Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 221 of 345
Found at i:64149291 original size:58 final size:58
Alignment explanation
Indices: 64149139--64149298 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
64149129 AATTTAAGCC
* *** * * ** * *
64149139 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
64149197 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
64149255 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
64149299 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:64160577 original size:16 final size:16
Alignment explanation
Indices: 64160553--64160583 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64160543 AGTAATAATA
*
64160553 AGAAGAAGAAAAAAAT
1 AGAAAAAGAAAAAAAT
64160569 AGAAAAAGAAAAAAA
1 AGAAAAAGAAAAAAA
64160584 GTGATGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAT
Found at i:64161229 original size:10 final size:10
Alignment explanation
Indices: 64161214--64161272 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
64161204 AATTTTAGCT
64161214 TTTATCTTTA
1 TTTATCTTTA
*
64161224 TTTATCCTTA
1 TTTATCTTTA
64161234 TTTATCTTTA
1 TTTATCTTTA
*
64161244 ATTATCTTTA
1 TTTATCTTTA
*
64161254 TTTAAT-TGTA
1 TTT-ATCTTTA
64161264 TTTATCTTT
1 TTTATCTTT
64161273 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:64164498 original size:22 final size:24
Alignment explanation
Indices: 64164470--64164514 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
64164460 ATTTTGTTCA
64164470 ATTTTAACTT-TTAT-TCAAAACC
1 ATTTTAACTTGTTATATCAAAACC
*
64164492 ATTTTAATTTGTTATATCAAAAC
1 ATTTTAACTTGTTATATCAAAAC
64164515 ATATTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAACC
Found at i:64166372 original size:20 final size:19
Alignment explanation
Indices: 64166327--64166374 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
64166317 TTTAAAATAG
*
64166327 TTTAACTTTGATTGAAAAAT
1 TTTAAC-TTAATTGAAAAAT
* *
64166347 TCTAACTTAATTGAAACTAT
1 TTTAACTTAATTGAAA-AAT
64166367 TTTAACTT
1 TTTAACTT
64166375 GGTTGATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (19 bp):
TTTAACTTAATTGAAAAAT
Found at i:64168810 original size:27 final size:27
Alignment explanation
Indices: 64168771--64168842 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
64168761 AAGAAAGCTT
* *
64168771 TTTGTGGAAATCTATGAAAAGGAAGCC
1 TTTGTGGCAATCTATGAAAAGGAAACC
* *
64168798 TTTGTGGCTATCTATGAAAAGGAAATC
1 TTTGTGGCAATCTATGAAAAGGAAACC
* *
64168825 TTTCTGGCGATCTATGAA
1 TTTGTGGCAATCTATGAA
64168843 GGGAATGCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (27 bp):
TTTGTGGCAATCTATGAAAAGGAAACC
Found at i:64168854 original size:27 final size:28
Alignment explanation
Indices: 64168780--64168854 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
64168770 TTTTGTGGAA
* * *
64168780 ATCTATGAAAAGGAA-GCCTTTGTGGCT
1 ATCTATGAAAGGGAATGCCTTTCTGGCG
*
64168807 ATCTATGAAAAGGAAAT--CTTTCTGGCG
1 ATCTATG-AAAGGGAATGCCTTTCTGGCG
64168834 ATCTATG-AAGGGAATGCCTTT
1 ATCTATGAAAGGGAATGCCTTT
64168855 ATGGTGCACT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
25 7 0.18
27 26 0.67
28 6 0.15
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
ATCTATGAAAGGGAATGCCTTTCTGGCG
Found at i:64174246 original size:32 final size:32
Alignment explanation
Indices: 64174209--64174273 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
64174199 TTGAAAGAGT
64174209 AAGTTTATTTTATATGTGTAAATAGTAAGATG
1 AAGTTTATTTTATATGTGTAAATAGTAAGATG
*
64174241 AAGTTTATTTTATGTGTGTAAATAGTAAGATG
1 AAGTTTATTTTATATGTGTAAATAGTAAGATG
64174273 A
1 A
64174274 GGAAGTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (32 bp):
AAGTTTATTTTATATGTGTAAATAGTAAGATG
Found at i:64175006 original size:26 final size:27
Alignment explanation
Indices: 64174950--64175102 Score: 127
Period size: 27 Copynumber: 5.7 Consensus size: 27
64174940 GAACACACCA
* * * *
64174950 GAAAAAGAAGCATTT-TGGCGATTTAC
1 GAAAAGGAAGCCTTTGTGGCGATCTAT
* *
64174976 GAAAAGGAAGACTTTGTGGTGATCTAT
1 GAAAAGGAAGCCTTTGTGGCGATCTAT
* * *
64175003 -AAAAAGAAGTCTTTGTGGCGATTTAT
1 GAAAAGGAAGCCTTTGTGGCGATCTAT
* *
64175029 GAAAAGAAAGCCTTTGTGGCAATCTAT
1 GAAAAGGAAGCCTTTGTGGCGATCTAT
64175056 GAAACA-GAAGCCTTTGTAGG-GATCTAT
1 GAAA-AGGAAGCCTTTGT-GGCGATCTAT
* *
64175083 G-AAGGGAATGCTTTTGTGGC
1 GAAAAGGAA-GCCTTTGTGGC
64175103 ACACTCTAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
26 41 0.41
27 57 0.56
28 3 0.03
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (27 bp):
GAAAAGGAAGCCTTTGTGGCGATCTAT
Found at i:64175033 original size:27 final size:27
Alignment explanation
Indices: 64174950--64175085 Score: 136
Period size: 27 Copynumber: 5.1 Consensus size: 27
64174940 GAACACACCA
* * *
64174950 GAAAAAGAAGCATTT-TGGCGATTTAC
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
* * *
64174976 GAAAAGGAAGACTTTGTGGTGATCTAT
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
* *
64175003 -AAAAAGAAGTCTTTGTGGCGATTTAT
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
*
64175029 G-AAAAGAAAGCCTTTGTGGCAATCTAT
1 GAAAAAG-AAGCCTTTGTGGCGATCTAT
*
64175056 GAAACAGAAGCCTTTGTAGG-GATCTAT
1 GAAAAAGAAGCCTTTGT-GGCGATCTAT
64175083 GAA
1 GAA
64175086 GGGAATGCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
26 39 0.43
27 45 0.50
28 6 0.07
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (27 bp):
GAAAAAGAAGCCTTTGTGGCGATCTAT
Found at i:64175033 original size:53 final size:53
Alignment explanation
Indices: 64174950--64175085 Score: 152
Period size: 53 Copynumber: 2.5 Consensus size: 53
64174940 GAACACACCA
* * **
64174950 GAAAAAGAAGCATTT-TGGCGATTTACGAAAAGGAAGACTTTGTGGTGATCTAT
1 GAAAAAGAAGC-TTTGTGGCGATTTATGAAAAGAAAGACTTTGTGGCAATCTAT
*
64175003 -AAAAAGAAGTCTTTGTGGCGATTTATGAAAAGAAAGCCTTTGTGGCAATCTAT
1 GAAAAAGAAG-CTTTGTGGCGATTTATGAAAAGAAAGACTTTGTGGCAATCTAT
* *
64175056 GAAACAGAAGCCTTTGTAGG-GATCTATGAA
1 GAAAAAGAAG-CTTTGT-GGCGATTTATGAA
64175086 GGGAATGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
52 12 0.17
53 34 0.48
54 23 0.32
55 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (53 bp):
GAAAAAGAAGCTTTGTGGCGATTTATGAAAAGAAAGACTTTGTGGCAATCTAT
Found at i:64175099 original size:54 final size:53
Alignment explanation
Indices: 64174951--64175103 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 53
64174941 AACACACCAG
* * * * * **
64174951 AAAAAGAAGCATTT-TGGCGATTTACGAAAAGGAAGACTTTGTGGTGATCTAT
1 AAAAAGAAGCCTTTGTGGCGATCTATGAAAAGAAAGCCTTTGTGGCAATCTAT
* *
64175003 AAAAAGAAGTCTTTGTGGCGATTTATGAAAAGAAAGCCTTTGTGGCAATCTAT
1 AAAAAGAAGCCTTTGTGGCGATCTATGAAAAGAAAGCCTTTGTGGCAATCTAT
* ** * *
64175056 GAAACAGAAGCCTTTGTAGG-GATCTATGAAGGGAATGCTTTTGTGGCA
1 -AAAAAGAAGCCTTTGT-GGCGATCTATGAAAAGAAAGCCTTTGTGGCA
64175104 CACTCTAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 12 0.14
53 33 0.39
54 37 0.44
55 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (53 bp):
AAAAAGAAGCCTTTGTGGCGATCTATGAAAAGAAAGCCTTTGTGGCAATCTAT
Found at i:64179181 original size:52 final size:52
Alignment explanation
Indices: 64179132--64179231 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
64179122 GATTTAATTT
64179132 TAATTGTTTAAAA-AAAAATTATCACACTAATCATTTTTATA-ATAATTAATATA
1 TAATTGTTTAAAATAAAAA-T-TCACACTAATCATTTTTA-ACATAATTAATATA
* * *
64179185 TATTTTTTTAAAATAGAAATTCACACTAATCATTTTTAACATAATTA
1 TAATTGTTTAAAATAAAAATTCACACTAATCATTTTTAACATAATTA
64179232 TGTTAAGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 1 0.02
52 25 0.60
53 12 0.29
54 4 0.10
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (52 bp):
TAATTGTTTAAAATAAAAATTCACACTAATCATTTTTAACATAATTAATATA
Found at i:64182064 original size:40 final size:40
Alignment explanation
Indices: 64181997--64182073 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
64181987 GGTATCAATT
*
64181997 TCACATTTTATCTTTAAAATAAATTTT-ATTTAAAAAAAA
1 TCACATTTTATATTTAAAATAAATTTTAATTTAAAAAAAA
* ** *
64182036 TCACATTTTTATATTTAATATATTTTTTAATTTCAAAA
1 TCACA-TTTTATATTTAAAATAAATTTTAATTTAAAAA
64182074 TACATGTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 5 0.16
40 18 0.58
41 8 0.26
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (40 bp):
TCACATTTTATATTTAAAATAAATTTTAATTTAAAAAAAA
Found at i:64185158 original size:50 final size:52
Alignment explanation
Indices: 64185095--64185195 Score: 145
Period size: 50 Copynumber: 2.0 Consensus size: 52
64185085 TACAAATGGT
* *
64185095 AAGAAAGTATTATTAAATTATTT-AATTTTAATCACTTAATTATT-TGATGTG
1 AAGAAAATATTATTAAATTATTTAAATTTAAAT-ACTTAATTATTATGATGTG
*
64185146 AAGAAAAT-TTATTAAATTATTTAAATTTAAATAGTTAATTATTATGATGT
1 AAGAAAATATTATTAAATTATTTAAATTTAAATACTTAATTATTATGATGT
64185196 TTAGATTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 24 0.53
51 21 0.47
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (52 bp):
