTAAA-AT-TTTTTTTTTTGAAATTTTGAAAATTA
1 GTTTAGGGGTCAAAATGCAATTTTTATTTTTTAAATATATTTTTTTTTTGAAATTTTGAAAATTA
86065020 AACACAAACTCTAGTCGGACAAAAATTTAGTGCTTACAACTGCCCCTCTTTGCTTATCATTGTGA
66 AACACAAACTCTAGTCGGACAAAAATTTAGTGCTTACAACTGCCCCTCTTTGCTTATCATTGTGA
86065085 AACAAGGATAGTGCAAAGACTT
131 AACAAGGATAGTGCAAAGACTT
* *
86065107 GTTTAGGTGTCAAAATGCAATTTTTATTTTTTAAATTTTTATTTTTTTTTTGAAATTTTGAAAAT
1 GTTTAGGGGTCAAAATGCAATTTTTATTTTTTAAA--TATATTTTTTTTTTGAAATTTTGAAAAT
86065172 TAAACACAAACTCTAGTCGGACAAAAATTTAGTGCTTACAACTGCCCCTCTTTGCTTATCATTGT
64 TAAACACAAACTCTAGTCGGACAAAAATTTAGTGCTTACAACTGCCCCTCTTTGCTTATCATTGT
86065237 GAAACAAGGATAGTGCAAAGACTT
129 GAAACAAGGATAGTGCAAAGACTT
86065261 AAAAGCACTA
Statistics
Matches: 148, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
150 34 0.23
153 1 0.01
154 113 0.76
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (152 bp):
GTTTAGGGGTCAAAATGCAATTTTTATTTTTTAAATATATTTTTTTTTTGAAATTTTGAAAATTA
AACACAAACTCTAGTCGGACAAAAATTTAGTGCTTACAACTGCCCCTCTTTGCTTATCATTGTGA
AACAAGGATAGTGCAAAGACTT
Found at i:86065145 original size:15 final size:15
Alignment explanation
Indices: 86065125--86065153 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86065115 GTCAAAATGC
86065125 AATTTTTATTTTTTA
1 AATTTTTATTTTTTA
86065140 AATTTTTATTTTTT
1 AATTTTTATTTTTT
86065154 TTTTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
AATTTTTATTTTTTA
Found at i:86065151 original size:20 final size:20
Alignment explanation
Indices: 86065126--86065165 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
86065116 TCAAAATGCA
*
86065126 ATTTTTATTTTTTAAATTTTT
1 ATTTTT-TTTTTGAAATTTTT
86065147 ATTTTTTTTTTGAAATTTT
1 ATTTTTTTTTTGAAATTTT
86065166 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (20 bp):
ATTTTTTTTTTGAAATTTTT
Found at i:86065625 original size:53 final size:54
Alignment explanation
Indices: 86065407--86065656 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
86065397 CACGTGAGCC
* *
86065407 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
86065462 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
86065512 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
86065566 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
86065619 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
86065657 TTTTTGAAAC
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 39 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:86065695 original size:13 final size:14
Alignment explanation
Indices: 86065667--86065699 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
86065657 TTTTTGAAAC
86065667 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
86065681 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
86065694 ACAGAA
1 ACAGAA
86065700 TTTGAAAAGA
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:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:86065707 original size:14 final size:14
Alignment explanation
Indices: 86065660--86065707 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
86065650 GATTTTTTTT
*
86065660 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
86065674 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
86065688 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
86065701 TTGAAAA
1 TTGAAAA
86065708 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:86066044 original size:146 final size:144
Alignment explanation
Indices: 86065779--86066507 Score: 1149
Period size: 146 Copynumber: 5.0 Consensus size: 144
86065769 TAGAATTAGT
* *
86065779 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
86065843 AAGTTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 AA-TTTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
86065908 TATGAGTTGAATTTTG
129 TATGAGTTGAATTTTG
*
86065924 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
86065989 GAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
65 GAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
86066054 TATGAGTTGAATTTTG
129 TATGAGTTGAATTTTG
*
86066070 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
86066135 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
86066200 ATGAGTTGAATTTTG
130 ATGAGTTGAATTTTG
* * *
86066215 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTG
1 AAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * *
86066280 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
86066345 TGAGTTGAATTTTG
131 TGAGTTGAATTTTG
* * *
86066359 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * ** *
86066424 ATTTTTTTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGC
66 A--ATTTTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
86066488 AATATGAATTG-ATTTTG
127 AATATGAGTTGAATTTTG
86066505 AAA
1 AAA
86066508 AACATAAATT
