Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 27 of 141
Found at i:8986436 original size:12 final size:12
Alignment explanation
Indices: 8986419--8986446 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8986409 ATAAATCCTT
8986419 TCTCTAATATTC
1 TCTCTAATATTC
8986431 TCTCTAATATTC
1 TCTCTAATATTC
8986443 TCTC
1 TCTC
8986447 AATTTCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTAATATTC
Found at i:8989018 original size:7 final size:7
Alignment explanation
Indices: 8989003--8989056 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
8988993 TAACGTATTG
8989003 TAAACCC
1 TAAACCC
*
8989010 TAAATCC
1 TAAACCC
8989017 TAAACCC
1 TAAACCC
* *
8989024 TAAATCA
1 TAAACCC
*
8989031 TAAACCT
1 TAAACCC
**
8989038 TAAACAT
1 TAAACCC
8989045 TAAACCC
1 TAAACCC
8989052 TAAAC
1 TAAAC
8989057 TTGTACCGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:8989056 original size:14 final size:14
Alignment explanation
Indices: 8989003--8989055 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
8988993 TAACGTATTG
*
8989003 TAAACCCTAAATCC
1 TAAACCCTAAATCA
8989017 TAAACCCTAAATCA
1 TAAACCCTAAATCA
*
8989031 TAAACCTTAAA-CA
1 TAAACCCTAAATCA
8989044 TTAAACCCTAAA
1 -TAAACCCTAAA
8989056 CTTGTACCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
13 2 0.06
14 33 0.94
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:8990303 original size:126 final size:125
Alignment explanation
Indices: 8990078--8990345 Score: 473
Period size: 126 Copynumber: 2.1 Consensus size: 125
8990068 TGCGCCACTG
*
8990078 TAGCAAAAGCGCGTCCACGTAGGAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAA
1 TAGCAAAAGCGCGTCCACGTAGGAGCTTTTTTCAATACTTCTGCTGACAAAGCATCCTGCTTAAA
*
8990143 CCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTA
66 CCGTTTTTGACACTGTTTGCTCAAAAACGTCTACTCGAAATTA-TTTTTCAGGAGCTACTA
* *
8990204 TAGCAAAGGCGCGTCCACGTGGGAGCTTTTTTCAATACTTCTGCTGACAAAGCATCCTGCTTAAA
1 TAGCAAAAGCGCGTCCACGTAGGAGCTTTTTTCAATACTTCTGCTGACAAAGCATCCTGCTTAAA
* *
8990269 GCGTTTTTGACACTGTTTGCTCAAAAACGTCTACTCGAAATTATTTTTCAGGAGCTACTG
66 CCGTTTTTGACACTGTTTGCTCAAAAACGTCTACTCGAAATTATTTTTCAGGAGCTACTA
8990329 TAGCAAAAGCGCGTCCA
1 TAGCAAAAGCGCGTCCA
8990346 ACCCTAATCT
Statistics
Matches: 135, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 32 0.24
126 103 0.76
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (125 bp):
TAGCAAAAGCGCGTCCACGTAGGAGCTTTTTTCAATACTTCTGCTGACAAAGCATCCTGCTTAAA
CCGTTTTTGACACTGTTTGCTCAAAAACGTCTACTCGAAATTATTTTTCAGGAGCTACTA
Found at i:8991339 original size:21 final size:19
Alignment explanation
Indices: 8991301--8991340 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8991291 TTGTAAATTT
8991301 TATTTTTAAAAATTATATA
1 TATTTTTAAAAATTATATA
*
8991320 TATTTTTATAATATT-TATA
1 TATTTTTA-AAAATTATATA
8991339 TA
1 TA
8991341 CCTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTTAAAAATTATATA
Found at i:8992730 original size:6 final size:6
Alignment explanation
Indices: 8992719--8992764 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
8992709 AGTAGCAATG
* *
8992719 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GAAGAA GCAGGA GCAG
1 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAG
8992765 TCGCAGGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.48, T:0.00
Consensus pattern (6 bp):
GCAGGA
Found at i:8998890 original size:6 final size:6
Alignment explanation
Indices: 8998875--8998910 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
8998865 CCCGCCCCGC
*
8998875 CCTGCA CCTGCT CCTGCT CCTGCT CCTGCT -CTGCT C
1 CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT C
8998911 TTCATATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.03, C:0.50, G:0.17, T:0.31
Consensus pattern (6 bp):
CCTGCT
Found at i:9015593 original size:20 final size:21
Alignment explanation
Indices: 9015551--9015596 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9015541 AAGAAAATAG
9015551 CAATAAAACAATAAAATACAA
1 CAATAAAACAATAAAATACAA
*
9015572 CAATAAAGCAATAAAA-ACAA
1 CAATAAAACAATAAAATACAA
9015592 CAATA
1 CAATA
9015597 GTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.70, C:0.15, G:0.02, T:0.13
Consensus pattern (21 bp):
CAATAAAACAATAAAATACAA
Found at i:9019969 original size:50 final size:50
Alignment explanation
Indices: 9019906--9020469 Score: 335
Period size: 50 Copynumber: 11.3 Consensus size: 50
9019896 GATTTGCCAT
* *
9019906 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
** * * * * * * **
9019956 TGTGGCTTTAATCTGCTTCACTGCACTGCCTGGGAAGTAACACTCGTCGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
* * * * * **
9020006 TGTGGCTTTAGTCTTTTTAATTGCAATGTCGGGGAAGCAAGATACGCCAA
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
** ** * ** * * *
9020056 TGTGGCTTTAATCTGATCCACTGC-ATCACCTAGGAGGTAAGATTCACTGC
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GCCGGGGAAGCAAGATTCACCGC
* * * * * * * **
9020106 TATAGCTTTAATCTTCTGAAATGCACA-GACGGGGGAGCAAGATTCACCAA
1 TGTGGCTTTAATCTTTTTAACTGCA-ATGCCGGGGAAGCAAGATTCACCGC
** * * * * *
9020156 TGTGGCTTTAAT-TTGTTCCACTGTACTGCCTGAGG-AGTAAGATTCACCGT
1 TGTGGCTTTAATCTT-TTTAACTGCAATGCC-GGGGAAGCAAGATTCACCGC
* * ** *
9020206 TATAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
* ** ** * * * * *
9020256 TGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
* * * * * *
9020306 TGTAGCTTTAACCTTTTTAACTGTAATGTCAGGGAGGCAAGATTCACCGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
** * ** * * * * * *
9020356 TCAGGCTTTAATCTGTTCCACTGCACTGCCTGGGAGGTAAGATTCGCTGC
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
* * * *
9020406 TGTAGCTTTAATCTTTTTAATTGCAATGCCGGGGAAGCAAGATTCGCCGT
1 TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
9020456 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
9020470 GTTCCACTAC
Statistics
Matches: 366, Mismatches: 140, Indels: 16
0.70 0.27 0.03
Matches are distributed among these distances:
49 7 0.02
50 353 0.96
51 5 0.01
52 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGC
Found at i:9020063 original size:100 final size:100
Alignment explanation
Indices: 9019910--9020498 Score: 702
Period size: 100 Copynumber: 5.9 Consensus size: 100
9019900 TGCCATTGTG
9019910 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTC
* * * *
9019974 CACTGCACTGCCTGGGAAGTAACACTCG-TCGCTGTG
65 CACTGCACTGCCTGGGAGGTAAGATTCGCT-GCTGTA
* * * * ** *
9020010 GCTTTAGTCTTTTTAATTGCAATGTCGGGGAAGCAAGATACGCCAATGTGGCTTTAATCTGATCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * * *
9020075 ACTGCA-TCACCTAGGAGGTAAGATTCACTGCTATA
66 ACTGCACT-GCCTGGGAGGTAAGATTCGCTGCTGTA
* * * * * ** *
9020110 GCTTTAATCTTCTGAAATGCACA-GACGGGGGAGCAAGATTCACCAATGTGGCTTTAATTTGTTC
1 GCTTTAATCTTTTTAACTGCA-ATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTC
* * * * *
9020174 CACTGTACTGCCTGAGGA-GTAAGATTCACCGTTATA
65 CACTGCACTGCCTG-GGAGGTAAGATTCGCTGCTGTA
*
9020210 GCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
*
9020275 ACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTA
66 ACTGCACTGCCTGGGAGGTAAGATTCGCTGCTGTA
* * * * * **
9020310 GCTTTAACCTTTTTAACTGTAATGTCAGGGAGGCAAGATTCACCGCTCAGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
9020375 ACTGCACTGCCTGGGAGGTAAGATTCGCTGCTGTA
66 ACTGCACTGCCTGGGAGGTAAGATTCGCTGCTGTA
* * *
9020410 GCTTTAATCTTTTTAATTGCAATGCCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * * *
9020475 ACTACACCGCTTGGGAGATAAGAT
66 ACTGCACTGCCTGGGAGGTAAGAT
9020499 CTGTAATTCT
Statistics
Matches: 413, Mismatches: 68, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
99 6 0.01
100 401 0.97
101 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
ACTGCACTGCCTGGGAGGTAAGATTCGCTGCTGTA
Found at i:9020678 original size:98 final size:98
Alignment explanation
Indices: 9020552--9021188 Score: 579
Period size: 98 Copynumber: 6.5 Consensus size: 98
9020542 GATTACTGGC
* * * * * *
9020552 TTTAATCTGTTCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATTTACT
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
* *
9020617 CTATTGTAACTTCAGAGAGATAAGATCCTTTAT
66 CTACTGTAACTTCAGAGAGATAAGATCATTTAT
* *
9020650 TTTAATCCGCTCCACTGTAATCTCAGGGAGATGAGATTACTAGCTTCAATCTGCTGCGATTTACT
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
*
9020715 CTACTGTAACTTCAGAAAGATAAGATCATTTAT
66 CTACTGTAACTTCAGAGAGATAAGATCATTTAT
* * *
9020748 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGTTGCGATCTACT
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
9020813 CTACTGTAACTTCAGAGAGATAAGATCATTTAT
66 CTACTGTAACTTCAGAGAGATAAGATCATTTAT
* *
9020846 TTTAATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA--T-ATGC----T-C-
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
* * * * **
9020902 C-GCTGTAA-TATTAGGGAGATAAGAT-TTTTGGC
66 CTACTGTAACT-TCAGAGAGATAAGATCATTT-AT
* * * * * * *
9020934 TTCAATCTGCTCCACTGTAA-CATTAGGGAGATAAGATTCACCA-TTTCCGAT-TAGAAATTCTT
1 TTTAATCCGCTCCACTGTAATC-TCAGGGAGATAAGATT-ACTAGCTT-CAATCT-G--ATGC--
* * * * * * * * ***
9020996 TGGTCTAATCCACTGTAATCTT-AGGGAAAT-AGAATTACTGGC
58 -GATTTACTCTACTGTAA-CTTCAGAGAGATAAG-ATCATTTAT
* * * * * * *