AAGAAAATATTATTAAATTATTTAAATTTAAATACTTAATTATTATGATGTG
Found at i:64186854 original size:63 final size:63
Alignment explanation
Indices: 64186787--64187096 Score: 215
Period size: 63 Copynumber: 4.9 Consensus size: 63
64186777 CAACACACAC
* * * *
64186787 AATCATTCCAC-ACATCTACACTTTCAAC-TCTGGTTTATTTTTCACAAGCACCTCAGCATGCGT
1 AATCATTCC-CTACATCAACACATACAACATCT-GTTTATTTTTCACAAGCACCTCAACATGCGT
* * * * *
64186850 AATCATTCCCTGCATGAACACATACAACAACAT-TTTATTTTTCACAAACACCTCAACATGTGT
1 AATCATTCCCTACATCAACACATACAACATC-TGTTTATTTTTCACAAGCACCTCAACATGCGT
* * **
64186913 AATCATTCCCTACATCAACACATACAACAT-TAGTTTATTTTCCACAAGCACCACAACATGCAC
1 AATCATTCCCTACATCAACACATACAACATCT-GTTTATTTTTCACAAGCACCTCAACATGCGT
** ** * * * * * * * *
64186976 AATCATTCATTACATTGACACATTCATCA-CTAGTTTATTTTACATAAGCACCAT-AGCACGTGC
1 AATCATTCCCTACATCAACACATACAACATCT-GTTTATTTTTCACAAGCACC-TCAACATGCGT
* ** *
64187039 AATCATTCCCTACA-CTAACACAGT-CATCATCACTTTATTTTAT-ACAAGCACCACAACA
1 AATCATTCCCTACATC-AACACA-TACAACATCTGTTTATTTT-TCACAAGCACCTCAACA
64187097 CGTTCAATCA
Statistics
Matches: 194, Mismatches: 41, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
63 188 0.97
64 3 0.02
65 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.07, T:0.30
Consensus pattern (63 bp):
AATCATTCCCTACATCAACACATACAACATCTGTTTATTTTTCACAAGCACCTCAACATGCGT
Found at i:64186997 original size:126 final size:126
Alignment explanation
Indices: 64186819--64187096 Score: 278
Period size: 126 Copynumber: 2.2 Consensus size: 126
64186809 TTCAACTCTG
* * * ** * * *
64186819 GTTTATTTTTCACAAGCACCTCAGCATGCGTAATCATTCCCTGCATGAACACATACAACAAC-AT
1 GTTTATTTTACACAAGCACCACAACATGCACAATCATTCACTACATGAACACATACAAC-ACTAG
* * * *
64186883 TTTATTTTTCACAAACACC-TCAACATGTGTAATCATTCCCTACA-TCAACACA-TACAACATTA
65 TTTATTTTACACAAACACCAT-AACACGTGCAATCATTCCCTACACT-AACACAGT-CAACATCA
* * * *
64186945 GTTTATTTTCCACAAGCACCACAACATGCACAATCATTCATTACATTG-ACACATTCATCACTAG
1 GTTTATTTTACACAAGCACCACAACATGCACAATCATTCACTACA-TGAACACATACAACACTAG
* * * *
64187009 TTTATTTTACATAAGCACCATAGCACGTGCAATCATTCCCTACACTAACACAGTCATCATCA
65 TTTATTTTACACAAACACCATAACACGTGCAATCATTCCCTACACTAACACAGTCAACATCA
* *
64187071 CTTTATTTTATACAAGCACCACAACA
1 GTTTATTTTACACAAGCACCACAACA
64187097 CGTTCAATCA
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
125 2 0.02
126 118 0.94
127 5 0.04
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (126 bp):
GTTTATTTTACACAAGCACCACAACATGCACAATCATTCACTACATGAACACATACAACACTAGT
TTATTTTACACAAACACCATAACACGTGCAATCATTCCCTACACTAACACAGTCAACATCA
Found at i:64187099 original size:63 final size:61
Alignment explanation
Indices: 64186819--64187110 Score: 226
Period size: 63 Copynumber: 4.7 Consensus size: 61
64186809 TTCAACTCTG
* * * * * * * * *
64186819 GTTTATTTTTCACAAGCACCTCAGCATGCGTAATCATTCCCTGCATGAACACATACAACAACA
1 GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCCCTACAT-AACACAT-CATCATCA
* * * * * * * *
64186882 TTTTATTTTTCACAAACACCTCAACATGTGTAATCATTCCCTACATCAACACATACAACATTA
1 GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCCCTACAT-AACACAT-CATCATCA
* * ** ** *
64186945 GTTTATTTTCCACAAGCACCACAACATGCACAATCATTCATTACATTGACACATTCATCA-CTA
1 GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCCCTACA-TAACACA-TCATCATC-A
* * *
64187008 GTTTATTTTACATAAGCACCATAGCACGTGCAATCATTCCCTACACTAACACAGTCATCATCA
1 GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCCCTACA-TAACACA-TCATCATCA
* * *
64187071 CTTTATTTTATACAAGCACCACAACACGTTCAATCATTCC
1 GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCC
64187111 TTGCACCGAC
Statistics
Matches: 187, Mismatches: 38, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
63 184 0.98
64 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.30
Consensus pattern (61 bp):
GTTTATTTTACACAAGCACCACAACACGTGCAATCATTCCCTACATAACACATCATCATCA
Found at i:64189133 original size:16 final size:16
Alignment explanation
Indices: 64189104--64189147 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
64189094 ATCTTCATTG
*
64189104 AATCCCTAAAATCTTCA
1 AATCCCT-AAATCTTAA
*
64189121 AATCCTTAAATCTTAA
1 AATCCCTAAATCTTAA
64189137 AATCCCTAAAT
1 AATCCCTAAAT
64189148 TGTTAGCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (16 bp):
AATCCCTAAATCTTAA
Found at i:64189543 original size:117 final size:117
Alignment explanation
Indices: 64189335--64189545 Score: 296
Period size: 117 Copynumber: 1.8 Consensus size: 117
64189325 TTTGATTTGT
* * * * * * *
64189335 TGGTTATTTGTGATTCATTATTGCAATTTTAGTGCCATAGTGTAGGGTTTGTTTTGTTAATTTGT
1 TGGTTATTTGTGATTCATTATTGCAATTTCAGTACCACAATGTAAGGTCTGTTTTGTCAATTTGT
* * *
64189400 AATGCAATAGTGGTCTCGATGTTGTTGATAAAAGTGTTGTTAAAATTGTAGA
66 AATGCAACAGTGGTCCCGATGATGTTGATAAAAGTGTTGTTAAAATTGTAGA
* *
64189452 TGGTTATTTGTGATTTATTATTGCAATTTCAGTACCACAATGTAAGGTCTGTTTTGTCGATTTGT
1 TGGTTATTTGTGATTCATTATTGCAATTTCAGTACCACAATGTAAGGTCTGTTTTGTCAATTTGT
* *
64189517 GATGCGACAGTGGTCCCGATGATGTTGAT
66 AATGCAACAGTGGTCCCGATGATGTTGAT
64189546 TTCTATTACC
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
117 80 1.00
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (117 bp):
TGGTTATTTGTGATTCATTATTGCAATTTCAGTACCACAATGTAAGGTCTGTTTTGTCAATTTGT
AATGCAACAGTGGTCCCGATGATGTTGATAAAAGTGTTGTTAAAATTGTAGA
Found at i:64190489 original size:51 final size:51
Alignment explanation
Indices: 64190413--64190513 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
64190403 AAGTTGCTGC
* *
64190413 TGATGAATACGCTGGTGATTTTGCAACATCAAATGGAGTAGATAATGTTGT
1 TGATGAATACACTGGTGATTTTGCAACATCAAATAGAGTAGATAATGTTGT
* * * *
64190464 TGATGAATATACTGGTGATTTTGCAACATCAGATAGATTGGATAATGTTG
1 TGATGAATACACTGGTGATTTTGCAACATCAAATAGAGTAGATAATGTTG
64190514 CTGCTACACG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (51 bp):
TGATGAATACACTGGTGATTTTGCAACATCAAATAGAGTAGATAATGTTGT
Found at i:64194805 original size:20 final size:18
Alignment explanation
Indices: 64194758--64194806 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
64194748 CAAGATAAAC
64194758 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
64194775 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
64194795 ATTAAATTAATA
1 ATTAAATTAATA
64194807 AATTACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:64199195 original size:27 final size:28
Alignment explanation
Indices: 64199139--64199208 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
64199129 AAATTTGTAC
64199139 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64199167 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64199194 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64199209 GAATCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64207161 original size:27 final size:28
Alignment explanation
Indices: 64207105--64207174 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
64207095 AAATTTGTAC
64207105 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64207133 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64207160 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64207175 GAATCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64210478 original size:22 final size:21
Alignment explanation
Indices: 64210453--64210494 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
64210443 GTCAAGAAGG
64210453 CCACACGAGCGTGTCGCCCCTT
1 CCACACGAGCGTGT-GCCCCTT
* *
64210475 CCACACGGGTGTGTGCCCCT
1 CCACACGAGCGTGTGCCCCT
64210495 GTTTTAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.12, C:0.43, G:0.26, T:0.19
Consensus pattern (21 bp):
CCACACGAGCGTGTGCCCCTT
Found at i:64211678 original size:22 final size:23
Alignment explanation
Indices: 64211631--64211680 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
64211621 ATTTATATTT
*
64211631 AATATATATTTAAATATGAGTCA
1 AATATATATTTAAATATGAGTAA
*
64211654 AATATAATTTTTAAATAT-A-TAA
1 AATAT-ATATTTAAATATGAGTAA
64211676 AATAT
1 AATAT
64211681 TACTAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 6 0.25
24 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
AATATATATTTAAATATGAGTAA
Found at i:64211744 original size:2 final size:2
Alignment explanation
Indices: 64211739--64211772 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
64211729 AGATAAAAGA
64211739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64211773 TACAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64214112 original size:2 final size:2
Alignment explanation
Indices: 64214105--64214134 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64214095 ATCGAAAGTC
64214105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64214135 CGCAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64219284 original size:49 final size:49
Alignment explanation
Indices: 64219212--64219523 Score: 480
Period size: 49 Copynumber: 6.4 Consensus size: 49