Statistics
Matches: 556, Mismatches: 21, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
144 201 0.36
145 71 0.13
146 226 0.41
147 58 0.10
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (144 bp):
AAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTG
Found at i:86066192 original size:72 final size:72
Alignment explanation
Indices: 86065783--86066521 Score: 1135
Period size: 72 Copynumber: 10.2 Consensus size: 72
86065773 ATTAGTAAAG
* * *
86065783 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
86065847 TTTGAAAA
65 TTTGAAAA
86065855 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
86065920 TTTGAGAAG
65 TTTGA-AAA
86065929 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
86065994 TTGAGAAG
66 TTGA-AAA
86066002 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
86066067 TTGAGAAG
66 TTGA-AAA
86066075 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
86066140 TTGAAAA
66 TTGAAAA
*
86066147 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
86066212 TTGAAAA
66 TTGAAAA
* * *
86066219 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
86066284 TTGAAAA
66 TTGAAAA
* * *
86066291 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
86066356 TTGAAAA
66 TTGAAAA
* * * *
86066363 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--A
*
86066428 TTTTTAACAA
64 TTTTGAA-AA
* * ** * *
86066438 CAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-AT
1 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
86066501 TTTGAAAAA
65 TTTG-AAAA
*
86066510 CATAAATT-AAAA
1 CAGAAATTGAAAA
86066522 GGCTTAACTC
Statistics
Matches: 637, Mismatches: 22, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
72 290 0.46
73 280 0.44
74 13 0.02
75 54 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:86078464 original size:21 final size:19
Alignment explanation
Indices: 86078426--86078472 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
86078416 GAAGCGCAGT
86078426 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
86078445 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
86078467 ATTTTT
1 ATTTTT
86078473 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 9 0.38
22 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:86078471 original size:16 final size:17
Alignment explanation
Indices: 86078451--86078888 Score: 126
Period size: 17 Copynumber: 24.6 Consensus size: 17
86078441 CGAAAGTTTT
*
86078451 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
86078468 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAGAA
*
86078486 TTTGT-AAACAC--GAA
1 TTTTTAAAACACGAGAA
*
86078500 TATTTTAGAAACACGAAAA
1 T-TTTTA-AAACACGAGAA
*
86078519 TTTTTGGAAAAAAACGA-AA
1 TTTTT---AAAACACGAGAA
* *
86078538 TTTTCTTAAAACACGACACTTTT
1 -TTT-TTAAAACACGAGA----A
* *
86078561 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAGAA
* * *
86078578 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* ** ***
86078596 TTTTTGAAACAAAATTT
1 TTTTTAAAACACGAGAA
*
86078613 TTTCTTAAAA-A--AAAA
1 TTT-TTAAAACACGAGAA
* *
86078628 ATTTT-AAATACGAGAA
1 TTTTTAAAACACGAGAA
*
86078644 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
86078661 TTTTTAAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
86078678 TTTTTTTTTTAAAACACGA-AA
1 -----TTTTTAAAACACGAGAA
* *
86078699 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTT-AAAACACGAGAA
* *
86078721 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
86078738 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
86078755 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
*
86078772 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAGAA
* *
86078790 TTATTGAAAGCACGA-AGA
1 TT-TTTAAAACACGAGA-A
* * *
86078808 TTTATAAAAAACGACAA
1 TTTTTAAAACACGAGAA
* *
86078825 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGAG-AA
* * *
86078843 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAGAA
* *
86078860 TTTTTTCAAACACGAAAA
1 -TTTTTAAAACACGAGAA
*
86078878 CTTTTGAAAAC
1 -TTTTTAAAAC
86078889 GCGAAAATTC
Statistics
Matches: 318, Mismatches: 64, Indels: 77
0.69 0.14 0.17
Matches are distributed among these distances:
13 3 0.01
14 7 0.02
15 6 0.02
16 14 0.04
17 114 0.36
18 103 0.32
19 11 0.03
20 19 0.06
21 23 0.07
22 18 0.06
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:86078662 original size:17 final size:17
Alignment explanation
Indices: 86078624--86078897 Score: 154
Period size: 17 Copynumber: 15.4 Consensus size: 17
86078614 TTCTTAAAAA
* *
86078624 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
86078640 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
86078657 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
*
86078675 AAATTTTTTTTTTAAAACACG
1 AAA----ATTTTTAAAACACG
* *