9021038 TTCAATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACT
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
*
9021103 CTACTGTAACTTCAGAGAGATAAGATCCTTTAT
66 CTACTGTAACTTCAGAGAGATAAGATCATTTAT
* * *
9021136 TTTAATCCGTTCCACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTG
1 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
9021189 CTCCGCTGTA
Statistics
Matches: 442, Mismatches: 68, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
87 5 0.01
88 52 0.12
89 6 0.01
90 2 0.00
91 1 0.00
94 3 0.01
95 3 0.01
96 1 0.00
97 3 0.01
98 295 0.67
99 2 0.00
101 4 0.01
103 8 0.02
104 54 0.12
105 2 0.00
106 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (98 bp):
TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATTTACT
CTACTGTAACTTCAGAGAGATAAGATCATTTAT
Found at i:9020780 original size:44 final size:44
Alignment explanation
Indices: 9020713--9020878 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
9020703 CTGCGATTTA
**
9020713 CTCTACTGTAA-CTTCAGAAAGATAAGATCATTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCATTTATTTTAATCCG
* * * * **
9020757 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGTTGCGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGA-T-C-A--TT-TAT-T-TT--AATCCG
*
9020811 CTCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCATTTATTTTAATCCG
9020855 CTCTACTGTAATCTCAGGGAGATA
1 CTCTACTGTAATCTCAGGGAGATA
9020879 GGATTACTAG
Statistics
Matches: 93, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
44 45 0.48
45 3 0.03
46 3 0.03
47 2 0.02
48 2 0.02
49 4 0.04
50 2 0.02
51 2 0.02
52 3 0.03
53 2 0.02
54 25 0.27
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
CTCTACTGTAATCTCAGGGAGATAAGATCATTTATTTTAATCCG
Found at i:9020908 original size:44 final size:44
Alignment explanation
Indices: 9020854--9020971 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
9020844 ATTTTAATCC
* * *
9020854 GCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
1 GCTCCACTGTAATCTTAGGGAGATAAGATTACTAGCTTCAATAT
* * ** * *
9020898 GCTCCGCTGTAATATTAGGGAGATAAGATTTTTGGCTTCAATCT
1 GCTCCACTGTAATCTTAGGGAGATAAGATTACTAGCTTCAATAT
9020942 GCTCCACTGTAA-CATTAGGGAGATAAGATT
1 GCTCCACTGTAATC-TTAGGGAGATAAGATT
9020972 CACCATTTCC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
GCTCCACTGTAATCTTAGGGAGATAAGATTACTAGCTTCAATAT
Found at i:9021198 original size:44 final size:44
Alignment explanation
Indices: 9021146--9021403 Score: 234
Period size: 44 Copynumber: 5.6 Consensus size: 44
9021136 TTTAATCCGT
* *
9021146 TCCACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
* * *
9021190 TCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA--T-CT--G--C
* * * * * *
9021241 TACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAGATTA-CTAGCTTCAATCTGC
* *
9021288 TCCACTGTAATCTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
* * *
9021332 TCCGCTCTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
9021376 TCCACTGTAA-CATCAGGGAGATAAGATT
1 TCCACTGTAATC-TCAGGGAGATAAGATT
9021404 CACCATTTTC
Statistics
Matches: 171, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
43 3 0.02
44 126 0.74
45 2 0.01
46 2 0.01
47 4 0.02
49 2 0.01
51 3 0.02
52 2 0.01
53 1 0.01
54 24 0.14
55 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGC
Found at i:9021251 original size:98 final size:91
Alignment explanation
Indices: 9021149--9021403 Score: 250
Period size: 98 Copynumber: 2.8 Consensus size: 91
9021139 AATCCGTTCC
*
9021149 ACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTGCTCCGCTGTAATATCAGGGAGATAA
1 ACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTGCTCCACTGTAATATCAGGGAGATAA
** *
9021214 GATTTCTAGCTTCAATCTGCTGCGATCTACTCT
66 GATTAATAGCTTCAA--T-CTGC--TC--CGCT
* * * * * * *
9021247 ACTGTAA-CTTCA-GAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGAT
1 ACTGTAATC-TCAGGA-AGATAAGATTACTAACTTCAATCTGCTCCACTGTAATATCAGGGAGAT
*
9021310 AGGATTAATAGCTTCAATCTGCTCCGCT
64 AAGATTAATAGCTTCAATCTGCTCCGCT
* * * *
9021338 -C--TAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGCTCCACTGTAACATCAGGGAGATAA
1 ACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTGCTCCACTGTAATATCAGGGAGATAA
9021400 GATT
66 GATT
9021404 CACCATTTTC
Statistics
Matches: 129, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
88 49 0.38
89 2 0.02
90 1 0.01
91 3 0.02
93 2 0.02
95 4 0.03
96 1 0.01
97 3 0.02
98 64 0.50
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (91 bp):
ACTGTAATCTCAGGAAGATAAGATTACTAACTTCAATCTGCTCCACTGTAATATCAGGGAGATAA
GATTAATAGCTTCAATCTGCTCCGCT
Found at i:9021375 original size:142 final size:142
Alignment explanation
Indices: 9020751--9021376 Score: 761
Period size: 142 Copynumber: 4.4 Consensus size: 142
9020741 CATTTATTTT
* * * * * *
9020751 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGTTGCGATCTACTCTA
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
*
9020816 CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCTACTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
9020881 ATTACTAGCTTC
131 ATTACTAGCTTC
* * * *
9020893 AATATGCTCCGCTGTAATATTAGGGAGATAAGATTTTTGGCTTCAA--T-CT--G--CT-C-C-A
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
* ** *
9020948 CTGTAACATT-AGGGAGATAAGATTCACCATTTCCGATTAGAAATTCTTTGGTCTAATCCACTGT
66 CTGTAAC-TTCAGAGAGATAAGA-T---CATTT---ATT-TTAA-TC---CG-C---TCCACTGT
* * * *
9021012 AATCTTAGGGAAATAGAATTACTGGCTTC
114 AATCTCAGGGAGATAGGATTACTAGCTTC
* *
9021041 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
* * * *
9021106 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGAAGATAAG
66 CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
*
9021171 ATTACTAACTTC
131 ATTACTAGCTTC
9021183 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
9021248 CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
*
9021313 ATTAATAGCTTC
131 ATTACTAGCTTC
* *
9021325 AATCTGCTCCGCTCTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGCT
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCT
9021377 CCACTGTAAC
Statistics
Matches: 410, Mismatches: 46, Indels: 56
0.80 0.09 0.11
Matches are distributed among these distances:
132 19 0.05
133 4 0.01
134 1 0.00
135 2 0.00
136 5 0.01
137 1 0.00
139 4 0.01
140 3 0.01
141 2 0.00
142 251 0.61
144 1 0.00
145 1 0.00
146 1 0.00
148 75 0.18
149 2 0.00
150 3 0.01
151 4 0.01
153 1 0.00
154 4 0.01
155 2 0.00
156 1 0.00
157 4 0.01
158 19 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCTGCGATCTACTCTA
CTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTC
Found at i:9023804 original size:6 final size:6
Alignment explanation
Indices: 9023795--9023843 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
9023785 CATTTTGGCC
*
9023795 TTGATT TTGATT TTGATTT TTTATT CTT--TT TT-ATT TTGATT TTGATT
1 TTGATT TTGATT TTGA-TT TTGATT -TTGATT TTGATT TTGATT TTGATT
9023842 TT
1 TT
9023844 TTTGAGCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 2 0.05
5 6 0.16
6 23 0.61
7 7 0.18
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.73
Consensus pattern (6 bp):
TTGATT
Found at i:9025000 original size:11 final size:11
Alignment explanation
Indices: 9024986--9025112 Score: 55
Period size: 11 Copynumber: 12.4 Consensus size: 11
9024976 TAAATACCAA
9024986 AAAAATATTTT
1 AAAAATATTTT
***
9024997 AAAAAT-TAAA
1 AAAAATATTTT
9025007 AAAAATTATTTT
1 AAAAA-TATTTT
9025019 -AAAATATTTT
1 AAAAATATTTT
*
9025029 --TAA-A-T-T
1 AAAAATATTTT
*
9025035 AAAAAAATTTT
1 AAAAATATTTT
*
9025046 ACAAAGTATTTT
1 A-AAAATATTTT
9025058 AAAAATATTTT
1 AAAAATATTTT
9025069 --AAA-A--TT
1 AAAAATATTTT
*
9025075 -AAAATAATTTA
1 AAAAAT-ATTTT
9025086 AAAAAGTATTTT
1 AAAAA-TATTTT
*
9025098 AAAAGTATTTT
1 AAAAATATTTT
9025109 AAAA
1 AAAA
9025113 TTAAAAAAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 30
0.66 0.11 0.23
Matches are distributed among these distances:
6 3 0.03
7 4 0.05
8 4 0.05
9 7 0.08
10 13 0.15
11 33 0.38
12 22 0.25
13 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9025043 original size:40 final size:39
Alignment explanation
Indices: 9024997--9025128 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 39
9024987 AAAATATTTT
* *
9024997 AAAAATTAAAAAAAATTATTTTAAAATATTTTTAAATTAA
1 AAAAATT-AAAAAAAGTATTTTAAAATATTTTAAAATTAA
** *
9025037 AAAAATTTTACAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTT-AAAATATTTTAAAATTAA
* *
9025077 AATAATTTAAAAAAGTATTTTAAAAGTATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAA-TATTTTAAAATTAA
9025117 AAAAA-TAAAAAA
1 AAAAATTAAAAAA
9025129 TAAAATATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 20 0.25
40 60 0.75
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (39 bp):
AAAAATTAAAAAAAGTATTTTAAAATATTTTAAAATTAA
Found at i:9032416 original size:13 final size:13
Alignment explanation
Indices: 9032398--9032476 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
9032388 TCGATTTTTC
9032398 CTAAATATTATCA
1 CTAAATATTATCA
*
9032411 CTAAATA--AT-T
1 CTAAATATTATCA
9032421 CTAAATATTATCA
1 CTAAATATTATCA
*
9032434 CTAAATATTATAA
1 CTAAATATTATCA
* *
9032447 GTAAATA--AT-T
1 CTAAATATTATCA
9032457 CTAAATATTATCA
1 CTAAATATTATCA
9032470 CTAAATA
1 CTAAATA