64219202 ATCAAGATTC
* * *
64219212 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
64219261 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
64219310 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
64219359 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
64219408 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64219457 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
64219506 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
64219524 ATGTGGTAAA
Statistics
Matches: 250, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 250 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:64219647 original size:37 final size:36
Alignment explanation
Indices: 64219592--64219678 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
64219582 AACTTGGAAA
64219592 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
64219630 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
64219667 TATGTCCGGGTA
1 TATGTCCGGGTA
64219679 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:64230034 original size:18 final size:16
Alignment explanation
Indices: 64230011--64230044 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
64230001 TCTTGTCCCG
64230011 TTTTTAATGATTTCTATA
1 TTTTTAA-GATTT-TATA
64230029 TTTTTAAGATTTTATA
1 TTTTTAAGATTTTATA
64230045 ACTTGATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTAAGATTTTATA
Found at i:64239547 original size:26 final size:27
Alignment explanation
Indices: 64239518--64239577 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
64239508 AATTATATTT
64239518 TATA-AAAATTAGTAG-AATACTTTAAA
1 TATATAAAATTAGTAGTAAT-CTTTAAA
* *
64239544 TATATTAAATTTAGTAGTAATTTTTAAA
1 TATA-TAAAATTAGTAGTAATCTTTAAA
64239572 TA-ATAA
1 TATATAA
64239578 TAACAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 7 0.24
27 1 0.03
28 18 0.62
29 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (27 bp):
TATATAAAATTAGTAGTAATCTTTAAA
Found at i:64240710 original size:22 final size:22
Alignment explanation
Indices: 64240685--64240765 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
64240675 AAATATCTTT
64240685 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
64240707 ACTCCACT--A-CACT-AAACC
1 ACTCCACTAAACCACTCCAACC
*
64240725 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
64240747 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
64240766 CTAAACCACC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
18 12 0.24
19 4 0.08
20 2 0.04
21 5 0.10
22 27 0.54
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:64240745 original size:40 final size:38
Alignment explanation
Indices: 64240685--64240789 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 38
64240675 AAATATCTTT
*
64240685 ACTCCACTAAACCACTCCAACCACTCCACTACACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACT--ACTAAACC
64240725 ACTCCACTAAACCACCCCAACCA--CC-CTACTAAACC
1 ACTCCACTAAACCACCCCAACCACTCCACTACTAAACC
64240760 ACTCCACTAAACCACCCCAACCACTCCACT
1 ACTCCACTAAACCACCCCAACCACTCCACT
64240790 TGCTTACAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
35 31 0.51
37 4 0.07
38 4 0.07
40 22 0.36
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.13
Consensus pattern (38 bp):
ACTCCACTAAACCACCCCAACCACTCCACTACTAAACC
Found at i:64245502 original size:15 final size:15
Alignment explanation
Indices: 64245454--64245546 Score: 86
Period size: 15 Copynumber: 6.4 Consensus size: 15
64245444 GTATCTTGGG
*
64245454 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
64245469 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
64245484 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
64245499 TTTC--TCTTCTGGG
1 TTTCTTTATTCTGGA
*
64245512 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
64245527 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
64245541 TTTCTT
1 TTTCTT
64245547 GTTATCTTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
13 12 0.18
14 10 0.15
15 41 0.63
16 2 0.03
ACGTcount: A:0.09, C:0.18, G:0.15, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64245510 original size:13 final size:13
Alignment explanation
Indices: 64245492--64245518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64245482 GATTTCTTTA
64245492 TTCTGGGTTTCTC
1 TTCTGGGTTTCTC
64245505 TTCTGGGTTTCTC
1 TTCTGGGTTTCTC
64245518 T
1 T
64245519 ATCTTGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (13 bp):
TTCTGGGTTTCTC
Found at i:64247982 original size:46 final size:46
Alignment explanation
Indices: 64247929--64248104 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64247919 TATTTGGGCA
64247929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
64247975 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
64248022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
64248068 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64248105 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:64248084 original size:93 final size:93
Alignment explanation
Indices: 64247925--64248096 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64247915 GGGATATTTG
* *
64247925 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64247990 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
64248018 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64248083 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64248097 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:64250634 original size:68 final size:71
Alignment explanation
Indices: 64250483--64250641 Score: 283
Period size: 68 Copynumber: 2.3 Consensus size: 71
64250473 CGATTTGTCT
64250483 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64250548 CTTTCA
66 CTTTCA
64250554 CGTAG--CTCTTGTCTACATGGTGT-CTTCACTTGGAATCA-GCATG-GACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64250614 CTTTCA
66 CTTTCA
64250620 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64250642 GATACATCGT
Statistics
Matches: 86, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
66 28 0.33
67 5 0.06
68 30 0.35
69 18 0.21
71 5 0.06
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64259088 original size:68 final size:70
Alignment explanation
Indices: 64259016--64259213 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
64259006 ACACCCTGTA
* * * *
64259016 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
64259078 ATAAAT
65 ATAAAT
*
64259084 GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
64259149 ATAAAT
65 ATAAAT
* *
64259155 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
64259214 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:64259139 original size:71 final size:71
Alignment explanation
Indices: 64259050--64259213 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
64259040 GAGATGTATC
64259050 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
64259115 AGGACA
66 AGGACA
*
64259121 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
64259186 AGGACA
66 AGGACA
64259192 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64259214 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
AGGACA
Found at i:64261338 original size:52 final size:52
Alignment explanation
Indices: 64261280--64261386 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
64261270 CTTGGATAGT
*
64261280 TTGATTCAATACTGGGAATGGACTGGCTGGTTAAACACCGAGTGAGCTTGGA
1 TTGATTCAATACTGGGAATGGACTGGCTGGTTAAACACCAAGTGAGCTTGGA
64261332 TTGATTCAATACTGGGAATGGACTGGCTGGTTAAACACCAAGTGAGCTTGGA
1 TTGATTCAATACTGGGAATGGACTGGCTGGTTAAACACCAAGTGAGCTTGGA
64261384 TTG
1 TTG
64261387 TGCCACTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (52 bp):
TTGATTCAATACTGGGAATGGACTGGCTGGTTAAACACCAAGTGAGCTTGGA
Found at i:64276353 original size:16 final size:16
Alignment explanation
Indices: 64276332--64276384 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
64276322 TTGCATGATA
64276332 TGTTAATTTTGATATT
1 TGTTAATTTTGATATT
*
64276348 TGTTAA-TCTG-T-TT
1 TGTTAATTTTGATATT
*
64276361 TATTTAATTTTGATATT
1 T-GTTAATTTTGATATT
64276378 TGTTAAT
1 TGTTAAT
64276385 CTGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 6 0.21
16 12 0.41
17 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (16 bp):
TGTTAATTTTGATATT
Found at i:64276370 original size:30 final size:30
Alignment explanation
Indices: 64276334--64276393 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
64276324 GCATGATATG
*
64276334 TTAATTTTGATATTTGTTAATCTGTTTTAT
1 TTAATTTTGATATTTGTTAATCTGCTTTAT
64276364 TTAATTTTGATATTTGTTAATCTGCTTTAT
1 TTAATTTTGATATTTGTTAATCTGCTTTAT
64276394 CTGAGATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (30 bp):
TTAATTTTGATATTTGTTAATCTGCTTTAT
Found at i:64278482 original size:2 final size:2
Alignment explanation