86078696 AAATTTTTTTTTGAAAACAAG
1 AAA---ATTTTT-AAAACACG
* *
86078717 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
86078734 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
86078751 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
86078768 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
86078786 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
86078804 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
86078821 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
86078838 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
86078856 AAAATTTTTTCAAACACG
1 AAAA-TTTTTAAAACACG
* *
86078874 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
86078892 AAAATT
1 AAAATT
86078898 CGAAAATTTC
Statistics
Matches: 201, Mismatches: 46, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
16 7 0.03
17 86 0.43
18 68 0.34
19 5 0.02
20 9 0.04
21 14 0.07
22 12 0.06
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:86078687 original size:22 final size:22
Alignment explanation
Indices: 86078661--86078725 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
86078651 AACACGAAAA
86078661 TTTTTAAAACACGGAAATTTTT
1 TTTTTAAAACACGGAAATTTTT
86078683 TTTTTAAAACAC-GAAATTTTT
1 TTTTTAAAACACGGAAATTTTT
* * *
86078704 TTTTGAAAACAAGAAAATTTTT
1 TTTTTAAAACACGGAAATTTTT
86078726 GAAACACTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 19 0.49
22 20 0.51
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (22 bp):
TTTTTAAAACACGGAAATTTTT
Found at i:86078698 original size:21 final size:21
Alignment explanation
Indices: 86078661--86078725 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
86078651 AACACGAAAA
86078661 TTTTTAAAACACGGAAATTTTT
1 TTTTTAAAACAC-GAAATTTTT
86078683 TTTTTAAAACACGAAATTTTT
1 TTTTTAAAACACGAAATTTTT
* * *
86078704 TTTTGAAAACAAGAAAATTTT
1 TTTTTAAAACACGAAATTTTT
86078725 T
1 T
86078726 GAAACACTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 28 0.70
22 12 0.30
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (21 bp):
TTTTTAAAACACGAAATTTTT
Found at i:86078776 original size:94 final size:87
Alignment explanation
Indices: 86078594--86078765 Score: 218
Period size: 94 Copynumber: 1.9 Consensus size: 87
86078584 AAACAAGACA
* * *
86078594 TTTTTTTGAAACAAAATTTTTTCTTAAAAAAAAAATTTTAAATACGAGAATTTTTAAAACACGAA
1 TTTTTTTAAAACAAAATTTTTTCTTAAAAAAAAAATTTTAAACACGAGAATTTTGAAAACACGAA
86078659 AATTTTTAAAACACGGAAATTT
66 AATTTTTAAAACACGGAAATTT
* *
86078681 TTTTTTTAAAACACGAAATTTTTTTTTGAAAACAAGAAAATTTTTGAAACACTAGAATTTTGAAA
1 TTTTTTTAAAACA--AAATTTTTTCTT-AAAA-AA-AAAA-TTTT-AAACACGAGAATTTTGAAA
* *
86078746 ACACGAAGATTTTTGAAACA
59 ACACGAAAATTTTTAAAACA
86078766 TGAGAATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
87 12 0.17
89 11 0.15
90 4 0.06
91 2 0.03
92 4 0.06
93 4 0.06
94 34 0.48
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (87 bp):
TTTTTTTAAAACAAAATTTTTTCTTAAAAAAAAAATTTTAAACACGAGAATTTTGAAAACACGAA
AATTTTTAAAACACGGAAATTT
Found at i:86078893 original size:18 final size:18
Alignment explanation
Indices: 86078849--86078895 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
86078839 GAAATTTTTT
* **
86078849 AAACGCGAAAATTTTTTC
1 AAACGCGAAAACTTTTGA
*
86078867 AAACACGAAAACTTTTGA
1 AAACGCGAAAACTTTTGA
86078885 AAACGCGAAAA
1 AAACGCGAAAA
86078896 TTCGAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (18 bp):
AAACGCGAAAACTTTTGA
Found at i:86078941 original size:18 final size:17
Alignment explanation
Indices: 86078892--86078942 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
86078882 TGAAAACGCG
86078892 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
86078909 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
86078927 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
86078943 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:86079692 original size:29 final size:29
Alignment explanation
Indices: 86079659--86079775 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
86079649 TGTAATTTTT
*
86079659 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
86079688 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
86079718 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
86079747 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
86079776 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:86079714 original size:30 final size:30
Alignment explanation
Indices: 86079674--86079775 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
86079664 ATTTAGGATT
*
86079674 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
86079704 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
86079734 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
86079764 AAAATGCAATTT
1 AAAATGAAATTT