9032477 ATTCTAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
10 13 0.25
11 4 0.08
12 4 0.08
13 32 0.60
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:9032438 original size:36 final size:36
Alignment explanation
Indices: 9032398--9032476 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
9032388 TCGATTTTTC
*
9032398 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATAACTAAATAATTCTAAATATTATCA
*
9032434 CTAAATATTATAAGTAAATAATTCTAAATATTATCA
1 CTAAATATTATAACTAAATAATTCTAAATATTATCA
9032470 CTAAATA
1 CTAAATA
9032477 ATTCTAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.38
Consensus pattern (36 bp):
CTAAATATTATAACTAAATAATTCTAAATATTATCA
Found at i:9032460 original size:23 final size:23
Alignment explanation
Indices: 9032434--9032485 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
9032424 AATATTATCA
*
9032434 CTAAATATTATAAGTAAATAATT
1 CTAAATATTATAACTAAATAATT
*
9032457 CTAAATATTATCACTAAATAATT
1 CTAAATATTATAACTAAATAATT
9032480 CTAAAT
1 CTAAAT
9032486 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (23 bp):
CTAAATATTATAACTAAATAATT
Found at i:9032498 original size:23 final size:23
Alignment explanation
Indices: 9032434--9032498 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
9032424 AATATTATCA
* *
9032434 CTAAATATTATAAGTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
9032457 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
9032480 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
9032499 TTAAACTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:9036857 original size:18 final size:18
Alignment explanation
Indices: 9036820--9036855 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9036810 ACTTGAAATC
9036820 ATAAAAAAAATAAAGGGG
1 ATAAAAAAAATAAAGGGG
*
9036838 ATAAACAAAAATATAGGG
1 ATAAA-AAAAATAAAGGG
9036856 ATTTTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (18 bp):
ATAAAAAAAATAAAGGGG
Found at i:9036994 original size:13 final size:13
Alignment explanation
Indices: 9036978--9037002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9036968 ATAATACTTT
9036978 TTATATTTAATTA
1 TTATATTTAATTA
9036991 TTATATTTAATT
1 TTATATTTAATT
9037003 TTAAAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATTTAATTA
Found at i:9049297 original size:20 final size:20
Alignment explanation
Indices: 9049259--9049297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9049249 GGTTCATGCC
* *
9049259 TTTCAGTTACGTATTTCATA
1 TTTCAGTTACATATATCATA
*
9049279 TTTCAGTTATATATATCAT
1 TTTCAGTTACATATATCAT
9049298 TCATGTCACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTCAGTTACATATATCATA
Found at i:9049652 original size:24 final size:24
Alignment explanation
Indices: 9049625--9049706 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 24
9049615 TTTATATTTA
9049625 ATTTTAAAAAATATAATTTATTAT
1 ATTTTAAAAAATATAATTTATTAT
* * * *
9049649 ATTTTTTCTTATAAATAT-TTTTATATTT
1 A---TTT-TAAAAAATATAATTTAT-TAT
9049677 AATTTTAAAAAATATAATTTATTAT
1 -ATTTTAAAAAATATAATTTATTAT
9049702 ATTTT
1 ATTTT
9049707 TACATTACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 6 0.14
25 10 0.23
26 8 0.19
27 8 0.19
28 10 0.23
29 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTAAAAAATATAATTTATTAT
Found at i:9049667 original size:53 final size:54
Alignment explanation
Indices: 9049599--9049707 Score: 211
Period size: 53 Copynumber: 2.0 Consensus size: 54
9049589 AAAGTAGAGA
9049599 TTTCTTATAATATATTTTTATATTTAATTTTAAAAAATATAATTTATTATATTT
1 TTTCTTATAATATATTTTTATATTTAATTTTAAAAAATATAATTTATTATATTT
9049653 TTTCTTATAA-ATATTTTTATATTTAATTTTAAAAAATATAATTTATTATATTT
1 TTTCTTATAATATATTTTTATATTTAATTTTAAAAAATATAATTTATTATATTT
9049706 TT
1 TT
9049708 ACATTACATT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 45 0.82
54 10 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (54 bp):
TTTCTTATAATATATTTTTATATTTAATTTTAAAAAATATAATTTATTATATTT
Found at i:9049681 original size:29 final size:29
Alignment explanation
Indices: 9049599--9049682 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 29
9049589 AAAGTAGAGA
9049599 TTTCTTATAATATATTTTTATATTTAA---
1 TTTCTTATAA-ATATTTTTATATTTAATTT
* * **
9049626 TTT-TAAAAAATATAATT-TA-TTATATTT
1 TTTCTTATAAATATTTTTATATTTA-ATTT
9049653 TTTCTTATAAATATTTTTATATTTAATTT
1 TTTCTTATAAATATTTTTATATTTAATTT
9049682 T
1 T
9049683 AAAAAATATA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 6 0.14
26 4 0.10
27 6 0.14
28 10 0.24
29 7 0.17
30 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTCTTATAAATATTTTTATATTTAATTT
Found at i:9049701 original size:29 final size:27
Alignment explanation
Indices: 9049607--9049705 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 27
9049597 GATTTCTTAT
9049607 AATATATTTTTATATTTAATTTTAAAA
1 AATATATTTTTATATTTAATTTTAAAA
* *
9049634 AATATAATTTATTATATTT--TTTCT-TAT
1 AATAT-ATTT-TTATATTTAATTT-TAAAA
9049661 AA-ATATTTTTATATTTAATTTTAAAA
1 AATATATTTTTATATTTAATTTTAAAA
9049687 AATATAATTTATTATATTT
1 AATAT-ATTT-TTATATTT
9049706 TTACATTACA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
24 8 0.14
25 5 0.08
26 8 0.14
27 13 0.22
28 9 0.15
29 16 0.27
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (27 bp):
AATATATTTTTATATTTAATTTTAAAA
Found at i:9051979 original size:21 final size:21
Alignment explanation
Indices: 9051954--9051993 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9051944 TTAAAAATAT
*
9051954 AATTTAGTATATTT-TGTAAGA
1 AATTTACTA-ATTTGTGTAAGA
9051975 AATTTACTAATTTGTGTAA
1 AATTTACTAATTTGTGTAA
9051994 AGTATAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (21 bp):
AATTTACTAATTTGTGTAAGA
Found at i:9077434 original size:30 final size:31
Alignment explanation
Indices: 9077392--9077461 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
9077382 CGTCAAAGGG
* *
9077392 CAAACC-TTTCAAAA-TGATTAAATAATGGC
1 CAAACCTTTTCAAAATTGATCAAACAATGGC
* *
9077421 CAAATCTTTTCAAAATTGCTCAAACAATGGC
1 CAAACCTTTTCAAAATTGATCAAACAATGGC
9077452 CAAACCTTTT
1 CAAACCTTTT
9077462 TGAAAGTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 8 0.24
31 21 0.62
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (31 bp):
CAAACCTTTTCAAAATTGATCAAACAATGGC
Found at i:9077453 original size:31 final size:30
Alignment explanation
Indices: 9077392--9077475 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 30
9077382 CGTCAAAGGG
* * *
9077392 CAAACC-TTTCAAAATGATTAAATAATGGC
1 CAAACCTTTTCAAAATGCTCAAACAATGGC
*
9077421 CAAATCTTTTCAAAATTGCTCAAACAATGGC
1 CAAACCTTTTCAAAA-TGCTCAAACAATGGC
* *
9077452 CAAACCTTTTTGAAAGTGCTCAAA
1 CAAACC-TTTTCAAAATGCTCAAA
9077476 TAAGGATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.11
30 8 0.18
31 25 0.56
32 7 0.16
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (30 bp):
CAAACCTTTTCAAAATGCTCAAACAATGGC
Found at i:9080158 original size:24 final size:24
Alignment explanation
Indices: 9080126--9080172 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9080116 ATGTAACCAC
9080126 CCTTCAATTGAACTATACATGATT
1 CCTTCAATTGAACTATACATGATT
* *
9080150 CCTTCAATTGAGCTTTACATGAT
1 CCTTCAATTGAACTATACATGAT
9080173 GCATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (24 bp):
CCTTCAATTGAACTATACATGATT
Found at i:9083376 original size:46 final size:46
Alignment explanation
Indices: 9083324--9083418 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
9083314 ACAAAGATAG
*
9083324 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
9083370 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
9083416 AAA
1 AAA
9083419 AGAAAATAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
Found at i:9083409 original size:24 final size:24
Alignment explanation
Indices: 9083336--9083409 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
9083326 ACCAAAATAT
9083336 TATCTCCTAAACTTTAGCATCT-A
1 TATCTCCTAAACTTTAGCATCTAA
* * ** *
9083359 -ATCTCCT-AA-TTAAACCAAAATAT
1 TATCTCCTAAACTT-TAGC-ATCTAA
9083382 TATCTCCTAAACTTTAGCATCTAA
1 TATCTCCTAAACTTTAGCATCTAA
9083406 TATC
1 TATC
9083410 CTAATTAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 11
0.62 0.18 0.20
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 9 0.26
24 14 0.40
25 4 0.11
26 2 0.06
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (24 bp):
TATCTCCTAAACTTTAGCATCTAA
Found at i:9088018 original size:84 final size:84
Alignment explanation
Indices: 9087877--9088045 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
9087867 TTTTGTTGAT
*
9087877 CAATGGGATGATTACAATGCTTCTTCAAAGACTCTATTTATAGGTATAAGAAGTATAAATGAAGT
1 CAATGGGATGATTACAATGCTTCTTCAAAGACTCTATTTATAGGTATAAGAAGTATAAATAAAGT
9087942 AGAGATCTAATTCTAATGA
66 AGAGATCTAATTCTAATGA
9087961 CAATGGGATGATTACAATGCTTCTTCAAAGACTCTATTTATAGGTATAAGAAGTATAAATAAAGT
1 CAATGGGATGATTACAATGCTTCTTCAAAGACTCTATTTATAGGTATAAGAAGTATAAATAAAGT
9088026 AGAGATCTAATTCTAATGA
66 AGAGATCTAATTCTAATGA
9088045 C
1 C
9088046 TATTAGAATT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (84 bp):
CAATGGGATGATTACAATGCTTCTTCAAAGACTCTATTTATAGGTATAAGAAGTATAAATAAAGT
AGAGATCTAATTCTAATGA
Found at i:9088174 original size:20 final size:18
Alignment explanation