Indices: 64278475--64278571 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
64278465 ATTACTAATA
64278475 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
64278517 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
64278559 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
64278572 GCAATTTTAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:64279846 original size:32 final size:32
Alignment explanation
Indices: 64279810--64279870 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
64279800 ACAAAAGATA
64279810 TAAATGTTAAGGGAAAAATTTATCATTTTTCT
1 TAAATGTTAAGGGAAAAATTTATCATTTTTCT
*
64279842 TAAATGTTAAGGGCAAAATTTATCATTTT
1 TAAATGTTAAGGGAAAAATTTATCATTTT
64279871 CTTTTTCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.43
Consensus pattern (32 bp):
TAAATGTTAAGGGAAAAATTTATCATTTTTCT
Found at i:64284810 original size:19 final size:19
Alignment explanation
Indices: 64284783--64284822 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
64284773 TCTACATAGC
64284783 CTTAAACACGGGCGTGTGA
1 CTTAAACACGGGCGTGTGA
*
64284802 CTTAGACACGGGCGTGTGA
1 CTTAAACACGGGCGTGTGA
64284821 CT
1 CT
64284823 CAACCATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.23
Consensus pattern (19 bp):
CTTAAACACGGGCGTGTGA
Found at i:64286998 original size:18 final size:18
Alignment explanation
Indices: 64286971--64287006 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64286961 ATTAAGTGTT
*
64286971 TTATTTTTATTTTATTAA
1 TTATTATTATTTTATTAA
64286989 TTATTATTATTTTATTAA
1 TTATTATTATTTTATTAA
64287007 AATTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATTATTTTATTAA
Found at i:64296636 original size:2 final size:2
Alignment explanation
Indices: 64296629--64296676 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
64296619 AATGTTGCCA
64296629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64296671 AT AT AT
1 AT AT AT
64296677 TTAAAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64297034 original size:115 final size:114
Alignment explanation
Indices: 64296817--64297038 Score: 318
Period size: 115 Copynumber: 1.9 Consensus size: 114
64296807 TCTATACTAT
*
64296817 TTATTAAGTATTTTACTAAGTTGGTGCCACCCATCAACTCAGTCCCAACTCAATTAGGGAATTAC
1 TTATTAAGTATTTTACTAAGTTGGTGCCACCCATCAACTCAGTCCCAACTCAATTAGGAAATTAC
* *
64296882 CAAAAAGTTAATTTATATGCTAAGTAAATTATATGATTAAGTAGGTGTC
66 CAAAAAATTAATTTATATGCTAAGCAAATTATATGATTAAGTAGGTGTC
* * * * * * * *
64296931 TTATTAAGATTTTTTTCTAAGTTGGTGCCACCCATTAACTGAGTCCTAACTCTATTTGTAAATTA
1 TTATTAAG-TATTTTACTAAGTTGGTGCCACCCATCAACTCAGTCCCAACTCAATTAGGAAATTA
* *
64296996 CCAAAAAATTATTTTATATGCTAAGCAAGTTATATGATTAAGT
65 CCAAAAAATTAATTTATATGCTAAGCAAATTATATGATTAAGT
64297039 GTGTAACAGC
Statistics
Matches: 94, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
114 8 0.09
115 86 0.91
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (114 bp):
TTATTAAGTATTTTACTAAGTTGGTGCCACCCATCAACTCAGTCCCAACTCAATTAGGAAATTAC
CAAAAAATTAATTTATATGCTAAGCAAATTATATGATTAAGTAGGTGTC
Found at i:64298944 original size:22 final size:23
Alignment explanation
Indices: 64298919--64298964 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
64298909 AGGTGGGGGG
64298919 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
64298941 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
64298964 A
1 A
64298965 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:64298970 original size:23 final size:22
Alignment explanation
Indices: 64298926--64298975 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
64298916 GGGATCGATG
**
64298926 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
64298948 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
64298971 GTATT
1 GTATT
64298976 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:64299632 original size:40 final size:40
Alignment explanation
Indices: 64299583--64299696 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 40
64299573 TAAAGTATGT
64299583 TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAG
1 TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAG
*
64299623 TTTTAATTAATAATAAAAACAAAATAGTATGGGAGAATAG
1 TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAG
* *
64299663 TTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 TTTTAATTAATAATAAAAACAAAATAGTATGGGGG
64299697 GAGTGGAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 17 0.24
40 53 0.76
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.30
Consensus pattern (40 bp):
TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAG
Found at i:64310629 original size:205 final size:205
Alignment explanation
Indices: 64310157--64310737 Score: 1044
Period size: 205 Copynumber: 2.8 Consensus size: 205
64310147 TAGGCCGCAG
* *
64310157 CATAACAGATCTGGCCTTCAGATG-TTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
*
64310220 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAAT
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAAT
*
64310284 CTAAGATGATTTGTCGTCT-TGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
129 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
64310348 GGAGAGCAGACA
194 GGAGAGCAGACA
64310360 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
64310425 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
*
64310490 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATTGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
64310555 AGAGCAGACA
196 AGAGCAGACA
64310565 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
64310630 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTATGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
64310695 AAGATGATTTGTCGTCTCTGTATCGTCAGGGAACAAATCGAAG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
64310738 AAATAGATTT
Statistics
Matches: 365, Mismatches: 9, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
203 24 0.07
204 117 0.32
205 224 0.61
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:64311142 original size:30 final size:30
Alignment explanation
Indices: 64311101--64311170 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
64311091 TTAAAAGTCN
* *
64311101 ATAGTTCGATAGCTGAAGCTATCCCTTTTA
1 ATAGTTCGATAGCCGAAGCTATACCTTTTA
* * *
64311131 ATAGCTCGATAGCCGAAGTTATACCTTTTC
1 ATAGTTCGATAGCCGAAGCTATACCTTTTA
64311161 ATAGTTCGAT
1 ATAGTTCGAT
64311171 GGTCATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (30 bp):
ATAGTTCGATAGCCGAAGCTATACCTTTTA
Found at i:64313589 original size:25 final size:27
Alignment explanation
Indices: 64313552--64313604 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64313542 TCAAACATGC
64313552 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64313578 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64313604 A
1 A
64313605 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64319961 original size:12 final size:12
Alignment explanation
Indices: 64319944--64319974 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
64319934 AGTACTACCT
64319944 CGGCCTCGACCA
1 CGGCCTCGACCA
64319956 CGGCCTCGACCA
1 CGGCCTCGACCA
64319968 CGGCCTC
1 CGGCCTC
64319975 TTCCCGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:64321608 original size:25 final size:27
Alignment explanation
Indices: 64321571--64321623 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64321561 TCAAACATGC
64321571 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64321597 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64321623 A
1 A
64321624 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64323141 original size:30 final size:30
Alignment explanation
Indices: 64323105--64323163 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
64323095 CTTACCATGC
64323105 CCATCATCCATTAACTATTAAAATGCTAAT
1 CCATCATCCATTAACTATTAAAATGCTAAT
64323135 CCATCATCCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
64323164 AATGCATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (30 bp):
CCATCATCCATTAACTATTAAAATGCTAAT
Found at i:64324167 original size:6 final size:6
Alignment explanation
Indices: 64324146--64324204 Score: 91
Period size: 6 Copynumber: 9.8 Consensus size: 6
64324136 TTGTGCAAAA
* * *
64324146 ATATGT ATACAT ATATAC ATATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
64324194 ATATAT ATATA
1 ATATAT ATATA
64324205 CAGGTACCGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:64324173 original size:4 final size:4
Alignment explanation
Indices: 64324146--64324204 Score: 91
Period size: 4 Copynumber: 14.8 Consensus size: 4
64324136 TTGTGCAAAA
* * *
64324146 ATAT GTAT ACAT ATAT ACAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
64324194 ATAT ATAT ATA
1 ATAT ATAT ATA
64324205 CAGGTACCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:64327917 original size:30 final size:30