86079776 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:86079799 original size:17 final size:17
Alignment explanation
Indices: 86079773--86079809 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
86079763 CAAAATGCAA
86079773 TTTTTATTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
*
86079790 TTTTTTTTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
86079807 TTT
1 TTT
86079810 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTTTAAAT
Found at i:86081309 original size:15 final size:16
Alignment explanation
Indices: 86081289--86081318 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
86081279 TAACAAAAAG
86081289 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
86081304 AACCCAATAACCCAC
1 AACCCAATAACCCAC
86081319 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:86082842 original size:8 final size:8
Alignment explanation
Indices: 86082829--86082862 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
86082819 CATAATATAT
86082829 ATATTTTC
1 ATATTTTC
86082837 ATATTTTC
1 ATATTTTC
86082845 ATATTTT-
1 ATATTTTC
86082852 ATGATTTTC
1 AT-ATTTTC
86082861 AT
1 AT
86082863 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:86083269 original size:108 final size:109
Alignment explanation
Indices: 86083073--86083385 Score: 538
Period size: 109 Copynumber: 2.9 Consensus size: 109
86083063 AAATATTTCT
* *
86083073 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
86083138 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
*
86083181 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
86083246 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* * *
86083290 AAATAAGGCAATGTTTTACGTTTGAAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
86083355 TTTCTCGTTCAACCAAATAGCTAAACATCCT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCT
86083386 CTTGAATTTA
Statistics
Matches: 193, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
108 95 0.49
109 98 0.51
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
Found at i:86083348 original size:109 final size:108
Alignment explanation
Indices: 86083073--86083394 Score: 536
Period size: 108 Copynumber: 3.0 Consensus size: 108
86083063 AAATATTTCT
* *
86083073 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
86083138 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
*
86083181 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
86083246 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
* * *
86083290 AAATAAGGCAATGTTTTACGTTTGAAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * *
86083355 TTTCTCGTTCAACCAAATAGCTAAACATCCTCTTGAATTT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTT
86083395 AAATTCATGC
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
108 100 0.50
109 100 0.50
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (108 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
Found at i:86086186 original size:26 final size:27
Alignment explanation
Indices: 86086131--86086179 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
86086121 ATAAAATACA
*
86086131 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
86086158 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
86086180 TATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:86086860 original size:6 final size:6
Alignment explanation
Indices: 86086851--86086922 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
86086841 AAGAAAAAGA
* * * * * *
86086851 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATG AAAATG AAAATGAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT--C
86086901 AAAATC AAAAATC AAAAT- AAAA
1 AAAATC -AAAATC AAAATC AAAA
86086923 AAAACAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.07
6 43 0.74
7 6 0.10
8 5 0.09
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:86086860 original size:12 final size:12
Alignment explanation
Indices: 86086851--86086902 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
86086841 AAGAAAAAGA
*
86086851 AAAATCAAAATC
1 AAAATCAAAATG
*
86086863 AAAGTCAAAATG
1 AAAATCAAAATG
*
86086875 AAAATGAAAATG
1 AAAATCAAAATG
*
86086887 AAAATGAAAATG
1 AAAATCAAAATG
86086899 AAAA
1 AAAA
86086903 AATCAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (12 bp):
AAAATCAAAATG
Found at i:86086917 original size:21 final size:21
Alignment explanation
Indices: 86086887--86086932 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
86086877 AATGAAAATG
* * *
86086887 AAAATGAAAATGAAAAAATCA
1 AAAATCAAAATAAAAAAAACA
86086908 AAAATCAAAATAAAAAAAACA
1 AAAATCAAAATAAAAAAAACA
86086929 AAAA
1 AAAA
86086933 GAAGAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAATCAAAATAAAAAAAACA
Found at i:86086983 original size:51 final size:53
Alignment explanation