Indices: 9088149--9088187 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9088139 TTATATATGT
9088149 TTCAAAAAATAATTTTTTTG
1 TTCAAAAAAT--TTTTTTTG
*
9088169 TTCAAATAATTTTTTTTG
1 TTCAAAAAATTTTTTTTG
9088187 T
1 T
9088188 AAAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCAAAAAATTTTTTTTG
Found at i:9088192 original size:17 final size:18
Alignment explanation
Indices: 9088154--9088199 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
9088144 TATGTTTCAA
9088154 AAAATAA-TTTTTTTGTT
1 AAAATAATTTTTTTTGTT
*
9088171 CAAATAATTTTTTTTG-T
1 AAAATAATTTTTTTTGTT
*
9088188 AAAATTATTTTT
1 AAAATAATTTTT
9088200 CGAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
AAAATAATTTTTTTTGTT
Found at i:9088323 original size:13 final size:13
Alignment explanation
Indices: 9088305--9088330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9088295 CAAAAAATAC
9088305 TTTTCAGTAGAAA
1 TTTTCAGTAGAAA
9088318 TTTTCAGTAGAAA
1 TTTTCAGTAGAAA
9088331 AAACTTTTTG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTTCAGTAGAAA
Found at i:9089265 original size:14 final size:14
Alignment explanation
Indices: 9089246--9089275 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9089236 GATTAGTTAC
9089246 TTAATTCTTTAAAT
1 TTAATTCTTTAAAT
9089260 TTAATTCTTTAAAT
1 TTAATTCTTTAAAT
9089274 TT
1 TT
9089276 TTATAACATT
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:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTCTTTAAAT
Found at i:9090857 original size:21 final size:21
Alignment explanation
Indices: 9090833--9090878 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
9090823 AAAAGCGTAA
9090833 ATTAAAACAA-CAAAATTTATT
1 ATTAAAACAATC-AAATTTATT
* *
9090854 ATTATACCAATCAAATTTATT
1 ATTAAAACAATCAAATTTATT
9090875 -TTAA
1 ATTAA
9090879 TTGATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 17 0.81
22 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAAACAATCAAATTTATT
Found at i:9090894 original size:62 final size:62
Alignment explanation
Indices: 9090815--9090932 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
9090805 ATCATGATCA
* *
9090815 AATTGATAAAAAGCGTAAATTAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
1 AATTGATAAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
* * *
9090877 AATTGATAAAAAACGTAAAATATAACAACCAAATTTGTTATTATACCAATCAAATT
1 AATTGATAAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATT
9090933 GACCGAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (62 bp):
AATTGATAAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
Found at i:9094981 original size:29 final size:30
Alignment explanation
Indices: 9094939--9094997 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
9094929 GATGGTTCAA
*
9094939 TGTGTAATTATATATATG-AATTTTAATTT
1 TGTGTAATTATATACATGAAATTTTAATTT
* *
9094968 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTAATTT
9094998 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGTAATTATATACATGAAATTTTAATTT
Found at i:9096634 original size:57 final size:58
Alignment explanation
Indices: 9096546--9096668 Score: 205
Period size: 57 Copynumber: 2.2 Consensus size: 58
9096536 TCAAACCCTA
* * *
9096546 CGTTTTGCTTTGGCTTGGATTTTTTTTTTTTTTTTTTTAATGGTTGGGTTTTTTGGG-
1 CGTTTTTCTTTGGCTTGGATTTTTTTTTTTTTTTTTATAATGGTTGGGTTTTATGGGT
9096603 CGTTTTTCTTTGGCTTGGATTTTTTTTTTTTTTTTTATAATGGTTGGGTTTTATGGGT
1 CGTTTTTCTTTGGCTTGGATTTTTTTTTTTTTTTTTATAATGGTTGGGTTTTATGGGT
9096661 C-TTTTTCT
1 CGTTTTTCT
9096669 GAAATCATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
57 61 0.98
58 1 0.02
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.65
Consensus pattern (58 bp):
CGTTTTTCTTTGGCTTGGATTTTTTTTTTTTTTTTTATAATGGTTGGGTTTTATGGGT
Found at i:9103989 original size:21 final size:22
Alignment explanation
Indices: 9103959--9104001 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9103949 ATTTTAACTT
9103959 TTTTTAAATAACAAAATAATTA
1 TTTTTAAATAACAAAATAATTA
* *
9103981 TTTTT-AATAATACAATAATTA
1 TTTTTAAATAACAAAATAATTA
9104002 AATTATTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTTAAATAACAAAATAATTA
Found at i:9106125 original size:18 final size:17
Alignment explanation
Indices: 9106087--9106135 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9106077 ACTCTCTCTC
*
9106087 TTTTTCTAATTTTCATA
1 TTTTTCTAATTTTAATA
9106104 TTTTTCTAAATTTTAAT-
1 TTTTTCT-AATTTTAATA
* *
9106121 TTTTTATTATTTTAA
1 TTTTTCTAATTTTAA
9106136 AATATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.25
17 13 0.46
18 8 0.29
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTCTAATTTTAATA
Found at i:9114271 original size:62 final size:56
Alignment explanation
Indices: 9114195--9114334 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 56
9114185 AATTGACGGT
* *
9114195 AAAAAGGATCTAGCCTGGACGGATGATCCTATCCTGATATAGTCCTCCCGAAGAATGTGTGTG
1 AAAAA-GATCTAGCCTGGACGGATGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTG-G
* *
9114258 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCTGGACGGATGATCTTGATATAGCCCTCCCGAAGAATATGTGG
** *
9114314 AAATGGATTTAGCCTGGACGG
1 AAAAAGATCTAGCCTGGACGG
9114335 GTAATCCGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
56 18 0.26
57 25 0.36
59 1 0.01
61 1 0.01
62 19 0.28
63 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (56 bp):
AAAAAGATCTAGCCTGGACGGATGATCTTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:9114614 original size:54 final size:54
Alignment explanation
Indices: 9114530--9114666 Score: 238
Period size: 54 Copynumber: 2.5 Consensus size: 54
9114520 TGCTCTCTTG
*
9114530 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
**
9114584 TTGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
*
9114638 CAGGGGATTTAGCCTGGACTAGTAATCCC
1 CAGGGGATTTAGCCTGGACTGGTAATCCC
9114667 ACTGTAAGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:9114652 original size:175 final size:175
Alignment explanation
Indices: 9114415--9114734 Score: 640
Period size: 175 Copynumber: 1.8 Consensus size: 175
9114405 GTTGCAGGGA
9114415 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGG
1 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGG
9114480 ACTAGTAATCCCACTGTAAGGAATAAGGTTGGCGGGAGTGTGCTCTCTTGCAGGGGATTTAGCCT
66 ACTAGTAATCCCACTGTAAGGAATAAGGTTGGCGGGAGTGTGCTCTCTTGCAGGGGATTTAGCCT
9114545 GGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATTGGGG
131 GGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATTGGGG
9114590 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGG
1 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGG
9114655 ACTAGTAATCCCACTGTAAGGAATAAGGTTGGCGGGAGTGTGCTCTCTTGCAGGGGATTTAGCCT
66 ACTAGTAATCCCACTGTAAGGAATAAGGTTGGCGGGAGTGTGCTCTCTTGCAGGGGATTTAGCCT
9114720 GGACTGGTAATCCCG
131 GGACTGGTAATCCCG
9114735 CTGTAAGGAT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 145 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (175 bp):
ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGG
ACTAGTAATCCCACTGTAAGGAATAAGGTTGGCGGGAGTGTGCTCTCTTGCAGGGGATTTAGCCT
GGACTGGTAATCCCGACAATACTCTGTGAGTTTATATTATTGGGG
Found at i:9121720 original size:213 final size:214
Alignment explanation
Indices: 9121459--9121886 Score: 849
Period size: 213 Copynumber: 2.0 Consensus size: 214
9121449 AATTTAAAAT
9121459 ATAATAATTAATTTATCTATCTTTTAAATAAAATTTAACTCCTAACATACAAAACTTTATGATAT
1 ATAATAATTAATTTATCTATCTTTTAAATAAAATTTAACTCCTAACATACAAAACTTTATGATAT
9121524 TTTTACCATAATTTATTTTATATATTTAAATCATAATAAAAGCCATACTCCAATACTTCACAAGT
66 TTTTACCATAATTTATTTTATATATTTAAATCATAATAAAAGCCATACTCCAATACTTCACAAGT
9121589 GTGACCCAGACTTCATTTGTCATAAAAAATTATACAATGCCTATGCGGATAGAGGTGCTCATGGG
131 GTGACCCAGACTTCATTTGTCATAAAAAATTATACAATGCCTATGCGGATAGAGGTGCTCATGGG
9121654 TTGGGCCGGGCTCAACTAA
196 TTGGGCCGGGCTCAACTAA
9121673 ATAATAATT-ATTTATCTATCTTTTAAATAAAATTTAACTCCTAACATACAAAACTTTATGATAT
1 ATAATAATTAATTTATCTATCTTTTAAATAAAATTTAACTCCTAACATACAAAACTTTATGATAT
9121737 TTTTACCATAATTTATTTTATATATTTAAATCATAATAAAAGCCATACTCCAATACTTCACAAGT
66 TTTTACCATAATTTATTTTATATATTTAAATCATAATAAAAGCCATACTCCAATACTTCACAAGT
9121802 GTGACCCAGACTTCATTTGTCATAAAAAATTATACAATGCCTATGCGGATAGAGGTGCTCATGGG
131 GTGACCCAGACTTCATTTGTCATAAAAAATTATACAATGCCTATGCGGATAGAGGTGCTCATGGG
9121867 TTGGGCCGGGCTCAACTAA
196 TTGGGCCGGGCTCAACTAA
9121886 A
1 A
9121887 AATTTAAGCC
Statistics
Matches: 214, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 205 0.96
214 9 0.04
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (214 bp):
ATAATAATTAATTTATCTATCTTTTAAATAAAATTTAACTCCTAACATACAAAACTTTATGATAT
TTTTACCATAATTTATTTTATATATTTAAATCATAATAAAAGCCATACTCCAATACTTCACAAGT
GTGACCCAGACTTCATTTGTCATAAAAAATTATACAATGCCTATGCGGATAGAGGTGCTCATGGG
TTGGGCCGGGCTCAACTAA
Found at i:9122043 original size:13 final size:11
Alignment explanation
Indices: 9122007--9122037 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9121997 CCGCCTGTAT
9122007 TAATTTTTATA
1 TAATTTTTATA
*
9122018 TTATTTTTATA
1 TAATTTTTATA
9122029 TAATTTTTA
1 TAATTTTTA
9122038 GATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:9122049 original size:22 final size:22
Alignment explanation