Alignment explanation
Indices: 64327881--64327954 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
64327871 CAGGTCATCA
***
64327881 CTATCCCTTTTCATAATTTGATAGTTGAAG
1 CTATCCCTTTTCATAATTTGATAGCAAAAG
64327911 CTATCCCTTTTCATAATTTGATAGCAAAAG
1 CTATCCCTTTTCATAATTTGATAGCAAAAG
64327941 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
64327955 TGGTCGATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (30 bp):
CTATCCCTTTTCATAATTTGATAGCAAAAG
Found at i:64339598 original size:19 final size:21
Alignment explanation
Indices: 64339576--64339623 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
64339566 AATAGTAGTG
*
64339576 AACATATATATA-TATA-TAA
1 AACATATATATACTAGATTAA
64339595 AACATATA-ATACTAGATTAA
1 AACATATATATACTAGATTAA
64339615 AA-ATATATA
1 AACATATATA
64339624 CAATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 16 0.64
20 6 0.24
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (21 bp):
AACATATATATACTAGATTAA
Found at i:64339743 original size:21 final size:20
Alignment explanation
Indices: 64339719--64339762 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
64339709 ATACGTAATA
64339719 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
64339740 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
64339760 ATA
1 ATA
64339763 ATATAGCGTT
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:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:64339811 original size:27 final size:25
Alignment explanation
Indices: 64339681--64339968 Score: 139
Period size: 25 Copynumber: 11.7 Consensus size: 25
64339671 AACGATATAT
64339681 AAATATATACAT-ATAT-GTATT-A
1 AAATATATACATAATATAGTATTAA
* * *
64339703 AAATATATACGTAATAATAGGAATAA
1 AAATATATACATAAT-ATAGTATTAA
64339729 AAAGTATATAC-----ATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
* **
64339750 AAATATGTACATAATATAGCGTTAA
1 AAATATATACATAATATAGTATTAA
*
64339775 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG-TATT-AA
* *
64339802 AAATATATACATAAGATAATATGT-A
1 AAATATATACATAATATAGTAT-TAA
64339827 AAATATAT--AT-ATATA-TA-TAA
1 AAATATATACATAATATAGTATTAA
* *
64339847 ATAATATAGTA-TTAA-A-AATATATACA
1 A-AATATA-TACATAATATAGTAT-TA-A
* * *
64339873 TGATATATATA-AAAATATAATATTTAA
1 --AAATATATACATAATATAGTA-TTAA
* *
64339900 AAGATATAAATACGTAATATA-TATAAA
1 AA-ATAT--ATACATAATATAGTATTAA
*
64339927 AAATGTATACATAATATAGTATT-A
1 AAATATATACATAATATAGTATTAA
*
64339951 AAATATTTACATAATATA
1 AAATATATACATAATATA
64339969 TGCATATTAG
Statistics
Matches: 205, Mismatches: 29, Indels: 62
0.69 0.10 0.21
Matches are distributed among these distances:
19 1 0.00
20 8 0.04
21 19 0.09
22 17 0.08
23 8 0.04
24 31 0.15
25 43 0.21
26 21 0.10
27 38 0.19
28 12 0.06
29 7 0.03
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
AAATATATACATAATATAGTATTAA
Found at i:64339845 original size:35 final size:34
Alignment explanation
Indices: 64339804--64339907 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 34
64339794 TTATTAAAAA
*
64339804 ATATATACATAAGATAATATGTAAAATATATAT-AT
1 ATATATA-ATAATATAATAT-TAAAATATATATGAT
*
64339839 ATATATAAATAATATAGTATTAAAAATATATACATGAT
1 ATATAT-AATAATATAATATT-AAAATATAT--ATGAT
* *
64339877 ATATATAAAAATATAATATTTAAAAGATATA
1 ATATATAATAATATAATA-TTAAAATATATA
64339908 AATACGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
34 1 0.02
35 26 0.45
36 1 0.02
37 20 0.34
38 10 0.17
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (34 bp):
ATATATAATAATATAATATTAAAATATATATGAT
Found at i:64339853 original size:13 final size:12
Alignment explanation
Indices: 64339837--64339956 Score: 55
Period size: 13 Copynumber: 9.3 Consensus size: 12
64339827 AAATATATAT
64339837 ATATATATAAATA
1 ATATATATAAA-A
64339850 ATATAGTATTAAAA
1 ATATA-TA-TAAAA
* **
64339864 ATATATA-CATG
1 ATATATATAAAA
64339875 ATATATATAAAA
1 ATATATATAAAA
64339887 ATATAATATTTAAAA
1 ATAT-ATA--TAAAA
* **
64339902 GATATAAATACGTA
1 -ATATATATA-AAA
64339916 ATATATATAAAA
1 ATATATATAAAA
* *
64339928 A-ATGTATACATA
1 ATATATATA-AAA
*
64339940 ATATAGTATTAAA
1 ATATA-TATAAAA
64339953 ATAT
1 ATAT
64339957 TTACATAATA
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
11 14 0.18
12 10 0.13
13 28 0.35
14 12 0.15
15 11 0.14
16 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.36
Consensus pattern (12 bp):
ATATATATAAAA
Found at i:64339868 original size:14 final size:15
Alignment explanation
Indices: 64339785--64339870 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 15
64339775 AAATACATAC
64339785 ATAATATAGT-TATTAA
1 ATAATATA-TATA-TAA
* *
64339801 AAAATATATACATAA
1 ATAATATATATATAA
*
64339816 GATAATATGTA-A-AA
1 -ATAATATATATATAA
64339830 TATATATATATATATAA
1 -ATA-ATATATATATAA
64339847 ATAATATAGTAT-TAA
1 ATAATATA-TATATAA
64339862 A-AATATATA
1 ATAATATATA
64339871 CATGATATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.03
14 11 0.19
15 20 0.34
16 23 0.40
17 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (15 bp):
ATAATATATATATAA
Found at i:64339870 original size:37 final size:39
Alignment explanation
Indices: 64339829--64339928 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 39
64339819 AATATGTAAA
*
64339829 ATATATAT-ATATATATAAATAATATAGTA-TTAAAA-AT
1 ATATATATAATATATATAAA-AATATAATATTTAAAAGAT
* *
64339866 ATATACATGATATATATAAAAATATAATATTTAAAAGAT
1 ATATATATAATATATATAAAAATATAATATTTAAAAGAT
*
64339905 ATAAATACGTAATATATATAAAAA
1 ATATATA--TAATATATATAAAAA
64339929 ATGTATACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 15 0.28
38 17 0.32
39 7 0.13
41 14 0.26
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (39 bp):
ATATATATAATATATATAAAAATATAATATTTAAAAGAT
Found at i:64339885 original size:23 final size:23
Alignment explanation
Indices: 64339829--64339969 Score: 76
Period size: 24 Copynumber: 6.2 Consensus size: 23
64339819 AATATGTAAA
* *
64339829 ATATATATATATATATAAATAAT
1 ATATATAAAAATATATAAATAAT
* *
64339852 ATAGTATTAAAAATATATACATGAT
1 ATA-TA-TAAAAATATATAAATAAT
**
64339877 ATATATAAAAATATAATATTTAA-
1 ATATATAAAAATAT-ATAAATAAT
* * **
64339900 A-AGATATAAATACGT-AAT-AT
1 ATATATAAAAATATATAAATAAT
* *
64339920 ATATA-AAAAATGTATACATAAT
1 ATATATAAAAATATATAAATAAT
* * *
64339942 ATAGTATTAAAATATTTACATAAT
1 ATA-TATAAAAATATATAAATAAT
64339966 ATAT
1 ATAT
64339970 GCATATTAGA
Statistics
Matches: 87, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
19 1 0.01
20 8 0.09
21 5 0.06
22 14 0.16
23 16 0.18
24 26 0.30
25 17 0.20
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATATAAAAATATATAAATAAT
Found at i:64340040 original size:21 final size:20
Alignment explanation
Indices: 64340011--64340064 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
64340001 TAATACTACA
*
64340011 TAAATATATACATATATATAT
1 TAAACATATACATATATA-AT
*
64340032 TAAAGATATATACATATATAAT
1 T-AA-ACATATACATATATAAT
*
64340054 AAAACATATAC
1 TAAACATATAC
64340065 TAATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 7 0.24
21 3 0.10
22 4 0.14
23 15 0.52
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:64340114 original size:15 final size:16
Alignment explanation
Indices: 64340090--64340124 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
64340080 TAATAAGAAT
64340090 AATATAAATAATAGTA
1 AATATAAATAATAGTA
*
64340106 AATAT-AATAATATTA
1 AATATAAATAATAGTA
64340121 AATA
1 AATA
64340125 ATATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AATATAAATAATAGTA
Found at i:64340148 original size:34 final size:34
Alignment explanation
Indices: 64340087--64340151 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
64340077 GAATAATAAG
*
64340087 AATAATATAAATAATAGTAAATATAATAATATTA
1 AATAATATAAATAATAATAAATATAATAATATTA
* *
64340121 AATAATATTAAA-AATAATTAATTTAATAATA
1 AATAATA-TAAATAATAATAAATATAATAATA
64340152 AAGAAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (34 bp):
AATAATATAAATAATAATAAATATAATAATATTA
Found at i:64341778 original size:44 final size:46
Alignment explanation
Indices: 64341692--64341790 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 46
64341682 TGCTTTTCTG
* * *
64341692 CAACTTCA-GAGAGATGAGATCTAGTATCTTCAATCTGCTCCACTA
1 CAACTTCAGGAGAGATGAGAACTAGTAACTTCAACCTGCTCCACTA
* *
64341737 CAACTTCAGGA-AGATGA-AACTTGTAACTTCAACCTGCTCCACTG
1 CAACTTCAGGAGAGATGAGAACTAGTAACTTCAACCTGCTCCACTA
64341781 CAACTTCAGG
1 CAACTTCAGG
64341791 GAGGCAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 32 0.67
45 14 0.29
46 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (46 bp):
CAACTTCAGGAGAGATGAGAACTAGTAACTTCAACCTGCTCCACTA
Found at i:64341820 original size:44 final size:44
Alignment explanation
Indices: 64341710--64341866 Score: 149
Period size: 44 Copynumber: 3.5 Consensus size: 44
64341700 GAGAGATGAG
* * *
64341710 ATCTAGTATCTTCAATCTGCTCCACTACAACTTCA-GGAAGATGAA