Indices: 86086901--86087000 Score: 134
Period size: 51 Copynumber: 1.9 Consensus size: 53
86086891 TGAAAATGAA
86086901 AAAATCAAAAATCAAAATAAAAAAAACAAAAAG-AAGAAAGAA-GAAAAAAATC
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAG-AAGAATGAAAAAAATC
* ** *
86086953 AAAATC-AAGATCAAAATAAAAATGAGAAAAAGAAAGAAGAATGAAAAA
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAA
86087001 GGAGAAATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 27 0.64
52 15 0.36
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (53 bp):
AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAAATC
Found at i:86087463 original size:20 final size:20
Alignment explanation
Indices: 86087438--86087477 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
86087428 CGTAAAATGA
*
86087438 TTTCTGGAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
*
86087458 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
86087478 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:86087493 original size:14 final size:15
Alignment explanation
Indices: 86087417--86087493 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
86087407 GATTGCCAGT
* *
86087417 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
86087431 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
86087445 AAAATGGTTTACTTTTCTGT
1 AAAAT-G---A-TTTTCTGG
*
86087465 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
86087480 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
86087494 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
19 1 0.02
20 11 0.22
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:86088546 original size:12 final size:13
Alignment explanation
Indices: 86088529--86088559 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
86088519 CTAAGTCAAA
86088529 AAAAATGA-AATG
1 AAAAATGAGAATG
86088541 AAAAATGAGAATG
1 AAAAATGAGAATG
86088554 AAAAAT
1 AAAAAT
86088560 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAATGAGAATG
Found at i:86089870 original size:43 final size:43
Alignment explanation
Indices: 86089822--86089952 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 43
86089812 AAAACAAAGC
86089822 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
* ** ** * * * ** * *
86089865 CTTGCCTTCCTACGTTAACAACGAAGCAGATCGAA-AA-CAAAC
1 CTTGCCTTCATTGGTT-ACAGTGGAGCTGGTTAAAGAAGCAGAT
* *
86089907 CTTCCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
86089950 CTT
1 CTT
86089953 ATCTTCCTAC
Statistics
Matches: 59, Mismatches: 26, Indels: 6
0.65 0.29 0.07
Matches are distributed among these distances:
41 10 0.17
42 17 0.29
43 21 0.36
44 11 0.19
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
CTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGAT
Found at i:86089952 original size:85 final size:86
Alignment explanation
Indices: 86089808--86089983 Score: 282
Period size: 85 Copynumber: 2.1 Consensus size: 86
86089798 ATCAGTGAAC
* *
86089808 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCCTTCCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTACCTT
*
86089873 CCTACGTTAACAACGAAGCAG
66 CCTACATTAACAACGAAGCAG
* *
86089894 ATCGAAAACAAA-CCTTCCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTATCTT
1 ATCGAAAACAAAGCCTTCCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTACCTT
* *
86089958 CCTACATTGACAACGAAGTAG
66 CCTACATTAACAACGAAGCAG
86089979 ATCGA
1 ATCGA
86089984 GGACACAAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 71 0.86
86 12 0.14
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (86 bp):
ATCGAAAACAAAGCCTTCCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTACCTT
CCTACATTAACAACGAAGCAG
Found at i:86090260 original size:43 final size:44
Alignment explanation
Indices: 86090117--86090324 Score: 169
Period size: 46 Copynumber: 4.8 Consensus size: 44
86090107 TTGGAAATTT
* * * * * *
86090117 CAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTG
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAG-A-TA
* *
86090163 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGATA
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAGATA
* * * *
86090207 TA-ATCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAA-ATCA
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAGAT-A
* * *
86090249 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCAT-
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAG-ATA
* * *
86090290 CAGGTCTTATCTCCTTGAGGTTACAGTGGAGCAGA
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
86090325 CTAAAACCAC
Statistics
Matches: 134, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
41 31 0.23
42 21 0.16
43 25 0.19
44 18 0.13
45 1 0.01
46 38 0.28
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAGATA
Done.