Indices: 9122007--9122050 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9121997 CCGCCTGTAT
* *
9122007 TAATTTTTATATTATTTTTATA
1 TAATTTTTAGATTATTATTATA
9122029 TAATTTTTAGA-TATATATTATA
1 TAATTTTTAGATTAT-TATTATA
9122051 CATCAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TAATTTTTAGATTATTATTATA
Found at i:9124863 original size:18 final size:18
Alignment explanation
Indices: 9124840--9124876 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9124830 ATTTTTGTAC
* *
9124840 ATAAAATTATCTTATAAA
1 ATAAAATAATCCTATAAA
9124858 ATAAAATAATCCTATAAA
1 ATAAAATAATCCTATAAA
9124876 A
1 A
9124877 AATATCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATAATCCTATAAA
Found at i:9125821 original size:9 final size:9
Alignment explanation
Indices: 9125807--9125882 Score: 109
Period size: 9 Copynumber: 8.4 Consensus size: 9
9125797 TTTAGTGAAA
9125807 AATTAACCG
1 AATTAACCG
*
9125816 AATTAACCT
1 AATTAACCG
9125825 AATTAACCG
1 AATTAACCG
* *
9125834 GATTACCCG
1 AATTAACCG
9125843 AATTAACCG
1 AATTAACCG
9125852 AATT-ACCTG
1 AATTAACC-G
9125861 AATTAACCG
1 AATTAACCG
9125870 AATTAACCG
1 AATTAACCG
9125879 AATT
1 AATT
9125883 GAATCACTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 3 0.05
9 53 0.90
10 3 0.05
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:9126024 original size:18 final size:18
Alignment explanation
Indices: 9125985--9126027 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9125975 TATGATTGGG
**
9125985 TTGGGTTGGGTTGGGTAA
1 TTGGGTTGGGTTGAATAA
*
9126003 TTGGGTTGGGTTGAATAC
1 TTGGGTTGGGTTGAATAA
9126021 TTGGGTT
1 TTGGGTT
9126028 TGGATTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.02, G:0.44, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTTGAATAA
Found at i:9132889 original size:27 final size:27
Alignment explanation
Indices: 9132849--9132961 Score: 219
Period size: 27 Copynumber: 4.2 Consensus size: 27
9132839 ATTATATTAA
9132849 GTGC-TTAAAATCATTCTAGATATGTC
1 GTGCTTTAAAATCATTCTAGATATGTC
9132875 GTGCTTTAAAATCATTCTAGATATGTC
1 GTGCTTTAAAATCATTCTAGATATGTC
9132902 GTGCTTTAAAATCATTCTAGATATGTC
1 GTGCTTTAAAATCATTCTAGATATGTC
9132929 GTGCTTTAAAATCATTCTAGATATGTC
1 GTGCTTTAAAATCATTCTAGATATGTC
9132956 GTGCTT
1 GTGCTT
9132962 GAGTTGTGAT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
26 4 0.05
27 82 0.95
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
GTGCTTTAAAATCATTCTAGATATGTC
Found at i:9134227 original size:40 final size:39
Alignment explanation
Indices: 9134174--9134313 Score: 106
Period size: 40 Copynumber: 3.6 Consensus size: 39
9134164 AACACACCAG
*
9134174 TTTGGCACCCAGTGCCTCATCGGATAATTGGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATT-GAAGTAATAA
* * * **
9134214 TTTGACACTCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGAT-AATTGAAGTAATAA
* * * *
9134252 -TTGGCACCCAGTGCCTTATCGAATTAATCTGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAAT-TGAAGTAATAA
* * *
9134292 ATTGACACTCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
9134314 ACTCGAAGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 11
0.71 0.18 0.10
Matches are distributed among these distances:
37 19 0.25
38 8 0.11
39 1 0.01
40 28 0.37
41 19 0.25
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGGATAATTGAAGTAATAA
Found at i:9135197 original size:5 final size:4
Alignment explanation
Indices: 9135159--9135235 Score: 68
Period size: 4 Copynumber: 18.2 Consensus size: 4
9135149 AACCCTTGCG
* *
9135159 TCTT TCTT TCTCT TTTT TCTT T-TT TCTT TCTT TCATT TCTG T-TT TCGTT
1 TCTT TCTT TCT-T TCTT TCTT TCTT TCTT TCTT TC-TT TCTT TCTT TC-TT
9135208 TGGCTT TCTTT TCTT TCTT TCTT TCTT T
1 T--CTT TC-TT TCTT TCTT TCTT TCTT T
9135236 TTTATTTGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 5 0.08
4 38 0.62
5 14 0.23
6 3 0.05
7 1 0.02
ACGTcount: A:0.01, C:0.21, G:0.05, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:9139215 original size:140 final size:141
Alignment explanation
Indices: 9138999--9139279 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 141
9138989 ATATTCTGAA
9138999 CCGTAGGGAAGACCATGTTATGGGGGTAATAATGTGCTGAGAAATGTCAAAAAAAAAAAAAAACT
1 CCGTAGGGAAGACCATGTTATGGGGGTAATAATGTGCTGAGAAATGTCAAAAAAAAAAAAAAACT
9139064 CAGCAGTGCAAATCTCTTGATGGCATTCTTAAATCTTTGATTTTGATGATCCTGCTGCTAATATG
66 CAGCAGTGCAAATCTCTTGATGGCATTCTTAAATCTTTGATTTTGATGATCCTGCTGCTAATATG
9139129 CAATTAATTTT
131 CAATTAATTTT
9139140 CCGTAGGGAA-ACCATGTTTAT-GGGGTAATAATGTGCTGAGAAATGTCAAAAAAAAAAAAAAAC
1 CCGTAGGGAAGACCATG-TTATGGGGGTAATAATGTGCTGAGAAATGTCAAAAAAAAAAAAAAAC
9139203 TCAGCAGTGCAAATCTCTTGATGGCATTCTTAAATCTTTGATTTTGATGATCCTGCTGCTAATAT
65 TCAGCAGTGCAAATCTCTTGATGGCATTCTTAAATCTTTGATTTTGATGATCCTGCTGCTAATAT
9139268 GCAATTAATTTT
130 GCAATTAATTTT
9139280 ATTTGTGGCA
Statistics
Matches: 139, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
140 125 0.90
141 14 0.10
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (141 bp):
CCGTAGGGAAGACCATGTTATGGGGGTAATAATGTGCTGAGAAATGTCAAAAAAAAAAAAAAACT
CAGCAGTGCAAATCTCTTGATGGCATTCTTAAATCTTTGATTTTGATGATCCTGCTGCTAATATG
CAATTAATTTT
Found at i:9160518 original size:13 final size:14
Alignment explanation
Indices: 9160500--9160535 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9160490 AGTAGGATTG
9160500 AAAACAAAAA-AAA
1 AAAACAAAAACAAA
9160513 AAAACAAAAACAAA
1 AAAACAAAAACAAA
9160527 AAAATCAAA
1 AAAA-CAAA
9160536 TATAGCAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 7 0.33
15 4 0.19
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAACAAAAACAAA
Found at i:9167169 original size:10 final size:10
Alignment explanation
Indices: 9167154--9167178 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9167144 ACTTTTTAAG
9167154 AAATTATTAT
1 AAATTATTAT
9167164 AAATTATTAT
1 AAATTATTAT
9167174 AAATT
1 AAATT
9167179 TAAATTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTATTAT
Found at i:9171977 original size:24 final size:24
Alignment explanation
Indices: 9171949--9172000 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9171939 TTTCTAGAAG
* *
9171949 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
9171973 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
9171997 ATTT
1 ATTT
9172001 GACCTATGAA
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:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:9180754 original size:41 final size:41
Alignment explanation
Indices: 9180697--9180779 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
9180687 GAAAGGTCTC
* *
9180697 ATGTAAGATCATGTCTGGGACATGGTGTTGG-CACCGAGATG
1 ATGTAAGACCATGTCTGGGACATGGCG-TGGCCACCGAGATG
*
9180738 ATGTAAGACCATGTCTGGGACATGGCGTGGCCACCGATATG
1 ATGTAAGACCATGTCTGGGACATGGCGTGGCCACCGAGATG
9180779 A
1 A
9180780 GAACTCCCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.08
41 35 0.92
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (41 bp):
ATGTAAGACCATGTCTGGGACATGGCGTGGCCACCGAGATG
Found at i:9185364 original size:29 final size:26
Alignment explanation
Indices: 9185312--9185365 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
9185302 CTATTAATTA
* *
9185312 AATAATAAAATATCTTATATTAAAAT
1 AATAATAAAATATCTTACAATAAAAT
9185338 AATAATAAAATAATCTTAACCAATAAAA
1 AATAATAAAAT-ATCTT-A-CAATAAAA
9185366 ATCTAACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 5 0.22
28 1 0.04
29 6 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATCTTACAATAAAAT
Found at i:9188993 original size:25 final size:25
Alignment explanation
Indices: 9188943--9188994 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
9188933 TGTAATTTTT
* *
9188943 AATTAAATAAAATATTTAAAATTAA
1 AATTAAATAAAATATTAAAAAATAA
*
9188968 AATTAAGTAAAA-ATTAAAGAAATAA
1 AATTAAATAAAATATTAAA-AAATAA
9188993 AA
1 AA
9188995 AAAACAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
AATTAAATAAAATATTAAAAAATAA
Found at i:9189170 original size:20 final size:21
Alignment explanation
Indices: 9189128--9189171 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9189118 TTGAAGGATG
**
9189128 ATATTGTTATTTCAATTTTAA
1 ATATTGTTATTTCAATTAAAA
*
9189149 ATATTTTTATTT-AATTAAAA
1 ATATTGTTATTTCAATTAAAA
9189169 ATA
1 ATA
9189172 CCACATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATTGTTATTTCAATTAAAA
Found at i:9189734 original size:22 final size:22
Alignment explanation
Indices: 9189704--9189749 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9189694 ATAAGAGATT
*
9189704 AATTGGGAGCGAAGAA-AAGAAG
1 AATTAGGAG-GAAGAAGAAGAAG
*
9189726 AATTAGGAGGAAGAAGAGGAAG
1 AATTAGGAGGAAGAAGAAGAAG
9189748 AA
1 AA
9189750 AAAGATCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.37, T:0.09
Consensus pattern (22 bp):
AATTAGGAGGAAGAAGAAGAAG
Found at i:9191549 original size:100 final size:100
Alignment explanation
Indices: 9191361--9191552 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 100
9191351 ATTGAACATT
* * *
9191361 AACATCATTTACAGTCTTGAGCAATTAGTTTGAATGCCCCTAATGTTTAAAATTCTACCTTTCTG
1 AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
* *
9191426 AGCTGAAAACTTAAATGGGGATTTAAATTGTGATC
66 AGCTGAAAACTCAAATGGAGATTTAAATTGTGATC
* * * *
9191461 AACATCATTTTCAGTCTTTAACAATTAGTCTGAATGCCCTTAATATTTAAAATTCTACCTTTTTG