1 ATCTAGTATCTTCAATCAGCTCCACTGCAACTTCAGGGAGGA--AA
* * * *
64341755 A-CTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGGCAAA
1 ATCTAGTATCTTCAATCAGCTCCACTGCAACTTCAGGGAGG-AAA
*
64341799 ATCT-GTATCTTCGATCAGCTCCACTGCAACTTCAGGGAGGAAAA
1 ATCTAGTATCTTCAATCAGCTCCACTGCAACTTCAGGGAGG-AAA
* ** *
64341843 ATCTGGTGCCTTCGATCAGCTCCA
1 ATCTAGTATCTTCAATCAGCTCCA
64341867 ACCTTTATTC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
44 71 0.74
45 24 0.25
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
ATCTAGTATCTTCAATCAGCTCCACTGCAACTTCAGGGAGGAAA
Found at i:64342172 original size:152 final size:153
Alignment explanation
Indices: 64341974--64342339 Score: 487
Period size: 152 Copynumber: 2.4 Consensus size: 153
64341964 AGTAAAAAAC
* *
64341974 TAAAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 TAAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
* * *
64342039 ATAAAAAGC-GAAAATAGAAAATACCTCA-CGTGTGATCCGAGGCTCAACTCACCTCTCGCAGTA
65 A-AAAAA-CAG-AAATAGAAAATACCTCAGCGTGTGAACCGAGGCTCAACTCACCTATCGCAATA
64342102 TGAGTTG-ATTTTTGAAAAACAGAAAT
127 TGAGTTGAATTTTTGAAAAACAGAAAT
* *
64342128 TAAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA---CTTTTA
1 TAAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTA
* * * *
64342189 AAAAACAGGAATTGAAAATACCTCAGCGTGTGAACTGAGGCTCAACTCATCTATCGCAATATGAG
66 AAAAACAGAAATAGAAAATACCTCAGCGTGTGAACCGAGGCTCAACTCACCTATCGCAATATGAG
64342254 TTGATATTTTTGAAAAACAGAAAT
131 TTGA-ATTTTTGAAAAACAGAAAT
** *
64342278 TGTAAATACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT
1 TAAAAATACCTCAGCGTGT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
64342340 GAAAGACAGA
Statistics
Matches: 186, Mismatches: 16, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
147 16 0.09
148 43 0.23
149 5 0.03
150 36 0.19
152 65 0.35
153 2 0.01
154 18 0.10
155 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (153 bp):
TAAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTA
AAAAACAGAAATAGAAAATACCTCAGCGTGTGAACCGAGGCTCAACTCACCTATCGCAATATGAG
TTGAATTTTTGAAAAACAGAAAT
Found at i:64354436 original size:21 final size:21
Alignment explanation
Indices: 64354412--64354471 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
64354402 AATAGTAGTG
64354412 AACATATATATATATATATAA
1 AACATATATATATATATATAA
*
64354433 AACATATA-ATACTAGAT-TAA
1 AACATATATATA-TATATATAA
*
64354453 AA-ATATATACAATATATAT
1 AACATATATA-TATATATAT
64354472 TGAAAACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 5 0.16
20 13 0.41
21 14 0.44
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
AACATATATATATATATATAA
Found at i:64354582 original size:21 final size:20
Alignment explanation
Indices: 64354558--64354601 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
64354548 ATACGTAATA
64354558 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
64354579 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
64354599 ATA
1 ATA
64354602 ATATAGCGTT
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:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:64354607 original size:25 final size:25
Alignment explanation
Indices: 64354520--64354684 Score: 123
Period size: 25 Copynumber: 6.7 Consensus size: 25
64354510 AACGATATAT
64354520 AAATATATACAT-ATAT-GTATT-A
1 AAATATATACATAATATAGTATTAA
* * *
64354542 AAATATATACGTAATAATAGGAATAA
1 AAATATATACATAAT-ATAGTATTAA
64354568 AAAGTATATAC-----ATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
* **
64354589 AAATATGTACATAATATAGCGTTAA
1 AAATATATACATAATATAGTATTAA
*
64354614 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG-TATT-AA
* *
64354641 AAATATATACATAAGATAATATGT-A
1 AAATATATACATAATATAGTAT-TAA
*
64354666 AAATATATATATATATATA
1 AAATATATACATA-ATATA
64354685 ATAATATAGT
Statistics
Matches: 112, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
20 6 0.05
21 11 0.10
22 11 0.10
23 2 0.02
24 2 0.02
25 41 0.37
26 13 0.12
27 26 0.23
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
AAATATATACATAATATAGTATTAA
Found at i:64354717 original size:37 final size:36
Alignment explanation
Indices: 64354643--64354763 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 36
64354633 TTATTAAAAA
*
64354643 ATATATACATAAGATAATATGT-AAAATATAT--ATAT
1 ATATATA-ATAATATAATAT-TAAAAATATATACATAT
*
64354678 ATATATAATAATATAGTATTAAAAATATATACATGAT
1 ATATATAATAATATAATATTAAAAATATATACAT-AT
* *
64354715 ATATATAAAAATATAATATTTAAAAGATATAAATACGTAAT
1 ATATATAATAATATAATA-TTAAAA-ATAT--ATACAT-AT
64354756 ATATATAA
1 ATATATAA
64354764 AAAAATGTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
33 1 0.01
34 19 0.26
35 7 0.10
36 2 0.03
37 18 0.25
38 6 0.08
39 4 0.06
41 15 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (36 bp):
ATATATAATAATATAATATTAAAAATATATACATAT
Found at i:64354879 original size:21 final size:20
Alignment explanation
Indices: 64354850--64354903 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
64354840 TAATACTACA
*
64354850 TAAATATATACATATATATAT
1 TAAACATATACATATATA-AT
*
64354871 TAAAGATATATACATATATAAT
1 T-AA-ACATATACATATATAAT
*
64354893 AAAACATATAC
1 TAAACATATAC
64354904 TAATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 7 0.24
21 3 0.10
22 4 0.14
23 15 0.52
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:64354953 original size:15 final size:16
Alignment explanation
Indices: 64354929--64354963 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
64354919 TAATAAGAAT
64354929 AATATAAATAATAGTA
1 AATATAAATAATAGTA
*
64354945 AATAT-AATAATATTA
1 AATATAAATAATAGTA
64354960 AATA
1 AATA
64354964 ATATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AATATAAATAATAGTA
Found at i:64354987 original size:34 final size:34
Alignment explanation
Indices: 64354926--64354990 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
64354916 GAATAATAAG
*
64354926 AATAATATAAATAATAGTAAATATAATAATATTA
1 AATAATATAAATAATAATAAATATAATAATATTA
* *
64354960 AATAATATTAAA-AATAATTAATTTAATAATA
1 AATAATA-TAAATAATAATAAATATAATAATA
64354991 AAGAAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (34 bp):
AATAATATAAATAATAATAAATATAATAATATTA
Found at i:64357337 original size:20 final size:20
Alignment explanation
Indices: 64357312--64357352 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64357302 TTATACTTAG
* *
64357312 TTGATAGAGAATGCAATTAC
1 TTGATAAAGAATGCAACTAC
64357332 TTGATAAAGAATGCAACTAC
1 TTGATAAAGAATGCAACTAC
64357352 T
1 T
64357353 CGCTAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
TTGATAAAGAATGCAACTAC
Found at i:64357800 original size:63 final size:63
Alignment explanation
Indices: 64357669--64357809 Score: 180
Period size: 63 Copynumber: 2.3 Consensus size: 63
64357659 ACCCAAGCCC
* * * *
64357669 GTCCCTAGCCCGTGTGGCCTAAAATACAAATAGTGAGTTACACGGCCTGGACACACACTCATG
1 GTCCCTAGCCCGTGTGACCAAAAATACAAATAGTAAGTTACACGGCCTAGACACACACTCATG
* * *
64357732 G-CCCTAGCCCATGTGACCAAACAATACAAATAGTAAGTTATACGGCCTAGACACAC-C-CCTG
1 GTCCCTAGCCCGTGTGACCAAA-AATACAAATAGTAAGTTACACGGCCTAGACACACACTCATG
64357793 TGTCCCTAGCCCGTGTG
1 -GTCCCTAGCCCGTGTG
64357810 CCTCCAATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
61 3 0.04
62 19 0.28
63 45 0.67
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (63 bp):
GTCCCTAGCCCGTGTGACCAAAAATACAAATAGTAAGTTACACGGCCTAGACACACACTCATG
Found at i:64358156 original size:20 final size:20
Alignment explanation
Indices: 64358123--64358161 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64358113 AAGTAATTAT
*
64358123 TTATTTTAAGTTTTATTTTA
1 TTATTTTAACTTTTATTTTA
* *
64358143 TTATTTTTACTTTTGTTTT
1 TTATTTTAACTTTTATTTT
64358162 TTTAAATTTT
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:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (20 bp):
TTATTTTAACTTTTATTTTA
Found at i:64364389 original size:14 final size:14
Alignment explanation
Indices: 64364370--64364400 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
64364360 ACTCTCGTGT
64364370 TAATTGTTGTTAAA
1 TAATTGTTGTTAAA
64364384 TAATTGTTGTTAAA
1 TAATTGTTGTTAAA
64364398 TAA
1 TAA
64364401 GTGGAGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TAATTGTTGTTAAA
Found at i:64370971 original size:21 final size:20
Alignment explanation
Indices: 64370946--64370995 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
64370936 TTGCACCAGG
*
64370946 TTTTTAATTTTTTAAATATTT
1 TTTTTAATTTTTT-AATAATT
*
64370967 TTTTTAAAATTTTTAATAATT
1 TTTTT-AATTTTTTAATAATT
*
64370988 TATTTAAT
1 TTTTTAAT
64370996 CGAATCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTTTAATAATT
Found at i:64376203 original size:48 final size:48
Alignment explanation
Indices: 64376149--64376245 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
64376139 ATAAGCAATT
* *
64376149 ATACATAACATATAACAAATACAAAGTCATATTAATTTACTCTTTTCA