1 AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
* *
9191526 AGCTGACAACTCAATTGGAGATTTAAA
66 AGCTGAAAACTCAAATGGAGATTTAAA
9191553 GTGCAATCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (100 bp):
AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCTACCTTTCTG
AGCTGAAAACTCAAATGGAGATTTAAATTGTGATC
Found at i:9198484 original size:26 final size:27
Alignment explanation
Indices: 9198448--9198508 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
9198438 TTTTTAAAAT
9198448 TTTTTAATTTTAAAATACTTTTTT-TA
1 TTTTTAATTTTAAAATACTTTTTTGTA
* *
9198474 TTTTTATTTTTAAAATATTTTTTTGTA
1 TTTTTAATTTTAAAATACTTTTTTGTA
9198501 TTTATTAA
1 TTT-TTAA
9198509 AAAATAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 22 0.73
27 5 0.17
28 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAAAATACTTTTTTGTA
Found at i:9199360 original size:22 final size:24
Alignment explanation
Indices: 9199335--9199382 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
9199325 TTTTACTTTT
9199335 AATAAATAAATATA-TAAA-TAAA
1 AATAAATAAATATACTAAACTAAA
*
9199357 AATAAATTAATATACTAAACTAAA
1 AATAAATAAATATACTAAACTAAA
9199381 AA
1 AA
9199383 AATTATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 4 0.17
24 6 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAATAAATATACTAAACTAAA
Found at i:9199414 original size:29 final size:30
Alignment explanation
Indices: 9199377--9199438 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
9199367 TATACTAAAC
*
9199377 TAAAAAAAT-TATTCTTATTTACTTCAAAA
1 TAAAAAAATATAATCTTATTTACTTCAAAA
*
9199406 TAAAAAAATATAATCTTATTTGCTTCAAAA
1 TAAAAAAATATAATCTTATTTACTTCAAAA
9199436 TAA
1 TAA
9199439 CAAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAAAAAATATAATCTTATTTACTTCAAAA
Found at i:9205375 original size:22 final size:19
Alignment explanation
Indices: 9205354--9205398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
9205344 GCAATAAAAT
* *
9205354 AATAACAACATAATAGTGA
1 AATAATAACAAAATAGTGA
**
9205373 AATTGTAACAAAATAGTGA
1 AATAATAACAAAATAGTGA
9205392 AATAATA
1 AATAATA
9205399 GGAAGAAAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (19 bp):
AATAATAACAAAATAGTGA
Found at i:9207061 original size:22 final size:22
Alignment explanation
Indices: 9207036--9207091 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
9207026 ATAACTTGAG
9207036 AATTATATTAAGAATG-TTATTA
1 AATTATATTAAGAA-GATTATTA
*
9207058 AATTATATTTAATAAGATTATTA
1 AATTATA-TTAAGAAGATTATTA
9207081 AGATTAT-TTAA
1 A-ATTATATTAA
9207092 AAGTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 12 0.40
23 13 0.43
24 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
AATTATATTAAGAAGATTATTA
Found at i:9214526 original size:22 final size:22
Alignment explanation
Indices: 9214501--9214543 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9214491 CAAAACAGGA
* *
9214501 AAAATACGTATATGTATATATT
1 AAAACACGTATATATATATATT
*
9214523 AAAACACTTATATATATATAT
1 AAAACACGTATATATATATAT
9214544 ATAATATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (22 bp):
AAAACACGTATATATATATATT
Found at i:9216547 original size:10 final size:11
Alignment explanation
Indices: 9216535--9216564 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9216525 ATTTTATACG
9216535 AAATAAAACGA
1 AAATAAAACGA
9216546 AAATAAAA-GA
1 AAATAAAACGA
9216556 AAATAAAAC
1 AAATAAAAC
9216565 ACATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAACGA
Found at i:9219355 original size:15 final size:17
Alignment explanation
Indices: 9219322--9219359 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
9219312 TTTTCATAAA
9219322 TATATACTTATATACTT
1 TATATACTTATATACTT
*
9219339 TATAT-CTTATTTA-TT
1 TATATACTTATATACTT
9219354 TATATA
1 TATATA
9219360 TCCTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATACTTATATACTT
Found at i:9221289 original size:40 final size:41
Alignment explanation
Indices: 9221221--9221297 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
9221211 GTTGATGGAA
* *
9221221 AATATAAATTGTGATTATTATGCATTTAAAAATAATAATTT
1 AATAAAAATTGTGATTATTATACATTTAAAAATAATAATTT
**
9221262 AATAAAAATTGTGA-TATTATATTTTTAAAAATAATA
1 AATAAAAATTGTGATTATTATACATTTAAAAATAATA
9221298 TAATTTAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (41 bp):
AATAAAAATTGTGATTATTATACATTTAAAAATAATAATTT
Found at i:9221954 original size:135 final size:136
Alignment explanation
Indices: 9221803--9222074 Score: 537
Period size: 135 Copynumber: 2.0 Consensus size: 136
9221793 AATAATTATG
9221803 ATTCAATTTTGACATTATTATAAAAAATATTTTTATTTTATTTTAAACAAAATTGGGCTAAAATT
1 ATTCAATTTTGACATTATTATAAAAAATATTTTTATTTTATTTTAAACAAAATTGGGCTAAAATT
9221868 GTTAATTAAATAGAAATCTAAACATCTTAATTATCACTTAATTAATATTATAGTTATATATAAAT
66 GTTAATTAAATAGAAATCTAAACATCTTAATTATCACTTAATTAATATTATAGTTATATATAAAT
9221933 TAAAAT
131 TAAAAT
9221939 ATTCAATTTTG-CATTATTATAAAAAATATTTTTATTTTATTTTAAACAAAATTGGGCTAAAATT
1 ATTCAATTTTGACATTATTATAAAAAATATTTTTATTTTATTTTAAACAAAATTGGGCTAAAATT
9222003 GTTAATTAAATAGAAATCTAAACATCTTAATTATCACTTAATTAATATTATAGTTATATATAAAT
66 GTTAATTAAATAGAAATCTAAACATCTTAATTATCACTTAATTAATATTATAGTTATATATAAAT
9222068 TAAAAT
131 TAAAAT
9222074 A
1 A
9222075 GATATTGTTA
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 125 0.92
136 11 0.08
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (136 bp):
ATTCAATTTTGACATTATTATAAAAAATATTTTTATTTTATTTTAAACAAAATTGGGCTAAAATT
GTTAATTAAATAGAAATCTAAACATCTTAATTATCACTTAATTAATATTATAGTTATATATAAAT
TAAAAT
Found at i:9224035 original size:18 final size:18
Alignment explanation
Indices: 9224012--9224059 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
9224002 GATTTTTTTA
9224012 TTTTATAATTT-AATAGAT
1 TTTTATAATTTGAATA-AT
9224030 TTTTATAAATTTGAATAAT
1 TTTTAT-AATTTGAATAAT
* *
9224049 CTTTATGATTT
1 TTTTATAATTT
9224060 CATTATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.38
19 12 0.46
20 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTATAATTTGAATAAT
Found at i:9224110 original size:21 final size:21
Alignment explanation
Indices: 9224084--9224123 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9224074 TTTAAAGTTT
9224084 TATATTTTTTGGAATTTTTAA
1 TATATTTTTTGGAATTTTTAA
*
9224105 TATATTTTTTTGAATTTTT
1 TATATTTTTTGGAATTTTT
9224124 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (21 bp):
TATATTTTTTGGAATTTTTAA
Found at i:9234978 original size:23 final size:24
Alignment explanation
Indices: 9234952--9234998 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
9234942 TAAAGATTAA
9234952 AAAAATGAAAAAATA-TAAAAAAT
1 AAAAATGAAAAAATATTAAAAAAT
* *
9234975 AAAAATTAAAAATTATTAAAAAAT
1 AAAAATGAAAAAATATTAAAAAAT
9234999 TTACGTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAATGAAAAAATATTAAAAAAT
Found at i:9235935 original size:18 final size:18
Alignment explanation
Indices: 9235912--9235954 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
9235902 TATTTGTACA
9235912 TTTTATG-ATTTTAAATAT
1 TTTTATGTATTTTAAAT-T
*
9235930 TTTTATTGTTTTTTAAATT
1 TTTTA-TGTATTTTAAATT
9235949 TTTTAT
1 TTTTAT
9235955 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTATGTATTTTAAATT
Found at i:9235964 original size:18 final size:19
Alignment explanation
Indices: 9235923--9235966 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
9235913 TTTATGATTT
**
9235923 TAAATATTTTTATTGTTTTT
1 TAAAT-TTTTTATTGTTTAA
9235943 TAAATTTTTTATT-TTTAA
1 TAAATTTTTTATTGTTTAA
9235961 TAAATT
1 TAAATT
9235967 CAATTCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TAAATTTTTTATTGTTTAA
Found at i:9236392 original size:8 final size:7
Alignment explanation
Indices: 9236365--9236390 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9236355 GACACATCAT
9236365 AAAAATA
1 AAAAATA
9236372 AAAAATA
1 AAAAATA
9236379 AAAAATA
1 AAAAATA
9236386 AAAAA
1 AAAAA
9236391 ATTGCTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:9237434 original size:6 final size:6
Alignment explanation
Indices: 9237425--9237450 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9237415 GGAACTTGAA
9237425 CTGGAT CTGGAT CTGGAT CTGGAT CT
1 CTGGAT CTGGAT CTGGAT CTGGAT CT
9237451 CTCTCTCTTT
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:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (6 bp):
CTGGAT
Found at i:9238753 original size:41 final size:41
Alignment explanation
Indices: 9238703--9238781 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
9238693 TCCAAACTGA
9238703 TCTAAATGCAGGCTAGCCTGCATTTTCTTTCTTTCTTTCTT
1 TCTAAATGCAGGCTAGCCTGCATTTTCTTTCTTTCTTTCTT
9238744 TCTAAATGCAGGCTAGCCTGCATTTTCTTTCTTTCTTT
1 TCTAAATGCAGGCTAGCCTGCATTTTCTTTCTTTCTTT
9238782 TTAAAGCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.48
Consensus pattern (41 bp):
TCTAAATGCAGGCTAGCCTGCATTTTCTTTCTTTCTTTCTT
Found at i:9247134 original size:23 final size:23
Alignment explanation
Indices: 9247104--9247151 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9247094 TCAGGTGGTT
9247104 CGGCCTATGGACAACTTTATTGA
1 CGGCCTATGGACAACTTTATTGA
9247127 CGGCCTATGGACAACTTTATTGA
1 CGGCCTATGGACAACTTTATTGA
9247150 CG
1 CG
9247152 ACTGACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (23 bp):
CGGCCTATGGACAACTTTATTGA
Found at i:9247960 original size:22 final size:22
Alignment explanation
Indices: 9247914--9247954 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
9247904 TCGAAGAAAT
9247914 TTAATTAAAAATTTTAAAAAAA
1 TTAATTAAAAATTTTAAAAAAA
9247936 TTAATT-AAAATTTTAAAAA
1 TTAATTAAAAATTTTAAAAA
9247955 TTATTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATTAAAAATTTTAAAAAAA
Found at i:9262361 original size:18 final size:17
Alignment explanation
Indices: 9262330--9262378 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
9262320 CTCATTGTTC
9262330 TTTCTTTTTCCTTTCTG
1 TTTCTTTTTCCTTTCTG
* *
9262347 TTTCGTTTTTTCTTTCTA
1 TTTC-TTTTTCCTTTCTG
*
9262365 CTTCTTTTT-CTTTC
1 TTTCTTTTTCCTTTC
9262379 ATTATTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.18
17 9 0.32
18 14 0.50
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTCTTTTTCCTTTCTG
Found at i:9263559 original size:582 final size:583
Alignment explanation
Indices: 9262447--9263611 Score: 2323
Period size: 582 Copynumber: 2.0 Consensus size: 583
9262437 ATAATATATA
9262447 TTTTAACTTTATTTTTTTATTAATTTTCACCTTATGCTGCCTCATCTTAAGACAATGGCATAATT
1 TTTTAACTTTATTTTTTTATTAATTTTCACCTTATGCTGCCTCATCTTAAGACAATGGCATAATT
9262512 GCTTTTTTAGTCCCTTTAATTTTTATTTAATCTATAATTCAACTTTTACCCTATTTACAATTTAG
66 GCTTTTTTAGTCCCTTTAATTTTTATTTAATCTATAATTCAACTTTTACCCTATTTACAATTTAG
9262577 TCATTATACCTAATTACTCTTAATTCATGCAAAATTCATCTAACCAAAACCTAATCAACTACATA
131 TCATTATACCTAATTACTCTTAATTCATGCAAAATTCATCTAACCAAAACCTAATCAACTACATA
9262642 ACTAGCTTCGTAAATATTTTTAATAAATATTTACGAGTTCGATTTACGAGAACAGAGTCCGAGAA
196 ACTAGCTTCGTAAATATTTTTAATAAATATTTACGAGTTCGATTTACGAGAACAGAGTCCGAGAA
9262707 ATGTACTTTCTGACACCCTCGACTATCGGGTTGTTGCACTTTCAAAATAGAGTCATTAAAGGACA
261 ATGTACTTTCTGACACCCTCGACTATCGGGTTGTTGCACTTTCAAAATAGAGTCATTAAAGGACA
9262772 TAACTTCTAATCTTACTTCAACTATAATAGGAATGTTAAAAGAGAGGCATCTTCATTCGGGGCTT
326 TAACTTCTAATCTTACTTCAACTATAATAGGAATGTTAAAAGAGAGGCATCTTCATTCGGGGCTT
9262837 CATGAATTTTTCTTCTTTTGGATCTAGATTGGCCCTACAAGGCATCTGAAGAGCAATCTTTGTCA
391 CATGAATTTTTCTTCTTTTGGATCTAGATTGGCCCTACAAGGCATCTGAAGAGCAATCTTTGTCA
9262902 GGGTTGTCATGGTCGAAACTATAATCAACTCCACTAGGAAATTTGAGCCATGATGACTAAATTTT
456 GGGTTGTCATGGTCGAAACTATAATCAACTCCACTAGGAAATTTGAGCCATGATGACTAAATTTT
9262967 TCTGGGCTTGGGACAATATTTGGTTCCAAATCAATAACCGAAGTAACATTTTCATTGTCAAGC
521 TCTGGGCTTGGGACAATATTTGGTTCCAAATCAATAACCGAAGTAACATTTTCATTGTCAAGC
9263030 TTTTAAC-TTATTTTTTTATTAATTTTCACCTTATGCTGCCTCATCTTAAGACAATGGCATAATT
1 TTTTAACTTTATTTTTTTATTAATTTTCACCTTATGCTGCCTCATCTTAAGACAATGGCATAATT
9263094 GCTTTTTTAGTCCCTTTAATTTTTATTTAATCTATAATTCAACTTTTACCCTATTTACAATTTAG
66 GCTTTTTTAGTCCCTTTAATTTTTATTTAATCTATAATTCAACTTTTACCCTATTTACAATTTAG
9263159 TCATTATACCTAATTACTCTTAATTCATGCAAAATTCATCTAACCAAAACCTAATCAACTACATA
131 TCATTATACCTAATTACTCTTAATTCATGCAAAATTCATCTAACCAAAACCTAATCAACTACATA
9263224 ACTAGCTTCGTAAATATTTTTAATAAATATTTACGAGTTCGATTTACGAGAACAGAGTCCGAGAA
196 ACTAGCTTCGTAAATATTTTTAATAAATATTTACGAGTTCGATTTACGAGAACAGAGTCCGAGAA
9263289 ATGTACTTTCTGACACCCTCGACTATCGGGTTGTTGCACTTTCAAAATAGAGTCATTAAAGGACA
261 ATGTACTTTCTGACACCCTCGACTATCGGGTTGTTGCACTTTCAAAATAGAGTCATTAAAGGACA
9263354 TAACTTCTAATCTTACTTCAACTATAATAGGAATGTTAAAAGAGAGGCATCTTCATTCGGGGCTT
326 TAACTTCTAATCTTACTTCAACTATAATAGGAATGTTAAAAGAGAGGCATCTTCATTCGGGGCTT
9263419 CATGAATTTTTCTTCTTTTGGATCTAGATTGGCCCTACAAGGCATCTGAAGAGCAATCTTTGTCA
391 CATGAATTTTTCTTCTTTTGGATCTAGATTGGCCCTACAAGGCATCTGAAGAGCAATCTTTGTCA
9263484 GGGTTGTCATGGTCGAAACTATAATCAACTCCACTAGGAAATTTGAGCCATGATGACTAAATTTT
456 GGGTTGTCATGGTCGAAACTATAATCAACTCCACTAGGAAATTTGAGCCATGATGACTAAATTTT
9263549 TCTGGGCTTGGGACAATATTTGGTTCCAAATCAATAACCGAAGTAACATTTTCATTGTCAAGC
521 TCTGGGCTTGGGACAATATTTGGTTCCAAATCAATAACCGAAGTAACATTTTCATTGTCAAGC
9263612 CTGACAATCT
Statistics
Matches: 582, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
582 575 0.99
583 7 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (583 bp):
TTTTAACTTTATTTTTTTATTAATTTTCACCTTATGCTGCCTCATCTTAAGACAATGGCATAATT
GCTTTTTTAGTCCCTTTAATTTTTATTTAATCTATAATTCAACTTTTACCCTATTTACAATTTAG
TCATTATACCTAATTACTCTTAATTCATGCAAAATTCATCTAACCAAAACCTAATCAACTACATA
ACTAGCTTCGTAAATATTTTTAATAAATATTTACGAGTTCGATTTACGAGAACAGAGTCCGAGAA
ATGTACTTTCTGACACCCTCGACTATCGGGTTGTTGCACTTTCAAAATAGAGTCATTAAAGGACA
TAACTTCTAATCTTACTTCAACTATAATAGGAATGTTAAAAGAGAGGCATCTTCATTCGGGGCTT
CATGAATTTTTCTTCTTTTGGATCTAGATTGGCCCTACAAGGCATCTGAAGAGCAATCTTTGTCA
GGGTTGTCATGGTCGAAACTATAATCAACTCCACTAGGAAATTTGAGCCATGATGACTAAATTTT
TCTGGGCTTGGGACAATATTTGGTTCCAAATCAATAACCGAAGTAACATTTTCATTGTCAAGC
Found at i:9279621 original size:21 final size:22
Alignment explanation
Indices: 9279595--9279637 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9279585 TTTTTATAAT
*
9279595 TTTTAAAA-AATTAAATTAAAA
1 TTTTAAAATAATTAAATAAAAA
*
9279616 TTTTAAAATATTTAAATAAAAA
1 TTTTAAAATAATTAAATAAAAA
9279638 AATTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATAATTAAATAAAAA
Found at i:9281711 original size:12 final size:12
Alignment explanation
Indices: 9281694--9281718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9281684 TAGGGTCAAG
9281694 TCTTCTTCTTTT
1 TCTTCTTCTTTT
9281706 TCTTCTTCTTTT
1 TCTTCTTCTTTT
9281718 T
1 T
9281719 GTCAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTCTTCTTTT
Found at i:9284499 original size:18 final size:18
Alignment explanation
Indices: 9284472--9284513 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9284462 CTTATTTAAT
*
9284472 AATA-TTTTTATTTCAAA
1 AATATTTTTTATTCCAAA
*
9284489 CATATTTTTTATTCCAAA
1 AATATTTTTTATTCCAAA
9284507 AATATTT
1 AATATTT
9284514 ATAAGAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (18 bp):
AATATTTTTTATTCCAAA
Found at i:9288438 original size:311 final size:311
Alignment explanation
Indices: 9287868--9288446 Score: 820
Period size: 311 Copynumber: 1.9 Consensus size: 311
9287858 ATTTAGAATT
* *** *
9287868 TATATGTGTTTAAAAATAATATATAATAAACAATATGTGTATGGTTTGAAACTAATTAATCATGA
1 TATATGTGTTTAAAAATAACATATAATAAACAATAAACGTATGGTTTGAAACTAATTAATCATAA
* * * * *
9287933 TAACACATTAAATATATACAATATTAAAATAAAAAAATAGAATAATTTGTGAGAAAATATTAAAT
66 TAACAAATTAAATATATACAATATTAAAATAAAAAAATAGAATAAATTATAAGAAAACA-TAAAT
* ** * *
9287998 GTAAACACACGAATATGTCATATTAACAACACAAAATGCATTACAATTATTTATCATGATGTTGT
130 GTAAACACACAAATACATCATATAAACAACACAAAATGCACTACAATTATTTATCATGATGTTGT
* * * * *
9288063 CATCAATTGTGAGTTAGTGTTGAGTTGACATATGGCACCAACTCAATTAACAATATTATTAATAT
195 CATCAATTGTAAATTAGTGTTAAGTTGACATATGACACCAACTCAATTAACAACATTATTAATAT
9288128 ATA-AATTCTATCACACATGTATGCGTGCGGAAACCGCGAATTTATAACACA
260 ATACAATTCTATCACACATGTATGCGTGCGGAAACCGCGAATTTATAACACA
*
9288179 TATATGTGTTTAAAAATAACGTATAATAAACAATAAAACGTATGGTTTGAAACTAATTAATCATA
1 TATATGTGTTTAAAAATAACATATAATAAACAAT-AAACGTATGGTTTGAAACTAATTAATCATA
* * *
9288244 ATAACAAATTAAATATGTACAGTATTAAAATAAAAAAATAGATTAAATTATAAGTAAAACA-AAA
65 ATAACAAATTAAATATATACAATATTAAAATAAAAAAATAGAATAAATTATAAG-AAAACATAAA
* * * * * *
9288308 TTTAAACACATAAATACATCATATAAACGATACTAAATGCACTACAATTATTTATCATGATTTTG
129 TGTAAACACACAAATACATCATATAAACAACACAAAATGCACTACAATTATTTATCATGATGTTG
* * *
9288373 TCATCAATTGTAAATTAGTGTTAAGTTGACTTATGACATCAACTCAATTAACAACATTGTTAATA
194 TCATCAATTGTAAATTAGTGTTAAGTTGACATATGACACCAACTCAATTAACAACATTATTAATA
9288438 TATACAATT
259 TATACAATT
9288447 GATGAAGATA
Statistics
Matches: 232, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
311 150 0.65
312 77 0.33
313 5 0.02
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (311 bp):
TATATGTGTTTAAAAATAACATATAATAAACAATAAACGTATGGTTTGAAACTAATTAATCATAA
TAACAAATTAAATATATACAATATTAAAATAAAAAAATAGAATAAATTATAAGAAAACATAAATG
TAAACACACAAATACATCATATAAACAACACAAAATGCACTACAATTATTTATCATGATGTTGTC
ATCAATTGTAAATTAGTGTTAAGTTGACATATGACACCAACTCAATTAACAACATTATTAATATA
TACAATTCTATCACACATGTATGCGTGCGGAAACCGCGAATTTATAACACA
Found at i:9289063 original size:16 final size:16
Alignment explanation
Indices: 9289042--9289073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9289032 ACATTTATCA
*
9289042 AAATATTTTTATATAT
1 AAATATTTTTAAATAT
9289058 AAATATTTTTAAATAT
1 AAATATTTTTAAATAT
9289074 TAGTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATTTTTAAATAT
Found at i:9289547 original size:29 final size:31
Alignment explanation
Indices: 9289484--9289555 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
9289474 TCAAAATTAT
* * *
9289484 ATATGAACTTTGATTTAATGTGCAGTTTCAT
1 ATATGAACTTTAATTTAATGTGCAATTTCAC
9289515 ATATGAACTTTAATTT-A-GTGCAATTAT-AC
1 ATATGAACTTTAATTTAATGTGCAATT-TCAC
9289544 ATATGAAACTTT
1 ATATG-AACTTT
9289556 GATTGTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 13 0.36
30 8 0.22
31 15 0.42
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (31 bp):
ATATGAACTTTAATTTAATGTGCAATTTCAC
Found at i:9289547 original size:31 final size:31
Alignment explanation
Indices: 9289482--9289539 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9289472 TCTCAAAATT
* *
9289482 ATATATGAACTTTGATTTAATGTGCAGTTTC
1 ATATATGAACTTTAATTTAATGTGCAATTTC
9289513 ATATATGAACTTTAATTT-A-GTGCAATT
1 ATATATGAACTTTAATTTAATGTGCAATT
9289540 ATACATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 1 0.04