1 ATACATAACATACAACAAATACAAAGTCATATTAACTTACTCTTTTCA
* * *
64376197 ATACATAACATACATCACATACAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATACAACAAATACAAAGTCATATTAACTTACTCTTTTCA
64376245 A
1 A
64376246 ATCTTTCCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (48 bp):
ATACATAACATACAACAAATACAAAGTCATATTAACTTACTCTTTTCA
Found at i:64378677 original size:19 final size:20
Alignment explanation
Indices: 64378655--64378699 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
64378645 AAACACAAAG
64378655 CCAAAAACCTAACACTTC-A
1 CCAAAAACCTAACACTTCAA
** *
64378674 CCAAAAGGCTAACCCTTCAA
1 CCAAAAACCTAACACTTCAA
64378694 CCAAAA
1 CCAAAA
64378700 TCATTACAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.47, C:0.36, G:0.04, T:0.13
Consensus pattern (20 bp):
CCAAAAACCTAACACTTCAA
Found at i:64381005 original size:49 final size:49
Alignment explanation
Indices: 64380937--64381182 Score: 294
Period size: 49 Copynumber: 5.0 Consensus size: 49
64380927 GTAGCCAAAG
* * * * *
64380937 CTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * *
64380986 TTATCCGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
*
64381035 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AA
* * * *
64381085 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAA
* * * * * *
64381136 TTTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
64381183 TCACAATAGA
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
49 87 0.51
50 44 0.26
51 39 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:64381183 original size:101 final size:99
Alignment explanation
Indices: 64380937--64381183 Score: 325
Period size: 101 Copynumber: 2.5 Consensus size: 99
64380927 GTAGCCAAAG
* * ** *
64380937 CTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGT
1 CTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
*
64381001 AGTAGCCTGCACTTAGTATTACACACGTGACCAA
66 AGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * * * * *
64381035 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 CTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
* *
64381100 AGTAGCCTGCACTTAGTACTACACATGTGATCACAG
66 AGTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
* *
64381136 TTTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 CTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64381184 CACAATAGAT
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 41 0.33
99 41 0.33
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
CTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
AGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:64383335 original size:52 final size:53
Alignment explanation
Indices: 64383257--64383403 Score: 226
Period size: 53 Copynumber: 2.8 Consensus size: 53
64383247 TCTCTGACTT
*
64383257 GGGTCACACGGCCAA-CCACACACCCGTGTGCTAAGCCGTGTGAAAGGTTC-A
1 GGGTCACACGGCCAAGCCACACACCCGTGTGCTAGGCCGTGTGAAAGGTTCAA
*
64383308 GGGTCACACGGCTAAGCCACACACCCGTGTGCTAGGCCGTGTGAAAGGTTCAA
1 GGGTCACACGGCCAAGCCACACACCCGTGTGCTAGGCCGTGTGAAAGGTTCAA
** * *
64383361 GGGTCACTTGGCCAAGCCACACACCCGCGTGCTAGGCCATGTG
1 GGGTCACACGGCCAAGCCACACACCCGTGTGCTAGGCCGTGTG
64383404 CAAAAACCTG
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 14 0.16
52 34 0.39
53 39 0.45
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.16
Consensus pattern (53 bp):
GGGTCACACGGCCAAGCCACACACCCGTGTGCTAGGCCGTGTGAAAGGTTCAA
Found at i:64384300 original size:42 final size:41
Alignment explanation
Indices: 64384252--64384344 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
64384242 GGTGCTAAAT
*
64384252 AGAAACCCATAAAGGTTGAATG-GAAGCTCATAAGAGCTGAAC
1 AGAAACCCATAAAGGTT-AA-GCGAAGCTCAAAAGAGCTGAAC
* *
64384294 GGAAACCCATAAGGGTTAAGCTGAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAAGGTTAAGC-GAAGCTCAAAAGAGCTGAAC
*
64384336 AAAAACCCA
1 AGAAACCCA
64384345 ATAGGGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 1 0.02
41 2 0.05
42 41 0.93
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (41 bp):
AGAAACCCATAAAGGTTAAGCGAAGCTCAAAAGAGCTGAAC
Found at i:64388539 original size:22 final size:21
Alignment explanation
Indices: 64388498--64388540 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
64388488 TTTTTCATTT
*
64388498 ATTTCACATTTCTACCATAAA
1 ATTTCACATTTCTACAATAAA
64388519 ATTTCCACATTTC-ACAAATAAA
1 ATTT-CACATTTCTAC-AATAAA
64388541 TCCCTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTTCACATTTCTACAATAAA
Found at i:64389323 original size:18 final size:19
Alignment explanation
Indices: 64389300--64389337 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64389290 ACTTATGCCA
64389300 TGATTTT-ATG-TATATATT
1 TGATTTTCATGCT-TATATT
64389318 TGATTTTCATGCTTATATT
1 TGATTTTCATGCTTATATT
64389337 T
1 T
64389338 ATGAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 10 0.56
20 1 0.06
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.61
Consensus pattern (19 bp):
TGATTTTCATGCTTATATT
Found at i:64393831 original size:17 final size:19
Alignment explanation
Indices: 64393809--64393846 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
64393799 TCTTTCTACT
64393809 TTTCTT-CATTT-TTTTTC
1 TTTCTTCCATTTATTTTTC
64393826 TTTCTTCCATTTATTTTTC
1 TTTCTTCCATTTATTTTTC
64393845 TT
1 TT
64393847 AGCAAACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTCCATTTATTTTTC
Found at i:64410527 original size:14 final size:14
Alignment explanation
Indices: 64410508--64410541 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64410498 GTTTCATTGG
64410508 AAATGATTTTAAGA
1 AAATGATTTTAAGA
**
64410522 AAATGATTTTTGGA
1 AAATGATTTTAAGA
64410536 AAATGA
1 AAATGA
64410542 CTTACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (14 bp):
AAATGATTTTAAGA
Found at i:64413620 original size:27 final size:27
Alignment explanation
Indices: 64413572--64413730 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
64413562 GTGAGGCTGC
*** *
64413572 CAGATATTGTGATGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
64413599 CAGATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
* *
64413625 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
64413652 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAAAGCCACCAGATA
* *
64413679 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
*
64413706 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
64413731 GATGCTTTCT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:64413731 original size:54 final size:54
Alignment explanation
Indices: 64413590--64413732 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 54
64413580 GTGATGAAGT
* * *
64413590 CACCAGATACAGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
*
64413644 CACCAAATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
64413698 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGA
64413733 TGCTTTCTCC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
Found at i:64415355 original size:26 final size:26
Alignment explanation
Indices: 64415325--64415406 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
64415315 TGAAATGCCC
64415325 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
64415351 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
64415377 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64415403 ATCA
1 ATCA
64415407 ATTTTTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64418453 original size:31 final size:28
Alignment explanation
Indices: 64418415--64418484 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
64418405 ACAACAAAAA
64418415 TAGTCACTTATGTTTGCCTCAAA-TTACATTT
1 TAGTCACTTATGTTTG----AAAGTTACATTT
64418446 TAGTCACTTATGTTTGAAATGTTACATTT
1 TAGTCACTTATGTTTGAAA-GTTACATTT
64418475 TAGTCACTTA
1 TAGTCACTTA
64418485 CGTTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.08
29 18 0.49
31 16 0.43
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (28 bp):
TAGTCACTTATGTTTGAAAGTTACATTT
Found at i:64436128 original size:42 final size:42
Alignment explanation
Indices: 64436067--64436222 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
64436057 TCGTTTTCTC
** * *
64436067 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATA-A
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATA
*
64436108 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATA
1 -GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATA
*
64436151 GATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATATCTCA
1 GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA--T-A
* *
64436195 CTGATGCCATATCCCAGATATGGTCTTA
1 --GATGCCATAGCCCAGCTATGGTCTTA
64436223 TACAGTAGCA
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
41 6 0.06
42 64 0.66
43 3 0.03
44 1 0.01
46 23 0.24