31 17 0.68
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
ATATATGAACTTTAATTTAATGTGCAATTTC
Found at i:9290349 original size:14 final size:14
Alignment explanation
Indices: 9290332--9290367 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9290322 TTTAGTAATA
9290332 TTAATGTAATGTTT
1 TTAATGTAATGTTT
*
9290346 TTAATTTAATGTTT
1 TTAATGTAATGTTT
*
9290360 TTATTGTA
1 TTAATGTA
9290368 TTATTTGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (14 bp):
TTAATGTAATGTTT
Found at i:9290355 original size:25 final size:25
Alignment explanation
Indices: 9290302--9290349 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9290292 ATTATGAAAA
*
9290302 TAATATTAATGTAATGTGTTTTTAG
1 TAATATTAATGTAATGTGTTTTAAG
9290327 TAATATTAATGTAATGT-TTTTAA
1 TAATATTAATGTAATGTGTTTTAA
9290350 TTTAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (25 bp):
TAATATTAATGTAATGTGTTTTAAG
Found at i:9290823 original size:23 final size:23
Alignment explanation
Indices: 9290777--9290822 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
9290767 TTAAAAATAA
*
9290777 AAAAATAAAAATAAAAGTATTTT
1 AAAAATAAAAATAAAAATATTTT
9290800 AAAAATAAAAAATAAAAATATTT
1 AAAAAT-AAAAATAAAAATATTT
9290823 ATTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAATAAAAATAAAAATATTTT
Found at i:9290832 original size:30 final size:31
Alignment explanation
Indices: 9290758--9290819 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
9290748 TAAACACCAA
*
9290758 AAAAATATTTTAAAAATAAAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAAT
9290789 AAAAGTATTTTAAAAAT-AAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAAT
9290819 A
1 A
9290820 TTTATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (31 bp):
AAAAGTATTTTAAAAATAAAAAAATAAAAAT
Found at i:9315988 original size:31 final size:32
Alignment explanation
Indices: 9315922--9315988 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
9315912 TTTTTTATCC
* *
9315922 AATTAGCTACTTGAAAATGACTTTTTTGTTCA
1 AATTAGCTACTTGAAAATGACTTTATAGTTCA
** *
9315954 AATTAG-TACTTGAACTTGACTTTATAGTTTA
1 AATTAGCTACTTGAAAATGACTTTATAGTTCA
9315985 AATT
1 AATT
9315989 GGTTCAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (32 bp):
AATTAGCTACTTGAAAATGACTTTATAGTTCA
Found at i:9319319 original size:25 final size:28
Alignment explanation
Indices: 9319266--9319323 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
9319256 ATTAAAATGT
*
9319266 TATAACTTTTTTTATTTATCAAAATATA
1 TATAACTTTTTATATTTATCAAAATATA
9319294 TATAA-TTTTTATATTTA-CAAAA-ATA
1 TATAACTTTTTATATTTATCAAAATATA
9319319 TATAA
1 TATAA
9319324 AAAAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 8 0.28
26 5 0.17
27 11 0.38
28 5 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (28 bp):
TATAACTTTTTATATTTATCAAAATATA
Found at i:9320061 original size:19 final size:19
Alignment explanation
Indices: 9320036--9320077 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
9320026 AATATTTTGG
* *
9320036 TATTTTTTTAATATTTTTAT
1 TATTTTTGTAAT-GTTTTAT
9320056 TATTTTTGTAATGTTTTAT
1 TATTTTTGTAATGTTTTAT
9320075 TAT
1 TAT
9320078 GGGTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TATTTTTGTAATGTTTTAT
Found at i:9320102 original size:13 final size:13
Alignment explanation
Indices: 9320084--9320109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9320074 TTATGGGTTT
9320084 TATAAAAAAATAA
1 TATAAAAAAATAA
9320097 TATAAAAAAATAA
1 TATAAAAAAATAA
9320110 AAAAATTACC
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:9320174 original size:16 final size:16
Alignment explanation
Indices: 9320153--9320184 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9320143 CAAAATATAT
*
9320153 CAAAAAAAGTAAAAAA
1 CAAAAAAAATAAAAAA
9320169 CAAAAAAAATAAAAAA
1 CAAAAAAAATAAAAAA
9320185 AACAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (16 bp):
CAAAAAAAATAAAAAA
Found at i:9320186 original size:9 final size:9
Alignment explanation
Indices: 9320163--9320198 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
9320153 CAAAAAAAGT
9320163 AAAAAACAA
1 AAAAAACAA
*
9320172 AAAAAATAA
1 AAAAAACAA
9320181 AAAAAACAGA
1 AAAAAACA-A
9320191 AAAAAACA
1 AAAAAACA
9320199 CACTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAACAA
Found at i:9328808 original size:24 final size:24
Alignment explanation
Indices: 9328776--9328822 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9328766 TTCCATTACT
9328776 ATTATTATTA-CATTATTTACTATC
1 ATTATTATTATCA-TATTTACTATC
*
9328800 ATTATTATTATCATATTTTCTAT
1 ATTATTATTATCATATTTACTAT
9328823 ACATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTATTATCATATTTACTATC
Found at i:9328813 original size:12 final size:12
Alignment explanation
Indices: 9328776--9328813 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9328766 TTCCATTACT
9328776 ATTATTATTA-C
1 ATTATTATTATC
*
9328787 ATTATTTACTATC
1 ATTA-TTATTATC
9328800 ATTATTATTATC
1 ATTATTATTATC
9328812 AT
1 AT
9328814 ATTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 14 0.61
13 5 0.22
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:9328841 original size:27 final size:27
Alignment explanation
Indices: 9328811--9328863 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
9328801 TTATTATTAT
9328811 CATA-TTTTCTATACATATATATATACG
1 CATAGTTTTCTATACATATA-ATATACG
* * *
9328838 CATAGTTTTTTTTATATATAATATAC
1 CATAGTTTTCTATACATATAATATAC
9328864 ATATGGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (27 bp):
CATAGTTTTCTATACATATAATATACG
Found at i:9328966 original size:13 final size:15
Alignment explanation
Indices: 9328941--9328972 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9328931 TATACGTATG
9328941 TTTTGTTTTTTTA-T
1 TTTTGTTTTTTTACT
9328955 TTTTG-TTTTTTACT
1 TTTTGTTTTTTTACT
9328969 TTTT
1 TTTT
9328973 TATATATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTTACT
Found at i:9328993 original size:18 final size:17
Alignment explanation
Indices: 9328969--9329008 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
9328959 GTTTTTTACT
9328969 TTTTTATATATACTTTA
1 TTTTTATATATACTTTA
9328986 TATTTTATATATACTTTA
1 T-TTTTATATATACTTTA
9329004 TTTTT
1 TTTTT
9329009 GTAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATATACTTTA
Found at i:9330042 original size:27 final size:27
Alignment explanation
Indices: 9329974--9330025 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
9329964 GGTTGGCAGG
*
9329974 ACTGGTGCCGCCAACAGGGATTCCTCC
1 ACTGGTGCCGCCAACAGGGATCCCTCC
9330001 ACTGGTGCCGCCAACAGGGATCCCT
1 ACTGGTGCCGCCAACAGGGATCCCT
9330026 TGTTTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (27 bp):
ACTGGTGCCGCCAACAGGGATCCCTCC
Found at i:9330098 original size:10 final size:10
Alignment explanation
Indices: 9330083--9330118 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9330073 TCAGTTCAGG
9330083 TTTTTTTTCT
1 TTTTTTTTCT
9330093 TTTTTTTTCT
1 TTTTTTTTCT
* *
9330103 ATTTTTTTGT
1 TTTTTTTTCT
9330113 TTTTTT
1 TTTTTT
9330119 ATATATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:9330125 original size:20 final size:20
Alignment explanation
Indices: 9330084--9330127 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9330074 CAGTTCAGGT
* *
9330084 TTTTTTTCTTTTTTTTTCTA
1 TTTTTTTCTTTTTTTATATA
*
9330104 TTTTTTTGTTTTTTTATATA
1 TTTTTTTCTTTTTTTATATA
9330124 TTTT
1 TTTT
9330128 GGTAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTATATA
Found at i:9330148 original size:27 final size:29
Alignment explanation
Indices: 9330118--9330186 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 29
9330108 TTTGTTTTTT
9330118 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
9330145 TATATATTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
9330174 TA-ATATTTAGGTA
1 TATATATTTTGGTA
9330187 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 17 0.44
28 17 0.44
29 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:9330179 original size:28 final size:26
Alignment explanation
Indices: 9330117--9330186 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 26
9330107 TTTTGTTTTT
9330117 TTAT-ATATTTTGGTAAATAAAAAAA
1 TTATAATATTTTGGTAAATAAAAAAA
9330142 TTATATATATTTTGGTAAATAAAAAAAA
1 TTATA-ATATTTTGGTAAAT-AAAAAAA
*
9330170 GTTATAATATTTAGGTA
1 -TTATAATATTTTGGTA
9330187 TTTTTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 4 0.10
27 14 0.35
28 17 0.43
29 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (26 bp):
TTATAATATTTTGGTAAATAAAAAAA
Found at i:9332921 original size:11 final size:11
Alignment explanation
Indices: 9332905--9332941 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
9332895 TAATTTTTAA
9332905 TTTTAAAATAC
1 TTTTAAAATAC
9332916 TTTTAAAATAC
1 TTTTAAAATAC
*
9332927 TTTTAAAATAA
1 TTTTAAAATAC
9332938 TTTT
1 TTTT
9332942 TTTTGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:9345124 original size:2 final size:2
Alignment explanation
Indices: 9345112--9345146 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9345102 GCAAAAATGT
*
9345112 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9345147 CTGTGGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.