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATA
Found at i:64436218 original size:46 final size:47
Alignment explanation
Indices: 64436151--64436269 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 47
64436141 TTCATATATA
* * * * *
64436151 GATGCCATAGCCTAGCTATGGTCTTACAC-GAATCACATATCT-CACT
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT-TACACC
* * *
64436197 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATTACACC
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATTACACC
*
64436244 AATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
64436270 TACGGAAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 26 0.42
47 36 0.58
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATTACACC
Found at i:64436333 original size:31 final size:31
Alignment explanation
Indices: 64436298--64436446 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
64436288 CTTGTCACTT
* *
64436298 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
64436329 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
64436360 GTAGCCGGATCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
64436391 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
64436422 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
64436447 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 3 0.03
31 103 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:64436685 original size:14 final size:15
Alignment explanation
Indices: 64436666--64436694 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64436656 TTTTATCATC
64436666 AATACAT-ATGAAAT
1 AATACATCATGAAAT
64436680 AATACATCATGAAAT
1 AATACATCATGAAAT
64436695 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
AATACATCATGAAAT
Found at i:64441643 original size:15 final size:15
Alignment explanation
Indices: 64441623--64441675 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
64441613 ATTTAGAAAT
64441623 TAAATTAAAATATTA
1 TAAATTAAAATATTA
64441638 TAAATTACAATATTTATTA
1 TAAATTA-AA-A--TATTA
* *
64441657 TAAATTAAATTAATA
1 TAAATTAAAATATTA
64441672 TAAA
1 TAAA
64441676 GTAGCATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 1 0.03
18 2 0.06
19 12 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTAAAATATTA
Found at i:64444697 original size:18 final size:18
Alignment explanation
Indices: 64444671--64444709 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
64444661 TTTATGGAAC
* *
64444671 TTTATATCCTTTTGGGAT
1 TTTAAATCCTTTAGGGAT
64444689 TTTAAATCCTTTAGGGAT
1 TTTAAATCCTTTAGGGAT
64444707 TTT
1 TTT
64444710 TATATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (18 bp):
TTTAAATCCTTTAGGGAT
Found at i:64445736 original size:15 final size:15
Alignment explanation
Indices: 64445716--64445746 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64445706 TTCTTGTCCC
64445716 TTCCTTTATTTCTTT
1 TTCCTTTATTTCTTT
*
64445731 TTCCTTTCTTTCTTT
1 TTCCTTTATTTCTTT
64445746 T
1 T
64445747 CGGTTTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTCCTTTATTTCTTT
Found at i:64446383 original size:17 final size:17
Alignment explanation
Indices: 64446361--64446394 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64446351 TTAATTTCGA
*
64446361 TATCTGTTAATCTATTT
1 TATCTGATAATCTATTT
*
64446378 TATCTGATATTCTATTT
1 TATCTGATAATCTATTT
64446395 ATATTTGGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TATCTGATAATCTATTT
Found at i:64446909 original size:18 final size:18
Alignment explanation
Indices: 64446888--64446927 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64446878 TTTCTGGACT
*
64446888 TTTTGGGATTGCTTTTGG
1 TTTTGGGATTGATTTTGG
* *
64446906 TTTTGGGTTTTATTTTGG
1 TTTTGGGATTGATTTTGG
64446924 TTTT
1 TTTT
64446928 CTAGGCTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.03, G:0.28, T:0.65
Consensus pattern (18 bp):
TTTTGGGATTGATTTTGG
Found at i:64446992 original size:17 final size:18
Alignment explanation
Indices: 64446955--64446992 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
64446945 AAAATGGTTT
*
64446955 TTTTTCTGAAAATGACAA
1 TTTTTCTGAAAATAACAA
*
64446973 TTTTTCTG-AAATAACGA
1 TTTTTCTGAAAATAACAA
64446990 TTT
1 TTT
64446993 CCAATAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTTCTGAAAATAACAA
Found at i:64453018 original size:46 final size:45
Alignment explanation
Indices: 64452951--64453126 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
64452941 TATTTGGGCA
64452951 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
64452997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
64453044 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
64453090 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64453127 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:64453106 original size:93 final size:93
Alignment explanation
Indices: 64452947--64453119 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
64452937 GGGATATTTG
* *
64452947 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64453012 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
64453040 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64453105 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
64453120 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:64456093 original size:45 final size:45
Alignment explanation
Indices: 64456026--64456112 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
64456016 TAGTATCGTA
*
64456026 TCTTGGGTTTCTTTATCCTGGATATCTTTATTCTGGATTTCTTTAT
1 TCTTGGGTTTCTCTATCCTGGATATCTTTATTC-GGATTTCTTTAT
* * *
64456072 TCTT-GGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TCTTGGGTTTCTCTATCCTGGATATCTTTATTCGGATTTCTT
64456113 GTTATCTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 8 0.22
45 25 0.68
46 4 0.11
ACGTcount: A:0.10, C:0.16, G:0.15, T:0.59
Consensus pattern (45 bp):
TCTTGGGTTTCTCTATCCTGGATATCTTTATTCGGATTTCTTTAT
Found at i:64456102 original size:30 final size:31
Alignment explanation
Indices: 64456024--64456103 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
64456014 CATAGTATCG
* *
64456024 TATCTTGGGTTTCTTTA-TCCTGGATATCTT
1 TATCTTGGATTTCTTTATTCCTGGATATCTC
* *
64456054 TAT-TCTGGATTTCTTTATTCTTGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATATCTC
64456084 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
64456104 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.57
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATATCTC
Found at i:64456110 original size:14 final size:15
Alignment explanation
Indices: 64456033--64456112 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
64456023 GTATCTTGGG
*
64456033 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
64456048 TATCTTTATTCTGGA
1 TTTCTTTATTCTGGA
64456063 TTTCTTTATTCTTGG-
1 TTTCTTTATTC-TGGA
*
64456078 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
64456093 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
64456107 TTTCTT
1 TTTCTT
64456113 GTTATCTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
14 14 0.25
15 37 0.66
16 5 0.09
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64458661 original size:46 final size:46
Alignment explanation
Indices: 64458500--64458673 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
64458490 AGTTGGGCAT
*
64458500 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
64458545 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
* *
64458590 ATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
64458638 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64458674 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.02
45 28 0.27
46 44 0.43
47 26 0.25
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:64462263 original size:30 final size:30
Alignment explanation
Indices: 64462227--64462288 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
64462217 TTTTAAACCT
64462227 AGACAAATATGACACGTAACAAAATAATTA
1 AGACAAATATGACACGTAACAAAATAATTA
64462257 AGACAAATATGACACGTAACAAAATAATTA
1 AGACAAATATGACACGTAACAAAATAATTA
64462287 AG
1 AG
64462289 CCTACTATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.19
Consensus pattern (30 bp):
AGACAAATATGACACGTAACAAAATAATTA
Found at i:64463515 original size:70 final size:71
Alignment explanation
Indices: 64463363--64463525 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
64463353 CGATTTGTCT
64463363 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64463428 CTTTCA
66 CTTTCA
64463434 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCA-GCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64463498 CTTTCA
66 CTTTCA
64463504 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64463526 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 51 0.55
71 41 0.45
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.